From blowekamp at mail.nih.gov  Mon Feb  1 09:23:51 2016
From: blowekamp at mail.nih.gov (Bradley Lowekamp)
Date: Mon, 1 Feb 2016 09:23:51 -0500
Subject: [ITK-users] [ITK] http support on midas3.kitware.com
In-Reply-To: <CALzTN-Q78c1i4nUqvgPgV3N+vaT4P0ED=QBkyswTrDyYZ4vX6g@mail.gmail.com>
References: <CALzTN-Q78c1i4nUqvgPgV3N+vaT4P0ED=QBkyswTrDyYZ4vX6g@mail.gmail.com>
Message-ID: <7C0008CB-D6E6-460E-B642-A68E2649E7DC@mail.nih.gov>

Matt,

There are a number of mirrors listed for the external data download to try [1]. Do all of these sites require https now? Do all of them have the full mirror of all the data?

I think most of my machines don?t have SSL CMake. I imagine that they are pulling the data from the local cache right now. Is there a way we could push new data, or add a check, or produce a CMake warning of the needed CMake feature is not there?

Thanks,
Brad

p.s. I think the Azure address not longer works


[1] https://github.com/InsightSoftwareConsortium/ITK/blob/master/CMake/ITKExternalData.cmake#L34-L44

> On Jan 29, 2016, at 11:22 AM, Matt McCormick <matt.mccormick at kitware.com> wrote:
> 
> Hi folks,
> 
> The server that hosts ITK data -- midas3.kitware.com now only supports
> https, and does not support downloading via the http protocol. This
> may result in build errors like:
> 
>  error: downloading
>  'http://midas3.kitware.com/midas/download/bitstream/457653/castxml-linux.tar.gz'
>  failed
> 
>    status_code: 1
>    status_string: "Unsupported protocol"
>    log:   Trying 192.168.120.111...
> 
>  Connected to midas3.kitware.com (192.168.120.111) port 80 (#0)
> 
> To address this error, the CMake client needs OpenSSL support. Newer
> binaries from cmake.org have this support.  When building from source,
> this is not enabled by default -- enable the configuration option
> CMAKE_USE_OPENSSL.
> 
> Matt
> _______________________________________________
> Community mailing list
> Community at itk.org
> http://public.kitware.com/mailman/listinfo/community


From dzenanz at gmail.com  Mon Feb  1 11:25:51 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Mon, 1 Feb 2016 11:25:51 -0500
Subject: [ITK-users] [ITK] http support on midas3.kitware.com
In-Reply-To: <7C0008CB-D6E6-460E-B642-A68E2649E7DC@mail.nih.gov>
References: <CALzTN-Q78c1i4nUqvgPgV3N+vaT4P0ED=QBkyswTrDyYZ4vX6g@mail.gmail.com>
 <7C0008CB-D6E6-460E-B642-A68E2649E7DC@mail.nih.gov>
Message-ID: <CAPf2UMST1PEXDp1Qavs1E6As9mEOL8Rb_MCi088E3YNqs2y7mQ@mail.gmail.com>

We should change the address from http:// to https://. That way CMake will
give a more meaningful error (https protocol not supported).

On Mon, Feb 1, 2016 at 9:23 AM, Bradley Lowekamp <blowekamp at mail.nih.gov>
wrote:

> Matt,
>
> There are a number of mirrors listed for the external data download to try
> [1]. Do all of these sites require https now? Do all of them have the full
> mirror of all the data?
>
> I think most of my machines don?t have SSL CMake. I imagine that they are
> pulling the data from the local cache right now. Is there a way we could
> push new data, or add a check, or produce a CMake warning of the needed
> CMake feature is not there?
>
> Thanks,
> Brad
>
> p.s. I think the Azure address not longer works
>
>
> [1]
> https://github.com/InsightSoftwareConsortium/ITK/blob/master/CMake/ITKExternalData.cmake#L34-L44
>
> > On Jan 29, 2016, at 11:22 AM, Matt McCormick <matt.mccormick at kitware.com>
> wrote:
> >
> > Hi folks,
> >
> > The server that hosts ITK data -- midas3.kitware.com now only supports
> > https, and does not support downloading via the http protocol. This
> > may result in build errors like:
> >
> >  error: downloading
> >  '
> http://midas3.kitware.com/midas/download/bitstream/457653/castxml-linux.tar.gz
> '
> >  failed
> >
> >    status_code: 1
> >    status_string: "Unsupported protocol"
> >    log:   Trying 192.168.120.111...
> >
> >  Connected to midas3.kitware.com (192.168.120.111) port 80 (#0)
> >
> > To address this error, the CMake client needs OpenSSL support. Newer
> > binaries from cmake.org have this support.  When building from source,
> > this is not enabled by default -- enable the configuration option
> > CMAKE_USE_OPENSSL.
> >
> > Matt
> > _______________________________________________
> > Community mailing list
> > Community at itk.org
> > http://public.kitware.com/mailman/listinfo/community
>
> _______________________________________________
> Community mailing list
> Community at itk.org
> http://public.kitware.com/mailman/listinfo/community
>
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From matt.mccormick at kitware.com  Mon Feb  1 12:00:06 2016
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Mon, 1 Feb 2016 12:00:06 -0500
Subject: [ITK-users] [ITK] http support on midas3.kitware.com
In-Reply-To: <CAPf2UMST1PEXDp1Qavs1E6As9mEOL8Rb_MCi088E3YNqs2y7mQ@mail.gmail.com>
References: <CALzTN-Q78c1i4nUqvgPgV3N+vaT4P0ED=QBkyswTrDyYZ4vX6g@mail.gmail.com>
 <7C0008CB-D6E6-460E-B642-A68E2649E7DC@mail.nih.gov>
 <CAPf2UMST1PEXDp1Qavs1E6As9mEOL8Rb_MCi088E3YNqs2y7mQ@mail.gmail.com>
Message-ID: <CALzTN-T1U636Lt_34Q_gwNdGnKaumdTzrU1CJs9HQPamO4aHyA@mail.gmail.com>

Hi,

Since our Azure grant expired, we no longer have write access to our
storage on their CDN.  They were still providing read access, but that
may have been discontinued.  The resource is removed in this patch:

  http://review.source.kitware.com/#/c/20737/


Explicit listing of https for midas3.kitware.com to improve
expectations and error messages is added here:

  http://review.source.kitware.com/#/c/20738/


The http://www.itk.org/files/ExternalData/ resource does support http.
  I added sync'ing of the InsightData tarball contents, which can be
downloaded with every release, as part of the release process.
However, data from External / Remote modules that is not uploaded via
'git gerrit-push' [1] is not uploaded there.  And, resources like
CastXML binaries are not uploaded here.


The http://slicer.midas3.kitware.com/midas3/ archive does currently
support http, but that support is being removed.  A patch to update
the URL is here:

  http://review.source.kitware.com/#/c/20739/


Thanks,
Matt

[1] http://www.itk.org/Wiki/ITK/Git/Develop/Data#Add_Data

On Mon, Feb 1, 2016 at 11:25 AM, D?enan Zuki? <dzenanz at gmail.com> wrote:
> We should change the address from http:// to https://. That way CMake will
> give a more meaningful error (https protocol not supported).
>
> On Mon, Feb 1, 2016 at 9:23 AM, Bradley Lowekamp <blowekamp at mail.nih.gov>
> wrote:
>>
>> Matt,
>>
>> There are a number of mirrors listed for the external data download to try
>> [1]. Do all of these sites require https now? Do all of them have the full
>> mirror of all the data?
>>
>> I think most of my machines don?t have SSL CMake. I imagine that they are
>> pulling the data from the local cache right now. Is there a way we could
>> push new data, or add a check, or produce a CMake warning of the needed
>> CMake feature is not there?
>>
>> Thanks,
>> Brad
>>
>> p.s. I think the Azure address not longer works
>>
>>
>> [1]
>> https://github.com/InsightSoftwareConsortium/ITK/blob/master/CMake/ITKExternalData.cmake#L34-L44
>>
>> > On Jan 29, 2016, at 11:22 AM, Matt McCormick
>> > <matt.mccormick at kitware.com> wrote:
>> >
>> > Hi folks,
>> >
>> > The server that hosts ITK data -- midas3.kitware.com now only supports
>> > https, and does not support downloading via the http protocol. This
>> > may result in build errors like:
>> >
>> >  error: downloading
>> >
>> > 'http://midas3.kitware.com/midas/download/bitstream/457653/castxml-linux.tar.gz'
>> >  failed
>> >
>> >    status_code: 1
>> >    status_string: "Unsupported protocol"
>> >    log:   Trying 192.168.120.111...
>> >
>> >  Connected to midas3.kitware.com (192.168.120.111) port 80 (#0)
>> >
>> > To address this error, the CMake client needs OpenSSL support. Newer
>> > binaries from cmake.org have this support.  When building from source,
>> > this is not enabled by default -- enable the configuration option
>> > CMAKE_USE_OPENSSL.
>> >
>> > Matt
>> > _______________________________________________
>> > Community mailing list
>> > Community at itk.org
>> > http://public.kitware.com/mailman/listinfo/community
>>
>> _______________________________________________
>> Community mailing list
>> Community at itk.org
>> http://public.kitware.com/mailman/listinfo/community
>
>

From bakkari.abdelkhalek at hotmail.fr  Mon Feb  1 13:06:45 2016
From: bakkari.abdelkhalek at hotmail.fr (Abdelkhalek Bakkari)
Date: Mon, 1 Feb 2016 19:06:45 +0100
Subject: [ITK-users] itk::ERROR: VarianceImageFilter(060CFF60):
In-Reply-To: <CALzTN-SOQ_oowXF4DhzXVsF8FewHSGtkMwnrU_zY96K5mu67ew@mail.gmail.com>
References: <DUB129-W252A04CC1627D0410926D383DA0@phx.gbl>,
 <CALzTN-SOQ_oowXF4DhzXVsF8FewHSGtkMwnrU_zY96K5mu67ew@mail.gmail.com>
Message-ID: <DUB129-W8F40AEB9D6696E147828783DE0@phx.gbl>

Hi,
How can I change the arguments to method have to be hanged as directed?

Abdelkhalek BakkariPh.D candidate in Computer ScienceInstitute of Applied Computer ScienceLodz University of Technology, Poland


> Date: Thu, 28 Jan 2016 17:07:35 -0500
> Subject: Re: [ITK-users] itk::ERROR: VarianceImageFilter(060CFF60):
> From: matt.mccormick at kitware.com
> To: bakkari.abdelkhalek at hotmail.fr
> CC: insight-users at itk.org
> 
> Hi,
> 
> >  The signature of ThreadedGenerateData() has been changed in ITK v4 to use the ne
> w ThreadIdType. "
> 
> This means the type of the arguments to method have to be changed as directed.
> 
> HTH,
> Matt
> 
> On Thu, Jan 28, 2016 at 4:58 PM, Abdelkhalek Bakkari
> <bakkari.abdelkhalek at hotmail.fr> wrote:
> >
> >
> > Hi !
> >
> > I tried to adopt the itkImageVarianceFilter into my code. But, an error
> > appears during execution :
> >
> > " Exception detected: itk::ERROR: MultiThreader(060E4078): Exception
> > occurred duri
> > ng SingleMethodExecute
> > c:\itk 4.8.1\source\modules\core\common\include\itkImageSource.hxx:279:
> > itk::ERROR: VarianceImageFilter(060CFF60): Subclass should override this
> > method!
> > !!
> > The signature of ThreadedGenerateData() has been changed in ITK v4 to use
> > the ne
> > w ThreadIdType. "
> >
> > Any help, please!
> >
> > Best regards,
> >
> > Abdelkhalek Bakkari
> > Ph.D candidate in Computer Science
> > Institute of Applied Computer Science
> > Lodz University of Technology, Poland
> >
> >
> >
> > _____________________________________
> > Powered by www.kitware.com
> >
> > Visit other Kitware open-source projects at
> > http://www.kitware.com/opensource/opensource.html
> >
> > Kitware offers ITK Training Courses, for more information visit:
> > http://www.kitware.com/products/protraining.php
> >
> > Please keep messages on-topic and check the ITK FAQ at:
> > http://www.itk.org/Wiki/ITK_FAQ
> >
> > Follow this link to subscribe/unsubscribe:
> > http://public.kitware.com/mailman/listinfo/insight-users
> >
 		 	   		  
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From bakkari.abdelkhalek at hotmail.fr  Mon Feb  1 13:50:39 2016
From: bakkari.abdelkhalek at hotmail.fr (Abdelkhalek Bakkari)
Date: Mon, 1 Feb 2016 19:50:39 +0100
Subject: [ITK-users] itk::ERROR: VarianceImageFilter(060CFF60):
In-Reply-To: <DUB129-W8F40AEB9D6696E147828783DE0@phx.gbl>
References: <DUB129-W252A04CC1627D0410926D383DA0@phx.gbl>, ,
 <CALzTN-SOQ_oowXF4DhzXVsF8FewHSGtkMwnrU_zY96K5mu67ew@mail.gmail.com>,
 <DUB129-W8F40AEB9D6696E147828783DE0@phx.gbl>
Message-ID: <DUB129-W772BD093E1081DD940227B83DE0@phx.gbl>

threadId should be declared not as int but as ThreadIdType, like
this:

/** Does the real work. */
virtual void ThreadedGenerateData(const typename
Superclass::OutputImageRegionType& outputRegionForThread,
  ThreadIdType threadId);Thank you D?enan Zuki? again ;)

Abdelkhalek BakkariPh.D candidate in Computer ScienceInstitute of Applied Computer ScienceLodz University of Technology, Poland



From: bakkari.abdelkhalek at hotmail.fr
To: matt.mccormick at kitware.com
Date: Mon, 1 Feb 2016 19:06:45 +0100
CC: insight-users at itk.org
Subject: Re: [ITK-users] itk::ERROR: VarianceImageFilter(060CFF60):




Hi,
How can I change the arguments to method have to be hanged as directed?

Abdelkhalek BakkariPh.D candidate in Computer ScienceInstitute of Applied Computer ScienceLodz University of Technology, Poland


> Date: Thu, 28 Jan 2016 17:07:35 -0500
> Subject: Re: [ITK-users] itk::ERROR: VarianceImageFilter(060CFF60):
> From: matt.mccormick at kitware.com
> To: bakkari.abdelkhalek at hotmail.fr
> CC: insight-users at itk.org
> 
> Hi,
> 
> >  The signature of ThreadedGenerateData() has been changed in ITK v4 to use the ne
> w ThreadIdType. "
> 
> This means the type of the arguments to method have to be changed as directed.
> 
> HTH,
> Matt
> 
> On Thu, Jan 28, 2016 at 4:58 PM, Abdelkhalek Bakkari
> <bakkari.abdelkhalek at hotmail.fr> wrote:
> >
> >
> > Hi !
> >
> > I tried to adopt the itkImageVarianceFilter into my code. But, an error
> > appears during execution :
> >
> > " Exception detected: itk::ERROR: MultiThreader(060E4078): Exception
> > occurred duri
> > ng SingleMethodExecute
> > c:\itk 4.8.1\source\modules\core\common\include\itkImageSource.hxx:279:
> > itk::ERROR: VarianceImageFilter(060CFF60): Subclass should override this
> > method!
> > !!
> > The signature of ThreadedGenerateData() has been changed in ITK v4 to use
> > the ne
> > w ThreadIdType. "
> >
> > Any help, please!
> >
> > Best regards,
> >
> > Abdelkhalek Bakkari
> > Ph.D candidate in Computer Science
> > Institute of Applied Computer Science
> > Lodz University of Technology, Poland
> >
> >
> >
> > _____________________________________
> > Powered by www.kitware.com
> >
> > Visit other Kitware open-source projects at
> > http://www.kitware.com/opensource/opensource.html
> >
> > Kitware offers ITK Training Courses, for more information visit:
> > http://www.kitware.com/products/protraining.php
> >
> > Please keep messages on-topic and check the ITK FAQ at:
> > http://www.itk.org/Wiki/ITK_FAQ
> >
> > Follow this link to subscribe/unsubscribe:
> > http://public.kitware.com/mailman/listinfo/insight-users
> >
 		 	   		  

_____________________________________
Powered by www.kitware.com

Visit other Kitware open-source projects at
http://www.kitware.com/opensource/opensource.html

Kitware offers ITK Training Courses, for more information visit:
http://www.kitware.com/products/protraining.php

Please keep messages on-topic and check the ITK FAQ at:
http://www.itk.org/Wiki/ITK_FAQ

Follow this link to subscribe/unsubscribe:
http://public.kitware.com/mailman/listinfo/insight-users 		 	   		  
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From bakkari.abdelkhalek at hotmail.fr  Mon Feb  1 14:20:21 2016
From: bakkari.abdelkhalek at hotmail.fr (Abdelkhalek Bakkari)
Date: Mon, 1 Feb 2016 20:20:21 +0100
Subject: [ITK-users] ITK, VTK and QT crash
Message-ID: <DUB129-W63048583FB95DDC3A2863F83DE0@phx.gbl>

Hi !
I have a problem using ITK, VTK and QT. When I tried to load a big data of Dicom images some functions into my interface does not working and the application crashed.Can you help me, please ?

Abdelkhalek BakkariPh.D candidate in Computer ScienceInstitute of Applied Computer ScienceLodz University of Technology, Poland

 		 	   		  
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From dzenanz at gmail.com  Mon Feb  1 14:47:46 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Mon, 1 Feb 2016 14:47:46 -0500
Subject: [ITK-users] ITK, VTK and QT crash
In-Reply-To: <DUB129-W63048583FB95DDC3A2863F83DE0@phx.gbl>
References: <DUB129-W63048583FB95DDC3A2863F83DE0@phx.gbl>
Message-ID: <CAPf2UMSM4CE6FetJ_2ty8c6CtmfOXYkgYixAfDK1zEeh0AhAJg@mail.gmail.com>

Hi Abdelkhalek,

you have to be a lot more specific than that. How big are the files? 2GB,
or 102GB? In which file/line does the crash finally manifest? Can you trace
where the original exception occurred? Is it in ITK, VTK or Qt code? What
is the error message? Try to produce a minimum working example (MWE), so we
can take a look at it and offer help.

Regards,
D?enan

On Mon, Feb 1, 2016 at 2:20 PM, Abdelkhalek Bakkari <
bakkari.abdelkhalek at hotmail.fr> wrote:

>
> Hi !
>
> I have a problem using ITK, VTK and QT. When I tried to load a big data of
> Dicom images some functions into my interface does not working and the
> application crashed.
> Can you help me, please ?
>
> Abdelkhalek Bakkari
> Ph.D candidate in Computer Science
> Institute of Applied Computer Science
> Lodz University of Technology, Poland
>
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
>
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From g.bogle at auckland.ac.nz  Tue Feb  2 00:25:21 2016
From: g.bogle at auckland.ac.nz (Gib Bogle)
Date: Tue, 2 Feb 2016 05:25:21 +0000
Subject: [ITK-users] Read a frame from a 3D image
Message-ID: <BD80F91C3E2E394894ED4780703D7F9EDBAAB7A7@uxcn10-6.UoA.auckland.ac.nz>

We want to work with a 3D TIFF that is much too big to fit in memory.  It would be sufficient to be able to specify a 2D frame and read that.  How can this be done?

Thanks
Gib
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From Robert.Atwood at diamond.ac.uk  Tue Feb  2 06:58:30 2016
From: Robert.Atwood at diamond.ac.uk (Robert.Atwood at diamond.ac.uk)
Date: Tue, 2 Feb 2016 11:58:30 +0000
Subject: [ITK-users] SimpleITK, Python, Local User,
 Anaconda  -- how to install without messing up shared libraries?
Message-ID: <6CCDD8FC6578314C902BBF87D511D9D8EA673F6A@EXCHMBX01.fed.cclrc.ac.uk>


Hi, ITK people! 


I don't maintain the Python installation at work so I know little about all the intricacies of python modules and distributions and path searching and so on.
What I do know is that if I follow the instructions for including SimpleITK as on the web page for Anacoda installation, everyone gets very angry. 
That is because it automatically resolves some dependencies in a way that breaks other people's applications, and it does this within the shared Python Anaconda installation on the cluster shared file system.

It was suggested (strongly) that I "use the --user option of pip"  . However I cannot get this to do anything by following the pip instruction on the SimpleITK web site, I know nothing of eggs and wheels nor pipit nor "more complicated commands. "

Does anyone know the magic incantation to do what I want?  Is there an Anaconda command that does it? 


Instructions from website with questions annotated:

Wheels [ Recommended ]
You need a recent version of pip ( >= 6.0, newer is better) to install wheels. Please go to pip homepage for more information about installation.
Once you have pip, the package can be installed:
$ pip install --allow-external SimpleITK --trusted-host www.simpleitk.org SimpleITK  --timeout 30 SimpleITK
Note: We do have window wheels hosted on pypi, but due to size and Linux binary restrictions neither OS X nor Linux are hosted on pipit, so the more complicated command is needed(1).
However, you may need to manually download the file(2) from SourceForge. And specify it (3) on the command line if the automatic search does not work.

(1) What is the 'more complicated command' ???
(2) Which file? An egg? Wheel? Huh?
(3) Specify what? How (what is the syntax for specifying 'it' )?


Output of session trying to follow the instructions.

$ pip install --user --allow-external SimpleITK --trusted-host www.simpleitk.org SimpleITK  --timeout 30 SimpleITK
Double requirement given: SimpleITK (already in SimpleITK, name='SimpleITK')
You are using pip version 7.1.2, however version 8.0.2 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.
[kny48981 at i12-ws011 6137]$ pip install --user --allow-external SimpleITK --trusted-host www.simpleitk.org   --timeout 30 SimpleITK
Collecting SimpleITK
  Could not find a version that satisfies the requirement SimpleITK (from versions: )
No matching distribution found for SimpleITK
You are using pip version 7.1.2, however version 8.0.2 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.
[kny48981 at i12-ws011 6137]$ pip install --user --allow-external SimpleITK --trusted-host www.simpleitk.org SimpleITK
Collecting SimpleITK
  Could not find a version that satisfies the requirement SimpleITK (from versions: )
No matching distribution found for SimpleITK
You are using pip version 7.1.2, however version 8.0.2 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.
[kny48981 at i12-ws011 6137]$ pip install --user --allow-external  --trusted-host www.simpleitk.org SimpleITK
Collecting www.simpleitk.org
  Could not find a version that satisfies the requirement www.simpleitk.org (from versions: )
No matching distribution found for www.simpleitk.org
You are using pip version 7.1.2, however version 8.0.2 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.









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From itkhelpacc at gmail.com  Tue Feb  2 07:24:24 2016
From: itkhelpacc at gmail.com (vishal)
Date: Tue, 2 Feb 2016 05:24:24 -0700 (MST)
Subject: [ITK-users] problem using VersorRigid3DTransform fo 2d/3d
 registration...Please advice??
Message-ID: <1454415864043-36714.post@n7.nabble.com>

hi,
Im currently working on registering 2d x ray image with 3d CT volume (2d/3d
registration algorithm) and I have obtained pretty good results by using
euler 3d transform, siddon Raycast interpolator, powell optimizer and NCG
metric.. I read some post in the mailing list saying that using Versor 3d
transform for such application is feasible and I tried it unfortunately Im
not able to connect the Siddon ray cast interpolator to versor 3d
transform... this the piece of the code where im initializing the
interpolator

  const double dtr = ( atan(1.0) * 4.0 ) / 180.0;
  interpolator1->SetProjectionAngle( dtr*projAngle1 );
  interpolator1->SetFocalPointToIsocenterDistance(scd);
  interpolator1->SetThreshold(threshold);
  interpolator1->SetTransform(transform); // this line the error occurs
  interpolator1->Initialize();
   registration->SetInitialTransformParameters( transform->GetParameters()
);

 the error is as follows..
error C2664:
'itk::SiddonJacobsRayCastInterpolateImageFunction<TInputImage,TCoordRep>::SetTransform'
: cannot convert parameter 1 from 'itk::SmartPointer<TObjectType>' to
'itk::Euler3DTransform<TParametersValueType> *'
D:\Project_realted_example\MyOwnCodeRegistratonWithVersor\versor.cxx	696

IntelliSense: no suitable conversion function from
"itk::SmartPointer<itk::VersorRigid3DTransform&lt;double>>" to
"itk::Euler3DTransform<double> *" exists
d:\Project_realted_example\MyOwnCodeRegistratonWithVersor\versor.cxx	696


its seems as though it is impossible to connect siddon ray casting
interpolator to the versor 3d transform and IT ONLY WORKS with Euler3d
transform...
please give me some advice.. how can I solve this problem?
Regards
Vishal



--
View this message in context: http://itk-users.7.n7.nabble.com/problem-using-VersorRigid3DTransform-fo-2d-3d-registration-Please-advice-tp36714.html
Sent from the ITK - Users mailing list archive at Nabble.com.

From blowekamp at mail.nih.gov  Tue Feb  2 09:30:10 2016
From: blowekamp at mail.nih.gov (Bradley Lowekamp)
Date: Tue, 2 Feb 2016 09:30:10 -0500
Subject: [ITK-users] [ITK]  Read a frame from a 3D image
In-Reply-To: <BD80F91C3E2E394894ED4780703D7F9EDBAAB7A7@uxcn10-6.UoA.auckland.ac.nz>
References: <BD80F91C3E2E394894ED4780703D7F9EDBAAB7A7@uxcn10-6.UoA.auckland.ac.nz>
Message-ID: <38328D60-A911-4755-9375-AC3E96C8C83A@mail.nih.gov>

Gib,

Currently the TIFFIO does not support streamed reading. Being able to just read a page is a straight forward first step. In fact when I refactored it I made sure it was clear how this could be done in the future [1].

The correct way to do it would be to upgrade TIFFImageIO with this feature. This would involve changing the parent class to StreamingImageIOBase, then overloading methods to disable streamed writing, and overloading the method ( GenerateStreamableReadRegionFromRequestedRegion ) to enable stream read such that the RequestedRegion is expanded to the whole slice, and verifying all the TIFF fields are valid for this operations.

The tricky part would be to adapt existing tests, and test the new functionality.

After that, the streaming would happen seamlessly with the ITK pipeline, giving there are stream compatible filters and all the features are configured correctly.

Alternatively, there are utilities to split the pages of the TIFF in to separate files.

HTH,
Brad



> On Feb 2, 2016, at 12:25 AM, Gib Bogle <g.bogle at auckland.ac.nz> wrote:
> 
> We want to work with a 3D TIFF that is much too big to fit in memory.  It would be sufficient to be able to specify a 2D frame and read that.  How can this be done?
> 
> Thanks
> Gib
> _____________________________________
> Powered by www.kitware.com <http://www.kitware.com/>
> 
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html <http://www.kitware.com/opensource/opensource.html>
> 
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php <http://www.kitware.com/products/protraining.php>
> 
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ <http://www.itk.org/Wiki/ITK_FAQ>
> 
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users <http://public.kitware.com/mailman/listinfo/insight-users>
> _______________________________________________
> Community mailing list
> Community at itk.org <mailto:Community at itk.org>
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From bakkari.abdelkhalek at hotmail.fr  Tue Feb  2 11:48:47 2016
From: bakkari.abdelkhalek at hotmail.fr (Abdelkhalek Bakkari)
Date: Tue, 2 Feb 2016 17:48:47 +0100
Subject: [ITK-users] Region Adjacency Graph for voxels
Message-ID: <DUB129-W6FA4BC28B486D5EAED48783DF0@phx.gbl>

Hi !
How can I apply the region adjacency graph for voxels of a 3D image and obtain the adjacency list.
Thank you in advance
Regards,
Abdelkhalek BakkariPh.D candidate in Computer ScienceInstitute of Applied Computer ScienceLodz University of Technology, Poland

 		 	   		  
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From dzenanz at gmail.com  Tue Feb  2 14:28:12 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Tue, 2 Feb 2016 14:28:12 -0500
Subject: [ITK-users] Region Adjacency Graph for voxels
In-Reply-To: <DUB129-W6FA4BC28B486D5EAED48783DF0@phx.gbl>
References: <DUB129-W6FA4BC28B486D5EAED48783DF0@phx.gbl>
Message-ID: <CAPf2UMSUs4HEfk713jwrVx5tvVgfeQQay5NO6z-JopyDXCFwZg@mail.gmail.com>

You could perhaps use neighborhood iterator
<http://www.itk.org/Doxygen/html/classitk_1_1NeighborhoodIterator.html>
over the image in question and for each iteration build a link between the
pixel being iterated and the center pixel of the neighborhood. You will
have to avoid duplicate links if the graph you are trying to build is
undirected.

HTH

On Tue, Feb 2, 2016 at 11:48 AM, Abdelkhalek Bakkari <
bakkari.abdelkhalek at hotmail.fr> wrote:

>
> Hi !
>
> How can I apply the region adjacency graph for voxels of a 3D image and
> obtain the adjacency list.
>
> Thank you in advance
>
> Regards,
>
> Abdelkhalek Bakkari
> Ph.D candidate in Computer Science
> Institute of Applied Computer Science
> Lodz University of Technology, Poland
>
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
>
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From dzenanz at gmail.com  Tue Feb  2 15:36:04 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Tue, 2 Feb 2016 15:36:04 -0500
Subject: [ITK-users] problem using VersorRigid3DTransform fo 2d/3d
 registration...Please advice??
In-Reply-To: <1454415864043-36714.post@n7.nabble.com>
References: <1454415864043-36714.post@n7.nabble.com>
Message-ID: <CAPf2UMQ6LyQNPDNdfyFHquSvCS3mf3sSA_sRjbfQOSTFyhR=1g@mail.gmail.com>

Hi Vishal,

you probably need to change the line in
itkSiddonJacobsRayCastInterpolateImageFunction.h
<https://github.com/midas-journal/midas-journal-784/blob/master/itkSiddonJacobsRayCastInterpolateImageFunction.h>
which says:
typedef Euler3DTransform<TCoordRep> TransformType;

If you make improvements, would you mind making a pull request to the
repository <https://github.com/midas-journal/midas-journal-784> so others
can benefit from your work?

Regards

On Tue, Feb 2, 2016 at 7:24 AM, vishal <itkhelpacc at gmail.com> wrote:

> hi,
> Im currently working on registering 2d x ray image with 3d CT volume (2d/3d
> registration algorithm) and I have obtained pretty good results by using
> euler 3d transform, siddon Raycast interpolator, powell optimizer and NCG
> metric.. I read some post in the mailing list saying that using Versor 3d
> transform for such application is feasible and I tried it unfortunately Im
> not able to connect the Siddon ray cast interpolator to versor 3d
> transform... this the piece of the code where im initializing the
> interpolator
>
>   const double dtr = ( atan(1.0) * 4.0 ) / 180.0;
>   interpolator1->SetProjectionAngle( dtr*projAngle1 );
>   interpolator1->SetFocalPointToIsocenterDistance(scd);
>   interpolator1->SetThreshold(threshold);
>   interpolator1->SetTransform(transform); // this line the error occurs
>   interpolator1->Initialize();
>    registration->SetInitialTransformParameters( transform->GetParameters()
> );
>
>  the error is as follows..
> error C2664:
>
> 'itk::SiddonJacobsRayCastInterpolateImageFunction<TInputImage,TCoordRep>::SetTransform'
> : cannot convert parameter 1 from 'itk::SmartPointer<TObjectType>' to
> 'itk::Euler3DTransform<TParametersValueType> *'
> D:\Project_realted_example\MyOwnCodeRegistratonWithVersor\versor.cxx    696
>
> IntelliSense: no suitable conversion function from
> "itk::SmartPointer<itk::VersorRigid3DTransform&lt;double>>" to
> "itk::Euler3DTransform<double> *" exists
> d:\Project_realted_example\MyOwnCodeRegistratonWithVersor\versor.cxx    696
>
>
> its seems as though it is impossible to connect siddon ray casting
> interpolator to the versor 3d transform and IT ONLY WORKS with Euler3d
> transform...
> please give me some advice.. how can I solve this problem?
> Regards
> Vishal
>
>
>
> --
> View this message in context:
> http://itk-users.7.n7.nabble.com/problem-using-VersorRigid3DTransform-fo-2d-3d-registration-Please-advice-tp36714.html
> Sent from the ITK - Users mailing list archive at Nabble.com.
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
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From g.bogle at auckland.ac.nz  Tue Feb  2 15:37:26 2016
From: g.bogle at auckland.ac.nz (Gib Bogle)
Date: Tue, 2 Feb 2016 20:37:26 +0000
Subject: [ITK-users] [ITK]  Read a frame from a 3D image
In-Reply-To: <38328D60-A911-4755-9375-AC3E96C8C83A@mail.nih.gov>
References: <BD80F91C3E2E394894ED4780703D7F9EDBAAB7A7@uxcn10-6.UoA.auckland.ac.nz>,
 <38328D60-A911-4755-9375-AC3E96C8C83A@mail.nih.gov>
Message-ID: <BD80F91C3E2E394894ED4780703D7F9EDBAAB8E1@uxcn10-6.UoA.auckland.ac.nz>

Thanks Bradley.  That sounds a bit beyond my C++ competence level.  I'll go the page-splitting route.

Cheers
Gib
________________________________
From: Bradley Lowekamp [blowekamp at mail.nih.gov]
Sent: Wednesday, 3 February 2016 3:30 a.m.
To: Gib Bogle
Cc: insight-users
Subject: Re: [ITK] [ITK-users] Read a frame from a 3D image

Gib,

Currently the TIFFIO does not support streamed reading. Being able to just read a page is a straight forward first step. In fact when I refactored it I made sure it was clear how this could be done in the future [1].

The correct way to do it would be to upgrade TIFFImageIO with this feature. This would involve changing the parent class to StreamingImageIOBase, then overloading methods to disable streamed writing, and overloading the method ( GenerateStreamableReadRegionFromRequestedRegion ) to enable stream read such that the RequestedRegion is expanded to the whole slice, and verifying all the TIFF fields are valid for this operations.

The tricky part would be to adapt existing tests, and test the new functionality.

After that, the streaming would happen seamlessly with the ITK pipeline, giving there are stream compatible filters and all the features are configured correctly.

Alternatively, there are utilities to split the pages of the TIFF in to separate files.

HTH,
Brad



On Feb 2, 2016, at 12:25 AM, Gib Bogle <g.bogle at auckland.ac.nz<mailto:g.bogle at auckland.ac.nz>> wrote:

We want to work with a 3D TIFF that is much too big to fit in memory.  It would be sufficient to be able to specify a 2D frame and read that.  How can this be done?

Thanks
Gib
_____________________________________
Powered by www.kitware.com<http://www.kitware.com/>

Visit other Kitware open-source projects at
http://www.kitware.com/opensource/opensource.html

Kitware offers ITK Training Courses, for more information visit:
http://www.kitware.com/products/protraining.php

Please keep messages on-topic and check the ITK FAQ at:
http://www.itk.org/Wiki/ITK_FAQ

Follow this link to subscribe/unsubscribe:
http://public.kitware.com/mailman/listinfo/insight-users
_______________________________________________
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From dzenanz at gmail.com  Tue Feb  2 16:10:55 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Tue, 2 Feb 2016 16:10:55 -0500
Subject: [ITK-users] problem using VersorRigid3DTransform fo 2d/3d
 registration...Please advice??
In-Reply-To: <CAPf2UMQ6LyQNPDNdfyFHquSvCS3mf3sSA_sRjbfQOSTFyhR=1g@mail.gmail.com>
References: <1454415864043-36714.post@n7.nabble.com>
 <CAPf2UMQ6LyQNPDNdfyFHquSvCS3mf3sSA_sRjbfQOSTFyhR=1g@mail.gmail.com>
Message-ID: <CAPf2UMTJbiwRFEb7pdUKg6r77uk+gHM1CTsgpWFfTp-pKyrBiA@mail.gmail.com>

P.S. The up-to-date git repo is this:
https://github.com/InsightSoftwareConsortium/ITKTwoProjectionRegistration
and the corresponding source file:
https://github.com/InsightSoftwareConsortium/ITKTwoProjectionRegistration/blob/master/include/itkSiddonJacobsRayCastInterpolateImageFunction.h

Regards

On Tue, Feb 2, 2016 at 3:36 PM, D?enan Zuki? <dzenanz at gmail.com> wrote:

> Hi Vishal,
>
> you probably need to change the line in
> itkSiddonJacobsRayCastInterpolateImageFunction.h
> <https://github.com/midas-journal/midas-journal-784/blob/master/itkSiddonJacobsRayCastInterpolateImageFunction.h>
> which says:
> typedef Euler3DTransform<TCoordRep> TransformType;
>
> If you make improvements, would you mind making a pull request to the
> repository <https://github.com/midas-journal/midas-journal-784> so others
> can benefit from your work?
>
> Regards
>
> On Tue, Feb 2, 2016 at 7:24 AM, vishal <itkhelpacc at gmail.com> wrote:
>
>> hi,
>> Im currently working on registering 2d x ray image with 3d CT volume
>> (2d/3d
>> registration algorithm) and I have obtained pretty good results by using
>> euler 3d transform, siddon Raycast interpolator, powell optimizer and NCG
>> metric.. I read some post in the mailing list saying that using Versor 3d
>> transform for such application is feasible and I tried it unfortunately Im
>> not able to connect the Siddon ray cast interpolator to versor 3d
>> transform... this the piece of the code where im initializing the
>> interpolator
>>
>>   const double dtr = ( atan(1.0) * 4.0 ) / 180.0;
>>   interpolator1->SetProjectionAngle( dtr*projAngle1 );
>>   interpolator1->SetFocalPointToIsocenterDistance(scd);
>>   interpolator1->SetThreshold(threshold);
>>   interpolator1->SetTransform(transform); // this line the error occurs
>>   interpolator1->Initialize();
>>    registration->SetInitialTransformParameters( transform->GetParameters()
>> );
>>
>>  the error is as follows..
>> error C2664:
>>
>> 'itk::SiddonJacobsRayCastInterpolateImageFunction<TInputImage,TCoordRep>::SetTransform'
>> : cannot convert parameter 1 from 'itk::SmartPointer<TObjectType>' to
>> 'itk::Euler3DTransform<TParametersValueType> *'
>> D:\Project_realted_example\MyOwnCodeRegistratonWithVersor\versor.cxx
>> 696
>>
>> IntelliSense: no suitable conversion function from
>> "itk::SmartPointer<itk::VersorRigid3DTransform&lt;double>>" to
>> "itk::Euler3DTransform<double> *" exists
>> d:\Project_realted_example\MyOwnCodeRegistratonWithVersor\versor.cxx
>> 696
>>
>>
>> its seems as though it is impossible to connect siddon ray casting
>> interpolator to the versor 3d transform and IT ONLY WORKS with Euler3d
>> transform...
>> please give me some advice.. how can I solve this problem?
>> Regards
>> Vishal
>>
>>
>>
>> --
>> View this message in context:
>> http://itk-users.7.n7.nabble.com/problem-using-VersorRigid3DTransform-fo-2d-3d-registration-Please-advice-tp36714.html
>> Sent from the ITK - Users mailing list archive at Nabble.com.
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://www.kitware.com/products/protraining.php
>>
>> Please keep messages on-topic and check the ITK FAQ at:
>> http://www.itk.org/Wiki/ITK_FAQ
>>
>> Follow this link to subscribe/unsubscribe:
>> http://public.kitware.com/mailman/listinfo/insight-users
>>
>
>
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From zivrafael.yaniv at nih.gov  Tue Feb  2 16:26:20 2016
From: zivrafael.yaniv at nih.gov (Yaniv, Ziv Rafael (NIH/NLM/LHC) [C])
Date: Tue, 2 Feb 2016 21:26:20 +0000
Subject: [ITK-users] SimpleITK, Python, Local User,
 Anaconda  -- how to install without messing up shared libraries?
Message-ID: <D2D68817.8735%yanivz@mail.nih.gov>

Hello Robert,

We understand our documentation was not sufficiently clear, so we have
updated our installation instructions page
(http://www.itk.org/Wiki/SimpleITK/GettingStarted). Hopefully the
instructions are clearer now.

Instructions for anaconda:
0. See which virtual environments already exist:
   $ conda info -e
1. Assuming sitkpy doesn't exist, create it and install SimpleITK there:
   $ conda create -n sitkpy -c https://conda.binstar.org/simpleitk
python=3.4 anaconda SimpleITK
2. Activate the environment and start working:
   $ source activate sitkpy


If there is no binary distribution for your operating system, step 1
fails, then you will have to build from source using our conda-recipe:

   $ git clone https://github.com/conda/conda-recipes.git
   $ cd conda-recipes
   $ conda build simpleitk

This will take a while as it will download the source and compile
everything. We assume you have git and a supported compiler installed. For
more information on conda recipes see the conda documentation
http://conda.pydata.org/docs/building/recipe.html.

    Ziv 







On 2/2/16, 6:58 AM, "Robert.Atwood at diamond.ac.uk"
<Robert.Atwood at diamond.ac.uk> wrote:

>
>Hi, ITK people! 
>
>
>I don't maintain the Python installation at work so I know little about
>all the intricacies of python modules and distributions and path
>searching and so on.
>What I do know is that if I follow the instructions for including
>SimpleITK as on the web page for Anacoda installation, everyone gets very
>angry. 
>That is because it automatically resolves some dependencies in a way that
>breaks other people's applications, and it does this within the shared
>Python Anaconda installation on the cluster shared file system.
>
>It was suggested (strongly) that I "use the --user option of pip"  .
>However I cannot get this to do anything by following the pip instruction
>on the SimpleITK web site, I know nothing of eggs and wheels nor pipit
>nor "more complicated commands. "
>
>Does anyone know the magic incantation to do what I want?  Is there an
>Anaconda command that does it?
>
>
>Instructions from website with questions annotated:
>
>Wheels [ Recommended ]
>You need a recent version of pip ( >= 6.0, newer is better) to install
>wheels. Please go to pip homepage for more information about installation.
>Once you have pip, the package can be installed:
>$ pip install --allow-external SimpleITK --trusted-host www.simpleitk.org
>SimpleITK  --timeout 30 SimpleITK
>Note: We do have window wheels hosted on pypi, but due to size and Linux
>binary restrictions neither OS X nor Linux are hosted on pipit, so the
>more complicated command is needed(1).
>However, you may need to manually download the file(2) from SourceForge.
>And specify it (3) on the command line if the automatic search does not
>work.
>
>(1) What is the 'more complicated command' ???
>(2) Which file? An egg? Wheel? Huh?
>(3) Specify what? How (what is the syntax for specifying 'it' )?
>
>
>Output of session trying to follow the instructions.
>
>$ pip install --user --allow-external SimpleITK --trusted-host
>www.simpleitk.org SimpleITK  --timeout 30 SimpleITK
>Double requirement given: SimpleITK (already in SimpleITK,
>name='SimpleITK')
>You are using pip version 7.1.2, however version 8.0.2 is available.
>You should consider upgrading via the 'pip install --upgrade pip' command.
>[kny48981 at i12-ws011 6137]$ pip install --user --allow-external SimpleITK
>--trusted-host www.simpleitk.org   --timeout 30 SimpleITK
>Collecting SimpleITK
>  Could not find a version that satisfies the requirement SimpleITK (from
>versions: )
>No matching distribution found for SimpleITK
>You are using pip version 7.1.2, however version 8.0.2 is available.
>You should consider upgrading via the 'pip install --upgrade pip' command.
>[kny48981 at i12-ws011 6137]$ pip install --user --allow-external SimpleITK
>--trusted-host www.simpleitk.org SimpleITK
>Collecting SimpleITK
>  Could not find a version that satisfies the requirement SimpleITK (from
>versions: )
>No matching distribution found for SimpleITK
>You are using pip version 7.1.2, however version 8.0.2 is available.
>You should consider upgrading via the 'pip install --upgrade pip' command.
>[kny48981 at i12-ws011 6137]$ pip install --user --allow-external
>--trusted-host www.simpleitk.org SimpleITK
>Collecting www.simpleitk.org
>  Could not find a version that satisfies the requirement
>www.simpleitk.org (from versions: )
>No matching distribution found for www.simpleitk.org
>You are using pip version 7.1.2, however version 8.0.2 is available.
>You should consider upgrading via the 'pip install --upgrade pip' command.
>
>
>
>
>
>
>
>
>
>-- 
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>attachments are free from viruses and we cannot accept liability for any
>damage which you may sustain as a result of software viruses which may be
>transmitted in or with the message.
>Diamond Light Source Limited (company no. 4375679). Registered in England
>and Wales with its registered office at Diamond House, Harwell Science
>and Innovation Campus, Didcot, Oxfordshire, OX11 0DE, United Kingdom
>
>_____________________________________
>Powered by www.kitware.com
>
>Visit other Kitware open-source projects at
>http://www.kitware.com/opensource/opensource.html
>
>Kitware offers ITK Training Courses, for more information visit:
>http://www.kitware.com/products/protraining.php
>
>Please keep messages on-topic and check the ITK FAQ at:
>http://www.itk.org/Wiki/ITK_FAQ
>
>Follow this link to subscribe/unsubscribe:
>http://public.kitware.com/mailman/listinfo/insight-users


From g.bogle at auckland.ac.nz  Tue Feb  2 18:48:46 2016
From: g.bogle at auckland.ac.nz (Gib Bogle)
Date: Tue, 2 Feb 2016 23:48:46 +0000
Subject: [ITK-users] Using ImageFileReader iteratively
Message-ID: <BD80F91C3E2E394894ED4780703D7F9EDBAAB9C4@uxcn10-6.UoA.auckland.ac.nz>

I am reading a set of 2D image files, like this:

typedef itk::Image<unsigned char,2> ImageType2;        // 2D image
ImageType2::Pointer im2;
unsigned char *p2;

    typedef itk::ImageFileReader<ImageType2> FileReaderType;
    FileReaderType::Pointer reader = FileReaderType::New();

    for (z=0; z<z2-z1-1; z++) {
        ... // make frame_file
        printf("frame_file: %s\n",frame_file);
        reader->SetFileName(frame_file);
        try
        {
            reader->Update();
            printf("did reader->update\n");
        }
        catch (itk::ExceptionObject &e)
        {
            std::cout << e << std::endl;
            return 2;
        }

        im2 = reader->GetOutput();
        printf("got im2\n");
        ...
    }

This reads the first 2D file, but the next time through the loop it crashes while executing reader->Update().
What am I doing wrong?

Thanks
Gib
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From matt.mccormick at kitware.com  Tue Feb  2 21:17:04 2016
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Tue, 2 Feb 2016 21:17:04 -0500
Subject: [ITK-users] Using ImageFileReader iteratively
In-Reply-To: <BD80F91C3E2E394894ED4780703D7F9EDBAAB9C4@uxcn10-6.UoA.auckland.ac.nz>
References: <BD80F91C3E2E394894ED4780703D7F9EDBAAB9C4@uxcn10-6.UoA.auckland.ac.nz>
Message-ID: <CALzTN-THs5p3XttrhJ0egArY9oM7Ff-GP14Wc+3CRFOG42hFwg@mail.gmail.com>

Hi Gib,

It may be related to what is happening in "...".

Try

  im2->DisconnectPipeline();

after

  im2 = reader->GetOutput();

This will disassociate the output image from the reader object, and
the reader will create a new output image in the next iteration of the
loop.

HTH,
Matt

On Tue, Feb 2, 2016 at 6:48 PM, Gib Bogle <g.bogle at auckland.ac.nz> wrote:
> I am reading a set of 2D image files, like this:
>
> typedef itk::Image<unsigned char,2> ImageType2;        // 2D image
> ImageType2::Pointer im2;
> unsigned char *p2;
>
>     typedef itk::ImageFileReader<ImageType2> FileReaderType;
>     FileReaderType::Pointer reader = FileReaderType::New();
>
>     for (z=0; z<z2-z1-1; z++) {
>         ... // make frame_file
>         printf("frame_file: %s\n",frame_file);
>         reader->SetFileName(frame_file);
>         try
>         {
>             reader->Update();
>             printf("did reader->update\n");
>         }
>         catch (itk::ExceptionObject &e)
>         {
>             std::cout << e << std::endl;
>             return 2;
>         }
>
>         im2 = reader->GetOutput();
>         printf("got im2\n");
>         ...
>     }
>
> This reads the first 2D file, but the next time through the loop it crashes
> while executing reader->Update().
> What am I doing wrong?
>
> Thanks
> Gib
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>

From g.bogle at auckland.ac.nz  Tue Feb  2 21:48:34 2016
From: g.bogle at auckland.ac.nz (Gib Bogle)
Date: Wed, 3 Feb 2016 02:48:34 +0000
Subject: [ITK-users] Using ImageFileReader iteratively
In-Reply-To: <CALzTN-THs5p3XttrhJ0egArY9oM7Ff-GP14Wc+3CRFOG42hFwg@mail.gmail.com>
References: <BD80F91C3E2E394894ED4780703D7F9EDBAAB9C4@uxcn10-6.UoA.auckland.ac.nz>,
 <CALzTN-THs5p3XttrhJ0egArY9oM7Ff-GP14Wc+3CRFOG42hFwg@mail.gmail.com>
Message-ID: <BD80F91C3E2E394894ED4780703D7F9EDBAABA04@uxcn10-6.UoA.auckland.ac.nz>

Hi Matt,

Indeed it was!  Just a careless oversight.  It's all working now.

Cheers, Gib
________________________________________
From: Matt McCormick [matt.mccormick at kitware.com]
Sent: Wednesday, 3 February 2016 3:17 p.m.
To: Gib Bogle
Cc: insight-users
Subject: Re: [ITK-users] Using ImageFileReader iteratively

Hi Gib,

It may be related to what is happening in "...".

Try

  im2->DisconnectPipeline();

after

  im2 = reader->GetOutput();

This will disassociate the output image from the reader object, and
the reader will create a new output image in the next iteration of the
loop.

HTH,
Matt

On Tue, Feb 2, 2016 at 6:48 PM, Gib Bogle <g.bogle at auckland.ac.nz> wrote:
> I am reading a set of 2D image files, like this:
>
> typedef itk::Image<unsigned char,2> ImageType2;        // 2D image
> ImageType2::Pointer im2;
> unsigned char *p2;
>
>     typedef itk::ImageFileReader<ImageType2> FileReaderType;
>     FileReaderType::Pointer reader = FileReaderType::New();
>
>     for (z=0; z<z2-z1-1; z++) {
>         ... // make frame_file
>         printf("frame_file: %s\n",frame_file);
>         reader->SetFileName(frame_file);
>         try
>         {
>             reader->Update();
>             printf("did reader->update\n");
>         }
>         catch (itk::ExceptionObject &e)
>         {
>             std::cout << e << std::endl;
>             return 2;
>         }
>
>         im2 = reader->GetOutput();
>         printf("got im2\n");
>         ...
>     }
>
> This reads the first 2D file, but the next time through the loop it crashes
> while executing reader->Update().
> What am I doing wrong?
>
> Thanks
> Gib
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>

From itkhelpacc at gmail.com  Tue Feb  2 23:46:18 2016
From: itkhelpacc at gmail.com (vishal)
Date: Tue, 2 Feb 2016 21:46:18 -0700 (MST)
Subject: [ITK-users] problem using VersorRigid3DTransform fo 2d/3d
 registration...Please advice??
In-Reply-To: <CAPf2UMTJbiwRFEb7pdUKg6r77uk+gHM1CTsgpWFfTp-pKyrBiA@mail.gmail.com>
References: <1454415864043-36714.post@n7.nabble.com>
 <CAPf2UMQ6LyQNPDNdfyFHquSvCS3mf3sSA_sRjbfQOSTFyhR=1g@mail.gmail.com>
 <CAPf2UMTJbiwRFEb7pdUKg6r77uk+gHM1CTsgpWFfTp-pKyrBiA@mail.gmail.com>
Message-ID: <1454474778171-36725.post@n7.nabble.com>

hi D?enan,
thank you for advice.. il post the result after i have made the changes..
Regards
Vishal




--
View this message in context: http://itk-users.7.n7.nabble.com/problem-using-VersorRigid3DTransform-fo-2d-3d-registration-Please-advice-tp36714p36725.html
Sent from the ITK - Users mailing list archive at Nabble.com.

From cyril.mory at uclouvain.be  Wed Feb  3 04:22:42 2016
From: cyril.mory at uclouvain.be (Cyril Mory)
Date: Wed, 3 Feb 2016 10:22:42 +0100
Subject: [ITK-users] Reading 4d image using SimpleITK
Message-ID: <56B1C6E2.9000304@uclouvain.be>

Hi ITK users,

I have more or less the same goal as Andriy had five years ago: I need to read a 4D image, and extract 2D slices from it to serve as figures in a paper. I was wondering if there was a quick way to break my 4D image down into 3D images using SimpleITK.

Cyril



On Wed, Dec 14, 2011 at 5:06 PM, Bradley Lowekamp
<blowekamp at mail.nih.gov 
<http://www.itk.org/mailman/listinfo/insight-users>> wrote:
>/There is nothing really in the architecture that is specific to 2D and 
3D. However, there are numerous compile assertions and other methods to 
ensure that we are only instantiating filters and objects as we expect 
to. So there is no quick way of enabling 4D images in simpleITK. />//
Ok, makes sense.

>/You just indicate that you want to read the image. What do you plan on 
doing with it after that? />//
At this point, I just want to do some plotting of time course curves.
I will break it down into individual time frames, and load
frame-by-frame, no big deal.

Thank you.

>/Brad />//>>//>>/AF />>//>>//>>//>>/On Wed, Dec 14, 2011 at 4:39 PM, Bradley Lowekamp />>/<blowekamp at mail.nih.gov 
<http://www.itk.org/mailman/listinfo/insight-users>> wrote: />>>/Hello Andriy, />>>//>>>/SimpleITK only supports 2D and 3D sitk::Images. />>>//>>>/Could you please share a little more about the image you are trying to 
read? />>>/What type is it and what is the meta data that ITK's ImageIO sees when it />>>/reads the header (ie Number of Dimensions, Size of the dimensions, 
etc...)? />>>/I would like to be able to reproduce your problem. />>>//>>>/When ITK's ImageFileReader is instantiated over a dimension that is less />>>/than that the file is reporting it will generally, just read that first />>>/hyper-slice. We could do similar behavior is SimpleITK. Always try to 
read, />>>/and print a warning if the dimensions is higher. />>>//>>>/Another feature that is planned, is the support for reading ROI's. I had 
not />>>/previously thought about the possibility of this feature enabling support />>>/for reading higher dimension images into 3D images, but is may be 
possible. />>>//>>>/Brad />>>//>>>/======================================================== />>>//>>>/Bradley Lowekamp />>>//>>>/Medical Science and Computing for />>>//>>>/Office of High Performance Computing and Communications />>>//>>>/National Library of Medicine />>>//>>>/blowekamp at mail.nih.gov 
<http://www.itk.org/mailman/listinfo/insight-users> />>>//>>>//>>>/On Dec 14, 2011, at 4:29 PM, Andriy Fedorov wrote: />>>//>>>/Hi, />>>//>>>/I would like to be able to read a 4d image using SimpleITK. />>>//>>>/Currently, this is not allowed />>>/(https://github.com/SimpleITK/SimpleITK/blob/master/Code/IO/src/sitkImageFileReader.cxx#L44). 
/>>>//>>>/Can someone give me an idea what it takes to enable this feature? />>>//>>>/Thanks />>>//>>>/AF />>>/_____________________________________ />>>/Powered by www.kitware.com />>>//>>>/Visit other Kitware open-source projects at />>>/http://www.kitware.com/opensource/opensource.html />>>//>>>/Kitware offers ITK Training Courses, for more information visit: />>>/http://www.kitware.com/products/protraining.html />>>//>>>/Please keep messages on-topic and check the ITK FAQ at: />>>/http://www.itk.org/Wiki/ITK_FAQ />>>//>>>/Follow this link to subscribe/unsubscribe: />>>/http://www.itk.org/mailman/listinfo/insight-users />>>//>>>

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From tevain at telecom-paristech.fr  Wed Feb  3 07:04:41 2016
From: tevain at telecom-paristech.fr (Timothee Evain)
Date: Wed, 3 Feb 2016 13:04:41 +0100 (CET)
Subject: [ITK-users] [ITK]  Reading 4d image using SimpleITK
In-Reply-To: <56B1C6E2.9000304@uclouvain.be>
References: <56B1C6E2.9000304@uclouvain.be>
Message-ID: <1077484351.12010208.1454501081539.JavaMail.zimbra@enst.fr>

Hello,

I'm not an user of SimpleITK, but it seems that you can now build the library with an cmake option to support 4D images (since release ~0.9?).
If you are able to do so, you can then use the ExtractImageFilter to get your 3D/2D data : http://www.itk.org/SimpleITKDoxygen/html/classitk_1_1simple_1_1ExtractImageFilter.html

HTH,

Tim


----- Mail original -----
De: "Cyril Mory" <cyril.mory at uclouvain.be>
?: insight-users at itk.org
Envoy?: Mercredi 3 F?vrier 2016 10:22:42
Objet: [ITK] [ITK-users] Reading 4d image using SimpleITK

Hi ITK users,

I have more or less the same goal as Andriy had five years ago: I need to read a 4D image, and extract 2D slices from it to serve as figures in a paper. I was wondering if there was a quick way to break my 4D image down into 3D images using SimpleITK. 

Cyril



On Wed, Dec 14, 2011 at 5:06 PM, Bradley Lowekamp
< blowekamp at mail.nih.gov > wrote:
> There is nothing really in the architecture that is specific to 2D and 3D. However, there are numerous compile assertions and other methods to ensure that we are only instantiating filters and objects as we expect to. So there is no quick way of enabling 4D images in simpleITK. > Ok, makes sense.

> You just indicate that you want to read the image. What do you plan on doing with it after that? > At this point, I just want to do some plotting of time course curves.
I will break it down into individual time frames, and load
frame-by-frame, no big deal.

Thank you.

> Brad > >> >> AF >> >> >> >> On Wed, Dec 14, 2011 at 4:39 PM, Bradley Lowekamp >> < blowekamp at mail.nih.gov > wrote: >>> Hello Andriy, >>> >>> SimpleITK only supports 2D and 3D sitk::Images. >>> >>> Could you please share a little more about the image you are trying to read? >>> What type is it and what is the meta data that ITK's ImageIO sees when it >>> reads the header (ie Number of Dimensions, Size of the dimensions, etc...)? >>> I would like to be able to reproduce your problem. >>> >>> When ITK's ImageFileReader is instantiated over a dimension that is less >>> than that the file is reporting it will generally, just read that first >>> hyper-slice. We could do similar behavior is SimpleITK. Always try to read, >>> and print a warning if the dimensions is higher. >>> >>> Another feature that is planned, is the support for reading ROI's. I had not >>> previously thought about the possibility of this feature enabling support >>> for reading higher dimension images into 3D images, but is may be possible. >>> >>> Brad >>> >>> ======================================================== >>> >>> Bradley Lowekamp >>> >>> Medical Science and Computing for >>> >>> Office of High Performance Computing and Communications >>> >>> National Library of Medicine >>> >>> blowekamp at mail.nih.gov >>> >>> >>> On Dec 14, 2011, at 4:29 PM, Andriy Fedorov wrote: >>> >>> Hi, >>> >>> I would like to be able to read a 4d image using SimpleITK. >>> >>> Currently, this is not allowed >>> ( https://github.com/SimpleITK/SimpleITK/blob/master/Code/IO/src/sitkImageFileReader.cxx#L44 ). >>> >>> Can someone give me an idea what it takes to enable this feature? >>> >>> Thanks >>> >>> AF >>> _____________________________________ >>> Powered by www.kitware.com >>> >>> Visit other Kitware open-source projects at >>> http://www.kitware.com/opensource/opensource.html >>> >>> Kitware offers ITK Training Courses, for more information visit: >>> http://www.kitware.com/products/protraining.html >>> >>> Please keep messages on-topic and check the ITK FAQ at: >>> http://www.itk.org/Wiki/ITK_FAQ >>> >>> Follow this link to subscribe/unsubscribe: >>> http://www.itk.org/mailman/listinfo/insight-users >>> >>> 

_____________________________________
Powered by www.kitware.com

Visit other Kitware open-source projects at
http://www.kitware.com/opensource/opensource.html

Kitware offers ITK Training Courses, for more information visit:
http://www.kitware.com/products/protraining.php

Please keep messages on-topic and check the ITK FAQ at:
http://www.itk.org/Wiki/ITK_FAQ

Follow this link to subscribe/unsubscribe:
http://public.kitware.com/mailman/listinfo/insight-users

_______________________________________________
Community mailing list
Community at itk.org
http://public.kitware.com/mailman/listinfo/community

From Robert.Atwood at diamond.ac.uk  Wed Feb  3 05:42:29 2016
From: Robert.Atwood at diamond.ac.uk (Robert.Atwood at diamond.ac.uk)
Date: Wed, 3 Feb 2016 10:42:29 +0000
Subject: [ITK-users] SimpleITK, Python, Local User,
 Anaconda  -- how to install without messing up shared libraries?
In-Reply-To: <D2D68817.8735%yanivz@mail.nih.gov>
References: <D2D68817.8735%yanivz@mail.nih.gov>
Message-ID: <6CCDD8FC6578314C902BBF87D511D9D8EA6743D2@EXCHMBX01.fed.cclrc.ac.uk>

Thank you very much!  The detailed instruction is greatly appreciated (and especially by the other users of the shared installation of Python)

So far  I used the following command:

pip install --user SimpleITK-0.9.1-cp26-none-linux_x86_64.whl

I would make the instruction for such installation:

a) Download the appropriate .whl file from Sourceforge(link) The file name scheme is as follows: SimpleITK-version-PYTHON-????-os-platform.whl, where 'version' is the SimpleITK version, 'PYTHON' (I don't completely understand this version , what are the letters 'cp' for?) is the Python version, ???? is ???? (I don't see what this 'none' is for?), 'os' is the operating system (Linux, win ..) and 'platform' is the hardware platform. (x86-64, i386, etc) 

b) Run the pip command with --user flag and with the target as the downloaded .whl file , e.g. 


pip install --user SimpleITK-version-PYTHON-????-os-platform.whl


This will install the Python library in the user's local file 
~/.local/lib/python.X.x/site-packages

Thanks
Robert

  ____________________
 
  Dr. Robert C. Atwood
  Senior Support Scientist
  Beamline I12-JEEP
  The Joint Engineering and Environmental Processing Beamline
  Diamond Light Source
  The Harwell Science and Innovation Campus
  Didcot,OXON
  OX11 0DE
  +44 (0) 1235 778 670
 


> -----Original Message-----
> From: Yaniv, Ziv Rafael (NIH/NLM/LHC) [C] [mailto:zivrafael.yaniv at nih.gov]
> Sent: 02 February 2016 21:26
> To: Atwood, Robert (DLSLtd,RAL,SCI); insight-users at itk.org
> Subject: Re: [ITK-users] SimpleITK, Python, Local User, Anaconda -- how to
> install without messing up shared libraries?
> 
> Hello Robert,
> 
> We understand our documentation was not sufficiently clear, so we have
> updated our installation instructions page
> (http://www.itk.org/Wiki/SimpleITK/GettingStarted). Hopefully the
> instructions are clearer now.
> 
> Instructions for anaconda:
> 0. See which virtual environments already exist:
>    $ conda info -e
> 1. Assuming sitkpy doesn't exist, create it and install SimpleITK there:
>    $ conda create -n sitkpy -c https://conda.binstar.org/simpleitk
> python=3.4 anaconda SimpleITK
> 2. Activate the environment and start working:
>    $ source activate sitkpy
> 
> 
> If there is no binary distribution for your operating system, step 1 fails, then
> you will have to build from source using our conda-recipe:
> 
>    $ git clone https://github.com/conda/conda-recipes.git
>    $ cd conda-recipes
>    $ conda build simpleitk
> 
> This will take a while as it will download the source and compile everything.
> We assume you have git and a supported compiler installed. For more
> information on conda recipes see the conda documentation
> http://conda.pydata.org/docs/building/recipe.html.
> 
>     Ziv
> 
> 
> 
> 
> 
> 
> 
> On 2/2/16, 6:58 AM, "Robert.Atwood at diamond.ac.uk"
> <Robert.Atwood at diamond.ac.uk> wrote:
> 
> >
> >Hi, ITK people!
> >
> >
> >I don't maintain the Python installation at work so I know little about
> >all the intricacies of python modules and distributions and path
> >searching and so on.
> >What I do know is that if I follow the instructions for including
> >SimpleITK as on the web page for Anacoda installation, everyone gets
> >very angry.
> >That is because it automatically resolves some dependencies in a way
> >that breaks other people's applications, and it does this within the
> >shared Python Anaconda installation on the cluster shared file system.
> >
> >It was suggested (strongly) that I "use the --user option of pip"  .
> >However I cannot get this to do anything by following the pip
> >instruction on the SimpleITK web site, I know nothing of eggs and
> >wheels nor pipit nor "more complicated commands. "
> >
> >Does anyone know the magic incantation to do what I want?  Is there an
> >Anaconda command that does it?
> >
> >
> >Instructions from website with questions annotated:
> >
> >Wheels [ Recommended ]
> >You need a recent version of pip ( >= 6.0, newer is better) to install
> >wheels. Please go to pip homepage for more information about installation.
> >Once you have pip, the package can be installed:
> >$ pip install --allow-external SimpleITK --trusted-host
> >www.simpleitk.org SimpleITK  --timeout 30 SimpleITK
> >Note: We do have window wheels hosted on pypi, but due to size and
> >Linux binary restrictions neither OS X nor Linux are hosted on pipit,
> >so the more complicated command is needed(1).
> >However, you may need to manually download the file(2) from SourceForge.
> >And specify it (3) on the command line if the automatic search does not
> >work.
> >
> >(1) What is the 'more complicated command' ???
> >(2) Which file? An egg? Wheel? Huh?
> >(3) Specify what? How (what is the syntax for specifying 'it' )?
> >
> >
> >Output of session trying to follow the instructions.
> >
> >$ pip install --user --allow-external SimpleITK --trusted-host
> >www.simpleitk.org SimpleITK  --timeout 30 SimpleITK Double requirement
> >given: SimpleITK (already in SimpleITK,
> >name='SimpleITK')
> >You are using pip version 7.1.2, however version 8.0.2 is available.
> >You should consider upgrading via the 'pip install --upgrade pip' command.
> >[kny48981 at i12-ws011 6137]$ pip install --user --allow-external SimpleITK
> >--trusted-host www.simpleitk.org   --timeout 30 SimpleITK
> >Collecting SimpleITK
> >  Could not find a version that satisfies the requirement SimpleITK
> >(from
> >versions: )
> >No matching distribution found for SimpleITK You are using pip version
> >7.1.2, however version 8.0.2 is available.
> >You should consider upgrading via the 'pip install --upgrade pip' command.
> >[kny48981 at i12-ws011 6137]$ pip install --user --allow-external
> >SimpleITK --trusted-host www.simpleitk.org SimpleITK Collecting
> >SimpleITK
> >  Could not find a version that satisfies the requirement SimpleITK
> >(from
> >versions: )
> >No matching distribution found for SimpleITK You are using pip version
> >7.1.2, however version 8.0.2 is available.
> >You should consider upgrading via the 'pip install --upgrade pip' command.
> >[kny48981 at i12-ws011 6137]$ pip install --user --allow-external
> >--trusted-host www.simpleitk.org SimpleITK Collecting www.simpleitk.org
> >  Could not find a version that satisfies the requirement
> >www.simpleitk.org (from versions: ) No matching distribution found for
> >www.simpleitk.org You are using pip version 7.1.2, however version
> >8.0.2 is available.
> >You should consider upgrading via the 'pip install --upgrade pip' command.
> >
> >
> >
> >
> >
> >
> >
> >
> >
> >--
> >This e-mail and any attachments may contain confidential, copyright and
> >or privileged material, and are for the use of the intended addressee
> >only. If you are not the intended addressee or an authorised recipient
> >of the addressee please notify us of receipt by returning the e-mail
> >and do not use, copy, retain, distribute or disclose the information in
> >or attached to the e-mail.
> >Any opinions expressed within this e-mail are those of the individual
> >and not necessarily of Diamond Light Source Ltd.
> >Diamond Light Source Ltd. cannot guarantee that this e-mail or any
> >attachments are free from viruses and we cannot accept liability for
> >any damage which you may sustain as a result of software viruses which
> >may be transmitted in or with the message.
> >Diamond Light Source Limited (company no. 4375679). Registered in
> >England and Wales with its registered office at Diamond House, Harwell
> >Science and Innovation Campus, Didcot, Oxfordshire, OX11 0DE, United
> >Kingdom
> >
> >_____________________________________
> >Powered by www.kitware.com
> >
> >Visit other Kitware open-source projects at
> >http://www.kitware.com/opensource/opensource.html
> >
> >Kitware offers ITK Training Courses, for more information visit:
> >http://www.kitware.com/products/protraining.php
> >
> >Please keep messages on-topic and check the ITK FAQ at:
> >http://www.itk.org/Wiki/ITK_FAQ
> >
> >Follow this link to subscribe/unsubscribe:
> >http://public.kitware.com/mailman/listinfo/insight-users


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From cyril.mory at uclouvain.be  Wed Feb  3 08:14:28 2016
From: cyril.mory at uclouvain.be (Cyril Mory)
Date: Wed, 3 Feb 2016 14:14:28 +0100
Subject: [ITK-users] [ITK]  Reading 4d image using SimpleITK
In-Reply-To: <1077484351.12010208.1454501081539.JavaMail.zimbra@enst.fr>
References: <56B1C6E2.9000304@uclouvain.be>
 <1077484351.12010208.1454501081539.JavaMail.zimbra@enst.fr>
Message-ID: <56B1FD34.1070609@uclouvain.be>

Oh, yes, there is indeed. Thanks a lot, Timothee

On 02/03/2016 01:04 PM, Timothee Evain wrote:
> Hello,
>
> I'm not an user of SimpleITK, but it seems that you can now build the library with an cmake option to support 4D images (since release ~0.9?).
> If you are able to do so, you can then use the ExtractImageFilter to get your 3D/2D data : http://www.itk.org/SimpleITKDoxygen/html/classitk_1_1simple_1_1ExtractImageFilter.html
>
> HTH,
>
> Tim
>
>
> ----- Mail original -----
> De: "Cyril Mory" <cyril.mory at uclouvain.be>
> ?: insight-users at itk.org
> Envoy?: Mercredi 3 F?vrier 2016 10:22:42
> Objet: [ITK] [ITK-users] Reading 4d image using SimpleITK
>
> Hi ITK users,
>
> I have more or less the same goal as Andriy had five years ago: I need to read a 4D image, and extract 2D slices from it to serve as figures in a paper. I was wondering if there was a quick way to break my 4D image down into 3D images using SimpleITK.
>
> Cyril
>
>
>
> On Wed, Dec 14, 2011 at 5:06 PM, Bradley Lowekamp
> < blowekamp at mail.nih.gov > wrote:
>> There is nothing really in the architecture that is specific to 2D and 3D. However, there are numerous compile assertions and other methods to ensure that we are only instantiating filters and objects as we expect to. So there is no quick way of enabling 4D images in simpleITK. > Ok, makes sense.
>> You just indicate that you want to read the image. What do you plan on doing with it after that? > At this point, I just want to do some plotting of time course curves.
> I will break it down into individual time frames, and load
> frame-by-frame, no big deal.
>
> Thank you.
>
>> Brad > >> >> AF >> >> >> >> On Wed, Dec 14, 2011 at 4:39 PM, Bradley Lowekamp >> < blowekamp at mail.nih.gov > wrote: >>> Hello Andriy, >>> >>> SimpleITK only supports 2D and 3D sitk::Images. >>> >>> Could you please share a little more about the image you are trying to read? >>> What type is it and what is the meta data that ITK's ImageIO sees when it >>> reads the header (ie Number of Dimensions, Size of the dimensions, etc...)? >>> I would like to be able to reproduce your problem. >>> >>> When ITK's ImageFileReader is instantiated over a dimension that is less >>> than that the file is reporting it will generally, just read that first >>> hyper-slice. We could do similar behavior is SimpleITK. Always try to read, >>> and print a warning if the dimensions is higher. >>> >>> Another feature that is planned, is the support for reading ROI's. I had not >>> previously thought about the possibility of this feature enabling support >>> for reading higher dimension images into 3D images, but is may be possible. >>> >>> Brad >>> >>> ======================================================== >>> >>> Bradley Lowekamp >>> >>> Medical Science and Computing for >>> >>> Office of High Performance Computing and Communications >>> >>> National Library of Medicine >>> >>> blowekamp at mail.nih.gov >>> >>> >>> On Dec 14, 2011, at 4:29 PM, Andriy Fedorov wrote: >>> >>> Hi, >>> >>> I would like to be able to read a 4d image using SimpleITK. >>> >>> Currently, this is not allowed >>> ( https://github.com/SimpleITK/SimpleITK/blob/master/Code/IO/src/sitkImageFileReader.cxx#L44 ). >>> >>> Can someone give me an idea what it takes to enable this feature? >>> >>> Thanks >>> >>> AF >>> _____________________________________ >>> Powered by www.kitware.com >>> >>> Visit other Kitware open-source projects at >>> http://www.kitware.com/opensource/opensource.html >>> >>> Kitware offers ITK Training Courses, for more information visit: >>> http://www.kitware.com/products/protraining.html >>> >>> Please keep messages on-topic and check the ITK FAQ at: >>> http://www.itk.org/Wiki/ITK_FAQ >>> >>> Follow this link to subscribe/unsubscribe: >>> http://www.itk.org/mailman/listinfo/insight-users >>> >>>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
> _______________________________________________
> Community mailing list
> Community at itk.org
> http://public.kitware.com/mailman/listinfo/community



From eduardo.ecamargo at gmail.com  Wed Feb  3 09:03:52 2016
From: eduardo.ecamargo at gmail.com (Eduardo - Gmail)
Date: Wed, 3 Feb 2016 12:03:52 -0200
Subject: [ITK-users] OFF TOPIC
Message-ID: <CAPQEPqQh5KnaOqf7NPGGcXOFRw=Ke5OxQST9zeo++VeyznGJfg@mail.gmail.com>

Hi , my friends!!

First of all, sorry for this off topic message but I have to ask for help.
Well, I will move from Brazil to Canada (Vancouver) in next March and I was
wondering if there is someone, or some company, that is using VTK. I have a
lot of experience in software development using VTK/ITK and I want to work
with it in Vancouver, if someone could help me I will apreciate. This is my
LinkedIn profile https://ca.linkedin.com/in/camargoeduardo


Atenciosamente,

Eduardo Camargo, M.Sc.

Analista de Sistemas
Instituto Nacional de Ci?ncia e Tecnologia em
Medicina Assistida por Computa??o Cient?fica
INCT-MACC  http://macc.lncc.br
Laborat?rio Nacional de Computa??o Cient?fica
LNCC - http://www.lncc.br
Skype: camargo_rh

"Work hard toward your goals, no matter what obstacles get in your way.
Even if you think you can?t do it, just be disciplined, put your mind to
it, and then do your best." -  Jean Chiar - SETI Institute
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From matt.mccormick at kitware.com  Wed Feb  3 10:04:29 2016
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Wed, 3 Feb 2016 10:04:29 -0500
Subject: [ITK-users] =?utf-8?b?77u/W0FOTl0gSVRLIDQuOS4wIGhhcyBiZWVuIHJl?=
	=?utf-8?q?leased!?=
Message-ID: <CALzTN-Rr1VATnDe5sqsaE02aoJrrOA23xY2k5Z9x8h9EkpDm3Q@mail.gmail.com>

?The Insight Segmentation and Registration Toolkit (ITK), is an
open-source, cross-platform library for multidimensional image
analysis. On behalf of the Insight Toolkit community, we are proud to
announce that ITK 4.9.0 has been released!


Links to the Sourceforge.net tarballs can be found on the download page:

 http://www.itk.org/ITK/resources/software.html


Outline
-------

1. Introduction
2. New Features
3. ITK Changelog
4. ITK Sphinx Examples Changelog
5. ITK Software Guide Changelog


Introduction
-----------------

Developed by an international community, ITK collects best-of-breed algorithms
for registering, segmenting, analyzing, and quantifying n-dimensional imaging
data. The high-quality library facilitates reproducible research, provides a
software resource for teaching image analysis, and is a platform for
commercial product development.

A few selected highlights for the 4.9 release include the following:

* new remote modules, such as the Cuberille module for smooth
generation of meshes from binary segmentation images, and
enhancements, such as advanced edge-preserving smoothing for the
AnisotropicDiffusionLBR module;
* the ability to build Python wrapping, including Python 3, faster
with a more standard installation;
* improved performance of itk::Image::GetPixel and operations on
itk::VariableLengthVector;
* the ability to generate a FlatStructuringElement from an image
* the ability to perform point-set registration with time-varying B-splines
* the ability to specify module dependencies as public / private /
compile / test


Congratulations and well done to the 48 contributors to this release. We would
especially like to recognize new contributors: Mikhail Isakov, Sreekanth
Arikatla, Tobias Wood, Ricardo Ortiz, Junjie Bai, Alexander Leinoff, Eugene
Prilepin, Seun Odutola, Martin Michlmayr, Betsy McPhail, Luc Hermitte,
Abhishek Tiwari, Sumedha Singla, Lucas Gandel, Alexis Girault, Max Smolens,
Shawn Waldon, Hyun Jae Kang, Adam Snyder, Isaiah Norton, Pablo
Hernandez-Cerdan, Zach Williamson, Laurentiu Nicola, and Floris Berendsen.


New in the ITK Software Guide is a chapter on how to create an ITK module.
Since a module can now be configured as a separate CMake project outside of
the ITK build tree, external module development is faster and amenable to
continuous integration testing. With an external module, Python wrapping can
easily be added to algorithms implemented in C++. For example External
modules, see the InsightSoftwareConsortium GitHub organization.

Since the Insight Applications (ITKApps) are no longer actively being
developed, and they are a considerable maintenance burden, ITKApps will no
longer be released. There are a number of other projects that provide this
functionality, like 3D Slicer and ITK-SNAP. Archived versions of some ITKApps
executables will be made available in Docker images in the future.

This release also brings support, including Python wrapping support, to the
latest compilers including Visual Studio 2015 and the soon-to-be released GCC
6.


New Features
------------

Wrapping improvements
^^^^^^^^^^^^^^^^^^^^^

* Python 3 supported
* Visual Studio 2015 supported
* C++14 standard supported
* GCC 6 supported
* Wrapping builds much faster due to CastXML binaries
* LandmarkBasedTransformInitializer now wrapped
* NumPy bridge with VisualStudio
* Wrapping for the MinimalPathExtraction module
* Wrapping is now installed into Python?s site-packages directory in
the ?itk? package
* Wrapping package size is decreased
* Better package portability on Mac OSX

New Remote Modules
^^^^^^^^^^^^^^^^^^

* Cuberille
   * Insight Journal Article: http://hdl.handle.net/10380/3186
* AnisotropicDiffusionLBR
   * Insight Journal Article: http://hdl.handle.net/10380/3505
   * Web browser reproducibility: http://www.kitware.com/blog/home/post/942

Core Improvements
^^^^^^^^^^^^^^^^^

* External Modules can now be developed outside of the ITK source tree
and on GitHub
   * Details: http://www.kitware.com/blog/home/post/997
* New utilities in itk::Math:
   * AlmostEquals
   * NotAlmostEquals
   * ExactlyEquals
   * NotExactlyEquals
* New itk::NumericTraits
   * IsInteger
   * IsSigned
* Improved C++11 support
   * New ITK_DELETE_FUNCTION macro for ?=delete?
   * New ITK_NOEXCEPT macro for the ?noexcept? keyword
* Improved capabilities of itk::ResourceProbe and
itk::ResourceProbesCollectorBase
* Improve numerical stability in VNL eigen system estimation
* itksys_ios:: and itksys_stl:: have been remove (use std::)
* ImageIO and TransformIO classes only get registered once in the object factory
   * The use of dynamic_cast with itk::TransformTemplate pointers
should be avoided. It can fail on Mac OSX and older Linux systems.

Filtering Improvements
^^^^^^^^^^^^^^^^^^^^^^

* Generate a FlatStructuringElement from an image
* WarpImageFilter support VectorImage?s
* ConvertLabelMap supports different LabelMap types
* ImageToPathFilter moved from the ITKReview to the ITKPath module
* itk::MovingHistogramImageFilter moved to the ITKImageFilterBase module

Registration Improvements
^^^^^^^^^^^^^^^^^^^^^^^^^

* Point-set registration with time-varying B-splines

Build Improvements
^^^^^^^^^^^^^^^^^^

* Module dependencies can now be specified as public / private / compile / test
* BUILD_EXAMPLES CMake option is now OFF by default
* Option to export all library symbols on Windows:
   * Details: http://www.kitware.com/blog/home/post/939
* Expat third party library is now name mangled
* Many more modules can be built as shared libraries
* KWStyle is automatically built and configured when tests are built

Performance Improvements
^^^^^^^^^^^^^^^^^^^^^^^^

* New MetaProgrammingLibrary namespace (itk::mpl) holds members for
metaprogramming for compile-time determination of optimal code paths
   * itk::mpl::{TrueType,FalseType}
   * itk::mpl::{If,Not,And,Or,Xor}
   * itk::mpl::EnableIf
   * itk::mpl::IsBaseOf
   * itk::mpl::IsConvertible
   * itk::mpl::IsNumber
   * itk::mpl::IsSame
   * itk::mpl::PromoteType
* Image::GetPixel performance improvements
* Many itk::VariableLengthVector performance improvements
* AdaptiveHistogramEqualization uses a moving histogram
* WarpImageFilter performance improvements

Documentation Improvements
^^^^^^^^^^^^^^^^^^^^^^^^^^

* Updates to the Software Guide, Doxygen, Wiki and Sphinx Examples
* ITK Software Guide improvements
   * How to use Python wrapping
   * How to create an ITK module
   * Improvements to segmentation examples
   * Expanded Canny edge detection example
   * Expanded tree container example
* ITK Sphinx Examples improvements
   * Python wrapping in the ITK superbuild
   * Bootstrap-based HTML rendering
   * Python versions of examples
   * New examples

Third Party Library Updates
^^^^^^^^^^^^^^^^^^^^^^^^^^^

* FFTW updated to latest upstream
* Build with recent OpenCV 2 and 3
* Build with the latest VTK
* PNG update to the latest upstream
* KWSys updated to the latest upstream
* MINC updated to the latest upstream
* SWIG updated to the latest upstream
* Third party PNG and MINC are now Git subtrees

Style improvements -- ITK gets more stylish with every release!
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
* Private copy constructors and operator= use ITK_DELETE_FUNCTION

* Improved code coverage -- we are at 84.9%!

*Lots* of important bug fixes
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  * Histogram-related outputs may change due to a fix to Histogram
interval computation (Change-Id:
I2063912edee79422d88125ffd5f7513c31a9e98c)

* And much more! See details in the log below.



Changes from v4.9rc03..v4.9.0
-----------------------------

Bill Hoffman (3):
      COMP: fix 64 bit build warnings with windows auto-export on.
      COMP: work around for VS 2015 optimizer bug causing test failures.
      COMP: work around for VS 2015 optimizer bug causing test failures.


Bradley Lowekamp (1):
      BUG: Fix precision with accumulation and scaling in AdaptiveHistogram


Davis Vigneault (1):
      COMP: Include itkMacro.h in itkTestingMacros.h


Dzenan Zukic (1):
      COMP: fix itkStaticAssert warnings with clang++


Hans Johnson (6):
      COMP: BSD command lines do not have --version
      COMP: Respect CMAKE_CXX_STANDARD during config
      COMP: Clang Override warnings removed
      BUG: Download URL was wrong for macosx
      COMP: The ComputeUpdate function is needed
      COMP: Incomplete solution for operators corrected


Hyun Jae Kang (12):
      COMP: Fixed the compiler error of ITKCommon2TestDriver on OSX 10.6
      BUG: Fixed the runtime crash of vnl_test_complex on OSX 10.6
      BUG: Fixed the runtime crash of itkTimeProbeTest2
      BUG: Fixed the runtime crash of VideoSourceTest on OSX 10.6
      BUG: Fixed the runtime crash of ITKReviewTestDriver on OSX 10.6
      BUG: Fixed the runtime crash of ITKFastMarchingTestDriver's
tests on OSX 10.6
      COMP: Fixed the data conversion warning messages of itkResourceProbe
      BUG: Fixed the runtime crash of ITKStatisticsTestDriver tests on OSX 10.6
      BUG: Fixed the runtime crash of itkBinaryShapeOpeningImageFilterTest1
      BUG: Fixed the runtime crash of test_pow_log on OSX 10.6
      BUG: Fixed the runtime crash of vnl_test_numeric_traits
      BUG: Exclude a test code of ITKLabelMapTestDriver on OSX 10.6


Isaiah Norton (1):
      COMP: fix build with -std=c++11 when ITK/VXL initially configured without


Jon Haitz Legarreta (1):
      BUG: Fix OpenCVBridge bug for two-byte images.


Lucas Gandel (2):
      BUG: Change CMAKE_SOURCE_DIR to CMAKE_CURRENT_SOURCE_DIR
      BUG: Fix multiple external modules wrapping


Martin Michlmayr (1):
      COMP: fixed error "Dunno about this gcc" for gcc 6


Matthew McCormick (22):
      BUG: Do not perform dynamic_cast in CompositeIOTransformIOHelper.
      COMP: Do not set property on itkhdf5 with ITK_USE_SYSTEM_HDF5.
      DOC: Update the location of the GNUPlot Software Guide scripts.
      DOC: Update the Software Guide repo location in Examples/README.txt.
      COMP: Add export specification for itk::ResourceProbe.
      COMP: Require NO_MODULE with DCMTK find_package.
      COMP: Update CastXML revision for C++14 VS 2015.
      BUG: Fix PythonTransformCoverage test for Python 3.4.
      BUG: Fix PythonExtras test with Python 3.
      BUG: Fix PythonTypemaps tests with Python 3.
      ENH: Do not force shared libraries when wrapping.
      DOC: Update WikiExamples to 2016-10-20
      BUG: BUILD_TESTING should be not advanced.
      COMP: Use enum in itkStaticConstMacro for old GCC.
      BUG: Correct FlatStructuringElement wrapping location.
      BUG: Correct itkStaticConstMacro GCC version comparison operator.
      BUG: Improve GCC detection in itkStaticAssert.h preprocessor macro.
      BUG: Fix OpenCV version check.
      DOC: Update the SphinxExamples Remote Module.
      COMP: Wrap FlatStructuringElement before other classes.
      COMP: Workaround inconsistent OpenCV pre-processor variables.
      COMP: Update CastXML to support wrapping with GCC 6.


Michka Popoff (3):
      ENH: Allow Python 3 wrapping for Glue and Review Modules with VTK 7
      COMP: Re-enable review module for python 3 and older VTK's
      ENH: Use importlib for python 3.4 instead of imp


Nick Tustison (1):
      ENH:  Accommodate epsilon error on left side.


Sean McBride (1):
      DOC: Update some woefully out-of-date GDCM comments, and typos


Seun Odutola (1):
      BUG: Improved itkAnalyzeImageIO to handle case insensitive extensions


Sumedha Singla (3):
      ENH: Fixed the numeric traits for datatypes
      DOC: Added a comment to support the changes in numeric traits datatypes.
      BUG: Invalid memory access of itk::NotAlmostEquals Bug#ITK-3403



Changes from v4.9rc02..v4.9rc03
------------------------------------------------


Alexis Girault (1):
      BUG: Implement SetAutoMinimumMaximum in itkScalarImageToHistogramGenerator


Bill Lorensen (1):
      BUG: nifti_read_subregion_image was leaking file pointers


Brad King (7):
      ENH: Teach ITK module macros to support independent header-only modules
      ENH: Add script to import KWIML library source code
      ENH: Add `ITKKWIML` module to provide external KWIML library
      ENH: Port TIFF integer types from KWSys to KWIML
      ENH: Port LSM integer types from KWSys to KWIML
      ENH: Port itkIntTypes.h from KWSys to KWIML
      ENH: Drop KWSys FundamentalType component


Bradley Lowekamp (1):
      ENH: Add option to choose scheme for git download


Davis Vigneault (1):
      STYLE: Use cstdlib return macros in ITK examples


D?enan Zuki? (3):
      BUG: do not pass 0,0,0 to Versor.Set()
      STYLE: Removing the unused NeighborhoodRadius property
      ENH: Write out transform in DeformableRegistration15


Gert Wollny (1):
      BUG: Remove double-conversion from public interface, use system.


Hyun Jae Kang (8):
      ENH: Create a test for the SpawnThread function ( ITK-3317)
      STYLE: Remove an unnecessary file (-w) from source code
      BUG: Fixed the failed case of itkStdStreamStateSaveTest on OS X 10.8
      BUG: Fixed the failed test case of itkThreadPoolTest on OS X 10.8
      BUG: Fixed a failed test of ITKDistanceMapTestDriver
      BUG: Fixed the failed test VideoSourceTest
      PERF: Improve the performance of a test of
ITKRegistrationMethodsv4TestDriver
      COMP: Fixed the compiler error of
itkDisplacementFieldToBSplineImageFilterTest


Jean-Christophe Fillion-Robin (25):
      BUG: Build ITKIOTransformHDF5 as shared library. See #3393
      BUG: Build ITKIOTransformMINC as shared library. See #3393
      BUG: Build ITKIOTransformMatlab as shared library. See #3393
      BUG: Build ITKIOTransformInsightLegacy as shared library. See #3393
      STYLE: TransformIOFactory: Remove obsolete declaration. See #3393
      COMP: TransformIOFactory: Add missing ctor/dtor from hxx file. See #3393
      COMP: TransformFileWriter: Remove method "OpenStream()" without definition
      COMP: TransformFileReaderTemplate: Remove undefined method
"CreateTransform()"
      ENH: Update ITKIOPhilipsREC to allow static initialization. See #3393
      ENH: Update ITKIOTransformMINC to allow static initialization. See #3393
      COMP: MINC: Fix VS2008 "unknown round" build error. See #3393
      COMP: MINC: Fix VS2008 "unknown arpa/inet.h" build error. See #3393
      COMP: Configure ENABLE_SHARED into <ModuleName>.cmake file. See #3393
      COMP: Fix configuration of IOFactory header. See #3393
      STYLE: UseITK: Removed redundant code setting ImageIO factory
name. See #3393
      STYLE: UseITK: Re-factor introducing _configure_IOFactoryRegisterManager
      STYLE: UseITK: Set TransformIO factory and module name using convention.
      BUG: Ensure Image IO factories are registered once. See #3393
      BUG: Ensure Transform IO factories are registered once.
      COMP: ITKIOXML: Fix VS11 "already defined std::string" link
error. See #3393
      BUG: TransformIO: Implement explicit template instantiation
using "extern".
      COMP: TransformIO: Fix VS build errors removing extra EXPORT
      COMP: TransformIO: Handle compiler not supporting "pragma diagnostic".
      COMP: TransformIO: TransformFile(Reader|Writer) still need to be exported.
      COMP: TransformIO: Fix explicit instantiation approach


Johan Andruejol (1):
      ENH: Add ITK_RUNTIME_LIBRARY_DIRS for external projects


KWIML Upstream (1):
      KWIML 2015-12-09 (43f9f8d0)


Lucas Gandel (1):
      BUG: PhysicsBasedNonRigidRegistrationMethod test failure on Debian 32bit


Matthew McCormick (16):
      COMP: Fix PointDimension reference in AzimuthElevationToCartesian test.
      STYLE: Improve scoping in AzimuthElevationToCartesian test.
      STYLE: Explicitly mark the ProcessObject methods virtual in SignedMaurer.
      BUG: Do not try to install targets that do not exist when
building externally.
      BUG: ITKIOMeta needs a public dependency on ITKMetaIO.
      COMP: Update LesionSizingToolkit for external build and style
test failures.
      BUG: Add CMake OpenCV export code to ITKVideoBridgeOpenCV.
      COMP: Improve compatibility with OpenCV 3.
      DOC: Fix class references in StatisticsLabelMapFilter.
      STYLE: Improved readability of itkStatisticsUniqueLabelMapFilterTest1.
      DOC: Correct ReverseOrdering description in ShapeUniqueLabelMapFilter.
      STYLE: Add own copy of GenerateExportHeader
      COMP: Create _TEMPLATE_EXPORT macros.
      COMP: TransformIOBaseTemplate must be explicitly instantiated.
      BUG: Do not use dynamic_cast for DisplacementFieldType in HDF5 test.
      COMP: Do not use string(MAKE_C_IDENTIFIER with CMake < 2.8.12


Max Smolens (1):
      BUG: VoronoiSegmentationRGBImageFilter: add pixel dimension check


Mikhail Isakov (1):
      DOC: correction in DiffusionTensor3D Reconstruction


Ricardo Ortiz (1):
      BUG: Set itkBinaryImageTo*LabelMapFilter foreground/background values


Seun Odutola (1):
      BUG: absolute value of tolerance taken to cater for negative spacing


Shawn Waldon (1):
      COMP: OSX set deployment target when building fftw


Simon Alexander (4):
      STYLE: Change to make git bash on windows happy with the function name
      COMP: fixes for visual studio 2015update1 x86 in release mode
      COMP: fixes for visual studio 2015update1 x86 in release mode
      COMP: fixes for visual studio 2015update1 x86 in release mode


Sreekanth Arikatla (2):
      BUG: Resolved const correctness in itkMatrix.h
      ENH: Fixes the symmetry of AzimuthElevationToCartesianTransform
and adds tests

Changes from v4.9rc01..v4.9rc02
------------------------------------------------


Bill Lorensen (1):
      BUG: Valgrind detected an invalid read


Davis Vigneault (1):
      STYLE: Address some warnings when running cppcheck


Hyun Jae Kang (2):
      COMP: Fixed a warning message of data-conversion on VS14
      COMP: Update KWStyle to remove format-string warning message


Matthew McCormick (3):
      DOC: Remove invalid wrapping example.
      BUG: Wrap AdaptiveEqualizationHistogram.
      COMP: Ignore Doxygen endcond warning in itkIsConvertible.h.


Seun Odutola (1):
      COMP: Corrected minc2.h path installation from libsrc2/minc2.h to minc2.h


Ziv Yaniv (2):
      BUG: Affine transformation was estimated without sufficient
number of points.
      BUG: fixed BSpline initializer crash when reference image not set.



Changes from v4.8.0..v4.9rc01
--------------------------------------------


Abhishek Tiwari (1):
     BUG: "tmpImageIndex" not initialized to 0.

Adam Snyder (1):
     PERF: Reworked MMI Threading using a per-thread buffer

Alexander Leinoff (6):
     ENH: Adds IsInteger and IsSigned to NumericTraits.
     COMP: Doxygen itkMath.h 'OneValue()' could not be resolved.
     ENH: Adds ExactlyEquals and NotExactlyEquals functions to itkMath.h
     COMP: Removes floating-point equality checks
     ENH: COMP: Adds support for complex values to Math::AlmostEquals
     ENH: Updates fftw dependency

Arnaud Gelas (5):
     COMP: fix warning (unused local typedef)
     COMP: simplify ITKVideoBridgeOpenCV dependency
     DOC: add doxgen documentation for BinaryImageToLevelSetImageAdaptor
     ENH: add tests to exercise itk::ThreadedIteratorRangePartitioner
     COMP: fix compilation error with OpenCV2 and OpenCV3

Betsy McPhail (1):
     BUG: Improve buffer alignment in OctreeNode .

Bill Hoffman (2):
     ENH: Use new CMake Windows export symbol dll feature.
     COMP: Put vnl_export.h in the list of sources so it gets installed.

Bill Lorensen (4):
     COMP: VTkGlue linker errors
     BUG: Inappropriate use of AlmostEquals
     ENH: Bump tag for wiki examples
     ENH: Better layout strategy

Brad King (3):
     ENH: Remove use of include <itksys/ios/*> and itksys_ios::*
     ENH: Remove use of include <itksys/stl/*> and itksys_stl::*
     ENH: Update CMake Policy settings in Testing/TestExternal project

Bradley Lowekamp (31):
     BUG: Avoid null deference in PrintSelf with default construction
     ENH: Enable base classes for templates of landmark initializer
     STYLE: Use "Swap" for ITK member name
     BUG: Demonstrate Eigen analysis failure
     BUG: Fix computation of Eigen analysis
     ENH: Update DiscreteHessianGaussian Test baseline
     ENH: Correctly demonstrate float point Eigen failure
     ENH: compile vnl_math_hypot, and use at least double
     ENH: Adding initial update script from used libpng version.
     ENH: removing non-subtree files for itkpng
     ENH: Ported ITK changes for building to subtree merged code
     ENH: Update libpng update script for v1.6.9
     BUG: Use ParameterValueType for computation of landmark affine
     ENH: Wrap LandmarkBasedTransformInitializer
     BUG: Avoid potential exception in itk::Object::UnRegister
     ENH: Update itkpng zlib, configuration, and rename
     ENH: Update itkpng name mangling
     BUG: Use const pointer in Set method for constant ReferenceImage ivar
     BUG: Increase tolerance for PhysicsBasedNonRigidRegistrationMethod
     BUG: Demonstrate side effect on registration due to BSplineScatter change
     ENH: Move MovingHistogramImageFilter base classes to ImageFilterBase
     BUG: Avoid potential exception in itk::Object::UnRegister
     BUG: Avoid null deference in PrintSelf with default construction
     BUG: Use const pointer in Set method for constant ReferenceImage ivar
     ENH: Optimize AdaptiveHistogramEqualization with MovingHistogram base
     COMP: address sign unsigned comparison warning
     COMP: Address signed unsigned comparison warning
     COMP: Address unused member variable and methods in anonymous ns
     BUG: Fix segfault when with empty IsolatedWatershed Threshold range
     BUG: Adjust intensity tolerance for PhysicsBasedNonRigid test
     BUG: Reduce number of targets with MSVC

Davis Vigneault (7):
     DOC: Minor improvements to segmentation examples.
     DOC: Expanded Canny Edge Detection Example
     DOC: Expanded TreeContainer Example
     COMP: Warnings in itkVTKImageExport when compiling with c++11
     COMP: Warnings in FFTW Classes when compiling with c++11
     COMP: Update Git Tag for Subdivision Module
     COMP: Warnings in FFTW Classes when compiling with c++11

D?enan Zuki? (1):
     STYLE: better formatting of the "usage" message

Eugene Prilepin (1):
     BUG: Fix a template name formation in python wrappings

Floris Berendsen (1):
     STYLE: Improve naming conventions in comments.

Hans Johnson (29):
     STYLE: Instrument for FixedParameters typedef
     BUG: Demonstrate DisplacementTransformFailure
     BUG: FixedParameters should be double precision
     STYLE: Minor code style issues for MGHIO
     COMP: Update to version for WikiExamples
     ENH: Update Sphinx for ITK 4.8.0
     ENH: Update MGHIO to be shared lib
     ENH: Provide consistent floating point comparisons
     BUG: Fix MGHIO to fix write failures
     PERF: Remove floating point as sentinal value
     COMP: Const correctness needs to be maintained
     BUG: Preserve backwards compatibility
     DOC: Provide consistent naming in comments
     ENH: Conversion between transform type tolerance
     STYLE: Prefer initialization to assignment
     ENH: Missing ITK_OVERRIDE
     COMP: Need to propagate ITKGDCM
     COMP: Need to propagate ITKGDCM
     COMP: Add missing ITK_OVERRIDE
     STYLE: Minor code style issues for MGHIO
     COMP: Update to version for WikiExamples
     ENH: Update Sphinx for ITK 4.8.0
     ENH: Update MGHIO to be shared lib
     BUG: Fix MGHIO to fix write failures
     ENH: C++11 allows for rigorous =delete
     COMP: Remove unnecessary failing assert test
     ENH: Ignore internal files for the Clion editor
     COMP: Fix VNL compilation for wider C++11 support
     BUG: In configuration test need to mirror code

Hyun Jae Kang (27):
     BUG: Remove std::cout calls from class
     BUG: Avoid an unexpected output of static_cast
     BUG: Update python example codes for ImageRegistration
     BUG: Retrieve the missed wrap file
     BUG: itkVTKImageIO class does not handle blank lines in VTK file header.
     BUG: Fix HDF5 CMake configuration with VS2015
     BUG: Fix a compilation issue on ITK4 with FFTW and shared libraries
     BUG: Fixed older XCode linking error
     ENH: Use CastXML binaries when building with x86_64 Mac OS X
     BUG: Remove std::cout calls from class
     BUG: itkVTKImageIO class does not handle blank lines in VTK file header.
     BUG: Fixed older XCode linking error
     ENH: Add automatic KWStyle build and configuration setup
     COMP: KWStyle shadow, format-nonliteral and autological-compare warning.
     COMP: Fixed the warning messages from itkGPU Module
     COMP: Fixed a warning message of unused-private-field
     COMP: Apply latest version of KWStyle
     COMP: Update KWStyle to fix its additional warning messages
     COMP: Update KWStyle to fix its additional warning messages
     COMP: Fix data-conversion warning messages on Windows
     ENH: Update itkResourceProbe to calculate statistical data
     COMP: Fix data-conversion warning messages on VS14
     COMP: Fixed 'std::sqrt' : ambiguous call to overloaded function
     ENH: Update the Report() function of itkResourceProbesCollectorBase
     COMP: Fix data-conversion warning message on itkResourceProbe
     COMP: Fix additional warning messages of KWStyle
     COMP: Fix data-conversion warning messages

Jon Haitz Legarreta (6):
     ENH: Add test for itkStatisticsUniqueLabelMapFilter
     BUG: Fix compilation issues for StatisticsUniqueLabelMapFilterTest
     BUG: Fix comparison issues for itkStatisticsUniqueLabelMapFilter
     BUG: Test for StatisticsUniqueLabelMapFilter stability
     ENH: Add test for itkParametricStpaceToImageSpaceFilter
     ENH: Improve code coverage for itkParametricSpaceToImageSpaceMeshFilter

Julien Michel (1):
     ENH: Support of VectorImage as template parameters for WarpImageFilter

Junjie Bai (2):
     BUG: ConvertLabelMap with different LabelMapTypes
     BUG: LabelObject CopyAttribute support different LabelObject type

KWSys Robot (4):
     KWSys 2015-07-10 (c9336bcf)
     KWSys 2015-07-30 (f63febb7)
     KWSys 2015-08-24 (cdaf522c)
     KWSys 2015-08-28 (dc3fdd7f)

LIBPNG Upstream (2):
     PNG 2009-04-06 (e68f5a36)
     PNG 2014-02-05 (3e753eb8)

Laurentiu Nicola (2):
     PERF: Avoid temporary smartptr in ProcessObject::GetInput
     PERF: Optimize WarpImageFilter by avoiding refcount bouncing

Luc Hermitte (8):
     PERF: itk::Image::GetPixel() performance improvment.
     PERF: Performance enhancements on VariableLengthVectors 1/...
     ENH: Dependencies on itkVariableLengthVector.h reduced
     BUG: Error in VariableLengthVector Unit Tests
     PERF: Performance enhancements on VLV 2/...
     PERF: Performances enhancements on VLV 3/...
     COMP: Fix signed/unsigned warnings
     BUG: std::copy/fill on empty VLV

Lucas Gandel (4):
     ENH: Move ImageToPathFilter from ITKReview to ITKPath module.
     BUG: Fixing ImageToPathFilter wrapping call from Review Module
     STYLE: Fix KWStyle dashboard errors
     BUG: Fix external module BUILD_SHARED_LIBS status

Mathieu Malaterre (1):
     BUG: Name mangle the included expat third party library.

Matthew McCormick (94):
     ENH: Change itkSystemInformationTest to itkCMakeConfigurationTest.
     ENH: Add AnisotropicDiffusionLBR Remote Module.
     ENH: Bump ITK version to 4.9.0.
     BUG: Remove std::cout calls from classes.
     COMP: Remove unused argument in ConditionVariableNoThreads.
     BUG: Implement UpdateLargestPossibleRegion for ImageToVTKImageFilter.
     COMP: Add link interface specification for wrapping target_link_libraries.
     STYLE: Fix indentation in itkMINCTransformIOFactory.cxx.
     COMP: Fix MINCTransformIO factory registration.
     COMP: Add -D_LARGEFILE64_SOURCE for HDF5 with Emscripten-1.
     COMP: Remove unknown doxygen command in AnisotropicDiffusionLBR.
     BUG: Initialize mutex for 32 bit AtomicInt.
     ENH: Use CastXML binaries when building with x86_64 Linux.
     STYLE: Rename gccxml -> castxml in {idx,igenerator}.py.
     COMP: Disable the gold linker for static builds on Ubuntu 14.04.
     ENH: Use Windows binaries for CastXML.
     ENH: Add better scoping in igenerator.py.
     BUG: Fix CMAKE_BUILD_TYPE initialization with Ninja + MSVC.
     BUG: LevelSetsv4 used signed char instead of char.
     ENH: Add better scoping to idx.py.
     COMP: Define newSize and oldSize in VariableLengthVector.
     STYLE: Use prefix increment operator in ImageBase.
     DOC: Correct spelling of Continuous.
     ENH: Add more progress information to IterativeClosestPoint2.
     BUG: Build BridgeNumPy with Visual Studio.
     ENH: Add ITKModuleExternal.cmake
     COMP: Wrap Image< bool, D > for FlatStructuringElement.
     BUG: Use CastXML binary built in Release.
     BUG: ContinuousIndex should not be templated over TCoordRep.
     COMP: Set CMP0054 to new.
     COMP: Address line length too long for Software Guide.
     COMP: Fix CannyEdgeDetectionImageFilter.cxx types.
     BUG: Support Python 3 wrapping module initialization.
     BUG: Update itkTemplate.py for Python 3.
     BUG: Update itkExtras.py for Python 3.
     BUG: Prevent Python callback addition recursion.
     BUG: Fix test scripts for Python 3.
     BUG: Replace __GCCXML__ with CABLE_CONFIGURATION.
     ENH: Allow projects to build against an external module.
     ENH: Replace CABLE_CONFIGURATION with ITK_WRAPPING_PARSER.
     ENH: Rename _cable_ to _wrappers_.
     BUG: Replace __GCCXML__ with CABLE_CONFIGURATION.
     BUG: Define ITK_WRAPPING_PARSER when wrapping.
     COMP: Do not use C++11 alignas in itkAlignedTypedef.
     ENH: Bump CMakeLists.txt version to 4.8.1.
     BUG: Pass the CMAKE_CXX_FLAGS to castxml.
     ENH: Bump CastXML version to 2015-30-29.
     ENH: Bump LLVM / Clang to 3.7.0.
     COMP: Avoid itklibminc linking with ITK_USE_SYSTEM_HDF5.
     COMP: Add missing ITKIOImageBase dependency for ITKTransformMINC.
     COMP: Use itkSimpleNewMacro in ThreadedIteratorRangePartitionerTest.
     ENH: Add wrapping support for building modules externally.
     BUG: Fix KWStyle test paths when building a module externally.
     ENH: Add Cuberille Remote module.
     COMP: Remove carriage returns from Cuberille remote.
     COMP: Remove unused argument in ConditionVariableNoThreads.
     DOC: Correct spelling of Continuous.
     ENH: Bump the MinimalPathExtraction Remote to 2015-10-20.
     COMP: Fix KernelTransform SetFixedParameters argument type.
     STYLE: Use prefix increment operator in ImageBase.
     COMP: Use ITK's pygccxml by correctly setting up the sys.path
     Revert "COMP: Put vnl_export.h in the list of sources so it gets
installed."
     BUG: Revert "BUG: ConvertLabelMap with different LabelMapTypes"
     ENH: Marking wrapping CMake configuration variables as advanced.
     STYLE: Rename CASTXML to CASTXML_EXECUTABLE.
     COMP: Non-virtual copy attribute members in LabelMap cannot have override.
     COMP: Add wrapping for AdaptiveHistogramEqualizationImageFilter.
     COMP: Add itkMacro.h to itkPromoteType.h for ITK_EXCEPT.
     ENH: Remove CMake version check in ITKModuleHeaderTest.cmake
     BUG: Improve KWStyle ExternalProject utilization.
     ENH: Remove old KWStyle build script.
     COMP: Address VariableLengthVector Doxygen rhs @param not found.
     ENH: Rename WRAPPING_LIBRARY_GROUPS to WRAPPING_SUBMODULE_ORDER.
     ENH: Install Python bindings into site-packages.
     ENH: Improve readability of Python site-packages path detection.
     COMP: DiscreteGaussianDerivativeImageFilter unsigned expression warning.
     BUG: ITKCommon publically depends on ITKDoubleConversion.
     COMP: Improve scoping in CovariantVectorGeometryTest.
     ENH: Improves names and export of module dependencies.
     STYLE: Improve namespace bracket style in itkIsConvertible.
     COMP: Set CMP0054 to new.
     BUG: Remove unused wrapping files.
     BUG: Do install install wrapping development files.
     ENH: Add WRAP_ITK_INSTALL_COMPONENT_IDENTIFIER.
     BUG: Remove duplicate inclusion of wrapping submodules.
     COMP: Do not use C++ style comments for Doxygen cond.
     BUG: Fix detection of the gold linker.
     BUG: Update Python package installation locations.
     ENH: Bump CMakeLists.txt version to 4.8.2.
     ENH: Change BUILD_EXAMPLES default to OFF.
     BUG: Use 'from itk import ITKCommon' in module2module test.
     COMP: Link to VTK Python when built with Kits support.
     BUG: Install itk_minc2.h header.
     COMP: ITKIOMINC has a public dependency on ITKIOImageBase.

Michka Popoff (9):
     ENH: Update to swig 3.0.7
     ENH: Do not link against specific Python library on OS X
     COMP: Fix wrapping warnings when building with ITK_WRAP_IMAGE_DIMS=2
     COMP: Add missing wrapping for TransformBase
     COMP: Use ITK's pygccxml by correctly setting up the sys.path
     COMP: Disable incompatible modules when using Python 3 wrapping
     COMP: Move MovingHistogramImageFilterBase wrapping to
ImageFilterBase module
     COMP: Disable incompatible modules when using Python 3 wrapping
     ENH: Allow operations on Indexes and Offsets in Python

Mikhail Isakov (1):
     BUG: DiffusionTensor3DReconstruction segfault if no baseline image

Nick Tustison (5):
     BUG:  Set a default b-spline epsilon.
     ENH: Adding testing for closed loop.
     BUG:  Updating B-spline classes with the same epsilon strategy.
     PERF:  Switch vnl_vectors for fixed arrays.
     ENH:  Point-set registration with time-varying B-spline.

Olivier Commowick (3):
     BUG: Correct discrepancy in tridiagonal reduction wrt VNL eigen system
     BUG: Correct under/overflows in vnl_math_hypot (taken from pythag from V3P)
     BUG: Switch eigenvalues computation to double

Pablo Hernandez-Cerdan (2):
     ENH: Help class for itkFlatStructuringElement with constructor from images.
     COMP: Fix test errors and warnings in FlatStructuringElement.

Seun Odutola (1):
     COMP: Fixed name clash with Apple header (check Macro), renamed
check to Check

Shawn Waldon (1):
     COMP: Set target OS X version in environment for tools using compiler

Simon Alexander (1):
     BUG: incorrect closest point computation

Tobias Wood (2):
     BUG: LBFGSB was printing messages even with debug switched off.
     BUG: Removed an unguarded print statement.

Vladimir S. FONOV (9):
     BUG: Missing ITKIOMINC_EXPORT on __Private()
     COMP: Changing the order of HDF5 library components
     COMP: Splitting up IOMINC module into two parts: MINC and Transform
     STYLE: updated comments to properly reference LIBMINC
     ENH: Add script to merge upstream MINC as a subtree
     MINC 2015-07-23 (c033d431)
     COMP: Update MINC CMake code
     MINC 2015-08-18 (6d7e3ba8)
     MINC 2015-09-13 (95cd5374)

Xiaoxiao Liu (1):
     DOC: update email address for xiaoxiao.

Zach Williamson (10):
     BUG: Use correct libraries for ImageFusion tests
     ENH: Consolidate Library Dependencies
     COMP: Add a missing link to Review module
     COMP: Use correct linking macro in DCMTK
     BUG: Use correct libraries for TestKernel tests
     COMP: Fix inconsistant naming of GPUPDEDeformableRegistration
     ENH: Use new linking system macros
     PERF: Avoid searching private dependencies for include directories
     COMP: Recover missing dependencies
     ENH: use new linking macros in Filtering module


ITK Sphinx Examples Changelog
---------------------------------------------

Brad King (1):
      ENH: Remove use of itksys_ios::*


D?enan Zuki? (1):
      ENH: Avoid warning window when the directory does not contain
any DICOM series


Hans Johnson (1):
      BUG: FixedParameters different from Parameters


Matt McCormick (38):
      ENH: Bump ITK ExternalProject to v4.8.0.
      COMP: Do not try to add html files twice to the tarballs.
      BUG: Turn off ITK modules when superbuild options are disabled.
      DOC: Consistently refer to source directory in length warning.
      BUG: Use os.path.sep for CreateNewExample.py on both Unix and Windows.
      ENH: Use a StringIO for the headers content in CreateNewExample.
      ENH: Make CreateNewExample compatible with Python 3.
      ENH: Enable BridgeNumPy in the Superbuild when NumPy available.
      ENH: Silence gitstats execution.
      ENH: Add sphinx-bootstrap-theme submodule.
      ENH: Update ITK ExternalProject to 4.9rc02.
      COMP: Support OpenCV 3.0.0.
      BUG: Pass the Sphinx output components in the superbuild.
      BUG: Work around epub output filename irregularity.
      ENH: Use side-by-side images in Binary Mathematical Morphology.
      ENH: Use all caps in Binary Mathematical Morphology examples.
      ENH: Move the Download button location.
      BUG: Rename CreateAnApplyCustomColormap -> CreateACustomColorMap.
      ENH: Use note directive in CreateACustomColorMap.
      ENH: Move ITkExampleMacros.cmake into the CMake/ directory.
      STYLE: Use more standard spacing in ITKExamplesMacros.cmake.
      DOC: Improve TryCatchException result rendering and synopsis.
      DOC: Update the Download page image for the bootstrap layout.
      ENH: Use presence of Code.py to create Python baseline comparison tests.
      DOC: Fix ComputeTimeBetweenPoints output rendering.
      ENH: Add Python version of ComputeTimeBetweenPoints.
      ENH: Demonstrate Report() in ComputeTimeBetweenPoints.
      ENH: Add Python superbuild.
      COMP: Fix type of Sphinx output variables.
      BUG: Ensure that the JavaScript files get copied to HTML output.
      COMP: Fix ConceptCheckingIsFloatingPoint index entry.
      BUG: Avoid system installation without superbuild Python.
      COMP: Find ITKExamplesMacros.cmake when build as a Remote Module.
      COMP: Support OpenCV 3 in ConvertAnITKGrayScaleImageToCVMat.
      COMP: Support double typed FixedParameters in ITK 4.9.0
      BUG: Do not run Python comparison tests without ITK_WRAP_PYTHON.
      BUG: Correct CreateACustomColorMapTestPython test name.
      ENH: Bump ITK ExternalProject to 4.9.0.


Michka Popoff (4):
      ENH: Add ImageRegistration1 example
      COMP: Fix images in 2D Translation Registration
      ENH: Add AddOffsetToIndex Python example
      ENH: Add missing licence headers and hide headers in doc



ITK Software Guide Changelog
---------------------------------------------

Matt McCormick (9):
      COMP: Address missing bracket and backslash escapes.
      BUG: Fix backslash specification in Windows PATH.
      DOC: Recommend the Release build configuration when wrapping.
      DOC: Document .GetTypes and Python type conversion.
      DOC: Add chapter on how to create a module.
      COMP: Do not set PYTHONCXXPARSER with find_program.
      ENH: Update ITK ExternalProject to v4.9rc01.
      DOC: Corrections to formatting of wrapping content.
      ENH: Bump ITK ExternalProject version to v4.9.0.

From bakkari.abdelkhalek at hotmail.fr  Wed Feb  3 13:31:43 2016
From: bakkari.abdelkhalek at hotmail.fr (Abdelkhalek Bakkari)
Date: Wed, 3 Feb 2016 19:31:43 +0100
Subject: [ITK-users] Save VTK 3D result image as .mha
Message-ID: <DUB129-W7BCE87814E5E9C8A3BD5483D00@phx.gbl>

Dear Insight Users,
I would like to create a new button which saves the results providing by VTK (3D images) as .mha file.Any suggestion about this matter ?
Thank you in advance.

Abdelkhalek BakkariPh.D candidate in Computer ScienceInstitute of Applied Computer ScienceLodz University of Technology, Poland
 		 	   		  
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From dzenanz at gmail.com  Wed Feb  3 13:39:46 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Wed, 3 Feb 2016 13:39:46 -0500
Subject: [ITK-users] Save VTK 3D result image as .mha
In-Reply-To: <DUB129-W7BCE87814E5E9C8A3BD5483D00@phx.gbl>
References: <DUB129-W7BCE87814E5E9C8A3BD5483D00@phx.gbl>
Message-ID: <CAPf2UMRX1cQnRFHTqjsNLeGvMG=dVTBCk2KJ9EQCVGtc64spdg@mail.gmail.com>

You should look into itkVtkGlue
<http://www.itk.org/Doxygen/html/group__ITKVtkGlue.html> and its examples.

HTH

On Wed, Feb 3, 2016 at 1:31 PM, Abdelkhalek Bakkari <
bakkari.abdelkhalek at hotmail.fr> wrote:

>
> Dear Insight Users,
>
> I would like to create a new button which saves the results providing by
> VTK (3D images) as .mha file.
> Any suggestion about this matter ?
>
> Thank you in advance.
>
> Abdelkhalek Bakkari
> Ph.D candidate in Computer Science
> Institute of Applied Computer Science
> Lodz University of Technology, Poland
>
>
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From itkhelpacc at gmail.com  Thu Feb  4 00:08:30 2016
From: itkhelpacc at gmail.com (vishal)
Date: Wed, 3 Feb 2016 22:08:30 -0700 (MST)
Subject: [ITK-users] Problem building jounal paper->cannot open input file
 'ITKAlgorithms.lib'
Message-ID: <1454562510446-36734.post@n7.nabble.com>

hi,
I came across this paper An ITK-Based Framework for 2D-3D Registration with
Multiple Fixed Images by Alvaro Bertelsen and Diego Borro... first had to
replace  ::itk::OStringStream diffName; by std::ostringstream diffName;
which solved some errors and now upon building the project again Im getting
the error saying *cannot open input file 'ITKAlgorithms.lib'*.. I searched
for ITKAlgorithms in my ITK 4.8.2 build folder  but i *couldnt* find it... i
build the project in debug mode.. Please advice
Regards
vishal



--
View this message in context: http://itk-users.7.n7.nabble.com/Problem-building-jounal-paper-cannot-open-input-file-ITKAlgorithms-lib-tp36734.html
Sent from the ITK - Users mailing list archive at Nabble.com.

From dzenanz at gmail.com  Thu Feb  4 13:41:16 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Thu, 4 Feb 2016 13:41:16 -0500
Subject: [ITK-users] Problem building jounal paper->cannot open input
	file 'ITKAlgorithms.lib'
In-Reply-To: <1454562510446-36734.post@n7.nabble.com>
References: <1454562510446-36734.post@n7.nabble.com>
Message-ID: <CAPf2UMRevWFVsNmOrfF4AFjjjpmRXJLkjCtXbyqF+nO7eutBeQ@mail.gmail.com>

Hi Vishal,

the most likely reason is listing libraries by name in CMakeLists.txt file.
You should replace line
set(Libraries ITKAlgorithms ITKBasicFilters ITKCommon ITKIO)
by line:
set(Libraries ${ITK_LIBRARIES})

If it doesn't work, let us know.

HTH

On Thu, Feb 4, 2016 at 12:08 AM, vishal <itkhelpacc at gmail.com> wrote:

> hi,
> I came across this paper An ITK-Based Framework for 2D-3D Registration with
> Multiple Fixed Images by Alvaro Bertelsen and Diego Borro... first had to
> replace  ::itk::OStringStream diffName; by std::ostringstream diffName;
> which solved some errors and now upon building the project again Im getting
> the error saying *cannot open input file 'ITKAlgorithms.lib'*.. I searched
> for ITKAlgorithms in my ITK 4.8.2 build folder  but i *couldnt* find it...
> i
> build the project in debug mode.. Please advice
> Regards
> vishal
>
>
>
> --
> View this message in context:
> http://itk-users.7.n7.nabble.com/Problem-building-jounal-paper-cannot-open-input-file-ITKAlgorithms-lib-tp36734.html
> Sent from the ITK - Users mailing list archive at Nabble.com.
> _____________________________________
> Powered by www.kitware.com
>
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> http://www.kitware.com/opensource/opensource.html
>
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>
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From olivier.commowick at inria.fr  Thu Feb  4 14:07:27 2016
From: olivier.commowick at inria.fr (Olivier Commowick)
Date: Thu, 4 Feb 2016 20:07:27 +0100
Subject: [ITK-users] Multi-threader and thread pool
Message-ID: <919FD08C-D1FF-42B2-8806-CA70DE593E77@inria.fr>

Hi everyone,

I have recently discovered the existence of a thread pool class in ITK (http://itk.org/Doxygen/html/classitk_1_1ThreadPool.html <http://itk.org/Doxygen/html/classitk_1_1ThreadPool.html>), closely linked to the multi threader. From the doxygen, I am not really able to understand how it can be used and I do not see any example for it. 

I have been looking for some time for a multi-threader, working on all OSes, that can have more jobs in queue than the number of threads and execute them when threads gets free, and this would seem like a good start. So I was wondering how this thread pool actually behaves when used by the multi-threader, what its goal is in ITK and all this sort of things. If anyone had some idea about this or may be an example on how it could be used, that would be great.

Thanks
Olivier
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From matt.mccormick at kitware.com  Thu Feb  4 15:04:11 2016
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Thu, 4 Feb 2016 15:04:11 -0500
Subject: [ITK-users] Multi-threader and thread pool
In-Reply-To: <919FD08C-D1FF-42B2-8806-CA70DE593E77@inria.fr>
References: <919FD08C-D1FF-42B2-8806-CA70DE593E77@inria.fr>
Message-ID: <CALzTN-QX3kpT-B7CugKt6priZAhLg+KbT5y8gA5N-aJA1e=BSA@mail.gmail.com>

Hi Olivier,

The itk::ThreadPool is an experimental thread-pool feature.  It is
considered experimental, and it maybe majorly modified in its API or
removed in the future. Our preliminary experiences is that ITK runs
slower when it is enabled.

To enable it, call

  itk::MultiThreader::SetGlobalDefaultUseThreadPool( true );

In the future, we will be moving towards other thread pool backends by
adopting interfaces similar to vtkSMPTools and VTK-m.

Thanks,
Matt

On Thu, Feb 4, 2016 at 2:07 PM, Olivier Commowick
<olivier.commowick at inria.fr> wrote:
> Hi everyone,
>
> I have recently discovered the existence of a thread pool class in ITK
> (http://itk.org/Doxygen/html/classitk_1_1ThreadPool.html), closely linked to
> the multi threader. From the doxygen, I am not really able to understand how
> it can be used and I do not see any example for it.
>
> I have been looking for some time for a multi-threader, working on all OSes,
> that can have more jobs in queue than the number of threads and execute them
> when threads gets free, and this would seem like a good start. So I was
> wondering how this thread pool actually behaves when used by the
> multi-threader, what its goal is in ITK and all this sort of things. If
> anyone had some idea about this or may be an example on how it could be
> used, that would be great.
>
> Thanks
> Olivier
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>

From itkhelpacc at gmail.com  Fri Feb  5 05:48:37 2016
From: itkhelpacc at gmail.com (vishal)
Date: Fri, 5 Feb 2016 03:48:37 -0700 (MST)
Subject: [ITK-users] Problem building jounal paper->cannot open input
 file 'ITKAlgorithms.lib'
In-Reply-To: <CAPf2UMRevWFVsNmOrfF4AFjjjpmRXJLkjCtXbyqF+nO7eutBeQ@mail.gmail.com>
References: <1454562510446-36734.post@n7.nabble.com>
 <CAPf2UMRevWFVsNmOrfF4AFjjjpmRXJLkjCtXbyqF+nO7eutBeQ@mail.gmail.com>
Message-ID: <1454669317139-36738.post@n7.nabble.com>

hi D?enan,
thanks for the help it worked..
Regards
Vishal



--
View this message in context: http://itk-users.7.n7.nabble.com/Problem-building-jounal-paper-cannot-open-input-file-ITKAlgorithms-lib-tp36734p36738.html
Sent from the ITK - Users mailing list archive at Nabble.com.

From itkhelpacc at gmail.com  Fri Feb  5 06:04:48 2016
From: itkhelpacc at gmail.com (vishal)
Date: Fri, 5 Feb 2016 04:04:48 -0700 (MST)
Subject: [ITK-users] Multiresolution Registration error while trying to
 improve a journal paper
Message-ID: <1454670288825-36739.post@n7.nabble.com>

hi,
Im trying to improve upon the code presenting the website below
https://github.com/InsightSoftwareConsortium/ITKTwoProjectionRegistration
This is code that performs 2d/3d registration using two input 2D Xray image
and one input 3D CT volume... it uses Euler3DTransform for registration...Im
trying to do the following improvements to the code
1) Im trying to reduce the number in Xray input (to one since it is better
for patient). this i have successfully achieve but the accuraccy is a little
issue
2) inorder to improve the accuracy im trying write a MultiResolution version
of the code.

3) use of Affine (or versor transform) to see if it improve the quality of
registration.

im having problems with 2 and 3... now for (2) im following An ITK-Based
Framework for 2D-3D Registration with Multiple Fixed Images by Alvaro
Bertelsen and Diego Borro paper AS WELL AS a out dated code
"IntensityBased2D3DRegistration.cxx" as reference....im getting the
following error:-
*"Vector subscript out of range"*

Can anyone please help me out?
Regards
Vishal



--
View this message in context: http://itk-users.7.n7.nabble.com/Multiresolution-Registration-error-while-trying-to-improve-a-journal-paper-tp36739.html
Sent from the ITK - Users mailing list archive at Nabble.com.

From davis.vigneault at gmail.com  Fri Feb  5 07:12:56 2016
From: davis.vigneault at gmail.com (Davis Vigneault)
Date: Fri, 5 Feb 2016 12:12:56 +0000
Subject: [ITK-users] External Modules: Passing data to unit tests?
In-Reply-To: <CALzTN-RDXg75gVQ0S0JA74d-_go+w0NtKGHTVt+rb1YnX8MNTQ@mail.gmail.com>
References: <1453734722405-7588384.post@n2.nabble.com>
 <1453739768868-7588385.post@n2.nabble.com>
 <CALzTN-RDXg75gVQ0S0JA74d-_go+w0NtKGHTVt+rb1YnX8MNTQ@mail.gmail.com>
Message-ID: <CAGhD29PVBAfGR=cX1h3+K39j=Rv-gco31Lz8ib6xgj5pz0kGXA@mail.gmail.com>

Matt--

Sorry for the late reply--this looks like a valuable resource.  I've just
registered.

Since this is phase data, it is best for it to be floating point.  Does ITK
have a preference for FP file type?  I use .vtk out of habit but don't mind
switching.

Best,

--Davis

On Mon, Jan 25, 2016 at 6:23 PM, Matt McCormick <matt.mccormick at kitware.com>
wrote:

> Hi Davis,
>
> ITKPhase looks like a very interesting module.
>
> It sounds like you have a handle on the ExternalData.  Another
> approach for ExternalData is to upload it to the "ITK" community on
> midas3.kitware.com:
>
>   http://midas3.kitware.com/midas/folder/10126
>
> If you sign up for the community, please send me an email, and I will
> give you upload permissions. Then, there is an icon for each file to
> download the .md5 file. This process is illustrated here:
>
>
> http://itk.org/ITKExamples/Documentation/Contribute/UploadBinaryData.html#upload-via-the-web-interface
>
> HTH,
> Matt
>
> On Mon, Jan 25, 2016 at 11:36 AM, DVigneault <davis.vigneault at gmail.com>
> wrote:
> > All--
> >
> > I have it working now--here's what I didn't understand:
> >
> > 1.  The hash replacement happens in the source tree only (not the bin).
> > 2.  The data files can be referenced as usual, e.g.
> > DATA{Input//swi_wrapped.vtk}
> > 3.  The data files should be copied into
> > bin/ExternalData/Modules/External/ITKPhase/text/Input, but if they are
> not,
> > copying them in manually may fix this (as it did in my case).
> >
> > Best,
> >
> > --Davis
> >
> >
> >
> > --
> > View this message in context:
> http://itk-insight-users.2283740.n2.nabble.com/External-Modules-Passing-data-to-unit-tests-tp7588384p7588385.html
> > Sent from the ITK Insight Users mailing list archive at Nabble.com.
> > _____________________________________
> > Powered by www.kitware.com
> >
> > Visit other Kitware open-source projects at
> > http://www.kitware.com/opensource/opensource.html
> >
> > Kitware offers ITK Training Courses, for more information visit:
> > http://www.kitware.com/products/protraining.php
> >
> > Please keep messages on-topic and check the ITK FAQ at:
> > http://www.itk.org/Wiki/ITK_FAQ
> >
> > Follow this link to subscribe/unsubscribe:
> > http://public.kitware.com/mailman/listinfo/insight-users
>
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From matt.mccormick at kitware.com  Fri Feb  5 21:36:10 2016
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Fri, 5 Feb 2016 21:36:10 -0500
Subject: [ITK-users] External Modules: Passing data to unit tests?
In-Reply-To: <CAGhD29PVBAfGR=cX1h3+K39j=Rv-gco31Lz8ib6xgj5pz0kGXA@mail.gmail.com>
References: <1453734722405-7588384.post@n2.nabble.com>
 <1453739768868-7588385.post@n2.nabble.com>
 <CALzTN-RDXg75gVQ0S0JA74d-_go+w0NtKGHTVt+rb1YnX8MNTQ@mail.gmail.com>
 <CAGhD29PVBAfGR=cX1h3+K39j=Rv-gco31Lz8ib6xgj5pz0kGXA@mail.gmail.com>
Message-ID: <CALzTN-SCxhf2Dj5CQb9D9+knFBkcV8rvqF6zZsXJv8E7cge6oA@mail.gmail.com>

Hi Davis,

> Sorry for the late reply--this looks like a valuable resource.  I've just
> registered.

Great!  Your account now has upload permissions.


> Since this is phase data, it is best for it to be floating point.  Does ITK
> have a preference for FP file type?  I use .vtk out of habit but don't mind
> switching.

There is not a preferred format -- .vtk will be fine.  I personally
prefer MetaImage with .mha.  ITK has the best support for this format
(streaming read and write, compression, read/write of the
MetaDataDictionary, all pixel types supported).


Thanks,
Matt

From bakkari.abdelkhalek at hotmail.fr  Sat Feb  6 06:31:20 2016
From: bakkari.abdelkhalek at hotmail.fr (Abdelkhalek Bakkari)
Date: Sat, 6 Feb 2016 12:31:20 +0100
Subject: [ITK-users] Failed to allocate memory for image
Message-ID: <DUB129-W32F6755E24A47F87B205BB83D30@phx.gbl>

Hi,
I am using ITK for loading 361 CT images. But, When I tried to process it, an error appears :

Exception caught !
itk::MemoryAllocationError (01CDCE98)Location: "unknown"File: c:\itk 4.8.1\source\modules\core\common\include\itkImportImageContainer.hxxLine: 199Description: Failed to allocate memory for image.

Exception caught !
itk::MemoryAllocationError (01CDCE5C)Location: "unknown"File: c:\itk 4.8.1\source\modules\core\common\include\itkImportImageContainer.hxxLine: 199Description: Failed to allocate memory for image.

Exception thrown while writing the series
itk::MemoryAllocationError (01CDCD90)Location: "unknown"File: c:\itk 4.8.1\source\modules\core\common\include\itkImportImageContainer.hxxLine: 199Description: Failed to allocate memory for image.

Best regards, 

Abdelkhalek BakkariPh.D candidate in Computer ScienceInstitute of Applied Computer ScienceLodz University of Technology, Poland
 		 	   		  
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From dzenanz at gmail.com  Sat Feb  6 08:29:10 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Sat, 6 Feb 2016 08:29:10 -0500
Subject: [ITK-users] Failed to allocate memory for image
In-Reply-To: <DUB129-W32F6755E24A47F87B205BB83D30@phx.gbl>
References: <DUB129-W32F6755E24A47F87B205BB83D30@phx.gbl>
Message-ID: <CAPf2UMR8ZrA6LunV147mC494mDPoC+rKpSpD7+rw8aBim_v7tQ@mail.gmail.com>

Isn't it self explanatory? If you have compiled ITK in 32 bits, or have
little available memory would trigger such an exception.

Regards

On Sat, Feb 6, 2016 at 6:31 AM, Abdelkhalek Bakkari <
bakkari.abdelkhalek at hotmail.fr> wrote:

>
> Hi,
>
> I am using ITK for loading 361 CT images. But, When I tried to process it,
> an error appears :
>
>
> Exception caught !
>
> itk::MemoryAllocationError (01CDCE98)
> Location: "unknown"
> File: c:\itk
> 4.8.1\source\modules\core\common\include\itkImportImageContainer.hx
> x
> Line: 199
> Description: Failed to allocate memory for image.
>
>
> Exception caught !
>
> itk::MemoryAllocationError (01CDCE5C)
> Location: "unknown"
> File: c:\itk
> 4.8.1\source\modules\core\common\include\itkImportImageContainer.hx
> x
> Line: 199
> Description: Failed to allocate memory for image.
>
>
> Exception thrown while writing the series
>
> itk::MemoryAllocationError (01CDCD90)
> Location: "unknown"
> File: c:\itk
> 4.8.1\source\modules\core\common\include\itkImportImageContainer.hx
> x
> Line: 199
> Description: Failed to allocate memory for image.
>
>
> Best regards,
>
>
> Abdelkhalek Bakkari
> Ph.D candidate in Computer Science
> Institute of Applied Computer Science
> Lodz University of Technology, Poland
>
>
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From wer.wie.was.wiso.weshalb.warum at googlemail.com  Sat Feb  6 09:03:03 2016
From: wer.wie.was.wiso.weshalb.warum at googlemail.com (wer.wie.was.wiso.weshalb.warum at googlemail.com)
Date: Sat, 6 Feb 2016 15:03:03 +0100
Subject: [ITK-users] Failed to allocate memory for image
In-Reply-To: <DUB129-W32F6755E24A47F87B205BB83D30@phx.gbl>
References: <DUB129-W32F6755E24A47F87B205BB83D30@phx.gbl>
Message-ID: <20160206140303.GA32042@jerng.de>

How large is one CT image (file size on disk)?

On 06.02.16, 12:31, Abdelkhalek Bakkari wrote:
> Hi,
> I am using ITK for loading 361 CT images. But, When I tried to process it, an error appears :
> 
> Exception caught !
> itk::MemoryAllocationError (01CDCE98)Location: "unknown"File: c:\itk 4.8.1\source\modules\core\common\include\itkImportImageContainer.hxxLine: 199Description: Failed to allocate memory for image.
> 
> Exception caught !
> itk::MemoryAllocationError (01CDCE5C)Location: "unknown"File: c:\itk 4.8.1\source\modules\core\common\include\itkImportImageContainer.hxxLine: 199Description: Failed to allocate memory for image.
> 
> Exception thrown while writing the series
> itk::MemoryAllocationError (01CDCD90)Location: "unknown"File: c:\itk 4.8.1\source\modules\core\common\include\itkImportImageContainer.hxxLine: 199Description: Failed to allocate memory for image.
> 
> Best regards, 
> 
> Abdelkhalek BakkariPh.D candidate in Computer ScienceInstitute of Applied Computer ScienceLodz University of Technology, Poland
>  		 	   		  

> _____________________________________
> Powered by www.kitware.com
> 
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
> 
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
> 
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
> 
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users


From millerjv at gmail.com  Sat Feb  6 09:27:52 2016
From: millerjv at gmail.com (Jim Miller)
Date: Sat, 6 Feb 2016 09:27:52 -0500
Subject: [ITK-users] Failed to allocate memory for image
In-Reply-To: <20160206140303.GA32042@jerng.de>
References: <DUB129-W32F6755E24A47F87B205BB83D30@phx.gbl>
 <20160206140303.GA32042@jerng.de>
Message-ID: <5E7F8A68-C4A9-4CA0-9825-D769D4497E90@gmail.com>

Each of Abdelkhalek's volumes are 180 MB if kept as shorts.  How much memory is needed depends on the types and sequences of filters.  If a filter switches to processing floats (diffusion) or vectors (gradients), then the memory will needs escalate. Most filters needs two buffers - an input and output. Some need intermediate and temporary buffers. Filters like Watershed can need a lot of internal storage. 

If you have a long pipeline of filters, you should investigate the methods to release memory after a filter executes, such as ReleaseDataFlagOn().  You can also use scoping and DIsconnectPipeline() to force individual filters to release resources. 

Jim

> On Feb 6, 2016, at 9:03 AM, JE via Insight-users <insight-users at itk.org> wrote:
> 
> How large is one CT image (file size on disk)?
> 
>> On 06.02.16, 12:31, Abdelkhalek Bakkari wrote:
>> Hi,
>> I am using ITK for loading 361 CT images. But, When I tried to process it, an error appears :
>> 
>> Exception caught !
>> itk::MemoryAllocationError (01CDCE98)Location: "unknown"File: c:\itk 4.8.1\source\modules\core\common\include\itkImportImageContainer.hxxLine: 199Description: Failed to allocate memory for image.
>> 
>> Exception caught !
>> itk::MemoryAllocationError (01CDCE5C)Location: "unknown"File: c:\itk 4.8.1\source\modules\core\common\include\itkImportImageContainer.hxxLine: 199Description: Failed to allocate memory for image.
>> 
>> Exception thrown while writing the series
>> itk::MemoryAllocationError (01CDCD90)Location: "unknown"File: c:\itk 4.8.1\source\modules\core\common\include\itkImportImageContainer.hxxLine: 199Description: Failed to allocate memory for image.
>> 
>> Best regards, 
>> 
>> Abdelkhalek BakkariPh.D candidate in Computer ScienceInstitute of Applied Computer ScienceLodz University of Technology, Poland
>>                         
> 
>> _____________________________________
>> Powered by www.kitware.com
>> 
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>> 
>> Kitware offers ITK Training Courses, for more information visit:
>> http://www.kitware.com/products/protraining.php
>> 
>> Please keep messages on-topic and check the ITK FAQ at:
>> http://www.itk.org/Wiki/ITK_FAQ
>> 
>> Follow this link to subscribe/unsubscribe:
>> http://public.kitware.com/mailman/listinfo/insight-users
> 
> _____________________________________
> Powered by www.kitware.com
> 
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
> 
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
> 
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
> 
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users

From bakkari.abdelkhalek at hotmail.fr  Sat Feb  6 09:51:39 2016
From: bakkari.abdelkhalek at hotmail.fr (Abdelkhalek Bakkari)
Date: Sat, 6 Feb 2016 15:51:39 +0100
Subject: [ITK-users] Failed to allocate memory for image
In-Reply-To: <20160206140303.GA32042@jerng.de>
References: <DUB129-W32F6755E24A47F87B205BB83D30@phx.gbl>,
 <20160206140303.GA32042@jerng.de>
Message-ID: <DUB129-W559AC3736C615F7E13888183D30@phx.gbl>

512*512

Abdelkhalek BakkariPh.D candidate in Computer ScienceInstitute of Applied Computer ScienceLodz University of Technology, Poland


> Date: Sat, 6 Feb 2016 15:03:03 +0100
> From: wer.wie.was.wiso.weshalb.warum at googlemail.com
> To: bakkari.abdelkhalek at hotmail.fr
> CC: insight-users at itk.org
> Subject: Re: [ITK-users] Failed to allocate memory for image
> 
> How large is one CT image (file size on disk)?
> 
> On 06.02.16, 12:31, Abdelkhalek Bakkari wrote:
> > Hi,
> > I am using ITK for loading 361 CT images. But, When I tried to process it, an error appears :
> > 
> > Exception caught !
> > itk::MemoryAllocationError (01CDCE98)Location: "unknown"File: c:\itk 4.8.1\source\modules\core\common\include\itkImportImageContainer.hxxLine: 199Description: Failed to allocate memory for image.
> > 
> > Exception caught !
> > itk::MemoryAllocationError (01CDCE5C)Location: "unknown"File: c:\itk 4.8.1\source\modules\core\common\include\itkImportImageContainer.hxxLine: 199Description: Failed to allocate memory for image.
> > 
> > Exception thrown while writing the series
> > itk::MemoryAllocationError (01CDCD90)Location: "unknown"File: c:\itk 4.8.1\source\modules\core\common\include\itkImportImageContainer.hxxLine: 199Description: Failed to allocate memory for image.
> > 
> > Best regards, 
> > 
> > Abdelkhalek BakkariPh.D candidate in Computer ScienceInstitute of Applied Computer ScienceLodz University of Technology, Poland
> >  		 	   		  
> 
> > _____________________________________
> > Powered by www.kitware.com
> > 
> > Visit other Kitware open-source projects at
> > http://www.kitware.com/opensource/opensource.html
> > 
> > Kitware offers ITK Training Courses, for more information visit:
> > http://www.kitware.com/products/protraining.php
> > 
> > Please keep messages on-topic and check the ITK FAQ at:
> > http://www.itk.org/Wiki/ITK_FAQ
> > 
> > Follow this link to subscribe/unsubscribe:
> > http://public.kitware.com/mailman/listinfo/insight-users
> 
 		 	   		  
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From dzenanz at gmail.com  Sat Feb  6 12:56:07 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Sat, 6 Feb 2016 12:56:07 -0500
Subject: [ITK-users] Multiresolution Registration error while trying to
 improve a journal paper
In-Reply-To: <1454670288825-36739.post@n7.nabble.com>
References: <1454670288825-36739.post@n7.nabble.com>
Message-ID: <CAPf2UMTQkcNxmc=-VhT7cOY1Tji0+ZgFTus_y33qtsBUnw6Z5A@mail.gmail.com>

Hi Vishal,

if compiler or OS says that vector subscript is out of range, you better
believe it :)

Joking aside, we will need more information (source code, preferably MWE)
to help you. Index out of bounds is way too general.

Regards,
D?enan

On Fri, Feb 5, 2016 at 6:04 AM, vishal <itkhelpacc at gmail.com> wrote:

> hi,
> Im trying to improve upon the code presenting the website below
> https://github.com/InsightSoftwareConsortium/ITKTwoProjectionRegistration
> This is code that performs 2d/3d registration using two input 2D Xray image
> and one input 3D CT volume... it uses Euler3DTransform for
> registration...Im
> trying to do the following improvements to the code
> 1) Im trying to reduce the number in Xray input (to one since it is better
> for patient). this i have successfully achieve but the accuraccy is a
> little
> issue
> 2) inorder to improve the accuracy im trying write a MultiResolution
> version
> of the code.
>
> 3) use of Affine (or versor transform) to see if it improve the quality of
> registration.
>
> im having problems with 2 and 3... now for (2) im following An ITK-Based
> Framework for 2D-3D Registration with Multiple Fixed Images by Alvaro
> Bertelsen and Diego Borro paper AS WELL AS a out dated code
> "IntensityBased2D3DRegistration.cxx" as reference....im getting the
> following error:-
> *"Vector subscript out of range"*
>
> Can anyone please help me out?
> Regards
> Vishal
>
>
>
> --
> View this message in context:
> http://itk-users.7.n7.nabble.com/Multiresolution-Registration-error-while-trying-to-improve-a-journal-paper-tp36739.html
> Sent from the ITK - Users mailing list archive at Nabble.com.
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
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From bakkari.abdelkhalek at hotmail.fr  Sat Feb  6 14:48:31 2016
From: bakkari.abdelkhalek at hotmail.fr (Abdelkhalek Bakkari)
Date: Sat, 6 Feb 2016 20:48:31 +0100
Subject: [ITK-users] FW: Failed to allocate memory for image
In-Reply-To: <DUB129-W95EBE761867736994F50C683D30@phx.gbl>
References: <DUB129-W32F6755E24A47F87B205BB83D30@phx.gbl>,
 <CAPf2UMR8ZrA6LunV147mC494mDPoC+rKpSpD7+rw8aBim_v7tQ@mail.gmail.com>,
 <DUB129-W95EBE761867736994F50C683D30@phx.gbl>
Message-ID: <DUB129-W95534C9A136F480A48388A83D30@phx.gbl>



Abdelkhalek BakkariPh.D candidate in Computer ScienceInstitute of Applied Computer ScienceLodz University of Technology, Poland
Fuzzy image processing is the collection of all approaches that understand,
represent and process the images, their segments and features as fuzzy sets.
The representation and processing depend on selected fuzzy technique and on
the problem to be solved.

From: bakkari.abdelkhalek at hotmail.fr
To: dzenanz at gmail.com
Subject: RE: Failed to allocate memory for image
Date: Sat, 6 Feb 2016 20:47:54 +0100




Yes, it is self explanatory.I have compiled ITK in 32 bits. The RAM of my laptop is 16 Go.
How can I solve this problem, please?
Best regards,

Abdelkhalek BakkariPh.D candidate in Computer ScienceInstitute of Applied Computer ScienceLodz University of Technology, Poland

From: dzenanz at gmail.com
Date: Sat, 6 Feb 2016 08:29:10 -0500
Subject: Re: Failed to allocate memory for image
To: bakkari.abdelkhalek at hotmail.fr
CC: insight-users at itk.org

Isn't it self explanatory? If you have compiled ITK in 32 bits, or have little available memory would trigger such an exception.
Regards
On Sat, Feb 6, 2016 at 6:31 AM, Abdelkhalek Bakkari <bakkari.abdelkhalek at hotmail.fr> wrote:




Hi,
I am using ITK for loading 361 CT images. But, When I tried to process it, an error appears :

Exception caught !
itk::MemoryAllocationError (01CDCE98)Location: "unknown"File: c:\itk 4.8.1\source\modules\core\common\include\itkImportImageContainer.hxxLine: 199Description: Failed to allocate memory for image.

Exception caught !
itk::MemoryAllocationError (01CDCE5C)Location: "unknown"File: c:\itk 4.8.1\source\modules\core\common\include\itkImportImageContainer.hxxLine: 199Description: Failed to allocate memory for image.

Exception thrown while writing the series
itk::MemoryAllocationError (01CDCD90)Location: "unknown"File: c:\itk 4.8.1\source\modules\core\common\include\itkImportImageContainer.hxxLine: 199Description: Failed to allocate memory for image.

Best regards, 

Abdelkhalek BakkariPh.D candidate in Computer ScienceInstitute of Applied Computer ScienceLodz University of Technology, Poland
 		 	   		  

 		 	   		   		 	   		  
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From g.bogle at auckland.ac.nz  Sat Feb  6 14:54:29 2016
From: g.bogle at auckland.ac.nz (Gib Bogle)
Date: Sat, 6 Feb 2016 19:54:29 +0000
Subject: [ITK-users] FW: Failed to allocate memory for image
In-Reply-To: <DUB129-W95534C9A136F480A48388A83D30@phx.gbl>
References: <DUB129-W32F6755E24A47F87B205BB83D30@phx.gbl>,
 <CAPf2UMR8ZrA6LunV147mC494mDPoC+rKpSpD7+rw8aBim_v7tQ@mail.gmail.com>,
 <DUB129-W95EBE761867736994F50C683D30@phx.gbl>,
 <DUB129-W95534C9A136F480A48388A83D30@phx.gbl>
Message-ID: <BD80F91C3E2E394894ED4780703D7F9EDBAAC222@uxcn10-6.UoA.auckland.ac.nz>

Build the 64-bit libraries.
________________________________
From: Insight-users [insight-users-bounces at itk.org] on behalf of Abdelkhalek Bakkari [bakkari.abdelkhalek at hotmail.fr]
Sent: Sunday, 7 February 2016 8:48 a.m.
To: dzenanz at gmail.com
Cc: insight-users
Subject: [ITK-users] FW: Failed to allocate memory for image




Abdelkhalek Bakkari
Ph.D candidate in Computer Science
Institute of Applied Computer Science
Lodz University of Technology, Poland

Fuzzy image processing is the collection of all approaches that understand, represent and process the images, their segments and features as fuzzy sets. The representation and processing depend on selected fuzzy technique and on the problem to be solved.


________________________________
From: bakkari.abdelkhalek at hotmail.fr
To: dzenanz at gmail.com
Subject: RE: Failed to allocate memory for image
Date: Sat, 6 Feb 2016 20:47:54 +0100


Yes, it is self explanatory.
I have compiled ITK in 32 bits. The RAM of my laptop is 16 Go.

How can I solve this problem, please?

Best regards,


Abdelkhalek Bakkari
Ph.D candidate in Computer Science
Institute of Applied Computer Science
Lodz University of Technology, Poland


________________________________
From: dzenanz at gmail.com
Date: Sat, 6 Feb 2016 08:29:10 -0500
Subject: Re: Failed to allocate memory for image
To: bakkari.abdelkhalek at hotmail.fr
CC: insight-users at itk.org

Isn't it self explanatory? If you have compiled ITK in 32 bits, or have little available memory would trigger such an exception.

Regards

On Sat, Feb 6, 2016 at 6:31 AM, Abdelkhalek Bakkari <bakkari.abdelkhalek at hotmail.fr<mailto:bakkari.abdelkhalek at hotmail.fr>> wrote:

Hi,

I am using ITK for loading 361 CT images. But, When I tried to process it, an error appears :


Exception caught !

itk::MemoryAllocationError (01CDCE98)
Location: "unknown"
File: c:\itk 4.8.1\source\modules\core\common\include\itkImportImageContainer.hx
x
Line: 199
Description: Failed to allocate memory for image.


Exception caught !

itk::MemoryAllocationError (01CDCE5C)
Location: "unknown"
File: c:\itk 4.8.1\source\modules\core\common\include\itkImportImageContainer.hx
x
Line: 199
Description: Failed to allocate memory for image.


Exception thrown while writing the series

itk::MemoryAllocationError (01CDCD90)
Location: "unknown"
File: c:\itk 4.8.1\source\modules\core\common\include\itkImportImageContainer.hx
x
Line: 199
Description: Failed to allocate memory for image.


Best regards,


Abdelkhalek Bakkari
Ph.D candidate in Computer Science
Institute of Applied Computer Science
Lodz University of Technology, Poland


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From matt.mccormick at kitware.com  Sat Feb  6 14:57:23 2016
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Sat, 6 Feb 2016 14:57:23 -0500
Subject: [ITK-users] FW: Failed to allocate memory for image
In-Reply-To: <BD80F91C3E2E394894ED4780703D7F9EDBAAC222@uxcn10-6.UoA.auckland.ac.nz>
References: <DUB129-W32F6755E24A47F87B205BB83D30@phx.gbl>
 <CAPf2UMR8ZrA6LunV147mC494mDPoC+rKpSpD7+rw8aBim_v7tQ@mail.gmail.com>
 <DUB129-W95EBE761867736994F50C683D30@phx.gbl>
 <DUB129-W95534C9A136F480A48388A83D30@phx.gbl>
 <BD80F91C3E2E394894ED4780703D7F9EDBAAC222@uxcn10-6.UoA.auckland.ac.nz>
Message-ID: <CALzTN-QjrmqgrOn0ssk8jOe1y3Opgs9AKNtmZm_X1Qq+_EVnjw@mail.gmail.com>

Hi,

Depending on classes involved, streaming can reduce memory
consumption.  See [1] [2] [3].

HTH,
Matt

[1] http://itk.org/ITKExamples/src/Core/Common/StreamAPipeline/Documentation.html

[2] http://www.kitware.com/media/html/IOStreamingInITK.html

[3] http://itk.org/ITKSoftwareGuide/html/Book1/ITKSoftwareGuide-Book1ch8.html#x49-1300008.3

On Sat, Feb 6, 2016 at 2:54 PM, Gib Bogle <g.bogle at auckland.ac.nz> wrote:
> Build the 64-bit libraries.
> ________________________________
> From: Insight-users [insight-users-bounces at itk.org] on behalf of Abdelkhalek
> Bakkari [bakkari.abdelkhalek at hotmail.fr]
> Sent: Sunday, 7 February 2016 8:48 a.m.
> To: dzenanz at gmail.com
> Cc: insight-users
> Subject: [ITK-users] FW: Failed to allocate memory for image
>
>
>
>
> Abdelkhalek Bakkari
> Ph.D candidate in Computer Science
> Institute of Applied Computer Science
> Lodz University of Technology, Poland
>
> Fuzzy image processing is the collection of all approaches that understand,
> represent and process the images, their segments and features as fuzzy sets.
> The representation and processing depend on selected fuzzy technique and on
> the problem to be solved.
>
>
> ________________________________
> From: bakkari.abdelkhalek at hotmail.fr
> To: dzenanz at gmail.com
> Subject: RE: Failed to allocate memory for image
> Date: Sat, 6 Feb 2016 20:47:54 +0100
>
>
> Yes, it is self explanatory.
> I have compiled ITK in 32 bits. The RAM of my laptop is 16 Go.
>
> How can I solve this problem, please?
>
> Best regards,
>
>
> Abdelkhalek Bakkari
> Ph.D candidate in Computer Science
> Institute of Applied Computer Science
> Lodz University of Technology, Poland
>
>
> ________________________________
> From: dzenanz at gmail.com
> Date: Sat, 6 Feb 2016 08:29:10 -0500
> Subject: Re: Failed to allocate memory for image
> To: bakkari.abdelkhalek at hotmail.fr
> CC: insight-users at itk.org
>
> Isn't it self explanatory? If you have compiled ITK in 32 bits, or have
> little available memory would trigger such an exception.
>
> Regards
>
> On Sat, Feb 6, 2016 at 6:31 AM, Abdelkhalek Bakkari
> <bakkari.abdelkhalek at hotmail.fr> wrote:
>
>
> Hi,
>
> I am using ITK for loading 361 CT images. But, When I tried to process it,
> an error appears :
>
>
> Exception caught !
>
> itk::MemoryAllocationError (01CDCE98)
> Location: "unknown"
> File: c:\itk
> 4.8.1\source\modules\core\common\include\itkImportImageContainer.hx
> x
> Line: 199
> Description: Failed to allocate memory for image.
>
>
> Exception caught !
>
> itk::MemoryAllocationError (01CDCE5C)
> Location: "unknown"
> File: c:\itk
> 4.8.1\source\modules\core\common\include\itkImportImageContainer.hx
> x
> Line: 199
> Description: Failed to allocate memory for image.
>
>
> Exception thrown while writing the series
>
> itk::MemoryAllocationError (01CDCD90)
> Location: "unknown"
> File: c:\itk
> 4.8.1\source\modules\core\common\include\itkImportImageContainer.hx
> x
> Line: 199
> Description: Failed to allocate memory for image.
>
>
> Best regards,
>
>
> Abdelkhalek Bakkari
> Ph.D candidate in Computer Science
> Institute of Applied Computer Science
> Lodz University of Technology, Poland
>
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>

From itkhelpacc at gmail.com  Mon Feb  8 03:03:23 2016
From: itkhelpacc at gmail.com (vishal)
Date: Mon, 8 Feb 2016 01:03:23 -0700 (MST)
Subject: [ITK-users] Multiresolution Registration error while trying to
 improve a journal paper
In-Reply-To: <CAPf2UMTQkcNxmc=-VhT7cOY1Tji0+ZgFTus_y33qtsBUnw6Z5A@mail.gmail.com>
References: <1454670288825-36739.post@n7.nabble.com>
 <CAPf2UMTQkcNxmc=-VhT7cOY1Tji0+ZgFTus_y33qtsBUnw6Z5A@mail.gmail.com>
Message-ID: <1454918603453-36751.post@n7.nabble.com>

hey D?enan,
this is the code below is a multiresolution version of the registration code
in this
https://github.com/InsightSoftwareConsortium/ITKTwoProjectionRegistration
project... first when i tried to build and execute the code it shows the
error "vector subscript is out of range".. then i tried to modified the
github code keeping IntensityBased2D3DRegistration(the code below) as a
reference it still shows another error called "access violation
location...." ... kindly help me out...
PLS NOTE:- i modified the code to take only one 2d image and one 3d volume
inorder to perform registration. to run this code u will have to build the
GetSiddonRayCastTracing.cxx code and obtain a projection. then build the
code below and give the following arguments:
Something.exe -v theProjectionFromtheStepAbove.dcm 0 3Dvolume.dcm
where
0 is the projection angle.
regards
Vishal

/*=========================================================================
 *
 *  Copyright Insight Software Consortium
 *
 *  Licensed under the Apache License, Version 2.0 (the "License");
 *  you may not use this file except in compliance with the License.
 *  You may obtain a copy of the License at
 *
 *         http://www.apache.org/licenses/LICENSE-2.0.txt
 *
 *  Unless required by applicable law or agreed to in writing, software
 *  distributed under the License is distributed on an "AS IS" BASIS,
 *  WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
 *  See the License for the specific language governing permissions and
 *  limitations under the License.
 *

*=========================================================================*/

/*=========================================================================

 This program implements an intensity based 2D-3D registration algorithm
using the
 SiddonJacobsRayCastInterpolateImageFunction and
NormalizedCorrelationTwoImageToOneImageMetric
 similarity measure

 PowellOptimizer is used as the optimization method to avoid gradient
calculation.
 Euler3DTransform instead of CenteredEuler3DTransform is used to avoid the
shift of the center.

 When generating DRRs, the program attempts to simulate a 2D imaging system
attached to a linac
 for radiation therapy. The program registers two 2D portal images with
their corresponding DRR
 images generated from the 3D dataset. The portal images may be acquired at
any arbitrary projection
 angles. The similarity measure is the summation of the measures calculated
each projection.
 Multiresolution strategy was not implemented.

 This program was modified from the ITK
application--IntensityBased2D3DRegistration.cxx

=========================================================================*/
//#include "itkTwoProjectionImageRegistrationMethod.h"

// The transformation used is a rigid 3D Euler transform with the
// provision of a center of rotation which defaults to the center of
// the 3D volume. In practice the center of the particular feature of
// interest in the 3D volume should be used.
#include <iostream>
					//WRITTEN USING IntesityBased2D3dRegistration.cxx &
MultiResImageRegistration3.cxx
#include "itkEuler3DTransform.h"

// We have chosen to implement the registration using the normalized
coorelation
// similarity measure.

//#include "itkGradientDifferenceTwoImageToOneImageMetric.h"
//#include "itkNormalizedCorrelationTwoImageToOneImageMetric.h"

// This is an intensity based registration algorithm so ray casting is
// used to project the 3D volume onto pixels in the target 2D image.
#include "itkSiddonJacobsRayCastInterpolateImageFunction.h"
#include "itkMultiResolutionImageRegistrationMethod.h"
// Finally the Powell optimizer is used to avoid requiring gradient
information.
//#include "itkPowellOptimizer.h"
#include "itkRegularStepGradientDescentOptimizer.h"
#include "itkImageFileReader.h"
#include "itkImageFileWriter.h"

#include "itkResampleImageFilter.h"
#include "itkCastImageFilter.h"
#include "itkRescaleIntensityImageFilter.h"
#include "itkFlipImageFilter.h"

#include "itkCommand.h"
#include "itkTimeProbesCollectorBase.h"

//MODIFIED HEADERS
//#include "itkImageRegistrationMethodv4.h"
//#include <itkImageRegistrationMethod.h>
#include <itkNormalizedCorrelationImageToImageMetric.h>
//#include "itkMattesMutualInformationImageToImageMetric.h"
//#include <itkObjectToObjectOptimizerBase.h>
//#include "itkEuler3DTransform.h"
//#include "itkPowellOptimizer.h"
//
//#include "itkImageFileReader.h"
//#include "itkImageFileWriter.h"
//
//#include "itkResampleImageFilter.h"
//#include "itkCastImageFilter.h"
//#include "itkRescaleIntensityImageFilter.h"
//#include "itkFlipImageFilter.h"
//
//#include "itkCommand.h"
//#include "itkTimeProbesCollectorBase.h"
//#include "itkSiddonJacobsRayCastInterpolateImageFunction.h"
// First we define the command class to allow us to monitor the
registration.

class CommandIterationUpdate : public itk::Command
{
public:
  typedef  CommandIterationUpdate Self;
  typedef  itk::Command           Superclass;
  typedef itk::SmartPointer<Self> Pointer;
  itkNewMacro( Self );

protected:
  CommandIterationUpdate() {};

public:
  typedef itk::RegularStepGradientDescentOptimizer  OptimizerType;
  typedef const OptimizerType * OptimizerPointer;

  void Execute(itk::Object *caller, const itk::EventObject & event)
  {
    Execute( (const itk::Object *)caller, event);
  }

  void Execute(const itk::Object *object, const itk::EventObject & event)
  {
    OptimizerPointer optimizer =
      dynamic_cast< OptimizerPointer >( object );
    if( typeid( event ) != typeid( itk::IterationEvent ) )
      {
      return;
      }
    std::cout << "Iteration: " << optimizer->GetCurrentIteration() <<
std::endl;
    std::cout << "Similarity: " << optimizer->GetValue() << std::endl;
    std::cout << "Position: " << optimizer->GetCurrentPosition() <<
std::endl;
	//std::cout<<"GETCURRENT LINE VALUE 
"<<optimizer->GetCurrentLineIteration()<< std::endl;
  }
};


// Software Guide : BeginLatex
//
// A second \emph{Command/Observer} is used to reduce the minimum
// registration step length on each occasion that the resolution of
// the multi-scale registration is increased (see
// \doxygen{MultiResImageRegistration1} for more info).
//
// Software Guide : EndLatex
// Software Guide : BeginCodeSnippet
template <typename TRegistration>
class RegistrationInterfaceCommand : public itk::Command 
{
public:
  typedef  RegistrationInterfaceCommand   Self;
  typedef  itk::Command                   Superclass;
  typedef  itk::SmartPointer<Self>        Pointer;
  itkNewMacro( Self );

protected:
  RegistrationInterfaceCommand() {};

public:
  typedef   TRegistration                              RegistrationType;
  typedef   RegistrationType *                         RegistrationPointer;
  typedef   itk::RegularStepGradientDescentOptimizer   OptimizerType;
  typedef   OptimizerType *                            OptimizerPointer;

  void Execute(itk::Object * object, const itk::EventObject & event)
ITK_OVERRIDE
  {
   /* if( typeid( event ) != typeid( itk::IterationEvent ) )
      {
      return;
      }*/ //old
	   if( !(itk::IterationEvent().CheckEvent( &event )) )
      {
      return;
      }

   // RegistrationPointer registration =
          //                  dynamic_cast<RegistrationPointer>( object );
	   
    RegistrationPointer registration = static_cast<RegistrationPointer>(
object );

    // If this is the first resolution level we assume that the
    // maximum step length (representing the first step size) and the
    // minimum step length (representing the convergence criterion)
    // have already been set.  At each subsequent resolution level, we
    // will reduce the minimum step length by a factor of four in order
    // to allow the optimizer to focus on progressively smaller
    // regions. The maximum step length is set to the current step
    // length. In this way, when the optimizer is reinitialized at the
    // beginning of the registration process for the next level, the
    // step length will simply start with the last value used for the
    // previous level. This will guarantee the continuity of the path
    // taken by the optimizer through the parameter space.
	  if(registration == ITK_NULLPTR)
      {
      return;
      }
    /*OptimizerPointer optimizer = dynamic_cast< OptimizerPointer >( 
                       registration->GetOptimizer() );*/  
	OptimizerPointer optimizer = static_cast< OptimizerPointer
>(registration->GetModifiableOptimizer() );
    
	std::cout << "-------------------------------------" << std::endl;
    std::cout << "MultiResolution Level : "
              << registration->GetCurrentLevel()  << std::endl;
    std::cout << std::endl;

	//if ( registration->GetCurrentLevel() != 0 ) //old
 //     {
 //     optimizer->SetMaximumStepLength( optimizer->GetCurrentStepLength()
);
 //     optimizer->SetMinimumStepLength( optimizer->GetMinimumStepLength() /
4.0 );
 //     }
	 if ( registration->GetCurrentLevel() == 0 )
      {
      optimizer->SetMaximumStepLength( 16.00 );
      optimizer->SetMinimumStepLength( 0.01 );
      }
    else
      {
      optimizer->SetMaximumStepLength( optimizer->GetMaximumStepLength() /
4.0 );
      optimizer->SetMinimumStepLength( optimizer->GetMinimumStepLength() /
10.0 );
      }	//mulit3
    optimizer->Print( std::cout );
  }

 /* void Execute(const itk::Object * , const itk::EventObject & )
    { return; }*/ //old
	void Execute(const itk::Object * , const itk::EventObject & ) ITK_OVERRIDE
    { return; } //multi3
};
// Software Guide : EndCodeSnippet




void exe_usage()
{
  std::cerr << "\n";
  std::cerr << "Usage: TwoProjection2D3DRegistration <options> Image2D1
ProjAngle1 Image2D2 ProjAngle2 Volume3D\n";
  std::cerr << "       Registers two 2D images to a 3D volume. \n\n";
  std::cerr << "   where <options> is one or more of the following:\n\n";
  std::cerr << "       <-h>                     Display (this) usage
information\n";
  std::cerr << "       <-v>                     Verbose output [default:
no]\n";
  std::cerr << "       <-dbg>                   Debugging output [default:
no]\n";
 // old
  std::cerr << "       <-n int>                 The number of scales to
apply [default: 2]\n";
  std::cerr << "       <-maxScale int>          The scale factor
corresponding to max resolution [default: 1]\n";
  std::cerr << "       <-step float float>      Maximum and minimum step
sizes [default: 4 and 0.01]\n";
 //end old
  std::cerr << "       <-scd float>             Source to isocenter distance
[default: 1000mm]\n";
  std::cerr << "       <-t float float float>   CT volume translation in x,
y, and z direction in mm \n";
  std::cerr << "       <-rx float>              CT volume rotation about x
axis in degrees \n";
  std::cerr << "       <-ry float>              CT volume rotation about y
axis in degrees \n";
  std::cerr << "       <-rz float>              CT volume rotation about z
axis in degrees \n";
  std::cerr << "       <-2dcx float float float float>    Central axis
positions of the 2D images in continuous indices \n";
  std::cerr << "       <-res float float float float>     Pixel spacing of
projection images in the isocenter plane [default: 1x1 mm]  \n";
  std::cerr << "       <-iso float float float> Isocenter location in voxel
in indices (center of rotation and projection center)\n";
  std::cerr << "       <-threshold float>       Intensity threshold below
which are ignore [default: 0]\n";
  std::cerr << "       <-o file>                Output image filename\n\n";
  std::cerr << "                                by  Jian Wu\n";
  std::cerr << "                                eewujian at hotmail.com\n";
  std::cerr << "                                (Univeristy of
Florida)\n\n";
  exit(EXIT_FAILURE);
}


int main( int argc, char *argv[] )
{
  char *fileImage2D1 = NULL;
  double projAngle1 = -999;
 /* char *fileImage2D2 = NULL;
  double projAngle2 = -999;*/
  char *fileVolume3D = NULL;
  // Default output file names
  const char *fileOutput1 = "Image2D1_Registered.tif";
  //const char *fileOutput2 = "Image2D2_Registered.tif";

  bool ok;
  bool verbose = false;
  bool debug = false;
  bool customized_iso = false;
  bool customized_2DCX = false; // Flag for customized 2D image central axis
positions
  bool customized_2DRES = false; // Flag for customized 2D image pixel
spacing

  unsigned int nScales = 2;	//OLD PROG
  int maxScale = 1;			//OLD PROG

  double rx = 0.;
  double ry = 0.;
  double rz = 0.;

  double tx = 0.;
  double ty = 0.;
  double tz = 0.;

  double cx = 0.;
  double cy = 0.;
  double cz = 0.;

  double scd = 1000.; // Source to isocenter distance

	
  double maxStepSize = 4.;	//OLD PROG
  double minStepSize = 1.;  //OLD PROG

  double image1centerX = 0.0;
  double image1centerY = 0.0;
  double image2centerX = 0.0;
  double image2centerY = 0.0;

  double image1resX = 1.0;
  double image1resY = 1.0;
  double image2resX = 1.0;
  double image2resY = 1.0;

  double threshold = 0.0;

  // Parse command line parameters

  //if (argc <= 5) //ORIGINAL
    if (argc <= 4)
		exe_usage();

  while (argc > 1)
    {
    ok = false;

    if ((ok == false) && (strcmp(argv[1], "-h") == 0))
      {
      argc--; argv++;
      ok = true;
      exe_usage();
      }

    if ((ok == false) && (strcmp(argv[1], "-v") == 0))
      {
      argc--; argv++;
      ok = true;
      verbose = true;
	  std::cout<<"INSIDE -v"<<std::endl;
      }

    if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-dbg&quot;) == 0))
      {
      argc--; argv++;
      ok = true;
      debug = true;
	    std::cout&lt;&lt;&quot;INSIDE -debug&quot;&lt;&lt;std::endl;
      }

    if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-scd&quot;) == 0))
      {
      argc--; argv++;
      ok = true;
      scd = atof(argv[1]);
      argc--; argv++;
	    std::cout&lt;&lt;&quot;INSIDE -scd&quot;&lt;&lt;std::endl;
      }

    if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-t&quot;) == 0))
      {
      argc--; argv++;
      ok = true;
      tx=atof(argv[1]);
      argc--; argv++;
      ty=atof(argv[1]);
      argc--; argv++;
      tz=atof(argv[1]);
      argc--; argv++;
	    std::cout&lt;&lt;&quot;INSIDE -t&quot;&lt;&lt;std::endl;
      }

    if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-rx&quot;) == 0))
      {
      argc--; argv++;
      ok = true;
      rx=atof(argv[1]);
      argc--; argv++;
	    std::cout&lt;&lt;&quot;INSIDE -rx&quot;&lt;&lt;std::endl;
      }

    if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-ry&quot;) == 0))
      {
      argc--; argv++;
      ok = true;
      ry=atof(argv[1]);
      argc--; argv++;
	    std::cout&lt;&lt;&quot;INSIDE -ry&quot;&lt;&lt;std::endl;
      }

    if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-rz&quot;) == 0))
      {
      argc--; argv++;
      ok = true;
      rz=atof(argv[1]);
	  //std::cout&lt;&lt;&quot;RZ INTIALIZALIZES&quot;&lt;&lt;std::endl;
      argc--; argv++;
	    std::cout&lt;&lt;&quot;INSIDE -rz&quot;&lt;&lt;std::endl;
      }

    if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-2dcx&quot;) == 0))
      {
      argc--; argv++;
      ok = true;
      image1centerX = atof(argv[1]);
      argc--; argv++;
      image1centerY = atof(argv[1]);
      argc--; argv++;
      image2centerX = atof(argv[1]);
      argc--; argv++;
      image2centerY = atof(argv[1]);
      argc--; argv++;
      customized_2DCX = true;
	    std::cout&lt;&lt;&quot;INSIDE -2dcx&quot;&lt;&lt;std::endl;
      }

    if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-res&quot;) == 0))
      {
      argc--; argv++;
      ok = true;
      image1resX = atof(argv[1]);
      argc--; argv++;
      image1resY = atof(argv[1]);
      argc--; argv++;
      image2resX = atof(argv[1]);
      argc--; argv++;
      image2resY = atof(argv[1]);
      argc--; argv++;
      customized_2DRES = true;
	    std::cout&lt;&lt;&quot;INSIDE -res&quot;&lt;&lt;std::endl;
      }

    if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-iso&quot;) == 0))
      {
      argc--; argv++;
      ok = true;
      cx=atof(argv[1]);
      argc--; argv++;
      cy=atof(argv[1]);
      argc--; argv++;
      cz=atof(argv[1]);
      argc--; argv++;
      customized_iso = true;
	    std::cout&lt;&lt;&quot;INSIDE -iso&quot;&lt;&lt;std::endl;
      }

    if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-threshold&quot;) ==
0))
      {
      argc--; argv++;
      ok = true;
      threshold=atof(argv[1]);
      argc--; argv++;
	    std::cout&lt;&lt;&quot;INSIDE -threshold&quot;&lt;&lt;std::endl;
      }

    if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-o&quot;) == 0))
      {
      argc--; argv++;
      ok = true;
      fileOutput1 = argv[1];
      argc--; argv++;
	  std::cout&lt;&lt;&quot;INSIDE -o&quot;&lt;&lt;std::endl;
      /*fileOutput2 = argv[1];
      argc--; argv++;*/
      }


    if (ok == false)
      {

      if (fileImage2D1 == NULL)
        {
        fileImage2D1 = argv[1];
        argc--;
        argv++;
		  std::cout&lt;&lt;&quot;INSIDE INTIALIZING FILE NAME
fileImage2D1&quot;&lt;&lt;std::endl;
        }

      if (projAngle1 == -999)
        {
        projAngle1 = atof(argv[1]);
        argc--;
        argv++;
		 std::cout&lt;&lt;&quot;INSIDE INTIALIZING FILE NAME
projAngle1&quot;&lt;&lt;std::endl;
        }

      //if (fileImage2D2 == NULL)
      //  {
      //  fileImage2D2 = argv[1];
      //  argc--;
      //  argv++;
      //  }

      //if (projAngle2 == -999)
      //  {
      //  projAngle2 = atof(argv[1]);
      //  argc--;
      //  argv++;
      //  }

      else if (fileVolume3D == NULL)
        {
        fileVolume3D = argv[1];
        argc--;
        argv++;
		std::cout&lt;&lt;&quot;INSIDE INTIALIZING FILE NAME
FileVolume3D&quot;&lt;&lt;std::endl;
        }

      else
        {
        std::cerr &lt;&lt; &quot;ERROR: Cannot parse argument &quot;
&lt;&lt; argv[1] &lt;&lt; std::endl;
        exe_usage();
        }
      }
    }

  if (verbose)
    {
    if (fileImage2D1)  std::cout &lt;&lt; &quot;Input 2D image 1: &quot;
&lt;&lt; fileImage2D1  &lt;&lt; std::endl;
    if (fileImage2D1)  std::cout &lt;&lt; &quot;Projection Angle 1: &quot;
&lt;&lt; projAngle1  &lt;&lt; std::endl;
    //if (fileImage2D2)  std::cout &lt;&lt; &quot;Input 2D image 2: &quot;
&lt;&lt; fileImage2D2  &lt;&lt; std::endl;
    //if (fileImage2D2)  std::cout &lt;&lt; &quot;Projection Angle 2: &quot;
&lt;&lt; projAngle2  &lt;&lt; std::endl;
    if (fileVolume3D) std::cout &lt;&lt; &quot;Input 3D image: &quot;
&lt;&lt; fileVolume3D &lt;&lt; std::endl;
    if (fileOutput1)   std::cout &lt;&lt; &quot;Output image 1: &quot;  
&lt;&lt; fileOutput1   &lt;&lt; std::endl;
    //if (fileOutput2)   std::cout &lt;&lt; &quot;Output image 2: &quot;  
&lt;&lt; fileOutput2   &lt;&lt; std::endl;
    }


  // We begin the program proper by defining the 2D and 3D images. The
  // {TwoProjectionImageRegistrationMethod} requires that both
  // images have the same dimension so the 2D image is given
  // dimension 3 and the size of the {z} dimension is set to unity.
  std::cout&lt;&lt;&quot;OUT OF THE INLIAZING LOOPS PROGRAM
STARTS!!&quot;&lt;&lt;std::endl;
  const    unsigned int    Dimension = 3;
  typedef  float           InternalPixelType;
  typedef  short           PixelType3D;

  typedef itk::Image&lt; PixelType3D, Dimension > ImageType3D;

  typedef unsigned char                            OutputPixelType;
  typedef itk::Image< OutputPixelType, Dimension > OutputImageType;

  // The following lines define each of the components used in the
  // registration: The transform, optimizer, metric, interpolator and
  // the registration method itself.

  typedef itk::Image< InternalPixelType, Dimension > InternalImageType;

  typedef itk::Euler3DTransform< double >  TransformType;

  typedef itk::RegularStepGradientDescentOptimizer      OptimizerType;

  //typedef itk::GradientDifferenceTwoImageToOneImageMetric<
 /* typedef itk::NormalizedCorrelationTwoImageToOneImageMetric<
    InternalImageType,
    InternalImageType >    MetricType;*/
   typedef itk::NormalizedCorrelationImageToImageMetric<
    InternalImageType,
    InternalImageType >    MetricType;
  
  typedef itk::SiddonJacobsRayCastInterpolateImageFunction<
    InternalImageType,
    double > InterpolatorType;


 /* typedef itk::TwoProjectionImageRegistrationMethod<
    InternalImageType,
    InternalImageType >   RegistrationType;*/
  typedef itk::MultiResolutionImageRegistrationMethod<
                                    InternalImageType,
                                    InternalImageType >    RegistrationType;

  // Software Guide : BeginCodeSnippet  //THESE ARE THE CHANGES MADE
  typedef itk::MultiResolutionPyramidImageFilter<
                                    InternalImageType,
                                    InternalImageType > ImagePyramidType2D;
  typedef itk::MultiResolutionPyramidImageFilter<
                                    InternalImageType,
                                    InternalImageType > ImagePyramidType3D;
  // Software Guide : EndCodeSnippet


  // Each of the registration components are instantiated in the
  // usual way...

    ImagePyramidType2D::Pointer imagePyramid2D = 
      ImagePyramidType2D::New();
  ImagePyramidType3D::Pointer imagePyramid3D =
      ImagePyramidType3D::New();


  std::cout<<"TYPES INTIALIZED"<<std::endl;
  MetricType::Pointer         metric        = MetricType::New();
  TransformType::Pointer      transform     = TransformType::New();
  OptimizerType::Pointer      optimizer     = OptimizerType::New();
  InterpolatorType::Pointer   interpolator1  = InterpolatorType::New();
  //InterpolatorType::Pointer   interpolator2  = InterpolatorType::New();
  RegistrationType::Pointer   registration  = RegistrationType::New();
  
 //metric->ComputeGradientOff(); //ORIGINAL
  metric->ComputeGradientOn();
  metric->SetSubtractMean( true );
  
  // and passed to the registration method:

  registration->SetMetric(    metric        );
  registration->SetOptimizer(     optimizer     );
  registration->SetTransform(     transform     );
  registration->SetInterpolator(  interpolator1  );
 // registration->SetInterpolator2(  interpolator2  );
   registration->SetFixedImagePyramid( imagePyramid2D );
  registration->SetMovingImagePyramid( imagePyramid3D ); //changes made from
2d/3d
  std::cout<<"REGISTRATION METHODS SET"<<std::endl;
  if (debug)
    {
    metric->DebugOn();
    //transform->DebugOn();
    //optimizer->DebugOn();
    interpolator1->DebugOn();
   // interpolator2->DebugOn();
    //registration->DebugOn();
    }


  //  The 2- and 3-D images are read from files,

  typedef itk::ImageFileReader< InternalImageType > ImageReaderType2D;
  typedef itk::ImageFileReader< ImageType3D >       ImageReaderType3D;

  ImageReaderType2D::Pointer imageReader2D1 = ImageReaderType2D::New();
 // ImageReaderType2D::Pointer imageReader2D2 = ImageReaderType2D::New();
  ImageReaderType3D::Pointer imageReader3D = ImageReaderType3D::New();

  imageReader2D1->SetFileName( fileImage2D1 );
  //imageReader2D2->SetFileName( fileImage2D2 );
  imageReader3D->SetFileName( fileVolume3D );
  imageReader3D->Update();
  std::cout<<"2d 3d volume filename SET"<<std::endl;
  ImageType3D::Pointer image3DIn = imageReader3D->GetOutput();

  // To simply Siddon-Jacob's fast ray-tracing algorithm, we force the
origin of the CT image
  // to be (0,0,0). Because we align the CT isocenter with the central axis,
the projection
  // geometry is fully defined. The origin of the CT image becomes
irrelavent.
  ImageType3D::PointType image3DOrigin;
  image3DOrigin[0] = 0.0;
  image3DOrigin[1] = 0.0;
  image3DOrigin[2] = 0.0;
  image3DIn->SetOrigin(image3DOrigin);
  std::cout<<"VOLUME ORIGIN SET"<<std::endl;
  InternalImageType::Pointer image_tmp1 = imageReader2D1->GetOutput();
  //InternalImageType::Pointer image_tmp2 = imageReader2D2->GetOutput();

  imageReader2D1->Update();
 // imageReader2D2->Update();

  if (customized_2DRES)
    {
    InternalImageType::SpacingType spacing;
    spacing[0] = image1resX;
    spacing[1] = image1resY;
    spacing[2] = 1.0;
    image_tmp1->SetSpacing( spacing );

  //  spacing[0] = image2resX;
  //  spacing[1] = image2resY;
  //  image_tmp2->SetSpacing( spacing );

    }
  // The input 2D images were loaded as 3D images. They were considered
  // as a single slice from a 3D volume. By default, images stored on the
  // disk are treated as if they have RAI orientation. After view point
  // transformation, the order of 2D image pixel reading is equivalent to
  // from inferior to superior. This is contradictory to the traditional
  // 2D x-ray image storage, in which a typical 2D image reader reads and
  // writes images from superior to inferior. Thus the loaded 2D DICOM
  // images should be flipped in y-direction. This was done by using a.
  // FilpImageFilter.
  typedef itk::FlipImageFilter< InternalImageType > FlipFilterType;
  FlipFilterType::Pointer flipFilter1 = FlipFilterType::New();
 // FlipFilterType::Pointer flipFilter2 = FlipFilterType::New();

  typedef FlipFilterType::FlipAxesArrayType FlipAxesArrayType;
  FlipAxesArrayType flipArray;
  flipArray[0] = 0;
  flipArray[1] = 1;
  flipArray[2] = 0;

  flipFilter1->SetFlipAxes( flipArray );
 // flipFilter2->SetFlipAxes( flipArray );

  flipFilter1->SetInput( imageReader2D1->GetOutput() );
  //flipFilter2->SetInput( imageReader2D2->GetOutput() );

  // The input 2D images may have 16 bits. We rescale the pixel value to
between 0-255.
  typedef itk::RescaleIntensityImageFilter<
    InternalImageType, InternalImageType > Input2DRescaleFilterType;

  Input2DRescaleFilterType::Pointer rescaler2D1 =
Input2DRescaleFilterType::New();
  rescaler2D1->SetOutputMinimum(   0 );
  rescaler2D1->SetOutputMaximum( 255 );
  rescaler2D1->SetInput( flipFilter1->GetOutput() );
  std::cout<<"flipFilter1->GetOutput()  SET"<<std::endl;
  /*Input2DRescaleFilterType::Pointer rescaler2D2 =
Input2DRescaleFilterType::New();
  rescaler2D2->SetOutputMinimum(   0 );
  rescaler2D2->SetOutputMaximum( 255 );
  rescaler2D2->SetInput( flipFilter2->GetOutput() );*/


  //  The 3D CT dataset is casted to the internal image type using
  //  {CastImageFilters}.

  typedef itk::CastImageFilter<
    ImageType3D, InternalImageType > CastFilterType3D;

  CastFilterType3D::Pointer caster3D = CastFilterType3D::New();
  caster3D->SetInput( image3DIn );

  rescaler2D1->Update();
  //rescaler2D2->Update();
  caster3D->Update();
    std::cout<<"caster3D->GetOutput()  SET"<<std::endl;

  registration->SetFixedImage(  rescaler2D1->GetOutput() );
  //registration->SetFixedImage2(  rescaler2D2->GetOutput() );
  registration->SetMovingImage( caster3D->GetOutput() );
  
    registration->SetFixedImageRegion( 
		rescaler2D1->GetOutput()->GetBufferedRegion() ); //changes made from 2d/3d
  // Initialise the transform
  // ~~~~~~~~~~~~~~~~~~~~~~~~

  // Set the order of the computation. Default ZXY
  transform->SetComputeZYX(true);


  // The transform is initialised with the translation [tx,ty,tz] and
  // rotation [rx,ry,rz] specified on the command line

  TransformType::OutputVectorType translation;

  translation[0] = tx;
  translation[1] = ty;
  translation[2] = tz;

  transform->SetTranslation(translation);
    std::cout<<"transform->SetTranslation(translation);  SET"<<std::endl;
  // constant for converting degrees to radians
  const double dtr = ( atan(1.0) * 4.0 ) / 180.0;
  transform->SetRotation(dtr*rx, dtr*ry, dtr*rz);
   std::cout<<"transform->SetRotation(dtr*rx, dtr*ry, dtr*rz) 
SET"<<std::endl;
  // The centre of rotation is set by default to the centre of the 3D
  // volume but can be offset from this position using a command
  // line specified translation [cx,cy,cz]

  ImageType3D::PointType origin3D = image3DIn->GetOrigin();
  const itk::Vector<double, 3> resolution3D = image3DIn->GetSpacing();

  typedef ImageType3D::RegionType      ImageRegionType3D;
  typedef ImageRegionType3D::SizeType  SizeType3D;

  ImageRegionType3D region3D = caster3D->GetOutput()->GetBufferedRegion();
  SizeType3D        size3D   = region3D.GetSize();

  TransformType::InputPointType isocenter;
  if (customized_iso)
    {
    // Isocenter location given by the user.
    isocenter[0] = origin3D[0] + resolution3D[0] * cx;
    isocenter[1] = origin3D[1] + resolution3D[1] * cy;
    isocenter[2] = origin3D[2] + resolution3D[2] * cz;
    }
  else
    {
    // Set the center of the image as the isocenter.
    isocenter[0] = origin3D[0] + resolution3D[0] * static_cast<double>(
size3D[0] ) / 2.0;
    isocenter[1] = origin3D[1] + resolution3D[1] * static_cast<double>(
size3D[1] ) / 2.0;
    isocenter[2] = origin3D[2] + resolution3D[2] * static_cast<double>(
size3D[2] ) / 2.0;
    }

  transform->SetCenter(isocenter);
									

  if (verbose)
    {
    std::cout << "3D image size: "
              << size3D[0] << ", " << size3D[1] << ", " << size3D[2] <<
std::endl
              << "   resolution: "
              << resolution3D[0] << ", " << resolution3D[1] << ", " <<
resolution3D[2] << std::endl
              << "Transform: " << transform << std::endl;
    }


  // Set the origin of the 2D image
  // ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

  // For correct (perspective) projection of the 3D volume, the 2D
  // image needs to be placed at a certain distance (the source-to-
  // isocenter distance {scd} ) from the focal point, and the normal
  // from the imaging plane to the focal point needs to be specified.
  //
  // By default, the imaging plane normal is set by default to the
  // center of the 2D image but may be modified from this using the
  // command line parameters [image1centerX, image1centerY,
  // image2centerX, image2centerY].

  double origin2D1[ Dimension ];
 // double origin2D2[ Dimension ];

  // Note: Two 2D images may have different image sizes and pixel
dimensions, although
  // scd are the same.

  const itk::Vector<double, 3> resolution2D1 =
imageReader2D1->GetOutput()->GetSpacing();
  //const itk::Vector<double, 3> resolution2D2 =
imageReader2D2->GetOutput()->GetSpacing();

  typedef InternalImageType::RegionType ImageRegionType2D;
  typedef ImageRegionType2D::SizeType   SizeType2D;

//  ImageRegionType2D region2D1 =
rescaler2D1->GetOutput()->GetBufferedRegion(); //ORIGINAL 2d/3d
  ImageRegionType2D region2D1 =
rescaler2D1->GetOutput()->GetLargestPossibleRegion();
  //  ImageRegionType2D region2D2 =
rescaler2D2->GetOutput()->GetBufferedRegion();
  SizeType2D        size2D1   = region2D1.GetSize();
 // SizeType2D        size2D2   = region2D2.GetSize();

  if (!customized_2DCX)
    { // Central axis positions are not given by the user. Use the image
centers
    // as the central axis position.
    image1centerX = ((double) size2D1[0] - 1.)/2.;
    image1centerY = ((double) size2D1[1] - 1.)/2.;
    //image2centerX = ((double) size2D2[0] - 1.)/2.;
   // image2centerY = ((double) size2D2[1] - 1.)/2.;
    }

  // 2D Image 1
  origin2D1[0] = - resolution2D1[0] * image1centerX;
  origin2D1[1] = - resolution2D1[1] * image1centerY;
  origin2D1[2] = - scd;

  imageReader2D1->GetOutput()->SetOrigin( origin2D1 );
  rescaler2D1->GetOutput()->SetOrigin( origin2D1 );

  //// 2D Image 2
  //origin2D2[0] = - resolution2D2[0] * image2centerX;
  //origin2D2[1] = - resolution2D2[1] * image2centerY;
  //origin2D2[2] = - scd;

  //imageReader2D2->GetOutput()->SetOrigin( origin2D2 );
  //rescaler2D2->GetOutput()->SetOrigin( origin2D2 );

  registration->SetFixedImageRegion(
rescaler2D1->GetOutput()->GetBufferedRegion() );
  //registration->SetFixedImageRegion2(
rescaler2D2->GetOutput()->GetBufferedRegion() );

  if (verbose)
    {
    std::cout << "2D image 1 size: "
              << size2D1[0] << ", " << size2D1[1] << ", " << size2D1[2] <<
std::endl
              << "   resolution: "
              << resolution2D1[0] << ", " << resolution2D1[1] << ", " <<
resolution2D1[2] << std::endl
              << "   and position: "
              << origin2D1[0] << ", " << origin2D1[1] << ", " <<
origin2D1[2] << std::endl;
             // << "2D image 2 size: "
              //<< size2D2[0] << ", " << size2D2[1] << ", " << size2D2[2] <<
std::endl
              //<< "   resolution: "
             // << resolution2D2[0] << ", " << resolution2D2[1] << ", " <<
resolution2D2[2] << std::endl
            //  << "   and position: "
           //   << origin2D2[0] << ", " << origin2D2[1] << ", " <<
origin2D2[2] << std::endl;
    }

 
//----------------------------------------------------------------------------
// Set the moving and fixed images' schedules
//----------------------------------------------------------------------------
  const unsigned int ResolutionLevels = 3;
  std::cout<<"\nSet the moving and fixed images' schedules"<<std::endl;
  RegistrationType::ScheduleType fixedSchedule( ResolutionLevels,Dimension
);
  fixedSchedule[0][0] = 4;
  fixedSchedule[0][1] = 4;
  fixedSchedule[0][2] = 1;
  fixedSchedule[1][0] = 2;
  fixedSchedule[1][1] = 2;
  fixedSchedule[1][2] = 1;
  fixedSchedule[2][0] = 1;
  fixedSchedule[2][1] = 1;
  fixedSchedule[2][2] = 1;

  RegistrationType::ScheduleType movingSchedule(
ResolutionLevels,Dimension);
  movingSchedule[0][0] = 4;
  movingSchedule[0][1] = 4;
  movingSchedule[0][2] = 4;
  movingSchedule[1][0] = 2;
  movingSchedule[1][1] = 2;
  movingSchedule[1][2] = 2;
  movingSchedule[2][0] = 1;
  movingSchedule[2][1] = 1;
  movingSchedule[2][2] = 1;

  registration->SetSchedules( fixedSchedule, movingSchedule );
  std::cout<<"\nSet the moving and fixed images' schedules to
registration"<<std::endl;
  




	//				//The old code start from here
 // // Set the pyramid schedule for the 2D image
 // // ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

 // // Software Guide : BeginLatex
 // //
 // // The multi-resolution hierachy is specified with respect to the 2D
 // // image. The number of scales or levels defaults to two, with each
level
 // // differing in resolution by a factor of two. The highest resolution
(final)
 // // level corresponds to the resolution of the input 2D image but
 // // this can be altered by the user via the \emph{maxScale} command
 // // line parameter. The number of scales \emph{nScales} can also be
 // // specified by the user.
 // //
 // // Software Guide : EndLatex
 // std::vector&lt;double> sampledRes2D;
 // std::vector<ImageRegionType2D> imageRegionPyramid2D;

 // imagePyramid2D->SetNumberOfLevels( nScales );
 // std::cout<<"imagepyramid 2d"<<std::endl;
 // 
 // sampledRes2D.reserve( nScales-1 );
 // std::cout&lt;&lt;&quot;sampledRes2D 
&quot;&lt;&lt;sampledRes2D[0]&lt;&lt;std::endl;
 // imageRegionPyramid2D.reserve( nScales );

 // typedef ImagePyramidType2D::ScheduleType   ScheduleType2D;
 // ScheduleType2D schedule2D = imagePyramid2D->GetSchedule();

 // for ( unsigned int dim = 0; dim < ImageType3D::ImageDimension; dim++ )
 //   {
 //   schedule2D[ nScales-1 ][ dim ] = maxScale;
	//std::cout<<"schedule2D["<<nScales-1&lt;&lt;&quot;][&quot;&lt;&lt;dim
&lt;&lt;&quot;]  &quot;&lt;&lt;schedule2D[ nScales-1 ][ dim
]&lt;&lt;std::endl;
 //   }

 // for ( int level=nScales-2; level >= 0; level-- )
 //   {
 //   for ( unsigned int dim = 0; dim < ImageType3D::ImageDimension; dim++ )
 //     {
 //     schedule2D[ level ][ dim ] = 2*schedule2D[ level+1 ][ dim ];
	//  std::cout<<"schedule2D["<<level&lt;&lt;&quot;][&quot;&lt;&lt;dim
&lt;&lt;&quot;]  &quot;&lt;&lt; 2*schedule2D[ level+1 ][ dim
]&lt;&lt;std::endl;
 //     }
 //   }
 // std::cout&lt;&lt;&quot;out of the imagepyramid type 2d
&quot;&lt;&lt;std::endl;
 // // Compute the 2D ImageRegion corresponding to each level of the 
 // // pyramid.

 // typedef ImageRegionType2D::IndexType       IndexType2D;
 // IndexType2D       inputStart2D = region2D1.GetIndex();

 // for ( unsigned int level=0; level &lt; nScales; level++ )
 //   {
 //   SizeType2D  size;
 //   IndexType2D start;
 //   sampledRes2D[ level ] = 0.; //this is the error ORIGINAL
	////sampledRes2D[ level ] = 1.; //this is the error
 //   for ( unsigned int dim = 0; dim &lt; ImageType3D::ImageDimension;
dim++ )
 //     {
 //     float scaleFactor = static_cast&lt;float>( schedule2D[ level ][ dim
] );

 //     size[ dim ] = static_cast<SizeType2D::SizeValueType>(
 //       floor( static_cast<float>( size2D1[ dim ] ) / scaleFactor ) );

 //     if( size[ dim ] < 1 )
 //       {
 //       size[ dim ] = 1;
 //       schedule2D[ level ][ dim ] = 1;
 //       }

 //      std::cout << level << " " << dim << " " 
 //               << size[ dim ] << " " << schedule2D[ level ][ dim ] 
 //               << std::endl;

 //      scaleFactor = static_cast<float>( schedule2D[ level ][ dim ] );
 //      start[ dim ] = static_cast<IndexType2D::IndexValueType>(
 //        ceil(  static_cast<float>( inputStart2D[ dim ] ) / scaleFactor )
); 

 //     if ( dim < 2 ) 
 //       {
 //       sampledRes2D[ level ] +=  scaleFactor*resolution2D1[ dim ]
 //                                *scaleFactor*resolution2D1[ dim ];
 //       }
 //     }

 //   sampledRes2D[ level ] = sqrt( sampledRes2D[ level ] );

 //   imageRegionPyramid2D[ level ].SetSize( size );
 //   imageRegionPyramid2D[ level ].SetIndex( start );
 //   }

 // imagePyramid2D->SetSchedule( schedule2D );


  //// Set the pyramid schedule for the 3D image
  //// ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

  //// Software Guide : BeginLatex
  ////
  //// The 3D image pyramid naturally contains the same number of levels
  //// as the multi-resolution schedule for the 2D image. In addition
  //// the sub-sampling factors for each level are set such that
  //// resolution of the 3D image in each case is reduced to no greater
  //// than the corresponding 2D image resolution at that scale. This
  //// ensures that the 3D volume is reduced in size as far as possible,
  //// minimising ray-casting computation time, whilst retaining
  //// sufficient information to ensure accurate production of the DRR
  //// at the resolution of the 2D image.
  ////
  //// Software Guide : EndLatex

  //std::vector<ImageRegionType3D> imageRegionPyramid3D;

  //imagePyramid3D->SetNumberOfLevels( nScales );
  //
  //imageRegionPyramid3D.reserve( nScales );

  //typedef ImagePyramidType3D::ScheduleType   ScheduleType3D;
  //ScheduleType3D schedule3D = imagePyramid3D->GetSchedule();
  //
  //// Compute the 2D image pyramid schedule such that the 3D volume
  //// resolution is no greater than the 2D image resolution.

  //for ( unsigned int level=0; level < nScales; level++ )
  //  {
  //  for ( unsigned int dim = 0; dim < ImageType3D::ImageDimension; dim++)
  //    {
  //    double res = resolution3D[ dim ];
  //    schedule3D[ level ][ dim ] = 1;
  //    while ( res*2. < sampledRes2D[ level ] ) 
  //      {
  //      schedule3D[ level ][ dim ] *= 2;
  //      res *= 2.;
  //      }
  //    }
  //  }
  // 
  //// Compute the 3D ImageRegion corresponding to each level of the 
  //// pyramid.

  //typedef ImageRegionType3D::IndexType       IndexType3D;
  //IndexType3D       inputStart3D = region3D.GetIndex();

  //for ( unsigned int level=0; level < nScales; level++ )
  //  {
  //  SizeType3D  size;
  //  IndexType3D start;
  //  for ( unsigned int dim = 0; dim < ImageType3D::ImageDimension; dim++)
  //    {
  //    float scaleFactor = static_cast<float>( schedule3D[ level ][ dim ]
);

  //    size[ dim ] = static_cast<SizeType3D::SizeValueType>(
  //      floor( static_cast<float>( size3D[ dim ] ) / scaleFactor ) );

  //    if( size[ dim ] < 1 )
  //      {
  //      size[ dim ] = 1;
  //      schedule3D[ level ][ dim ] = 1;
  //      }

  //    scaleFactor = static_cast<float>( schedule3D[ level ][ dim ] );
  //    start[ dim ] = static_cast<IndexType3D::IndexValueType>(
  //      ceil(  static_cast<float>( inputStart3D[ dim ] ) / scaleFactor )
); 
  //    }
  //  imageRegionPyramid3D[ level ].SetSize( size );
  //  imageRegionPyramid3D[ level ].SetIndex( start );
  //  }

  //imagePyramid3D->SetSchedule( schedule3D );


  // Initialize the ray cast interpolator
  // ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

  // The ray cast interpolator is used to project the 3D volume. It
  // does this by casting rays from the (transformed) focal point to
  // each (transformed) pixel coordinate in the 2D image.
  //
  // In addition a threshold may be specified to ensure that only
  // intensities greater than a given value contribute to the
  // projected volume. This can be used, for instance, to remove soft
  // tissue from projections of CT data and force the registration
  // to find a match which aligns bony structures in the images.

  // 2D Image 1
  interpolator1->SetProjectionAngle( dtr*projAngle1 );
  interpolator1->SetFocalPointToIsocenterDistance(scd);
  interpolator1->SetThreshold(threshold);
  interpolator1->SetTransform(transform);

  interpolator1->Initialize();
  std::cout<<"\nInterpolator"<<std::endl;
  // 2D Image 2
 /* interpolator2->SetProjectionAngle( dtr*projAngle2 );
  interpolator2->SetFocalPointToIsocenterDistance(scd);
  interpolator2->SetThreshold(threshold);
  interpolator2->SetTransform(transform);

  interpolator2->Initialize();
*/

  // Set up the transform and start position
  // ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

  // The registration start position is intialised using the
  // transformation parameters.

  
  
  registration->SetInitialTransformParameters( transform->GetParameters() );
  					//trying to set the FIXED parameter
//#if defined(ITK_FIXED_PARAMETERS_ARE_DOUBLE) // After 4.8.1
//   TransformType::FixedParametersType fixedParameters(3);
//#else                                         //Pre 4.8.1
//  TransformType::ParametersType fixedParameters(6);
//#endif
//  fixedParameters[0] = 0.0;
//  fixedParameters[1] = 0.0;
//  fixedParameters[3] = 0.0;
//  fixedParameters[4] = 0.0;
//  fixedParameters[5] = 0.0;
//  transform->SetFixedParameters( fixedParameters );
  
  // We wish to minimize the negative normalized correlation similarity
measure.

  // optimizer->SetMaximize( true );  // for
GradientDifferenceTwoImageToOneImageMetric
  optimizer->SetMaximize( false );  // for NCC ORIGINAL
  //optimizer->SetMaximize( true );		//NCC CHANGED
  
  optimizer->SetMaximumStepLength( maxStepSize );
  optimizer->SetMinimumStepLength( minStepSize ); 
  //optimizer->SetStepLength(2);  // ORGINAL 4
  //optimizer->SetStepTolerance( 0.01); //ORIGINAL 0.02
  //optimizer->SetValueTolerance( 0.00001 );//ORIGINAL 0.001
  //optimizer->SetMetricWorstPossibleValue(-0.2);
  optimizer->SetNumberOfIterations(200);
  // The optimizer weightings are set such that one degree equates to
  // one millimeter.
  
  itk::Optimizer::ScalesType weightings( transform->GetNumberOfParameters()
);
 
std::cout<<"transform->GetNumberOfParameters()==>"<<transform->GetNumberOfParameters()<<std::endl;
 /* weightings[0] = 1./dtr;
  weightings[1] = 1./dtr;		//ORIGINAL 
  weightings[2] = 1./dtr;
  weightings[3] = 1.;
  weightings[4] = 1.;
  weightings[5] = 1.;*/
  
  weightings[0] = 1./dtr;
  weightings[1] = 1./dtr;
  weightings[2] = 1./dtr;
  weightings[3] = 1.0;
  weightings[4] = 1.0;
  weightings[5] = 1.0;

  std::cout&lt;&lt;&quot;WEIGHTINGS
&quot;&lt;&lt;weightings[0]&lt;&lt;std::endl;
  optimizer->SetScales( weightings );
 // optimizer->SetMetricWorstPossibleValue(0);//to change the stop condition
  if (verbose)
    {
    optimizer->Print( std::cout );
    }


  // Create the observers
  // ~~~~~~~~~~~~~~~~~~~~

  CommandIterationUpdate::Pointer observer = CommandIterationUpdate::New();

  optimizer->AddObserver( itk::IterationEvent(), observer );

  // Software Guide : BeginLatex
  //
  //  Once all the registration components are in place we can create
  //  an instance of the interface command and connect it to the
  //  registration object using the \code{AddObserver()} method.
  //
  // Software Guide : EndLatex
  // Software Guide : BeginCodeSnippet
  typedef RegistrationInterfaceCommand<RegistrationType> CommandType;
  CommandType::Pointer command = CommandType::New();
  registration->AddObserver( itk::IterationEvent(), command );
  // Software Guide : EndCodeSnippet

  // Software Guide : BeginLatex
  //
  // Finally we set the number of multi-resolution levels:
  //
  // Software Guide : EndLatex
  // Software Guide : BeginCodeSnippet
  //registration->SetNumberOfLevels( nScales );
  //// Software Guide : EndCodeSnippet

  //imagePyramid3D->Print(std::cout);
  //imagePyramid2D->Print(std::cout);

  // Start the registration
  // ~~~~~~~~~~~~~~~~~~~~~~

  // Create a timer to record calculation time.
  itk::TimeProbesCollectorBase timer;

  if (verbose)
    {
    std::cout << "Starting the registration now..." << std::endl;
    }

  try
    {
    timer.Start("Registration");
    // Start the registration.
    registration->StartRegistration();
    timer.Stop("Registration");
    }
  catch( itk::ExceptionObject & err )
    {
    std::cout << "ExceptionObject caught !" << std::endl;
    std::cout << err << std::endl;
    return -1;
    }

  typedef RegistrationType::ParametersType ParametersType;
  ParametersType finalParameters =
registration->GetLastTransformParameters();

  const double RotationAlongX = finalParameters[0]/dtr; // Convert radian to
degree
  const double RotationAlongY = finalParameters[1]/dtr;
  const double RotationAlongZ = finalParameters[2]/dtr;
  const double TranslationAlongX = finalParameters[3];
  const double TranslationAlongY = finalParameters[4];
  const double TranslationAlongZ = finalParameters[5];

  const int numberOfIterations = optimizer->GetCurrentIteration();

  const double bestValue = optimizer->GetValue();

  std::cout << "Result = " << std::endl;
  std::cout << " Rotation Along X = " << RotationAlongX  << " deg" <<
std::endl;
  std::cout << " Rotation Along Y = " << RotationAlongY  << " deg" <<
std::endl;
  std::cout << " Rotation Along Z = " << RotationAlongZ  << " deg" <<
std::endl;
  std::cout << " Translation X = " << TranslationAlongX  << " mm" <<
std::endl;
  std::cout << " Translation Y = " << TranslationAlongY  << " mm" <<
std::endl;
  std::cout << " Translation Z = " << TranslationAlongZ  << " mm" <<
std::endl;
  std::cout << " Number Of Iterations = " << numberOfIterations <<
std::endl;
  std::cout << " Metric value  = " << bestValue          << std::endl;
  std::cout<<"GET STOP
"<<optimizer->GetStopConditionDescription()<<std::endl;

  // Write out the projection images at the registration position
  // ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

  TransformType::Pointer finalTransform = TransformType::New();
  // The transform is determined by the parameters and the rotation center.
  finalTransform->SetParameters( finalParameters );
  finalTransform->SetCenter(isocenter);

  typedef itk::ResampleImageFilter< InternalImageType, InternalImageType >
ResampleFilterType;

  // The ResampleImageFilter is the driving force for the projection image
generation.
  ResampleFilterType::Pointer resampleFilter1 = ResampleFilterType::New();

  resampleFilter1->SetInput( caster3D->GetOutput() ); // Link the 3D volume.
  resampleFilter1->SetDefaultPixelValue( 0 );

  // The parameters of interpolator1, such as ProjectionAngle and
FocalPointToIsocenterDistance
  // have been set before registration. Here we only need to replace the
initial
  // transform with the final transform.
  interpolator1->SetTransform( finalTransform );
  interpolator1->Initialize();
  resampleFilter1->SetInterpolator( interpolator1 );

  // The output 2D projection image has the same image size, origin, and the
pixel spacing as
  // those of the input 2D image.
  resampleFilter1->SetSize(
rescaler2D1->GetOutput()->GetLargestPossibleRegion().GetSize() );
  resampleFilter1->SetOutputOrigin(  rescaler2D1->GetOutput()->GetOrigin()
);
  resampleFilter1->SetOutputSpacing( rescaler2D1->GetOutput()->GetSpacing()
);

  // Do the same thing for the output image 2.
  ResampleFilterType::Pointer resampleFilter2 = ResampleFilterType::New();
  resampleFilter2->SetInput( caster3D->GetOutput() );
  resampleFilter2->SetDefaultPixelValue( 0 );

  // The parameters of interpolator2, such as ProjectionAngle and
FocalPointToIsocenterDistance
  // have been set before registration. Here we only need to replace the
initial
  // transform with the final transform.
 /* interpolator2->SetTransform( finalTransform );
  interpolator2->Initialize();
  resampleFilter2->SetInterpolator( interpolator2 );

  resampleFilter2->SetSize(
rescaler2D2->GetOutput()->GetLargestPossibleRegion().GetSize() );
  resampleFilter2->SetOutputOrigin(  rescaler2D2->GetOutput()->GetOrigin()
);
  resampleFilter2->SetOutputSpacing( rescaler2D2->GetOutput()->GetSpacing()
);
*/
 
/////////////////////////////---DEGUG--START----////////////////////////////////////
  if (debug)
    {
    InternalImageType::PointType outputorigin2D1 =
rescaler2D1->GetOutput()->GetOrigin();
    std::cout << "Output image 1 origin: " << outputorigin2D1[0] << ", " <<
outputorigin2D1[1]
              << ", " << outputorigin2D1[2] << std::endl;
    /*InternalImageType::PointType outputorigin2D2 =
rescaler2D2->GetOutput()->GetOrigin();
    std::cout << "Output image 2 origin: " << outputorigin2D2[0] << ", " <<
outputorigin2D2[1]
              << ", " << outputorigin2D2[2] << std::endl;*/
    }
 
/////////////////////////////---DEGUG--END----//////////////////////////////////////


  // As explained before, the computed projection is upsided-down.
  // Here we use a FilpImageFilter to flip the images in y-direction.
  flipFilter1->SetInput( resampleFilter1->GetOutput() );
  //flipFilter2->SetInput( resampleFilter2->GetOutput() ); //ORIGINAL
  // Rescale the intensity of the projection images to 0-255 for output.
  typedef itk::RescaleIntensityImageFilter<
    InternalImageType, OutputImageType > RescaleFilterType;

  RescaleFilterType::Pointer rescaler1 = RescaleFilterType::New();
  rescaler1->SetOutputMinimum(   0 );
  rescaler1->SetOutputMaximum( 255 );
  rescaler1->SetInput( flipFilter1->GetOutput() );	//ORIGINAL
 // rescaler1->SetInput( resampleFilter1->GetOutput() );

  //RescaleFilterType::Pointer rescaler2 = RescaleFilterType::New();
  //rescaler2->SetOutputMinimum(   0 );
  //rescaler2->SetOutputMaximum( 255 );
  //rescaler2->SetInput( flipFilter2->GetOutput() );	//ORIGINAL
 // rescaler2->SetInput( resampleFilter2->GetOutput() );


  typedef itk::ImageFileWriter< OutputImageType >  WriterType;
  WriterType::Pointer writer1 = WriterType::New();
  //WriterType::Pointer writer2 = WriterType::New();

  writer1->SetFileName( fileOutput1 );
  writer1->SetInput( rescaler1->GetOutput() );

  try
    {
    std::cout << "Writing image: " << fileOutput1 << std::endl;
    writer1->Update();
    }
  catch( itk::ExceptionObject & err )
    {
    std::cerr << "ERROR: ExceptionObject caught !" << std::endl;
    std::cerr << err << std::endl;
    }

  //writer2->SetFileName( fileOutput2 );
  //writer2->SetInput( rescaler2->GetOutput() );

  //try
  //  {
  //  std::cout << "Writing image: " << fileOutput2 << std::endl;
  //  writer2->Update();
  //  }
  //catch( itk::ExceptionObject & err )
  //  {
  //  std::cerr << "ERROR: ExceptionObject caught !" << std::endl;
  //  std::cerr << err << std::endl;
  //  }
  timer.Report();

  return EXIT_SUCCESS;
}




--
View this message in context: http://itk-users.7.n7.nabble.com/Multiresolution-Registration-error-while-trying-to-improve-a-journal-paper-tp36739p36751.html
Sent from the ITK - Users mailing list archive at Nabble.com.

From dzenanz at gmail.com  Mon Feb  8 09:45:07 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Mon, 8 Feb 2016 09:45:07 -0500
Subject: [ITK-users] Multiresolution Registration error while trying to
 improve a journal paper
In-Reply-To: <1454918603453-36751.post@n7.nabble.com>
References: <1454670288825-36739.post@n7.nabble.com>
 <CAPf2UMTQkcNxmc=-VhT7cOY1Tji0+ZgFTus_y33qtsBUnw6Z5A@mail.gmail.com>
 <1454918603453-36751.post@n7.nabble.com>
Message-ID: <CAPf2UMQZFw9GDOuU0GyXvPf3qK9gUgkHvR-65i9qjhwzxFQAfg@mail.gmail.com>

Can you attache the source code as a file? When you pasted it into the
email, some long comments were wrapped and that made them non-comments.
There is over a 100 compiler error messages.

On Mon, Feb 8, 2016 at 3:03 AM, vishal <itkhelpacc at gmail.com> wrote:

> hey D?enan,
> this is the code below is a multiresolution version of the registration
> code
> in this
> https://github.com/InsightSoftwareConsortium/ITKTwoProjectionRegistration
> project... first when i tried to build and execute the code it shows the
> error "vector subscript is out of range".. then i tried to modified the
> github code keeping IntensityBased2D3DRegistration(the code below) as a
> reference it still shows another error called "access violation
> location...." ... kindly help me out...
> PLS NOTE:- i modified the code to take only one 2d image and one 3d volume
> inorder to perform registration. to run this code u will have to build the
> GetSiddonRayCastTracing.cxx code and obtain a projection. then build the
> code below and give the following arguments:
> Something.exe -v theProjectionFromtheStepAbove.dcm 0 3Dvolume.dcm
> where
> 0 is the projection angle.
> regards
> Vishal
>
> /*=========================================================================
>  *
>  *  Copyright Insight Software Consortium
>  *
>  *  Licensed under the Apache License, Version 2.0 (the "License");
>  *  you may not use this file except in compliance with the License.
>  *  You may obtain a copy of the License at
>  *
>  *         http://www.apache.org/licenses/LICENSE-2.0.txt
>  *
>  *  Unless required by applicable law or agreed to in writing, software
>  *  distributed under the License is distributed on an "AS IS" BASIS,
>  *  WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or
> implied.
>  *  See the License for the specific language governing permissions and
>  *  limitations under the License.
>  *
>
>
> *=========================================================================*/
>
> /*=========================================================================
>
>  This program implements an intensity based 2D-3D registration algorithm
> using the
>  SiddonJacobsRayCastInterpolateImageFunction and
> NormalizedCorrelationTwoImageToOneImageMetric
>  similarity measure
>
>  PowellOptimizer is used as the optimization method to avoid gradient
> calculation.
>  Euler3DTransform instead of CenteredEuler3DTransform is used to avoid the
> shift of the center.
>
>  When generating DRRs, the program attempts to simulate a 2D imaging system
> attached to a linac
>  for radiation therapy. The program registers two 2D portal images with
> their corresponding DRR
>  images generated from the 3D dataset. The portal images may be acquired at
> any arbitrary projection
>  angles. The similarity measure is the summation of the measures calculated
> each projection.
>  Multiresolution strategy was not implemented.
>
>  This program was modified from the ITK
> application--IntensityBased2D3DRegistration.cxx
>
> =========================================================================*/
> //#include "itkTwoProjectionImageRegistrationMethod.h"
>
> // The transformation used is a rigid 3D Euler transform with the
> // provision of a center of rotation which defaults to the center of
> // the 3D volume. In practice the center of the particular feature of
> // interest in the 3D volume should be used.
> #include <iostream>
>                                         //WRITTEN USING
> IntesityBased2D3dRegistration.cxx &
> MultiResImageRegistration3.cxx
> #include "itkEuler3DTransform.h"
>
> // We have chosen to implement the registration using the normalized
> coorelation
> // similarity measure.
>
> //#include "itkGradientDifferenceTwoImageToOneImageMetric.h"
> //#include "itkNormalizedCorrelationTwoImageToOneImageMetric.h"
>
> // This is an intensity based registration algorithm so ray casting is
> // used to project the 3D volume onto pixels in the target 2D image.
> #include "itkSiddonJacobsRayCastInterpolateImageFunction.h"
> #include "itkMultiResolutionImageRegistrationMethod.h"
> // Finally the Powell optimizer is used to avoid requiring gradient
> information.
> //#include "itkPowellOptimizer.h"
> #include "itkRegularStepGradientDescentOptimizer.h"
> #include "itkImageFileReader.h"
> #include "itkImageFileWriter.h"
>
> #include "itkResampleImageFilter.h"
> #include "itkCastImageFilter.h"
> #include "itkRescaleIntensityImageFilter.h"
> #include "itkFlipImageFilter.h"
>
> #include "itkCommand.h"
> #include "itkTimeProbesCollectorBase.h"
>
> //MODIFIED HEADERS
> //#include "itkImageRegistrationMethodv4.h"
> //#include <itkImageRegistrationMethod.h>
> #include <itkNormalizedCorrelationImageToImageMetric.h>
> //#include "itkMattesMutualInformationImageToImageMetric.h"
> //#include <itkObjectToObjectOptimizerBase.h>
> //#include "itkEuler3DTransform.h"
> //#include "itkPowellOptimizer.h"
> //
> //#include "itkImageFileReader.h"
> //#include "itkImageFileWriter.h"
> //
> //#include "itkResampleImageFilter.h"
> //#include "itkCastImageFilter.h"
> //#include "itkRescaleIntensityImageFilter.h"
> //#include "itkFlipImageFilter.h"
> //
> //#include "itkCommand.h"
> //#include "itkTimeProbesCollectorBase.h"
> //#include "itkSiddonJacobsRayCastInterpolateImageFunction.h"
> // First we define the command class to allow us to monitor the
> registration.
>
> class CommandIterationUpdate : public itk::Command
> {
> public:
>   typedef  CommandIterationUpdate Self;
>   typedef  itk::Command           Superclass;
>   typedef itk::SmartPointer<Self> Pointer;
>   itkNewMacro( Self );
>
> protected:
>   CommandIterationUpdate() {};
>
> public:
>   typedef itk::RegularStepGradientDescentOptimizer  OptimizerType;
>   typedef const OptimizerType * OptimizerPointer;
>
>   void Execute(itk::Object *caller, const itk::EventObject & event)
>   {
>     Execute( (const itk::Object *)caller, event);
>   }
>
>   void Execute(const itk::Object *object, const itk::EventObject & event)
>   {
>     OptimizerPointer optimizer =
>       dynamic_cast< OptimizerPointer >( object );
>     if( typeid( event ) != typeid( itk::IterationEvent ) )
>       {
>       return;
>       }
>     std::cout << "Iteration: " << optimizer->GetCurrentIteration() <<
> std::endl;
>     std::cout << "Similarity: " << optimizer->GetValue() << std::endl;
>     std::cout << "Position: " << optimizer->GetCurrentPosition() <<
> std::endl;
>         //std::cout<<"GETCURRENT LINE VALUE
> "<<optimizer->GetCurrentLineIteration()<< std::endl;
>   }
> };
>
>
> // Software Guide : BeginLatex
> //
> // A second \emph{Command/Observer} is used to reduce the minimum
> // registration step length on each occasion that the resolution of
> // the multi-scale registration is increased (see
> // \doxygen{MultiResImageRegistration1} for more info).
> //
> // Software Guide : EndLatex
> // Software Guide : BeginCodeSnippet
> template <typename TRegistration>
> class RegistrationInterfaceCommand : public itk::Command
> {
> public:
>   typedef  RegistrationInterfaceCommand   Self;
>   typedef  itk::Command                   Superclass;
>   typedef  itk::SmartPointer<Self>        Pointer;
>   itkNewMacro( Self );
>
> protected:
>   RegistrationInterfaceCommand() {};
>
> public:
>   typedef   TRegistration                              RegistrationType;
>   typedef   RegistrationType *                         RegistrationPointer;
>   typedef   itk::RegularStepGradientDescentOptimizer   OptimizerType;
>   typedef   OptimizerType *                            OptimizerPointer;
>
>   void Execute(itk::Object * object, const itk::EventObject & event)
> ITK_OVERRIDE
>   {
>    /* if( typeid( event ) != typeid( itk::IterationEvent ) )
>       {
>       return;
>       }*/ //old
>            if( !(itk::IterationEvent().CheckEvent( &event )) )
>       {
>       return;
>       }
>
>    // RegistrationPointer registration =
>           //                  dynamic_cast<RegistrationPointer>( object );
>
>     RegistrationPointer registration = static_cast<RegistrationPointer>(
> object );
>
>     // If this is the first resolution level we assume that the
>     // maximum step length (representing the first step size) and the
>     // minimum step length (representing the convergence criterion)
>     // have already been set.  At each subsequent resolution level, we
>     // will reduce the minimum step length by a factor of four in order
>     // to allow the optimizer to focus on progressively smaller
>     // regions. The maximum step length is set to the current step
>     // length. In this way, when the optimizer is reinitialized at the
>     // beginning of the registration process for the next level, the
>     // step length will simply start with the last value used for the
>     // previous level. This will guarantee the continuity of the path
>     // taken by the optimizer through the parameter space.
>           if(registration == ITK_NULLPTR)
>       {
>       return;
>       }
>     /*OptimizerPointer optimizer = dynamic_cast< OptimizerPointer >(
>                        registration->GetOptimizer() );*/
>         OptimizerPointer optimizer = static_cast< OptimizerPointer
> >(registration->GetModifiableOptimizer() );
>
>         std::cout << "-------------------------------------" << std::endl;
>     std::cout << "MultiResolution Level : "
>               << registration->GetCurrentLevel()  << std::endl;
>     std::cout << std::endl;
>
>         //if ( registration->GetCurrentLevel() != 0 ) //old
>  //     {
>  //     optimizer->SetMaximumStepLength( optimizer->GetCurrentStepLength()
> );
>  //     optimizer->SetMinimumStepLength( optimizer->GetMinimumStepLength()
> /
> 4.0 );
>  //     }
>          if ( registration->GetCurrentLevel() == 0 )
>       {
>       optimizer->SetMaximumStepLength( 16.00 );
>       optimizer->SetMinimumStepLength( 0.01 );
>       }
>     else
>       {
>       optimizer->SetMaximumStepLength( optimizer->GetMaximumStepLength() /
> 4.0 );
>       optimizer->SetMinimumStepLength( optimizer->GetMinimumStepLength() /
> 10.0 );
>       } //mulit3
>     optimizer->Print( std::cout );
>   }
>
>  /* void Execute(const itk::Object * , const itk::EventObject & )
>     { return; }*/ //old
>         void Execute(const itk::Object * , const itk::EventObject & )
> ITK_OVERRIDE
>     { return; } //multi3
> };
> // Software Guide : EndCodeSnippet
>
>
>
>
> void exe_usage()
> {
>   std::cerr << "\n";
>   std::cerr << "Usage: TwoProjection2D3DRegistration <options> Image2D1
> ProjAngle1 Image2D2 ProjAngle2 Volume3D\n";
>   std::cerr << "       Registers two 2D images to a 3D volume. \n\n";
>   std::cerr << "   where <options> is one or more of the following:\n\n";
>   std::cerr << "       <-h>                     Display (this) usage
> information\n";
>   std::cerr << "       <-v>                     Verbose output [default:
> no]\n";
>   std::cerr << "       <-dbg>                   Debugging output [default:
> no]\n";
>  // old
>   std::cerr << "       <-n int>                 The number of scales to
> apply [default: 2]\n";
>   std::cerr << "       <-maxScale int>          The scale factor
> corresponding to max resolution [default: 1]\n";
>   std::cerr << "       <-step float float>      Maximum and minimum step
> sizes [default: 4 and 0.01]\n";
>  //end old
>   std::cerr << "       <-scd float>             Source to isocenter
> distance
> [default: 1000mm]\n";
>   std::cerr << "       <-t float float float>   CT volume translation in x,
> y, and z direction in mm \n";
>   std::cerr << "       <-rx float>              CT volume rotation about x
> axis in degrees \n";
>   std::cerr << "       <-ry float>              CT volume rotation about y
> axis in degrees \n";
>   std::cerr << "       <-rz float>              CT volume rotation about z
> axis in degrees \n";
>   std::cerr << "       <-2dcx float float float float>    Central axis
> positions of the 2D images in continuous indices \n";
>   std::cerr << "       <-res float float float float>     Pixel spacing of
> projection images in the isocenter plane [default: 1x1 mm]  \n";
>   std::cerr << "       <-iso float float float> Isocenter location in voxel
> in indices (center of rotation and projection center)\n";
>   std::cerr << "       <-threshold float>       Intensity threshold below
> which are ignore [default: 0]\n";
>   std::cerr << "       <-o file>                Output image filename\n\n";
>   std::cerr << "                                by  Jian Wu\n";
>   std::cerr << "                                eewujian at hotmail.com\n";
>   std::cerr << "                                (Univeristy of
> Florida)\n\n";
>   exit(EXIT_FAILURE);
> }
>
>
> int main( int argc, char *argv[] )
> {
>   char *fileImage2D1 = NULL;
>   double projAngle1 = -999;
>  /* char *fileImage2D2 = NULL;
>   double projAngle2 = -999;*/
>   char *fileVolume3D = NULL;
>   // Default output file names
>   const char *fileOutput1 = "Image2D1_Registered.tif";
>   //const char *fileOutput2 = "Image2D2_Registered.tif";
>
>   bool ok;
>   bool verbose = false;
>   bool debug = false;
>   bool customized_iso = false;
>   bool customized_2DCX = false; // Flag for customized 2D image central
> axis
> positions
>   bool customized_2DRES = false; // Flag for customized 2D image pixel
> spacing
>
>   unsigned int nScales = 2;     //OLD PROG
>   int maxScale = 1;                     //OLD PROG
>
>   double rx = 0.;
>   double ry = 0.;
>   double rz = 0.;
>
>   double tx = 0.;
>   double ty = 0.;
>   double tz = 0.;
>
>   double cx = 0.;
>   double cy = 0.;
>   double cz = 0.;
>
>   double scd = 1000.; // Source to isocenter distance
>
>
>   double maxStepSize = 4.;      //OLD PROG
>   double minStepSize = 1.;  //OLD PROG
>
>   double image1centerX = 0.0;
>   double image1centerY = 0.0;
>   double image2centerX = 0.0;
>   double image2centerY = 0.0;
>
>   double image1resX = 1.0;
>   double image1resY = 1.0;
>   double image2resX = 1.0;
>   double image2resY = 1.0;
>
>   double threshold = 0.0;
>
>   // Parse command line parameters
>
>   //if (argc <= 5) //ORIGINAL
>     if (argc <= 4)
>                 exe_usage();
>
>   while (argc > 1)
>     {
>     ok = false;
>
>     if ((ok == false) && (strcmp(argv[1], "-h") == 0))
>       {
>       argc--; argv++;
>       ok = true;
>       exe_usage();
>       }
>
>     if ((ok == false) && (strcmp(argv[1], "-v") == 0))
>       {
>       argc--; argv++;
>       ok = true;
>       verbose = true;
>           std::cout<<"INSIDE -v"<<std::endl;
>       }
>
>     if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-dbg&quot;) == 0))
>       {
>       argc--; argv++;
>       ok = true;
>       debug = true;
>             std::cout&lt;&lt;&quot;INSIDE -debug&quot;&lt;&lt;std::endl;
>       }
>
>     if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-scd&quot;) == 0))
>       {
>       argc--; argv++;
>       ok = true;
>       scd = atof(argv[1]);
>       argc--; argv++;
>             std::cout&lt;&lt;&quot;INSIDE -scd&quot;&lt;&lt;std::endl;
>       }
>
>     if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-t&quot;) == 0))
>       {
>       argc--; argv++;
>       ok = true;
>       tx=atof(argv[1]);
>       argc--; argv++;
>       ty=atof(argv[1]);
>       argc--; argv++;
>       tz=atof(argv[1]);
>       argc--; argv++;
>             std::cout&lt;&lt;&quot;INSIDE -t&quot;&lt;&lt;std::endl;
>       }
>
>     if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-rx&quot;) == 0))
>       {
>       argc--; argv++;
>       ok = true;
>       rx=atof(argv[1]);
>       argc--; argv++;
>             std::cout&lt;&lt;&quot;INSIDE -rx&quot;&lt;&lt;std::endl;
>       }
>
>     if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-ry&quot;) == 0))
>       {
>       argc--; argv++;
>       ok = true;
>       ry=atof(argv[1]);
>       argc--; argv++;
>             std::cout&lt;&lt;&quot;INSIDE -ry&quot;&lt;&lt;std::endl;
>       }
>
>     if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-rz&quot;) == 0))
>       {
>       argc--; argv++;
>       ok = true;
>       rz=atof(argv[1]);
>           //std::cout&lt;&lt;&quot;RZ
> INTIALIZALIZES&quot;&lt;&lt;std::endl;
>       argc--; argv++;
>             std::cout&lt;&lt;&quot;INSIDE -rz&quot;&lt;&lt;std::endl;
>       }
>
>     if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-2dcx&quot;) == 0))
>       {
>       argc--; argv++;
>       ok = true;
>       image1centerX = atof(argv[1]);
>       argc--; argv++;
>       image1centerY = atof(argv[1]);
>       argc--; argv++;
>       image2centerX = atof(argv[1]);
>       argc--; argv++;
>       image2centerY = atof(argv[1]);
>       argc--; argv++;
>       customized_2DCX = true;
>             std::cout&lt;&lt;&quot;INSIDE -2dcx&quot;&lt;&lt;std::endl;
>       }
>
>     if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-res&quot;) == 0))
>       {
>       argc--; argv++;
>       ok = true;
>       image1resX = atof(argv[1]);
>       argc--; argv++;
>       image1resY = atof(argv[1]);
>       argc--; argv++;
>       image2resX = atof(argv[1]);
>       argc--; argv++;
>       image2resY = atof(argv[1]);
>       argc--; argv++;
>       customized_2DRES = true;
>             std::cout&lt;&lt;&quot;INSIDE -res&quot;&lt;&lt;std::endl;
>       }
>
>     if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-iso&quot;) == 0))
>       {
>       argc--; argv++;
>       ok = true;
>       cx=atof(argv[1]);
>       argc--; argv++;
>       cy=atof(argv[1]);
>       argc--; argv++;
>       cz=atof(argv[1]);
>       argc--; argv++;
>       customized_iso = true;
>             std::cout&lt;&lt;&quot;INSIDE -iso&quot;&lt;&lt;std::endl;
>       }
>
>     if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-threshold&quot;)
> ==
> 0))
>       {
>       argc--; argv++;
>       ok = true;
>       threshold=atof(argv[1]);
>       argc--; argv++;
>             std::cout&lt;&lt;&quot;INSIDE
> -threshold&quot;&lt;&lt;std::endl;
>       }
>
>     if ((ok == false) &amp;&amp; (strcmp(argv[1], &quot;-o&quot;) == 0))
>       {
>       argc--; argv++;
>       ok = true;
>       fileOutput1 = argv[1];
>       argc--; argv++;
>           std::cout&lt;&lt;&quot;INSIDE -o&quot;&lt;&lt;std::endl;
>       /*fileOutput2 = argv[1];
>       argc--; argv++;*/
>       }
>
>
>     if (ok == false)
>       {
>
>       if (fileImage2D1 == NULL)
>         {
>         fileImage2D1 = argv[1];
>         argc--;
>         argv++;
>                   std::cout&lt;&lt;&quot;INSIDE INTIALIZING FILE NAME
> fileImage2D1&quot;&lt;&lt;std::endl;
>         }
>
>       if (projAngle1 == -999)
>         {
>         projAngle1 = atof(argv[1]);
>         argc--;
>         argv++;
>                  std::cout&lt;&lt;&quot;INSIDE INTIALIZING FILE NAME
> projAngle1&quot;&lt;&lt;std::endl;
>         }
>
>       //if (fileImage2D2 == NULL)
>       //  {
>       //  fileImage2D2 = argv[1];
>       //  argc--;
>       //  argv++;
>       //  }
>
>       //if (projAngle2 == -999)
>       //  {
>       //  projAngle2 = atof(argv[1]);
>       //  argc--;
>       //  argv++;
>       //  }
>
>       else if (fileVolume3D == NULL)
>         {
>         fileVolume3D = argv[1];
>         argc--;
>         argv++;
>                 std::cout&lt;&lt;&quot;INSIDE INTIALIZING FILE NAME
> FileVolume3D&quot;&lt;&lt;std::endl;
>         }
>
>       else
>         {
>         std::cerr &lt;&lt; &quot;ERROR: Cannot parse argument &quot;
> &lt;&lt; argv[1] &lt;&lt; std::endl;
>         exe_usage();
>         }
>       }
>     }
>
>   if (verbose)
>     {
>     if (fileImage2D1)  std::cout &lt;&lt; &quot;Input 2D image 1: &quot;
> &lt;&lt; fileImage2D1  &lt;&lt; std::endl;
>     if (fileImage2D1)  std::cout &lt;&lt; &quot;Projection Angle 1: &quot;
> &lt;&lt; projAngle1  &lt;&lt; std::endl;
>     //if (fileImage2D2)  std::cout &lt;&lt; &quot;Input 2D image 2: &quot;
> &lt;&lt; fileImage2D2  &lt;&lt; std::endl;
>     //if (fileImage2D2)  std::cout &lt;&lt; &quot;Projection Angle 2:
> &quot;
> &lt;&lt; projAngle2  &lt;&lt; std::endl;
>     if (fileVolume3D) std::cout &lt;&lt; &quot;Input 3D image: &quot;
> &lt;&lt; fileVolume3D &lt;&lt; std::endl;
>     if (fileOutput1)   std::cout &lt;&lt; &quot;Output image 1: &quot;
> &lt;&lt; fileOutput1   &lt;&lt; std::endl;
>     //if (fileOutput2)   std::cout &lt;&lt; &quot;Output image 2: &quot;
> &lt;&lt; fileOutput2   &lt;&lt; std::endl;
>     }
>
>
>   // We begin the program proper by defining the 2D and 3D images. The
>   // {TwoProjectionImageRegistrationMethod} requires that both
>   // images have the same dimension so the 2D image is given
>   // dimension 3 and the size of the {z} dimension is set to unity.
>   std::cout&lt;&lt;&quot;OUT OF THE INLIAZING LOOPS PROGRAM
> STARTS!!&quot;&lt;&lt;std::endl;
>   const    unsigned int    Dimension = 3;
>   typedef  float           InternalPixelType;
>   typedef  short           PixelType3D;
>
>   typedef itk::Image&lt; PixelType3D, Dimension > ImageType3D;
>
>   typedef unsigned char                            OutputPixelType;
>   typedef itk::Image< OutputPixelType, Dimension > OutputImageType;
>
>   // The following lines define each of the components used in the
>   // registration: The transform, optimizer, metric, interpolator and
>   // the registration method itself.
>
>   typedef itk::Image< InternalPixelType, Dimension > InternalImageType;
>
>   typedef itk::Euler3DTransform< double >  TransformType;
>
>   typedef itk::RegularStepGradientDescentOptimizer      OptimizerType;
>
>   //typedef itk::GradientDifferenceTwoImageToOneImageMetric<
>  /* typedef itk::NormalizedCorrelationTwoImageToOneImageMetric<
>     InternalImageType,
>     InternalImageType >    MetricType;*/
>    typedef itk::NormalizedCorrelationImageToImageMetric<
>     InternalImageType,
>     InternalImageType >    MetricType;
>
>   typedef itk::SiddonJacobsRayCastInterpolateImageFunction<
>     InternalImageType,
>     double > InterpolatorType;
>
>
>  /* typedef itk::TwoProjectionImageRegistrationMethod<
>     InternalImageType,
>     InternalImageType >   RegistrationType;*/
>   typedef itk::MultiResolutionImageRegistrationMethod<
>                                     InternalImageType,
>                                     InternalImageType >
> RegistrationType;
>
>   // Software Guide : BeginCodeSnippet  //THESE ARE THE CHANGES MADE
>   typedef itk::MultiResolutionPyramidImageFilter<
>                                     InternalImageType,
>                                     InternalImageType > ImagePyramidType2D;
>   typedef itk::MultiResolutionPyramidImageFilter<
>                                     InternalImageType,
>                                     InternalImageType > ImagePyramidType3D;
>   // Software Guide : EndCodeSnippet
>
>
>   // Each of the registration components are instantiated in the
>   // usual way...
>
>     ImagePyramidType2D::Pointer imagePyramid2D =
>       ImagePyramidType2D::New();
>   ImagePyramidType3D::Pointer imagePyramid3D =
>       ImagePyramidType3D::New();
>
>
>   std::cout<<"TYPES INTIALIZED"<<std::endl;
>   MetricType::Pointer         metric        = MetricType::New();
>   TransformType::Pointer      transform     = TransformType::New();
>   OptimizerType::Pointer      optimizer     = OptimizerType::New();
>   InterpolatorType::Pointer   interpolator1  = InterpolatorType::New();
>   //InterpolatorType::Pointer   interpolator2  = InterpolatorType::New();
>   RegistrationType::Pointer   registration  = RegistrationType::New();
>
>  //metric->ComputeGradientOff(); //ORIGINAL
>   metric->ComputeGradientOn();
>   metric->SetSubtractMean( true );
>
>   // and passed to the registration method:
>
>   registration->SetMetric(    metric        );
>   registration->SetOptimizer(     optimizer     );
>   registration->SetTransform(     transform     );
>   registration->SetInterpolator(  interpolator1  );
>  // registration->SetInterpolator2(  interpolator2  );
>    registration->SetFixedImagePyramid( imagePyramid2D );
>   registration->SetMovingImagePyramid( imagePyramid3D ); //changes made
> from
> 2d/3d
>   std::cout<<"REGISTRATION METHODS SET"<<std::endl;
>   if (debug)
>     {
>     metric->DebugOn();
>     //transform->DebugOn();
>     //optimizer->DebugOn();
>     interpolator1->DebugOn();
>    // interpolator2->DebugOn();
>     //registration->DebugOn();
>     }
>
>
>   //  The 2- and 3-D images are read from files,
>
>   typedef itk::ImageFileReader< InternalImageType > ImageReaderType2D;
>   typedef itk::ImageFileReader< ImageType3D >       ImageReaderType3D;
>
>   ImageReaderType2D::Pointer imageReader2D1 = ImageReaderType2D::New();
>  // ImageReaderType2D::Pointer imageReader2D2 = ImageReaderType2D::New();
>   ImageReaderType3D::Pointer imageReader3D = ImageReaderType3D::New();
>
>   imageReader2D1->SetFileName( fileImage2D1 );
>   //imageReader2D2->SetFileName( fileImage2D2 );
>   imageReader3D->SetFileName( fileVolume3D );
>   imageReader3D->Update();
>   std::cout<<"2d 3d volume filename SET"<<std::endl;
>   ImageType3D::Pointer image3DIn = imageReader3D->GetOutput();
>
>   // To simply Siddon-Jacob's fast ray-tracing algorithm, we force the
> origin of the CT image
>   // to be (0,0,0). Because we align the CT isocenter with the central
> axis,
> the projection
>   // geometry is fully defined. The origin of the CT image becomes
> irrelavent.
>   ImageType3D::PointType image3DOrigin;
>   image3DOrigin[0] = 0.0;
>   image3DOrigin[1] = 0.0;
>   image3DOrigin[2] = 0.0;
>   image3DIn->SetOrigin(image3DOrigin);
>   std::cout<<"VOLUME ORIGIN SET"<<std::endl;
>   InternalImageType::Pointer image_tmp1 = imageReader2D1->GetOutput();
>   //InternalImageType::Pointer image_tmp2 = imageReader2D2->GetOutput();
>
>   imageReader2D1->Update();
>  // imageReader2D2->Update();
>
>   if (customized_2DRES)
>     {
>     InternalImageType::SpacingType spacing;
>     spacing[0] = image1resX;
>     spacing[1] = image1resY;
>     spacing[2] = 1.0;
>     image_tmp1->SetSpacing( spacing );
>
>   //  spacing[0] = image2resX;
>   //  spacing[1] = image2resY;
>   //  image_tmp2->SetSpacing( spacing );
>
>     }
>   // The input 2D images were loaded as 3D images. They were considered
>   // as a single slice from a 3D volume. By default, images stored on the
>   // disk are treated as if they have RAI orientation. After view point
>   // transformation, the order of 2D image pixel reading is equivalent to
>   // from inferior to superior. This is contradictory to the traditional
>   // 2D x-ray image storage, in which a typical 2D image reader reads and
>   // writes images from superior to inferior. Thus the loaded 2D DICOM
>   // images should be flipped in y-direction. This was done by using a.
>   // FilpImageFilter.
>   typedef itk::FlipImageFilter< InternalImageType > FlipFilterType;
>   FlipFilterType::Pointer flipFilter1 = FlipFilterType::New();
>  // FlipFilterType::Pointer flipFilter2 = FlipFilterType::New();
>
>   typedef FlipFilterType::FlipAxesArrayType FlipAxesArrayType;
>   FlipAxesArrayType flipArray;
>   flipArray[0] = 0;
>   flipArray[1] = 1;
>   flipArray[2] = 0;
>
>   flipFilter1->SetFlipAxes( flipArray );
>  // flipFilter2->SetFlipAxes( flipArray );
>
>   flipFilter1->SetInput( imageReader2D1->GetOutput() );
>   //flipFilter2->SetInput( imageReader2D2->GetOutput() );
>
>   // The input 2D images may have 16 bits. We rescale the pixel value to
> between 0-255.
>   typedef itk::RescaleIntensityImageFilter<
>     InternalImageType, InternalImageType > Input2DRescaleFilterType;
>
>   Input2DRescaleFilterType::Pointer rescaler2D1 =
> Input2DRescaleFilterType::New();
>   rescaler2D1->SetOutputMinimum(   0 );
>   rescaler2D1->SetOutputMaximum( 255 );
>   rescaler2D1->SetInput( flipFilter1->GetOutput() );
>   std::cout<<"flipFilter1->GetOutput()  SET"<<std::endl;
>   /*Input2DRescaleFilterType::Pointer rescaler2D2 =
> Input2DRescaleFilterType::New();
>   rescaler2D2->SetOutputMinimum(   0 );
>   rescaler2D2->SetOutputMaximum( 255 );
>   rescaler2D2->SetInput( flipFilter2->GetOutput() );*/
>
>
>   //  The 3D CT dataset is casted to the internal image type using
>   //  {CastImageFilters}.
>
>   typedef itk::CastImageFilter<
>     ImageType3D, InternalImageType > CastFilterType3D;
>
>   CastFilterType3D::Pointer caster3D = CastFilterType3D::New();
>   caster3D->SetInput( image3DIn );
>
>   rescaler2D1->Update();
>   //rescaler2D2->Update();
>   caster3D->Update();
>     std::cout<<"caster3D->GetOutput()  SET"<<std::endl;
>
>   registration->SetFixedImage(  rescaler2D1->GetOutput() );
>   //registration->SetFixedImage2(  rescaler2D2->GetOutput() );
>   registration->SetMovingImage( caster3D->GetOutput() );
>
>     registration->SetFixedImageRegion(
>                 rescaler2D1->GetOutput()->GetBufferedRegion() ); //changes
> made from 2d/3d
>   // Initialise the transform
>   // ~~~~~~~~~~~~~~~~~~~~~~~~
>
>   // Set the order of the computation. Default ZXY
>   transform->SetComputeZYX(true);
>
>
>   // The transform is initialised with the translation [tx,ty,tz] and
>   // rotation [rx,ry,rz] specified on the command line
>
>   TransformType::OutputVectorType translation;
>
>   translation[0] = tx;
>   translation[1] = ty;
>   translation[2] = tz;
>
>   transform->SetTranslation(translation);
>     std::cout<<"transform->SetTranslation(translation);  SET"<<std::endl;
>   // constant for converting degrees to radians
>   const double dtr = ( atan(1.0) * 4.0 ) / 180.0;
>   transform->SetRotation(dtr*rx, dtr*ry, dtr*rz);
>    std::cout<<"transform->SetRotation(dtr*rx, dtr*ry, dtr*rz)
> SET"<<std::endl;
>   // The centre of rotation is set by default to the centre of the 3D
>   // volume but can be offset from this position using a command
>   // line specified translation [cx,cy,cz]
>
>   ImageType3D::PointType origin3D = image3DIn->GetOrigin();
>   const itk::Vector<double, 3> resolution3D = image3DIn->GetSpacing();
>
>   typedef ImageType3D::RegionType      ImageRegionType3D;
>   typedef ImageRegionType3D::SizeType  SizeType3D;
>
>   ImageRegionType3D region3D = caster3D->GetOutput()->GetBufferedRegion();
>   SizeType3D        size3D   = region3D.GetSize();
>
>   TransformType::InputPointType isocenter;
>   if (customized_iso)
>     {
>     // Isocenter location given by the user.
>     isocenter[0] = origin3D[0] + resolution3D[0] * cx;
>     isocenter[1] = origin3D[1] + resolution3D[1] * cy;
>     isocenter[2] = origin3D[2] + resolution3D[2] * cz;
>     }
>   else
>     {
>     // Set the center of the image as the isocenter.
>     isocenter[0] = origin3D[0] + resolution3D[0] * static_cast<double>(
> size3D[0] ) / 2.0;
>     isocenter[1] = origin3D[1] + resolution3D[1] * static_cast<double>(
> size3D[1] ) / 2.0;
>     isocenter[2] = origin3D[2] + resolution3D[2] * static_cast<double>(
> size3D[2] ) / 2.0;
>     }
>
>   transform->SetCenter(isocenter);
>
>
>   if (verbose)
>     {
>     std::cout << "3D image size: "
>               << size3D[0] << ", " << size3D[1] << ", " << size3D[2] <<
> std::endl
>               << "   resolution: "
>               << resolution3D[0] << ", " << resolution3D[1] << ", " <<
> resolution3D[2] << std::endl
>               << "Transform: " << transform << std::endl;
>     }
>
>
>   // Set the origin of the 2D image
>   // ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>
>   // For correct (perspective) projection of the 3D volume, the 2D
>   // image needs to be placed at a certain distance (the source-to-
>   // isocenter distance {scd} ) from the focal point, and the normal
>   // from the imaging plane to the focal point needs to be specified.
>   //
>   // By default, the imaging plane normal is set by default to the
>   // center of the 2D image but may be modified from this using the
>   // command line parameters [image1centerX, image1centerY,
>   // image2centerX, image2centerY].
>
>   double origin2D1[ Dimension ];
>  // double origin2D2[ Dimension ];
>
>   // Note: Two 2D images may have different image sizes and pixel
> dimensions, although
>   // scd are the same.
>
>   const itk::Vector<double, 3> resolution2D1 =
> imageReader2D1->GetOutput()->GetSpacing();
>   //const itk::Vector<double, 3> resolution2D2 =
> imageReader2D2->GetOutput()->GetSpacing();
>
>   typedef InternalImageType::RegionType ImageRegionType2D;
>   typedef ImageRegionType2D::SizeType   SizeType2D;
>
> //  ImageRegionType2D region2D1 =
> rescaler2D1->GetOutput()->GetBufferedRegion(); //ORIGINAL 2d/3d
>   ImageRegionType2D region2D1 =
> rescaler2D1->GetOutput()->GetLargestPossibleRegion();
>   //  ImageRegionType2D region2D2 =
> rescaler2D2->GetOutput()->GetBufferedRegion();
>   SizeType2D        size2D1   = region2D1.GetSize();
>  // SizeType2D        size2D2   = region2D2.GetSize();
>
>   if (!customized_2DCX)
>     { // Central axis positions are not given by the user. Use the image
> centers
>     // as the central axis position.
>     image1centerX = ((double) size2D1[0] - 1.)/2.;
>     image1centerY = ((double) size2D1[1] - 1.)/2.;
>     //image2centerX = ((double) size2D2[0] - 1.)/2.;
>    // image2centerY = ((double) size2D2[1] - 1.)/2.;
>     }
>
>   // 2D Image 1
>   origin2D1[0] = - resolution2D1[0] * image1centerX;
>   origin2D1[1] = - resolution2D1[1] * image1centerY;
>   origin2D1[2] = - scd;
>
>   imageReader2D1->GetOutput()->SetOrigin( origin2D1 );
>   rescaler2D1->GetOutput()->SetOrigin( origin2D1 );
>
>   //// 2D Image 2
>   //origin2D2[0] = - resolution2D2[0] * image2centerX;
>   //origin2D2[1] = - resolution2D2[1] * image2centerY;
>   //origin2D2[2] = - scd;
>
>   //imageReader2D2->GetOutput()->SetOrigin( origin2D2 );
>   //rescaler2D2->GetOutput()->SetOrigin( origin2D2 );
>
>   registration->SetFixedImageRegion(
> rescaler2D1->GetOutput()->GetBufferedRegion() );
>   //registration->SetFixedImageRegion2(
> rescaler2D2->GetOutput()->GetBufferedRegion() );
>
>   if (verbose)
>     {
>     std::cout << "2D image 1 size: "
>               << size2D1[0] << ", " << size2D1[1] << ", " << size2D1[2] <<
> std::endl
>               << "   resolution: "
>               << resolution2D1[0] << ", " << resolution2D1[1] << ", " <<
> resolution2D1[2] << std::endl
>               << "   and position: "
>               << origin2D1[0] << ", " << origin2D1[1] << ", " <<
> origin2D1[2] << std::endl;
>              // << "2D image 2 size: "
>               //<< size2D2[0] << ", " << size2D2[1] << ", " << size2D2[2]
> <<
> std::endl
>               //<< "   resolution: "
>              // << resolution2D2[0] << ", " << resolution2D2[1] << ", " <<
> resolution2D2[2] << std::endl
>             //  << "   and position: "
>            //   << origin2D2[0] << ", " << origin2D2[1] << ", " <<
> origin2D2[2] << std::endl;
>     }
>
>
>
> //----------------------------------------------------------------------------
> // Set the moving and fixed images' schedules
>
> //----------------------------------------------------------------------------
>   const unsigned int ResolutionLevels = 3;
>   std::cout<<"\nSet the moving and fixed images' schedules"<<std::endl;
>   RegistrationType::ScheduleType fixedSchedule( ResolutionLevels,Dimension
> );
>   fixedSchedule[0][0] = 4;
>   fixedSchedule[0][1] = 4;
>   fixedSchedule[0][2] = 1;
>   fixedSchedule[1][0] = 2;
>   fixedSchedule[1][1] = 2;
>   fixedSchedule[1][2] = 1;
>   fixedSchedule[2][0] = 1;
>   fixedSchedule[2][1] = 1;
>   fixedSchedule[2][2] = 1;
>
>   RegistrationType::ScheduleType movingSchedule(
> ResolutionLevels,Dimension);
>   movingSchedule[0][0] = 4;
>   movingSchedule[0][1] = 4;
>   movingSchedule[0][2] = 4;
>   movingSchedule[1][0] = 2;
>   movingSchedule[1][1] = 2;
>   movingSchedule[1][2] = 2;
>   movingSchedule[2][0] = 1;
>   movingSchedule[2][1] = 1;
>   movingSchedule[2][2] = 1;
>
>   registration->SetSchedules( fixedSchedule, movingSchedule );
>   std::cout<<"\nSet the moving and fixed images' schedules to
> registration"<<std::endl;
>
>
>
>
>
>         //                              //The old code start from here
>  // // Set the pyramid schedule for the 2D image
>  // // ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>
>  // // Software Guide : BeginLatex
>  // //
>  // // The multi-resolution hierachy is specified with respect to the 2D
>  // // image. The number of scales or levels defaults to two, with each
> level
>  // // differing in resolution by a factor of two. The highest resolution
> (final)
>  // // level corresponds to the resolution of the input 2D image but
>  // // this can be altered by the user via the \emph{maxScale} command
>  // // line parameter. The number of scales \emph{nScales} can also be
>  // // specified by the user.
>  // //
>  // // Software Guide : EndLatex
>  // std::vector&lt;double> sampledRes2D;
>  // std::vector<ImageRegionType2D> imageRegionPyramid2D;
>
>  // imagePyramid2D->SetNumberOfLevels( nScales );
>  // std::cout<<"imagepyramid 2d"<<std::endl;
>  //
>  // sampledRes2D.reserve( nScales-1 );
>  // std::cout&lt;&lt;&quot;sampledRes2D
> &quot;&lt;&lt;sampledRes2D[0]&lt;&lt;std::endl;
>  // imageRegionPyramid2D.reserve( nScales );
>
>  // typedef ImagePyramidType2D::ScheduleType   ScheduleType2D;
>  // ScheduleType2D schedule2D = imagePyramid2D->GetSchedule();
>
>  // for ( unsigned int dim = 0; dim < ImageType3D::ImageDimension; dim++ )
>  //   {
>  //   schedule2D[ nScales-1 ][ dim ] = maxScale;
>
> //std::cout<<"schedule2D["<<nScales-1&lt;&lt;&quot;][&quot;&lt;&lt;dim
> &lt;&lt;&quot;]  &quot;&lt;&lt;schedule2D[ nScales-1 ][ dim
> ]&lt;&lt;std::endl;
>  //   }
>
>  // for ( int level=nScales-2; level >= 0; level-- )
>  //   {
>  //   for ( unsigned int dim = 0; dim < ImageType3D::ImageDimension; dim++
> )
>  //     {
>  //     schedule2D[ level ][ dim ] = 2*schedule2D[ level+1 ][ dim ];
>         //
> std::cout<<"schedule2D["<<level&lt;&lt;&quot;][&quot;&lt;&lt;dim
> &lt;&lt;&quot;]  &quot;&lt;&lt; 2*schedule2D[ level+1 ][ dim
> ]&lt;&lt;std::endl;
>  //     }
>  //   }
>  // std::cout&lt;&lt;&quot;out of the imagepyramid type 2d
> &quot;&lt;&lt;std::endl;
>  // // Compute the 2D ImageRegion corresponding to each level of the
>  // // pyramid.
>
>  // typedef ImageRegionType2D::IndexType       IndexType2D;
>  // IndexType2D       inputStart2D = region2D1.GetIndex();
>
>  // for ( unsigned int level=0; level &lt; nScales; level++ )
>  //   {
>  //   SizeType2D  size;
>  //   IndexType2D start;
>  //   sampledRes2D[ level ] = 0.; //this is the error ORIGINAL
>         ////sampledRes2D[ level ] = 1.; //this is the error
>  //   for ( unsigned int dim = 0; dim &lt; ImageType3D::ImageDimension;
> dim++ )
>  //     {
>  //     float scaleFactor = static_cast&lt;float>( schedule2D[ level ][ dim
> ] );
>
>  //     size[ dim ] = static_cast<SizeType2D::SizeValueType>(
>  //       floor( static_cast<float>( size2D1[ dim ] ) / scaleFactor ) );
>
>  //     if( size[ dim ] < 1 )
>  //       {
>  //       size[ dim ] = 1;
>  //       schedule2D[ level ][ dim ] = 1;
>  //       }
>
>  //      std::cout << level << " " << dim << " "
>  //               << size[ dim ] << " " << schedule2D[ level ][ dim ]
>  //               << std::endl;
>
>  //      scaleFactor = static_cast<float>( schedule2D[ level ][ dim ] );
>  //      start[ dim ] = static_cast<IndexType2D::IndexValueType>(
>  //        ceil(  static_cast<float>( inputStart2D[ dim ] ) / scaleFactor )
> );
>
>  //     if ( dim < 2 )
>  //       {
>  //       sampledRes2D[ level ] +=  scaleFactor*resolution2D1[ dim ]
>  //                                *scaleFactor*resolution2D1[ dim ];
>  //       }
>  //     }
>
>  //   sampledRes2D[ level ] = sqrt( sampledRes2D[ level ] );
>
>  //   imageRegionPyramid2D[ level ].SetSize( size );
>  //   imageRegionPyramid2D[ level ].SetIndex( start );
>  //   }
>
>  // imagePyramid2D->SetSchedule( schedule2D );
>
>
>   //// Set the pyramid schedule for the 3D image
>   //// ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>
>   //// Software Guide : BeginLatex
>   ////
>   //// The 3D image pyramid naturally contains the same number of levels
>   //// as the multi-resolution schedule for the 2D image. In addition
>   //// the sub-sampling factors for each level are set such that
>   //// resolution of the 3D image in each case is reduced to no greater
>   //// than the corresponding 2D image resolution at that scale. This
>   //// ensures that the 3D volume is reduced in size as far as possible,
>   //// minimising ray-casting computation time, whilst retaining
>   //// sufficient information to ensure accurate production of the DRR
>   //// at the resolution of the 2D image.
>   ////
>   //// Software Guide : EndLatex
>
>   //std::vector<ImageRegionType3D> imageRegionPyramid3D;
>
>   //imagePyramid3D->SetNumberOfLevels( nScales );
>   //
>   //imageRegionPyramid3D.reserve( nScales );
>
>   //typedef ImagePyramidType3D::ScheduleType   ScheduleType3D;
>   //ScheduleType3D schedule3D = imagePyramid3D->GetSchedule();
>   //
>   //// Compute the 2D image pyramid schedule such that the 3D volume
>   //// resolution is no greater than the 2D image resolution.
>
>   //for ( unsigned int level=0; level < nScales; level++ )
>   //  {
>   //  for ( unsigned int dim = 0; dim < ImageType3D::ImageDimension; dim++)
>   //    {
>   //    double res = resolution3D[ dim ];
>   //    schedule3D[ level ][ dim ] = 1;
>   //    while ( res*2. < sampledRes2D[ level ] )
>   //      {
>   //      schedule3D[ level ][ dim ] *= 2;
>   //      res *= 2.;
>   //      }
>   //    }
>   //  }
>   //
>   //// Compute the 3D ImageRegion corresponding to each level of the
>   //// pyramid.
>
>   //typedef ImageRegionType3D::IndexType       IndexType3D;
>   //IndexType3D       inputStart3D = region3D.GetIndex();
>
>   //for ( unsigned int level=0; level < nScales; level++ )
>   //  {
>   //  SizeType3D  size;
>   //  IndexType3D start;
>   //  for ( unsigned int dim = 0; dim < ImageType3D::ImageDimension; dim++)
>   //    {
>   //    float scaleFactor = static_cast<float>( schedule3D[ level ][ dim ]
> );
>
>   //    size[ dim ] = static_cast<SizeType3D::SizeValueType>(
>   //      floor( static_cast<float>( size3D[ dim ] ) / scaleFactor ) );
>
>   //    if( size[ dim ] < 1 )
>   //      {
>   //      size[ dim ] = 1;
>   //      schedule3D[ level ][ dim ] = 1;
>   //      }
>
>   //    scaleFactor = static_cast<float>( schedule3D[ level ][ dim ] );
>   //    start[ dim ] = static_cast<IndexType3D::IndexValueType>(
>   //      ceil(  static_cast<float>( inputStart3D[ dim ] ) / scaleFactor )
> );
>   //    }
>   //  imageRegionPyramid3D[ level ].SetSize( size );
>   //  imageRegionPyramid3D[ level ].SetIndex( start );
>   //  }
>
>   //imagePyramid3D->SetSchedule( schedule3D );
>
>
>   // Initialize the ray cast interpolator
>   // ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>
>   // The ray cast interpolator is used to project the 3D volume. It
>   // does this by casting rays from the (transformed) focal point to
>   // each (transformed) pixel coordinate in the 2D image.
>   //
>   // In addition a threshold may be specified to ensure that only
>   // intensities greater than a given value contribute to the
>   // projected volume. This can be used, for instance, to remove soft
>   // tissue from projections of CT data and force the registration
>   // to find a match which aligns bony structures in the images.
>
>   // 2D Image 1
>   interpolator1->SetProjectionAngle( dtr*projAngle1 );
>   interpolator1->SetFocalPointToIsocenterDistance(scd);
>   interpolator1->SetThreshold(threshold);
>   interpolator1->SetTransform(transform);
>
>   interpolator1->Initialize();
>   std::cout<<"\nInterpolator"<<std::endl;
>   // 2D Image 2
>  /* interpolator2->SetProjectionAngle( dtr*projAngle2 );
>   interpolator2->SetFocalPointToIsocenterDistance(scd);
>   interpolator2->SetThreshold(threshold);
>   interpolator2->SetTransform(transform);
>
>   interpolator2->Initialize();
> */
>
>   // Set up the transform and start position
>   // ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>
>   // The registration start position is intialised using the
>   // transformation parameters.
>
>
>
>   registration->SetInitialTransformParameters( transform->GetParameters()
> );
>                                         //trying to set the FIXED parameter
> //#if defined(ITK_FIXED_PARAMETERS_ARE_DOUBLE) // After 4.8.1
> //   TransformType::FixedParametersType fixedParameters(3);
> //#else                                         //Pre 4.8.1
> //  TransformType::ParametersType fixedParameters(6);
> //#endif
> //  fixedParameters[0] = 0.0;
> //  fixedParameters[1] = 0.0;
> //  fixedParameters[3] = 0.0;
> //  fixedParameters[4] = 0.0;
> //  fixedParameters[5] = 0.0;
> //  transform->SetFixedParameters( fixedParameters );
>
>   // We wish to minimize the negative normalized correlation similarity
> measure.
>
>   // optimizer->SetMaximize( true );  // for
> GradientDifferenceTwoImageToOneImageMetric
>   optimizer->SetMaximize( false );  // for NCC ORIGINAL
>   //optimizer->SetMaximize( true );             //NCC CHANGED
>
>   optimizer->SetMaximumStepLength( maxStepSize );
>   optimizer->SetMinimumStepLength( minStepSize );
>   //optimizer->SetStepLength(2);  // ORGINAL 4
>   //optimizer->SetStepTolerance( 0.01); //ORIGINAL 0.02
>   //optimizer->SetValueTolerance( 0.00001 );//ORIGINAL 0.001
>   //optimizer->SetMetricWorstPossibleValue(-0.2);
>   optimizer->SetNumberOfIterations(200);
>   // The optimizer weightings are set such that one degree equates to
>   // one millimeter.
>
>   itk::Optimizer::ScalesType weightings( transform->GetNumberOfParameters()
> );
>
>
> std::cout<<"transform->GetNumberOfParameters()==>"<<transform->GetNumberOfParameters()<<std::endl;
>  /* weightings[0] = 1./dtr;
>   weightings[1] = 1./dtr;               //ORIGINAL
>   weightings[2] = 1./dtr;
>   weightings[3] = 1.;
>   weightings[4] = 1.;
>   weightings[5] = 1.;*/
>
>   weightings[0] = 1./dtr;
>   weightings[1] = 1./dtr;
>   weightings[2] = 1./dtr;
>   weightings[3] = 1.0;
>   weightings[4] = 1.0;
>   weightings[5] = 1.0;
>
>   std::cout&lt;&lt;&quot;WEIGHTINGS
> &quot;&lt;&lt;weightings[0]&lt;&lt;std::endl;
>   optimizer->SetScales( weightings );
>  // optimizer->SetMetricWorstPossibleValue(0);//to change the stop
> condition
>   if (verbose)
>     {
>     optimizer->Print( std::cout );
>     }
>
>
>   // Create the observers
>   // ~~~~~~~~~~~~~~~~~~~~
>
>   CommandIterationUpdate::Pointer observer = CommandIterationUpdate::New();
>
>   optimizer->AddObserver( itk::IterationEvent(), observer );
>
>   // Software Guide : BeginLatex
>   //
>   //  Once all the registration components are in place we can create
>   //  an instance of the interface command and connect it to the
>   //  registration object using the \code{AddObserver()} method.
>   //
>   // Software Guide : EndLatex
>   // Software Guide : BeginCodeSnippet
>   typedef RegistrationInterfaceCommand<RegistrationType> CommandType;
>   CommandType::Pointer command = CommandType::New();
>   registration->AddObserver( itk::IterationEvent(), command );
>   // Software Guide : EndCodeSnippet
>
>   // Software Guide : BeginLatex
>   //
>   // Finally we set the number of multi-resolution levels:
>   //
>   // Software Guide : EndLatex
>   // Software Guide : BeginCodeSnippet
>   //registration->SetNumberOfLevels( nScales );
>   //// Software Guide : EndCodeSnippet
>
>   //imagePyramid3D->Print(std::cout);
>   //imagePyramid2D->Print(std::cout);
>
>   // Start the registration
>   // ~~~~~~~~~~~~~~~~~~~~~~
>
>   // Create a timer to record calculation time.
>   itk::TimeProbesCollectorBase timer;
>
>   if (verbose)
>     {
>     std::cout << "Starting the registration now..." << std::endl;
>     }
>
>   try
>     {
>     timer.Start("Registration");
>     // Start the registration.
>     registration->StartRegistration();
>     timer.Stop("Registration");
>     }
>   catch( itk::ExceptionObject & err )
>     {
>     std::cout << "ExceptionObject caught !" << std::endl;
>     std::cout << err << std::endl;
>     return -1;
>     }
>
>   typedef RegistrationType::ParametersType ParametersType;
>   ParametersType finalParameters =
> registration->GetLastTransformParameters();
>
>   const double RotationAlongX = finalParameters[0]/dtr; // Convert radian
> to
> degree
>   const double RotationAlongY = finalParameters[1]/dtr;
>   const double RotationAlongZ = finalParameters[2]/dtr;
>   const double TranslationAlongX = finalParameters[3];
>   const double TranslationAlongY = finalParameters[4];
>   const double TranslationAlongZ = finalParameters[5];
>
>   const int numberOfIterations = optimizer->GetCurrentIteration();
>
>   const double bestValue = optimizer->GetValue();
>
>   std::cout << "Result = " << std::endl;
>   std::cout << " Rotation Along X = " << RotationAlongX  << " deg" <<
> std::endl;
>   std::cout << " Rotation Along Y = " << RotationAlongY  << " deg" <<
> std::endl;
>   std::cout << " Rotation Along Z = " << RotationAlongZ  << " deg" <<
> std::endl;
>   std::cout << " Translation X = " << TranslationAlongX  << " mm" <<
> std::endl;
>   std::cout << " Translation Y = " << TranslationAlongY  << " mm" <<
> std::endl;
>   std::cout << " Translation Z = " << TranslationAlongZ  << " mm" <<
> std::endl;
>   std::cout << " Number Of Iterations = " << numberOfIterations <<
> std::endl;
>   std::cout << " Metric value  = " << bestValue          << std::endl;
>   std::cout<<"GET STOP
> "<<optimizer->GetStopConditionDescription()<<std::endl;
>
>   // Write out the projection images at the registration position
>   // ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>
>   TransformType::Pointer finalTransform = TransformType::New();
>   // The transform is determined by the parameters and the rotation center.
>   finalTransform->SetParameters( finalParameters );
>   finalTransform->SetCenter(isocenter);
>
>   typedef itk::ResampleImageFilter< InternalImageType, InternalImageType >
> ResampleFilterType;
>
>   // The ResampleImageFilter is the driving force for the projection image
> generation.
>   ResampleFilterType::Pointer resampleFilter1 = ResampleFilterType::New();
>
>   resampleFilter1->SetInput( caster3D->GetOutput() ); // Link the 3D
> volume.
>   resampleFilter1->SetDefaultPixelValue( 0 );
>
>   // The parameters of interpolator1, such as ProjectionAngle and
> FocalPointToIsocenterDistance
>   // have been set before registration. Here we only need to replace the
> initial
>   // transform with the final transform.
>   interpolator1->SetTransform( finalTransform );
>   interpolator1->Initialize();
>   resampleFilter1->SetInterpolator( interpolator1 );
>
>   // The output 2D projection image has the same image size, origin, and
> the
> pixel spacing as
>   // those of the input 2D image.
>   resampleFilter1->SetSize(
> rescaler2D1->GetOutput()->GetLargestPossibleRegion().GetSize() );
>   resampleFilter1->SetOutputOrigin(  rescaler2D1->GetOutput()->GetOrigin()
> );
>   resampleFilter1->SetOutputSpacing( rescaler2D1->GetOutput()->GetSpacing()
> );
>
>   // Do the same thing for the output image 2.
>   ResampleFilterType::Pointer resampleFilter2 = ResampleFilterType::New();
>   resampleFilter2->SetInput( caster3D->GetOutput() );
>   resampleFilter2->SetDefaultPixelValue( 0 );
>
>   // The parameters of interpolator2, such as ProjectionAngle and
> FocalPointToIsocenterDistance
>   // have been set before registration. Here we only need to replace the
> initial
>   // transform with the final transform.
>  /* interpolator2->SetTransform( finalTransform );
>   interpolator2->Initialize();
>   resampleFilter2->SetInterpolator( interpolator2 );
>
>   resampleFilter2->SetSize(
> rescaler2D2->GetOutput()->GetLargestPossibleRegion().GetSize() );
>   resampleFilter2->SetOutputOrigin(  rescaler2D2->GetOutput()->GetOrigin()
> );
>   resampleFilter2->SetOutputSpacing( rescaler2D2->GetOutput()->GetSpacing()
> );
> */
>
>
> /////////////////////////////---DEGUG--START----////////////////////////////////////
>   if (debug)
>     {
>     InternalImageType::PointType outputorigin2D1 =
> rescaler2D1->GetOutput()->GetOrigin();
>     std::cout << "Output image 1 origin: " << outputorigin2D1[0] << ", " <<
> outputorigin2D1[1]
>               << ", " << outputorigin2D1[2] << std::endl;
>     /*InternalImageType::PointType outputorigin2D2 =
> rescaler2D2->GetOutput()->GetOrigin();
>     std::cout << "Output image 2 origin: " << outputorigin2D2[0] << ", " <<
> outputorigin2D2[1]
>               << ", " << outputorigin2D2[2] << std::endl;*/
>     }
>
>
> /////////////////////////////---DEGUG--END----//////////////////////////////////////
>
>
>   // As explained before, the computed projection is upsided-down.
>   // Here we use a FilpImageFilter to flip the images in y-direction.
>   flipFilter1->SetInput( resampleFilter1->GetOutput() );
>   //flipFilter2->SetInput( resampleFilter2->GetOutput() ); //ORIGINAL
>   // Rescale the intensity of the projection images to 0-255 for output.
>   typedef itk::RescaleIntensityImageFilter<
>     InternalImageType, OutputImageType > RescaleFilterType;
>
>   RescaleFilterType::Pointer rescaler1 = RescaleFilterType::New();
>   rescaler1->SetOutputMinimum(   0 );
>   rescaler1->SetOutputMaximum( 255 );
>   rescaler1->SetInput( flipFilter1->GetOutput() );      //ORIGINAL
>  // rescaler1->SetInput( resampleFilter1->GetOutput() );
>
>   //RescaleFilterType::Pointer rescaler2 = RescaleFilterType::New();
>   //rescaler2->SetOutputMinimum(   0 );
>   //rescaler2->SetOutputMaximum( 255 );
>   //rescaler2->SetInput( flipFilter2->GetOutput() );    //ORIGINAL
>  // rescaler2->SetInput( resampleFilter2->GetOutput() );
>
>
>   typedef itk::ImageFileWriter< OutputImageType >  WriterType;
>   WriterType::Pointer writer1 = WriterType::New();
>   //WriterType::Pointer writer2 = WriterType::New();
>
>   writer1->SetFileName( fileOutput1 );
>   writer1->SetInput( rescaler1->GetOutput() );
>
>   try
>     {
>     std::cout << "Writing image: " << fileOutput1 << std::endl;
>     writer1->Update();
>     }
>   catch( itk::ExceptionObject & err )
>     {
>     std::cerr << "ERROR: ExceptionObject caught !" << std::endl;
>     std::cerr << err << std::endl;
>     }
>
>   //writer2->SetFileName( fileOutput2 );
>   //writer2->SetInput( rescaler2->GetOutput() );
>
>   //try
>   //  {
>   //  std::cout << "Writing image: " << fileOutput2 << std::endl;
>   //  writer2->Update();
>   //  }
>   //catch( itk::ExceptionObject & err )
>   //  {
>   //  std::cerr << "ERROR: ExceptionObject caught !" << std::endl;
>   //  std::cerr << err << std::endl;
>   //  }
>   timer.Report();
>
>   return EXIT_SUCCESS;
> }
>
>
>
>
> --
> View this message in context:
> http://itk-users.7.n7.nabble.com/Multiresolution-Registration-error-while-trying-to-improve-a-journal-paper-tp36739p36751.html
> Sent from the ITK - Users mailing list archive at Nabble.com.
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
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From artioml at post.bgu.ac.il  Mon Feb  8 11:28:58 2016
From: artioml at post.bgu.ac.il (artioml)
Date: Mon, 8 Feb 2016 09:28:58 -0700 (MST)
Subject: [ITK-users] Passing adapters to a metric
Message-ID: <1454948938845-36755.post@n7.nabble.com>

Hello, 

I want to calculate MSE between the red and the green channel of a given
image. 
I have used an adapter as suggested in the examples section. But the metric
throws an exception. 

What does the error mean? Anyone has an idea how to fix the problem? Thank
you very much! 

Here is the error message: 

terminate called after throwing an instance of 'itk::ExceptionObject' 
  what(): 
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkDomainThreader.hxx:113: 
itk::ERROR:
MeanSquaresImageToImageMetricv4GetValueAndDerivativeThreader(0x1c32950): A
subclass of ThreadedDomainPartitioner::PartitionDomainreturned more
subdomains than were requested 

Here is the code: 

    typedef itk::RGBPixel<float>  InputPixelType; 
    const   unsigned int   Dimension = 2; 
    typedef itk::Image< InputPixelType, Dimension >   ImageType; 

    typedef itk::ImageAdaptor<  ImageType, RedChannelPixelAccessor >
RedImageAdaptorType; 
    RedImageAdaptorType::Pointer red_adaptor = RedImageAdaptorType::New(); 
    typedef itk::ImageAdaptor<  ImageType, GreenChannelPixelAccessor >
GreenImageAdaptorType; 
    GreenImageAdaptorType::Pointer green_adaptor =
GreenImageAdaptorType::New(); 

    typedef itk::ImageFileReader< ImageType >   ReaderType; 
    ReaderType::Pointer reader = ReaderType::New(); 
    reader->SetFileName( argv[1] ); 
    ImageType::Pointer imageRGB = reader->GetOutput(); 

    red_adaptor->SetImage( imageRGB ); 
    green_adaptor->SetImage( imageRGB ); 

    typedef itk::MeanSquaresImageToImageMetricv4< RedImageAdaptorType,
GreenImageAdaptorType >    MetricType; 
    MetricType::Pointer metric = MetricType::New(); 

    metric->SetFixedImage(red_adaptor); 
    metric->SetMovingImage(green_adaptor); 
    metric->SetMaximumNumberOfThreads(1); 
    metric->Initialize(); 
    std::cout << "Result: " << metric->GetValue() << std::endl;



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From itkhelpacc at gmail.com  Mon Feb  8 23:19:40 2016
From: itkhelpacc at gmail.com (vishal)
Date: Mon, 8 Feb 2016 21:19:40 -0700 (MST)
Subject: [ITK-users] Multiresolution Registration error while trying to
 improve a journal paper
In-Reply-To: <CAPf2UMQZFw9GDOuU0GyXvPf3qK9gUgkHvR-65i9qjhwzxFQAfg@mail.gmail.com>
References: <1454670288825-36739.post@n7.nabble.com>
 <CAPf2UMTQkcNxmc=-VhT7cOY1Tji0+ZgFTus_y33qtsBUnw6Z5A@mail.gmail.com>
 <1454918603453-36751.post@n7.nabble.com>
 <CAPf2UMQZFw9GDOuU0GyXvPf3qK9gUgkHvR-65i9qjhwzxFQAfg@mail.gmail.com>
Message-ID: <1454991580636-36756.post@n7.nabble.com>

hi D?enan,
Sorry.. I didnt no tat my bad..
Please find the source code attached with this mail..
Regards
Vishal 2D3DRegistrationMultiResolution.cxx
<http://itk-users.7.n7.nabble.com/file/n36756/2D3DRegistrationMultiResolution.cxx>  



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From gunjan_naik at persistent.com  Tue Feb  9 01:12:45 2016
From: gunjan_naik at persistent.com (Gunjan Naik)
Date: Tue, 9 Feb 2016 06:12:45 +0000
Subject: [ITK-users] Issue with Seed points in Geodesic Active contour
Message-ID: <SG2PR04MB12463AA9590DA6F3A5D5B788FBD60@SG2PR04MB1246.apcprd04.prod.outlook.com>

Hi All,

I am using geodesic active contour for brain tumor segmentation.

In that, I have to give seed points for creating level set.

I have calculated seed points using opencv, but when I input these points using 'TransformPhysicalPointToIndex' it throws error stating that index out of bounds.

It works for only points [(0,0)].

Please provide me directions.

Thanks and Regards,
Gunjan Naik


Gunjan G. Naik | Persistent LABS | PhD Student - University of Pune
gunjan_naik at persistent.com<mailto:gunjan_naik at persistent.com> | Cell: +91-8087996979 | Tel: +91-20-670 34878
Persistent Systems Ltd. | Partners in Innovation | www.persistent.com<http://www.persistent.com/>


DISCLAIMER
==========
This e-mail may contain privileged and confidential information which is the property of Persistent Systems Ltd. It is intended only for the use of the individual or entity to which it is addressed. If you are not the intended recipient, you are not authorized to read, retain, copy, print, distribute or use this message. If you have received this communication in error, please notify the sender and delete all copies of this message. Persistent Systems Ltd. does not accept any liability for virus infected mails.

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From itkhelpacc at gmail.com  Tue Feb  9 02:28:31 2016
From: itkhelpacc at gmail.com (vishal)
Date: Tue, 9 Feb 2016 00:28:31 -0700 (MST)
Subject: [ITK-users] Multiresolution Registration error while trying to
 improve a journal paper
In-Reply-To: <1454991580636-36756.post@n7.nabble.com>
References: <1454670288825-36739.post@n7.nabble.com>
 <CAPf2UMTQkcNxmc=-VhT7cOY1Tji0+ZgFTus_y33qtsBUnw6Z5A@mail.gmail.com>
 <1454918603453-36751.post@n7.nabble.com>
 <CAPf2UMQZFw9GDOuU0GyXvPf3qK9gUgkHvR-65i9qjhwzxFQAfg@mail.gmail.com>
 <1454991580636-36756.post@n7.nabble.com>
Message-ID: <1455002911697-36758.post@n7.nabble.com>

hi,
I made some changes to the code i attached previously no i getting this
error:

Starting the registration now...
Exception in the Metric )intialize caught!!
itk::ERROR: NormalizedCorrelationImageToImageMetric(0000000002832510):
Transform
 is not present
-------------------------------------
MultiResolution Level : 0

ExceptionObject caught !

itk::ExceptionObject (000000000027E8A0)
Location: "void __cdecl itk::NormalizedCorrelationImageToImageMetric<class
itk::
Image<float,3>,class itk::Image<float,3> >::GetValueAndDerivative(const
class it
k::OptimizerParameters<double> &,double &,class itk::Array<double> &) const"
File:
c:\itk\insighttoolkit-4.8.2\modules\registration\common\include\itkNormali
zedCorrelationImageToImageMetric.hxx
Line: 332
Description: itk::ERROR:
NormalizedCorrelationImageToImageMetric(000000000283251
0): The gradient image is null, maybe you forgot to call Initialize()

Please find the modified code along with this post... please help me out
with this problem!!
regards
Vishal

code:  RegularStepGradientDescentWithNGC.cxx
<http://itk-users.7.n7.nabble.com/file/n36758/RegularStepGradientDescentWithNGC.cxx>  



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From dzenanz at gmail.com  Tue Feb  9 10:18:18 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Tue, 9 Feb 2016 10:18:18 -0500
Subject: [ITK-users] Multiresolution Registration error while trying to
 improve a journal paper
In-Reply-To: <1455002911697-36758.post@n7.nabble.com>
References: <1454670288825-36739.post@n7.nabble.com>
 <CAPf2UMTQkcNxmc=-VhT7cOY1Tji0+ZgFTus_y33qtsBUnw6Z5A@mail.gmail.com>
 <1454918603453-36751.post@n7.nabble.com>
 <CAPf2UMQZFw9GDOuU0GyXvPf3qK9gUgkHvR-65i9qjhwzxFQAfg@mail.gmail.com>
 <1454991580636-36756.post@n7.nabble.com>
 <1455002911697-36758.post@n7.nabble.com>
Message-ID: <CAPf2UMT+1CMpgCYFkZoxkLsgv_oZtN8dwi=dZqrFtShFhO8U6g@mail.gmail.com>

Hey Vishal,

I tried setting the transform to the metric, and that gets rid of the
"transform not set" exception:
        metric->SetTransform(transform);
        metric->SetInterpolator(interpolator1);
        metric->Initialize();
Take a look at the Initialize method on line 300 in
ITK-git\Modules\Registration\Common\include\itkImageToImageMetric.hxx to
see all the things you need to provide to metric before a call to
initialize.

I guess that you are also migrating the code from registration V3 framework
to V4, in addition to going from 2 projections to 1, which complicates your
life. May I suggest you first do one, and once that works then the other?
E.g. first update the example to use V4 registration framework, and then
change the code to go from two projections to one.

Regards

On Tue, Feb 9, 2016 at 2:28 AM, vishal <itkhelpacc at gmail.com> wrote:

> hi,
> I made some changes to the code i attached previously no i getting this
> error:
>
> Starting the registration now...
> Exception in the Metric )intialize caught!!
> itk::ERROR: NormalizedCorrelationImageToImageMetric(0000000002832510):
> Transform
>  is not present
> -------------------------------------
> MultiResolution Level : 0
>
> ExceptionObject caught !
>
> itk::ExceptionObject (000000000027E8A0)
> Location: "void __cdecl itk::NormalizedCorrelationImageToImageMetric<class
> itk::
> Image<float,3>,class itk::Image<float,3> >::GetValueAndDerivative(const
> class it
> k::OptimizerParameters<double> &,double &,class itk::Array<double> &)
> const"
> File:
> c:\itk\insighttoolkit-4.8.2\modules\registration\common\include\itkNormali
> zedCorrelationImageToImageMetric.hxx
> Line: 332
> Description: itk::ERROR:
> NormalizedCorrelationImageToImageMetric(000000000283251
> 0): The gradient image is null, maybe you forgot to call Initialize()
>
> Please find the modified code along with this post... please help me out
> with this problem!!
> regards
> Vishal
>
> code:  RegularStepGradientDescentWithNGC.cxx
> <
> http://itk-users.7.n7.nabble.com/file/n36758/RegularStepGradientDescentWithNGC.cxx
> >
>
>
>
> --
> View this message in context:
> http://itk-users.7.n7.nabble.com/Multiresolution-Registration-error-while-trying-to-improve-a-journal-paper-tp36739p36758.html
> Sent from the ITK - Users mailing list archive at Nabble.com.
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
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From dzenanz at gmail.com  Tue Feb  9 10:23:01 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Tue, 9 Feb 2016 10:23:01 -0500
Subject: [ITK-users] Issue with Seed points in Geodesic Active contour
In-Reply-To: <SG2PR04MB12463AA9590DA6F3A5D5B788FBD60@SG2PR04MB1246.apcprd04.prod.outlook.com>
References: <SG2PR04MB12463AA9590DA6F3A5D5B788FBD60@SG2PR04MB1246.apcprd04.prod.outlook.com>
Message-ID: <CAPf2UMS_E3ONdE4ajOR3MxoLGa8xi6ctuXncbFwiS0GpJK+akA@mail.gmail.com>

Hi Naik,

you should provide your image's meta-information e.g. by:
std::cout<<theImageInQuestion;
as well as coordinates of the point which you try to pass. Then we will be
able to tell you what is wrong.

Regards,
D?enan

On Tue, Feb 9, 2016 at 1:12 AM, Gunjan Naik <gunjan_naik at persistent.com>
wrote:

> Hi All,
>
>
>
> I am using geodesic active contour for brain tumor segmentation.
>
>
>
> In that, I have to give seed points for creating level set.
>
>
>
> I have calculated seed points using opencv, but when I input these points
> using ?TransformPhysicalPointToIndex? it throws error stating that index
> out of bounds.
>
>
>
> It works for only points [(0,0)].
>
>
>
> Please provide me directions.
>
>
>
> Thanks and Regards,
>
> Gunjan Naik
>
>
>
>
>
> *Gunjan G. Naik **|** Persistent LABS | PhD Student ? University of Pune*
>
> *gunjan_naik at persistent.com <gunjan_naik at persistent.com>* *|** Cell:
> +91-8087996979 <%2B91-8087996979> **| **Tel: +91-20-670 34878*
>
> *Persistent Systems Ltd. | **Partners in Innovation **| *
> *www.persistent.com* <http://www.persistent.com/>
>
>
>
> DISCLAIMER ========== This e-mail may contain privileged and confidential
> information which is the property of Persistent Systems Ltd. It is intended
> only for the use of the individual or entity to which it is addressed. If
> you are not the intended recipient, you are not authorized to read, retain,
> copy, print, distribute or use this message. If you have received this
> communication in error, please notify the sender and delete all copies of
> this message. Persistent Systems Ltd. does not accept any liability for
> virus infected mails.
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
>
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From dzenanz at gmail.com  Tue Feb  9 10:47:55 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Tue, 9 Feb 2016 10:47:55 -0500
Subject: [ITK-users] Passing adapters to a metric
In-Reply-To: <1454948938845-36755.post@n7.nabble.com>
References: <1454948938845-36755.post@n7.nabble.com>
Message-ID: <CAPf2UMSynROHuUmVB8HcZVZexeT3z_jqOfFwjP+k2WLvrF_vYA@mail.gmail.com>

You lack a reader->Update(); call before reader->GetOutput(); call. Without
this the region passed to ThreadedDomainPartitioner is 0,0 which causes the
exception.

Regards

On Mon, Feb 8, 2016 at 11:28 AM, artioml <artioml at post.bgu.ac.il> wrote:

> Hello,
>
> I want to calculate MSE between the red and the green channel of a given
> image.
> I have used an adapter as suggested in the examples section. But the metric
> throws an exception.
>
> What does the error mean? Anyone has an idea how to fix the problem? Thank
> you very much!
>
> Here is the error message:
>
> terminate called after throwing an instance of 'itk::ExceptionObject'
>   what():
>
> /home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkDomainThreader.hxx:113:
> itk::ERROR:
> MeanSquaresImageToImageMetricv4GetValueAndDerivativeThreader(0x1c32950): A
> subclass of ThreadedDomainPartitioner::PartitionDomainreturned more
> subdomains than were requested
>
> Here is the code:
>
>     typedef itk::RGBPixel<float>  InputPixelType;
>     const   unsigned int   Dimension = 2;
>     typedef itk::Image< InputPixelType, Dimension >   ImageType;
>
>     typedef itk::ImageAdaptor<  ImageType, RedChannelPixelAccessor >
> RedImageAdaptorType;
>     RedImageAdaptorType::Pointer red_adaptor = RedImageAdaptorType::New();
>     typedef itk::ImageAdaptor<  ImageType, GreenChannelPixelAccessor >
> GreenImageAdaptorType;
>     GreenImageAdaptorType::Pointer green_adaptor =
> GreenImageAdaptorType::New();
>
>     typedef itk::ImageFileReader< ImageType >   ReaderType;
>     ReaderType::Pointer reader = ReaderType::New();
>     reader->SetFileName( argv[1] );
>     ImageType::Pointer imageRGB = reader->GetOutput();
>
>     red_adaptor->SetImage( imageRGB );
>     green_adaptor->SetImage( imageRGB );
>
>     typedef itk::MeanSquaresImageToImageMetricv4< RedImageAdaptorType,
> GreenImageAdaptorType >    MetricType;
>     MetricType::Pointer metric = MetricType::New();
>
>     metric->SetFixedImage(red_adaptor);
>     metric->SetMovingImage(green_adaptor);
>     metric->SetMaximumNumberOfThreads(1);
>     metric->Initialize();
>     std::cout << "Result: " << metric->GetValue() << std::endl;
>
>
>
> --
> View this message in context:
> http://itk-users.7.n7.nabble.com/Passing-adapters-to-a-metric-tp36755.html
> Sent from the ITK - Users mailing list archive at Nabble.com.
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
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From artioml at post.bgu.ac.il  Tue Feb  9 11:32:52 2016
From: artioml at post.bgu.ac.il (artioml)
Date: Tue, 9 Feb 2016 09:32:52 -0700 (MST)
Subject: [ITK-users] Passing adapters to a metric
In-Reply-To: <CAPf2UMSynROHuUmVB8HcZVZexeT3z_jqOfFwjP+k2WLvrF_vYA@mail.gmail.com>
References: <1454948938845-36755.post@n7.nabble.com>
 <CAPf2UMSynROHuUmVB8HcZVZexeT3z_jqOfFwjP+k2WLvrF_vYA@mail.gmail.com>
Message-ID: <1455035572947-36762.post@n7.nabble.com>

That solved the problem thanks!



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From filippo.brogi at topic.nl  Wed Feb 10 02:47:38 2016
From: filippo.brogi at topic.nl (Filippo Brogi)
Date: Wed, 10 Feb 2016 00:47:38 -0700 (MST)
Subject: [ITK-users] 3D endocardium segmentation
Message-ID: <1455090458497-36763.post@n7.nabble.com>

Hello,
I'm trying to perform a 3D segmentation of the endocardium (the inner part
of the heart) using the Geodesic Active Contour pipeline. The current slice
thickness is 8 mm. The result is not good as expected. Could be related to
slice thickness? If so which one should be the max distance between slices?
Thanks.
Regards, Filippo 
 



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From filippo.brogi at topic.nl  Wed Feb 10 03:35:06 2016
From: filippo.brogi at topic.nl (Filippo Brogi)
Date: Wed, 10 Feb 2016 08:35:06 +0000
Subject: [ITK-users] endocardium 3D segmentation
Message-ID: <92C2B09BAC90E24EBC4250E7F22F153404049FFA@TOP-EX01.TOPIC.LOCAL>

Hello,
I'm trying to perform a 3D segmentation of the endocardium (the inner part of the heart) using the Geodesic Active Contour pipeline. The current slice thickness is 8 mm. The result is not good as expected. Could be related to slice thickness? If so which one should be the max distance between slices? Thanks.
Regards, Filippo





Met vriendelijke groet / kind regards,



Filippo Brogi



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From filippo.brogi at topic.nl  Wed Feb 10 03:24:22 2016
From: filippo.brogi at topic.nl (Filippo Brogi)
Date: Wed, 10 Feb 2016 08:24:22 +0000
Subject: [ITK-users] myocardium segmentation
Message-ID: <92C2B09BAC90E24EBC4250E7F22F153404049FDE@TOP-EX01.TOPIC.LOCAL>

Hello,
I'm trying to perform a 3D segmentation of the endocardium (the inner part of the heart) using the Geodesic Active Contour pipeline. The current slice thickness is 8 mm. The result is not good as expected. Could be related to slice thickness? If so which one should be the max distance between slices? Thanks.
Regards, Filippo



Met vriendelijke groet / kind regards,



Filippo Brogi



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From franciscolopezdelafranca at gmail.com  Wed Feb 10 06:53:21 2016
From: franciscolopezdelafranca at gmail.com (Francisco Lopez de la Franca)
Date: Wed, 10 Feb 2016 12:53:21 +0100
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <CAJqi3E+eNQxJBbrUt-ReAPNqF+xZOLMFZa_KB_v9tDdbF1SNog@mail.gmail.com>
References: <CAJqi3ELF4heOwTP_2-t-1bvGpLPxF4YMC8Haox58KwrMZGVd2w@mail.gmail.com>
 <CAJqi3EK8E+==0EugR2iofM7qKYTTi67XRC7ckq5c-8_BZbhUeg@mail.gmail.com>
 <E59BC232-F3AB-4585-B442-8105DCE3349B@mail.nih.gov>
 <CAJqi3EJoAKDqvUd7nqyEMSL=OHNqDNb5j-c5uYvwhUGxJfQ-ig@mail.gmail.com>
 <729B1C07-6BAA-41AD-8B16-A1A2ECE039DF@mail.nih.gov>
 <CAJqi3EKizCUP7_t0agkqf8PaS_okAv4KoSnjBgNC-QLZzTrapA@mail.gmail.com>
 <1443521320260-7587935.post@n2.nabble.com>
 <CALzTN-Sbdvmm=rrFjxeePTA3_tzdC6iuOmvsckGzvNx7KCbr_Q@mail.gmail.com>
 <CAPYv+6LzOEvzwksH8_pp_F3urprbV3NLy=o3+3oKNJDzz=HE=g@mail.gmail.com>
 <CAJqi3EK+xH6na+WLkLK9K2K+C95z5=LVDCK80_B0z4K496-YMA@mail.gmail.com>
 <CAPYv+6KFkZ_UydTpwXEa0fORuZkJ=QbSVLkQe3znqdmNSUsvgA@mail.gmail.com>
 <CAJqi3E+qm_mUNJBCScnzUO9daZ=Ta7PsCWb-5fozL8WK6=A6JA@mail.gmail.com>
 <84A225AE-400C-4FBA-97FA-6A027CB17208@mail.nih.gov>
 <CAJqi3EJu9PH9WG5WQomxwMpcNwd8zCcT0BZ2SYXkX4JMOQtT-w@mail.gmail.com>
 <CAJqi3E+eNQxJBbrUt-ReAPNqF+xZOLMFZa_KB_v9tDdbF1SNog@mail.gmail.com>
Message-ID: <CAJqi3ELNovYUpgJ=cFStA2gq-ix1UiaY-4YvZTJ327OQ8LGn9w@mail.gmail.com>

Hi Bradley again.
I'm modifying your class in order to be able to set a mask image (a binary
image) to be used as a limit in the histogram calculations, I mean, I set
an input, a mask and the class should take into account to calculate the
histograms only the voxels that belong to the input and to the mask image
and having the value 1 in the mask image.
The changes seem to be easy but I don?t know why my tests are not working.
It seems that 2 threads are working at the same time and when I added my
mask iterator, the code crashes.

*** Consider that the input and mask images are the same origin, spacing
and size.

I attach the main changes I've done, and I would thank you a lot if you
don't mind having a look and help me to find what I'm doing wrong:

template< class TImageType, class TOutputImage >
void
TextureFeatureImageFilterV2< TImageType, TOutputImage
>::*SetInput*(InputImageType
*image)
{
  // Process object is not const-correct so the const_cast is required here
  this->ProcessObject::SetNthInput( 0,
                                    const_cast< InputImageType * >( image )
);
}

template< class TImageType, class TOutputImage >
void
TextureFeatureImageFilterV2< TImageType, TOutputImage
>::*SetMaskImage*(InputImageType
*image)
{
  // Process object is not const-correct so the const_cast is required here
  this->ProcessObject::SetNthInput( 1, const_cast< InputImageType * >(
image ) );

  _maskImage = image; // _maskImage is a private member
}

In the *ThreadedGenerateData*(const RegionType& outputRegionForThread,
ThreadIdType threadId ) method:
{

...

  for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
    {
    NeighborhoodIteratorType nIter( radius, input, *fit );
    *NeighborhoodIteratorType maskIter( radius, _maskImage, *fit);*
    OutputIterator           outIter(output, *fit);

    OutputPixelType out;
    NumericTraits<OutputPixelType>::SetLength( out,
this->GetNumberOfOutputComponents() );

    while( !nIter.IsAtEnd() )
      {
      this->FillHistogram( *histogram, nIter, *maskIter *);

      ...

      ++nIter;
      ++outIter;
     * ++maskIter;*
    ...

In the *FillHistogram *method:
{

...

  while( iter != m_CooccurenceOffsetVector.end() )
    {

    const PixelType p1 = niter.GetPixel(iter->first);
    const PixelType p2 = niter.GetPixel(iter->second);
    std::cout << "Before p3" << std::endl;

*    const PixelType p3 = maskIter.GetPixel(iter->first);    *std::cout <<
"After p3: " << p3 << std::endl;

*    const PixelType p4 = maskIter.GetPixel(iter->second);   * std::cout <<
"After p4: " << p4 << std::endl;

    if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <= m_Max
            *&& p3 == _insidePixelValue && p4 == _insidePixelValue* ) //
The point
      {

...


*THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*

Thank you so much.
My kind regards.
/Paco

2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca <
franciscolopezdelafranca at gmail.com>:

> Hello Bradley again.
> Sorry but I'd like to re-open this issue because I need your class but
> with some modification.
> I pass to tell you.
>
> As my tests with your external class were not good taking into account the
> performance, I wonder if you could create a variant of it, but in which I
> can set a mask image and your class just return the VectorImage with all
> the features for that region (the masked locations) as
> itk::ScalarImageToTextureFeaturesFilter class does.
> I mean, to get the vector image with all the features but just calculate
> it for the regions belonging to the mask image. Positions not belonging to
> the mask region could have a pixel value of 0, for instance.
>
> I don?t know if it is very costly for you,  but I would thank you so much.
> Otherwise, I could try it but I'd need your suggestions on how to do it.
>
> Thanks a lot.
> Best regards.
>
> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca <
> franciscolopezdelafranca at gmail.com>:
>
>> Hello Bradley again,
>> I would like to ask you for a couple of favours. In the one hand, could
>> you please send me your 3D image so that I can test on it? And on the other
>> hand, could you test the example I have referenced in the previous email
>> with your image, not changing anything in the code, such as it is, and tell
>> me if the execution time is normal?
>> Thank you very much.
>> Regards,
>> /Francisco
>>
>> PS: All my application trace is printed via standard 'cout' command, not
>> due to a debugging compilation mode.
>>
>>
>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp <
>> blowekamp at mail.nih.gov> escribi?:
>>
>>> Hello,
>>>
>>> Did you compile TextureFeatureImage in Release mode?
>>>
>>> 1) The filter does not scale well with a large radius. And given by your
>>> initial report of print a very large number of offset you, it sounds like
>>> you are using a large radius with many offsets. I created a 224x224x300
>>> unsigned short image and ran with the default offset and a radius of 2 in 5
>>> minutes on my laptop. When I wrote this filter is was ~10x faster than this
>>> example... things change though...
>>>
>>>
>>> 2) I sounds like the boundaries/limits of the histogram may be clipping
>>> you values. I would inspect the co-occurance matrix.
>>>
>>>
>>> HTH,
>>> Brad
>>>
>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca <
>>> franciscolopezdelafranca at gmail.com> wrote:
>>>
>>> I've tested with itkTextureFeatureImageFilter, with
>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures example,
>>> for a 3D image and here are my comments:
>>>
>>>
>>> 1. I had to interrupt the test after several hours and it kept on
>>> calculating. And this is for only a 3D image (224x224x300). I need to
>>> process around 35 images.
>>> 2. The result (texture features: entropy, energy, correlation, LH,
>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0, 7.83083e+247].
>>> These values were not what I expected based on my experience on another
>>> application I developed, but in that case, I calculated the texture
>>> features for an image as a whole, not voxel by voxel.
>>>
>>> Regards.
>>>
>>> 2015-09-30 8:46 GMT+02:00 vis <itkhelpacc at gmail.com>:
>>>
>>>> i yes i have tried radius = 3;
>>>> still no luck
>>>>
>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca [via ITK
>>>> Insight
>>>> Users] <ml-node+s2283740n7587961h47 at n2.nabble.com> wrote:
>>>>
>>>> > Have you tried with a radius of 3 instead of 1?
>>>> >
>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
>>>> >
>>>> >> hey Matt,
>>>> >> thanks for ur advice.. it did build successfully... but im not able
>>>> to run
>>>> >> the code for 2D png image... i tried to change the dimension to 2 and
>>>> >> build
>>>> >> it which it did.. but when i run the code using the command
>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png putput.png 1...
>>>> i see
>>>> >> this output
>>>> >>
>>>> >> offset: [-1, -1] [0, -1]
>>>> >> offset: [0, -1] [1, -1]
>>>> >> offset: [-1, 0] [0, 0]
>>>> >> offset: [0, 0] [1, 0]
>>>> >> offset: [-1, 1] [0, 1]
>>>> >> offset: [0, 1] [1, 1] and it asks for abort the program... if pls
>>>> tel me
>>>> >> how can i modify this code to work wid 2d image... forgive me if my
>>>> ques
>>>> >> are really silly im trying to learn something..
>>>> >> regards
>>>> >> Vis
>>>> >>
>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via ITK Insight
>>>> Users]
>>>> >> <
>>>> >> [hidden email] <
>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
>>>> >> wrote:
>>>> >>
>>>> >> > Hi,
>>>> >> >
>>>> >> > The function:
>>>> >> >
>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char *argv[])
>>>> >> >
>>>> >> > must be renamed to
>>>> >> >
>>>> >> >   main(int argc, char* argv[])
>>>> >> >
>>>> >> > HTH,
>>>> >> > Matt
>>>> >> >
>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>>>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>> wrote:
>>>> >> >
>>>> >> > > hi all,
>>>> >> > > im trying to build the itkTextureFeatureImageFilterTest.cxx code
>>>> but
>>>> >> im
>>>> >> > not
>>>> >> > > able to it is showing the following error
>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK, Configuration:
>>>> >> Debug
>>>> >> > x64
>>>> >> > > ------
>>>> >> > > 1>  Checking Build System
>>>> >> > > 1>  CMake does not need to re-run because
>>>> >> > >
>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>>>> >> > is
>>>> >> > > up-to-date.
>>>> >> > > 2>------ Rebuild All started: Project:
>>>> >> itkTextureFeatureImageFilterTest,
>>>> >> > > Configuration: Debug x64 ------
>>>> >> > > 2>  Building Custom Rule
>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>> >> > > 2>  CMake does not need to re-run because
>>>> >> > >
>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>> >> > is
>>>> >> > > up-to-date.
>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996: 'std::_Copy_impl':
>>>> >> > Function
>>>> >> > > call with parameters that may be unsafe - this call relies on the
>>>> >> caller
>>>> >> > to
>>>> >> > > check that the passed values are correct. To disable this
>>>> warning, use
>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how to use
>>>> Visual C++
>>>> >> > > 'Checked Iterators'
>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>> 'std::_Copy_impl'
>>>> >> > > 2>
>>>> >> > >
>>>> >>
>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>>>> >> > see
>>>> >> > > reference to function template instantiation '_OutIt
>>>> std::copy<const
>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)' being
>>>> compiled
>>>> >> > > 2>          with
>>>> >> > > 2>          [
>>>> >> > > 2>              _OutIt=unsigned char *,
>>>> >> > > 2>              _InIt=const unsigned char *
>>>> >> > > 2>          ]
>>>> >> > > 2>
>>>> >> > >
>>>> >>
>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>>>> >> > > while compiling class template member function 'void
>>>> >> > > itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>>>> >> > > 2>          with
>>>> >> > > 2>          [
>>>> >> > > 2>              TOutputImage=InputImageType
>>>> >> > > 2>          ]
>>>> >> > > 2>
>>>> >> > >
>>>> >> >
>>>> >>
>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>>>> >> >
>>>> >> > > : see reference to class template instantiation
>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>>>> >> > > 2>          with
>>>> >> > > 2>          [
>>>> >> > > 2>              TOutputImage=InputImageType
>>>> >> > > 2>          ]
>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>> 'std::_Copy_impl'
>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>> 'std::_Copy_impl'
>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>> 'std::_Copy_impl'
>>>> >> > > 2>     Creating library
>>>> >> > >
>>>> >> >
>>>> >>
>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>>>> >> >
>>>> >> > > and object
>>>> >> > >
>>>> >> >
>>>> >>
>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>>>> >> >
>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved external
>>>> symbol
>>>> >> > main
>>>> >> > > referenced in function __tmainCRTStartup
>>>> >> > >
>>>> >> >
>>>> >>
>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>>>> >> >
>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD, Configuration:
>>>> Debug
>>>> >> > x64
>>>> >> > > ------
>>>> >> > > 3>  Building Custom Rule
>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>> >> > > 3>  CMake does not need to re-run because
>>>> >> > >
>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>> >> > is
>>>> >> > > up-to-date.
>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0 skipped
>>>> ==========
>>>> >> > > im using the follwing CMakeList.txt
>>>> >> > > # This is the root ITK CMakeLists file.
>>>> >> > > cmake_minimum_required(VERSION 2.4)
>>>> >> > > if(COMMAND CMAKE_POLICY)
>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>>>> >> > > endif()
>>>> >> > >
>>>> >> > >
>>>> >> > > # This project is designed to be built outside the Insight source
>>>> >> tree.
>>>> >> > > project(HelloWorld)
>>>> >> > >
>>>> >> > > # Find ITK.
>>>> >> > > find_package(ITK REQUIRED)
>>>> >> > > include(${ITK_USE_FILE})
>>>> >> > >
>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>>>> >> > >
>>>> >> > > target_link_libraries(itkTextureFeatureImageFilterTest
>>>> >> ${ITK_LIBRARIES})
>>>> >> > >
>>>> >> > > please tel me wat the error is??
>>>> >> > >
>>>> >> > >
>>>> >> > >
>>>> >> > > --
>>>> >> > > View this message in context:
>>>> >> >
>>>> >>
>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>>>> >> > > Sent from the ITK Insight Users mailing list archive at
>>>> Nabble.com.
>>>> >> > > _____________________________________
>>>> >> > > Powered by www.kitware.com
>>>> >> > >
>>>> >> > > Visit other Kitware open-source projects at
>>>> >> > > http://www.kitware.com/opensource/opensource.html
>>>> >> > >
>>>> >> > > Kitware offers ITK Training Courses, for more information visit:
>>>> >> > > http://www.kitware.com/products/protraining.php
>>>> >> > >
>>>> >> > > Please keep messages on-topic and check the ITK FAQ at:
>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>>>> >> > >
>>>> >> > > Follow this link to subscribe/unsubscribe:
>>>> >> > > http://public.kitware.com/mailman/listinfo/insight-users
>>>> >> > _____________________________________
>>>> >> > Powered by www.kitware.com
>>>> >> >
>>>> >> > Visit other Kitware open-source projects at
>>>> >> > http://www.kitware.com/opensource/opensource.html
>>>> >> >
>>>> >> > Kitware offers ITK Training Courses, for more information visit:
>>>> >> > http://www.kitware.com/products/protraining.php
>>>> >> >
>>>> >> > Please keep messages on-topic and check the ITK FAQ at:
>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
>>>> >> >
>>>> >> > Follow this link to subscribe/unsubscribe:
>>>> >> > http://public.kitware.com/mailman/listinfo/insight-users
>>>> >> >
>>>> >> >
>>>> >> > ------------------------------
>>>> >> > If you reply to this email, your message will be added to the
>>>> discussion
>>>> >> > below:
>>>> >> >
>>>> >> >
>>>> >>
>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587952.html
>>>> >> > To unsubscribe from [ITK-users] Texture pixel by pixel, click here
>>>> >> > < > .
>>>> >> > NAML
>>>> >> > <
>>>> >>
>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>> >> >
>>>> >> >
>>>> >>
>>>> >>
>>>> >>
>>>> >>
>>>> >> --
>>>> >> View this message in context:
>>>> >>
>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>>>> >> Sent from the ITK Insight Users mailing list archive at Nabble.com.
>>>> >> _____________________________________
>>>> >> Powered by www.kitware.com
>>>> >>
>>>> >> Visit other Kitware open-source projects at
>>>> >> http://www.kitware.com/opensource/opensource.html
>>>> >>
>>>> >> Kitware offers ITK Training Courses, for more information visit:
>>>> >> http://www.kitware.com/products/protraining.php
>>>> >>
>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>> >>
>>>> >> Follow this link to subscribe/unsubscribe:
>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>> >>
>>>> >
>>>> >
>>>> > _____________________________________
>>>> > Powered by www.kitware.com
>>>> >
>>>> > Visit other Kitware open-source projects at
>>>> > http://www.kitware.com/opensource/opensource.html
>>>> >
>>>> > Kitware offers ITK Training Courses, for more information visit:
>>>> > http://www.kitware.com/products/protraining.php
>>>> >
>>>> > Please keep messages on-topic and check the ITK FAQ at:
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>>>> >
>>>> > ------------------------------
>>>> > If you reply to this email, your message will be added to the
>>>> discussion
>>>> > below:
>>>> >
>>>> >
>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587961.html
>>>> > To unsubscribe from [ITK-users] Texture pixel by pixel, click here
>>>> > <
>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=unsubscribe_by_code&node=7587867&code=aXRraGVscGFjY0BnbWFpbC5jb218NzU4Nzg2N3wzNzEzNjYzNzk=
>>>> >
>>>> > .
>>>> > NAML
>>>> > <
>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>> >
>>>> >
>>>>
>>>>
>>>>
>>>>
>>>> --
>>>> View this message in context:
>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
>>>> Sent from the ITK Insight Users mailing list archive at Nabble.com.
>>>> _____________________________________
>>>> Powered by www.kitware.com
>>>>
>>>> Visit other Kitware open-source projects at
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>>> Please keep messages on-topic and check the ITK FAQ at:
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>
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From suneezahanif02 at gmail.com  Wed Feb 10 16:56:58 2016
From: suneezahanif02 at gmail.com (suneeza hanif)
Date: Wed, 10 Feb 2016 22:56:58 +0100
Subject: [ITK-users] Write a result image witout resampling
In-Reply-To: <CAHpGi9ekkdr2--r14rYbtvN9+qGvdBTFtrXe+OFoE4ErG3KwYQ@mail.gmail.com>
References: <CAHpGi9frDCQ8CyYVNap5p2=tFHcF2A30-Xrki9Aqztnf8izwQg@mail.gmail.com>
 <CAPf2UMSZPgSfviE9=_sdyd4vX-hg7ZV0bhCmbSC=QxhUbzX49w@mail.gmail.com>
 <CAHpGi9ekkdr2--r14rYbtvN9+qGvdBTFtrXe+OFoE4ErG3KwYQ@mail.gmail.com>
Message-ID: <CA+-JtYUYnDVJHHMEt5qD=+bkezX0MF497Qdfori6ZsUePOv-7Q@mail.gmail.com>

Hello Gabriel,

I have same problem when I do re-sampling, image quality is not same as
before. You mentioned that you changed the cast filter type to
RescaleIntensityImageFilter
type but when I tried to change it I got an error. As
RescaleIntensityImageFilter
type already contains input and output image type and casting filter type
also needs input and output image type.

Can you please tell me in detail how did you manage to get the desired
results. This would be of great help.

Thanks.

Best Regards,
Suneeza

On Tue, Jan 26, 2016 at 6:57 PM, Gabriel A. Gim?nez <
gabrielgimenez85 at gmail.com> wrote:

> Thanks D?enan Zuki?...., I changed the cast filter type
> to RescaleIntensityImageFilter and I got the expected result.
>
> Best Regards...
>
> 2016-01-10 16:22 GMT-03:00 D?enan Zuki? <dzenanz at gmail.com>:
>
>> Hi Gabriel,
>>
>> you probably need to use interpolation method of a higher quality for the
>> final resampling, i.e. windowed sinc
>> <http://www.itk.org/Doxygen/html/classitk_1_1WindowedSincInterpolateImageFunction.html>
>> instead of linear
>> <http://www.itk.org/Doxygen/html/classitk_1_1LinearInterpolateImageFunction.html>
>> .
>>
>> Regards,
>> D?enan
>>
>> On Fri, Jan 8, 2016 at 9:17 PM, Gabriel A. Gim?nez <
>> gabrielgimenez85 at gmail.com> wrote:
>>
>>> Hi everyone...how are you ?
>>>
>>> I'm going to point, to finish the registration process build the new
>>> transformed fixed image (based on the manual examples), but the quality of
>>> the generated image is degraded...how I can create a new image with the
>>> same quality as the original image? I just need to apply the transformation
>>> parameters.
>>>
>>> Regards and thanks in advance,
>>>
>>> --
>>> *Gabriel Alberto Gim?nez.*
>>>
>>> _____________________________________
>>> Powered by www.kitware.com
>>>
>>> Visit other Kitware open-source projects at
>>> http://www.kitware.com/opensource/opensource.html
>>>
>>> Kitware offers ITK Training Courses, for more information visit:
>>> http://www.kitware.com/products/protraining.php
>>>
>>> Please keep messages on-topic and check the ITK FAQ at:
>>> http://www.itk.org/Wiki/ITK_FAQ
>>>
>>> Follow this link to subscribe/unsubscribe:
>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>
>>>
>>
>
>
> --
> *Gabriel Alberto Gim?nez.*
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
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>
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From filippo.brogi at topic.nl  Thu Feb 11 02:20:53 2016
From: filippo.brogi at topic.nl (Filippo Brogi)
Date: Thu, 11 Feb 2016 00:20:53 -0700 (MST)
Subject: [ITK-users] zoom image content
Message-ID: <1455175253042-36768.post@n7.nabble.com>

Hello everyone.
As a result of a 2D segmentation I get a binary image with the segmented
part in white. I would like to enlarge the white part by a scalar factor,
without changing the size the image. Is it possible? Thanks in advance.



--
View this message in context: http://itk-users.7.n7.nabble.com/zoom-image-content-tp36768.html
Sent from the ITK - Users mailing list archive at Nabble.com.

From franciscolopezdelafranca at gmail.com  Thu Feb 11 04:55:42 2016
From: franciscolopezdelafranca at gmail.com (Francisco Lopez de la Franca)
Date: Thu, 11 Feb 2016 10:55:42 +0100
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <CAJqi3ELNovYUpgJ=cFStA2gq-ix1UiaY-4YvZTJ327OQ8LGn9w@mail.gmail.com>
References: <CAJqi3ELF4heOwTP_2-t-1bvGpLPxF4YMC8Haox58KwrMZGVd2w@mail.gmail.com>
 <CAJqi3EK8E+==0EugR2iofM7qKYTTi67XRC7ckq5c-8_BZbhUeg@mail.gmail.com>
 <E59BC232-F3AB-4585-B442-8105DCE3349B@mail.nih.gov>
 <CAJqi3EJoAKDqvUd7nqyEMSL=OHNqDNb5j-c5uYvwhUGxJfQ-ig@mail.gmail.com>
 <729B1C07-6BAA-41AD-8B16-A1A2ECE039DF@mail.nih.gov>
 <CAJqi3EKizCUP7_t0agkqf8PaS_okAv4KoSnjBgNC-QLZzTrapA@mail.gmail.com>
 <1443521320260-7587935.post@n2.nabble.com>
 <CALzTN-Sbdvmm=rrFjxeePTA3_tzdC6iuOmvsckGzvNx7KCbr_Q@mail.gmail.com>
 <CAPYv+6LzOEvzwksH8_pp_F3urprbV3NLy=o3+3oKNJDzz=HE=g@mail.gmail.com>
 <CAJqi3EK+xH6na+WLkLK9K2K+C95z5=LVDCK80_B0z4K496-YMA@mail.gmail.com>
 <CAPYv+6KFkZ_UydTpwXEa0fORuZkJ=QbSVLkQe3znqdmNSUsvgA@mail.gmail.com>
 <CAJqi3E+qm_mUNJBCScnzUO9daZ=Ta7PsCWb-5fozL8WK6=A6JA@mail.gmail.com>
 <84A225AE-400C-4FBA-97FA-6A027CB17208@mail.nih.gov>
 <CAJqi3EJu9PH9WG5WQomxwMpcNwd8zCcT0BZ2SYXkX4JMOQtT-w@mail.gmail.com>
 <CAJqi3E+eNQxJBbrUt-ReAPNqF+xZOLMFZa_KB_v9tDdbF1SNog@mail.gmail.com>
 <CAJqi3ELNovYUpgJ=cFStA2gq-ix1UiaY-4YvZTJ327OQ8LGn9w@mail.gmail.com>
Message-ID: <CAJqi3EJMqTscSxNdOn58Yz2NazfdSdcrTgOY6hRYAK3Z=3-Asw@mail.gmail.com>

Hi,
Please, someone that could help me. I'm working in a pre-doctorate project
and I need this class to work.
I've read the chapter 13 in the ITK Software Guide on how to write a filter
and now I see the fact of the threads due to inheritance of
ImageToImageFilter.
But, I keep on without understanding why the code crashes just when calling
*const PixelType p3 = maskIter.GetPixel(iter->first);*
It is just a call to read data, not to write.

I guess somebody that had worked with creation of filters might see
"easily" the problem, but not me.

So, again, please, I need someone to help me with this because I'm stuck on
this point.

Thank you very much.
KR.
/Francisco

2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca <
franciscolopezdelafranca at gmail.com>:

> Hi Bradley again.
> I'm modifying your class in order to be able to set a mask image (a binary
> image) to be used as a limit in the histogram calculations, I mean, I set
> an input, a mask and the class should take into account to calculate the
> histograms only the voxels that belong to the input and to the mask image
> and having the value 1 in the mask image.
> The changes seem to be easy but I don?t know why my tests are not working.
> It seems that 2 threads are working at the same time and when I added my
> mask iterator, the code crashes.
>
> *** Consider that the input and mask images are the same origin, spacing
> and size.
>
> I attach the main changes I've done, and I would thank you a lot if you
> don't mind having a look and help me to find what I'm doing wrong:
>
> template< class TImageType, class TOutputImage >
> void
> TextureFeatureImageFilterV2< TImageType, TOutputImage >::*SetInput*(InputImageType
> *image)
> {
>   // Process object is not const-correct so the const_cast is required here
>   this->ProcessObject::SetNthInput( 0,
>                                     const_cast< InputImageType * >( image
> ) );
> }
>
> template< class TImageType, class TOutputImage >
> void
> TextureFeatureImageFilterV2< TImageType, TOutputImage >::*SetMaskImage*(InputImageType
> *image)
> {
>   // Process object is not const-correct so the const_cast is required here
>   this->ProcessObject::SetNthInput( 1, const_cast< InputImageType * >(
> image ) );
>
>   _maskImage = image; // _maskImage is a private member
> }
>
> In the *ThreadedGenerateData*(const RegionType& outputRegionForThread,
> ThreadIdType threadId ) method:
> {
>
> ...
>
>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
>     {
>     NeighborhoodIteratorType nIter( radius, input, *fit );
>     *NeighborhoodIteratorType maskIter( radius, _maskImage, *fit);*
>     OutputIterator           outIter(output, *fit);
>
>     OutputPixelType out;
>     NumericTraits<OutputPixelType>::SetLength( out,
> this->GetNumberOfOutputComponents() );
>
>     while( !nIter.IsAtEnd() )
>       {
>       this->FillHistogram( *histogram, nIter, *maskIter *);
>
>       ...
>
>       ++nIter;
>       ++outIter;
>      * ++maskIter;*
>     ...
>
> In the *FillHistogram *method:
> {
>
> ...
>
>   while( iter != m_CooccurenceOffsetVector.end() )
>     {
>
>     const PixelType p1 = niter.GetPixel(iter->first);
>     const PixelType p2 = niter.GetPixel(iter->second);
>     std::cout << "Before p3" << std::endl;
>
> *    const PixelType p3 = maskIter.GetPixel(iter->first);    *std::cout
> << "After p3: " << p3 << std::endl;
>
> *    const PixelType p4 = maskIter.GetPixel(iter->second);   * std::cout
> << "After p4: " << p4 << std::endl;
>
>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <= m_Max
>             *&& p3 == _insidePixelValue && p4 == _insidePixelValue* ) //
> The point
>       {
>
> ...
>
>
> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>
> Thank you so much.
> My kind regards.
> /Paco
>
> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca <
> franciscolopezdelafranca at gmail.com>:
>
>> Hello Bradley again.
>> Sorry but I'd like to re-open this issue because I need your class but
>> with some modification.
>> I pass to tell you.
>>
>> As my tests with your external class were not good taking into account
>> the performance, I wonder if you could create a variant of it, but in which
>> I can set a mask image and your class just return the VectorImage with all
>> the features for that region (the masked locations) as
>> itk::ScalarImageToTextureFeaturesFilter class does.
>> I mean, to get the vector image with all the features but just calculate
>> it for the regions belonging to the mask image. Positions not belonging to
>> the mask region could have a pixel value of 0, for instance.
>>
>> I don?t know if it is very costly for you,  but I would thank you so
>> much. Otherwise, I could try it but I'd need your suggestions on how to do
>> it.
>>
>> Thanks a lot.
>> Best regards.
>>
>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca <
>> franciscolopezdelafranca at gmail.com>:
>>
>>> Hello Bradley again,
>>> I would like to ask you for a couple of favours. In the one hand, could
>>> you please send me your 3D image so that I can test on it? And on the other
>>> hand, could you test the example I have referenced in the previous email
>>> with your image, not changing anything in the code, such as it is, and tell
>>> me if the execution time is normal?
>>> Thank you very much.
>>> Regards,
>>> /Francisco
>>>
>>> PS: All my application trace is printed via standard 'cout' command, not
>>> due to a debugging compilation mode.
>>>
>>>
>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp <
>>> blowekamp at mail.nih.gov> escribi?:
>>>
>>>> Hello,
>>>>
>>>> Did you compile TextureFeatureImage in Release mode?
>>>>
>>>> 1) The filter does not scale well with a large radius. And given by
>>>> your initial report of print a very large number of offset you, it sounds
>>>> like you are using a large radius with many offsets. I created a
>>>> 224x224x300 unsigned short image and ran with the default offset and a
>>>> radius of 2 in 5 minutes on my laptop. When I wrote this filter is was ~10x
>>>> faster than this example... things change though...
>>>>
>>>>
>>>> 2) I sounds like the boundaries/limits of the histogram may be clipping
>>>> you values. I would inspect the co-occurance matrix.
>>>>
>>>>
>>>> HTH,
>>>> Brad
>>>>
>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca <
>>>> franciscolopezdelafranca at gmail.com> wrote:
>>>>
>>>> I've tested with itkTextureFeatureImageFilter, with
>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures example,
>>>> for a 3D image and here are my comments:
>>>>
>>>>
>>>> 1. I had to interrupt the test after several hours and it kept on
>>>> calculating. And this is for only a 3D image (224x224x300). I need to
>>>> process around 35 images.
>>>> 2. The result (texture features: entropy, energy, correlation, LH,
>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0, 7.83083e+247].
>>>> These values were not what I expected based on my experience on another
>>>> application I developed, but in that case, I calculated the texture
>>>> features for an image as a whole, not voxel by voxel.
>>>>
>>>> Regards.
>>>>
>>>> 2015-09-30 8:46 GMT+02:00 vis <itkhelpacc at gmail.com>:
>>>>
>>>>> i yes i have tried radius = 3;
>>>>> still no luck
>>>>>
>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca [via ITK
>>>>> Insight
>>>>> Users] <ml-node+s2283740n7587961h47 at n2.nabble.com> wrote:
>>>>>
>>>>> > Have you tried with a radius of 3 instead of 1?
>>>>> >
>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
>>>>> >
>>>>> >> hey Matt,
>>>>> >> thanks for ur advice.. it did build successfully... but im not able
>>>>> to run
>>>>> >> the code for 2D png image... i tried to change the dimension to 2
>>>>> and
>>>>> >> build
>>>>> >> it which it did.. but when i run the code using the command
>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png putput.png
>>>>> 1... i see
>>>>> >> this output
>>>>> >>
>>>>> >> offset: [-1, -1] [0, -1]
>>>>> >> offset: [0, -1] [1, -1]
>>>>> >> offset: [-1, 0] [0, 0]
>>>>> >> offset: [0, 0] [1, 0]
>>>>> >> offset: [-1, 1] [0, 1]
>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the program... if pls
>>>>> tel me
>>>>> >> how can i modify this code to work wid 2d image... forgive me if my
>>>>> ques
>>>>> >> are really silly im trying to learn something..
>>>>> >> regards
>>>>> >> Vis
>>>>> >>
>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via ITK Insight
>>>>> Users]
>>>>> >> <
>>>>> >> [hidden email] <
>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
>>>>> >> wrote:
>>>>> >>
>>>>> >> > Hi,
>>>>> >> >
>>>>> >> > The function:
>>>>> >> >
>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char *argv[])
>>>>> >> >
>>>>> >> > must be renamed to
>>>>> >> >
>>>>> >> >   main(int argc, char* argv[])
>>>>> >> >
>>>>> >> > HTH,
>>>>> >> > Matt
>>>>> >> >
>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>>>>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>> wrote:
>>>>> >> >
>>>>> >> > > hi all,
>>>>> >> > > im trying to build the itkTextureFeatureImageFilterTest.cxx
>>>>> code but
>>>>> >> im
>>>>> >> > not
>>>>> >> > > able to it is showing the following error
>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>>>>> Configuration:
>>>>> >> Debug
>>>>> >> > x64
>>>>> >> > > ------
>>>>> >> > > 1>  Checking Build System
>>>>> >> > > 1>  CMake does not need to re-run because
>>>>> >> > >
>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>>>>> >> > is
>>>>> >> > > up-to-date.
>>>>> >> > > 2>------ Rebuild All started: Project:
>>>>> >> itkTextureFeatureImageFilterTest,
>>>>> >> > > Configuration: Debug x64 ------
>>>>> >> > > 2>  Building Custom Rule
>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>> >> > > 2>  CMake does not need to re-run because
>>>>> >> > >
>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>> >> > is
>>>>> >> > > up-to-date.
>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>>>>> 'std::_Copy_impl':
>>>>> >> > Function
>>>>> >> > > call with parameters that may be unsafe - this call relies on
>>>>> the
>>>>> >> caller
>>>>> >> > to
>>>>> >> > > check that the passed values are correct. To disable this
>>>>> warning, use
>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how to use
>>>>> Visual C++
>>>>> >> > > 'Checked Iterators'
>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>> 'std::_Copy_impl'
>>>>> >> > > 2>
>>>>> >> > >
>>>>> >>
>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>>>>> >> > see
>>>>> >> > > reference to function template instantiation '_OutIt
>>>>> std::copy<const
>>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)' being
>>>>> compiled
>>>>> >> > > 2>          with
>>>>> >> > > 2>          [
>>>>> >> > > 2>              _OutIt=unsigned char *,
>>>>> >> > > 2>              _InIt=const unsigned char *
>>>>> >> > > 2>          ]
>>>>> >> > > 2>
>>>>> >> > >
>>>>> >>
>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>>>>> >> > > while compiling class template member function 'void
>>>>> >> > > itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>>>>> >> > > 2>          with
>>>>> >> > > 2>          [
>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>> >> > > 2>          ]
>>>>> >> > > 2>
>>>>> >> > >
>>>>> >> >
>>>>> >>
>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>>>>> >> >
>>>>> >> > > : see reference to class template instantiation
>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>>>>> >> > > 2>          with
>>>>> >> > > 2>          [
>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>> >> > > 2>          ]
>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>> 'std::_Copy_impl'
>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>> 'std::_Copy_impl'
>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>> 'std::_Copy_impl'
>>>>> >> > > 2>     Creating library
>>>>> >> > >
>>>>> >> >
>>>>> >>
>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>>>>> >> >
>>>>> >> > > and object
>>>>> >> > >
>>>>> >> >
>>>>> >>
>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>>>>> >> >
>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved external
>>>>> symbol
>>>>> >> > main
>>>>> >> > > referenced in function __tmainCRTStartup
>>>>> >> > >
>>>>> >> >
>>>>> >>
>>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>>>>> >> >
>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>>>>> Configuration: Debug
>>>>> >> > x64
>>>>> >> > > ------
>>>>> >> > > 3>  Building Custom Rule
>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>> >> > > 3>  CMake does not need to re-run because
>>>>> >> > >
>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>> >> > is
>>>>> >> > > up-to-date.
>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0 skipped
>>>>> ==========
>>>>> >> > > im using the follwing CMakeList.txt
>>>>> >> > > # This is the root ITK CMakeLists file.
>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>>>>> >> > > if(COMMAND CMAKE_POLICY)
>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>>>>> >> > > endif()
>>>>> >> > >
>>>>> >> > >
>>>>> >> > > # This project is designed to be built outside the Insight
>>>>> source
>>>>> >> tree.
>>>>> >> > > project(HelloWorld)
>>>>> >> > >
>>>>> >> > > # Find ITK.
>>>>> >> > > find_package(ITK REQUIRED)
>>>>> >> > > include(${ITK_USE_FILE})
>>>>> >> > >
>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>>>>> >> > >
>>>>> >> > > target_link_libraries(itkTextureFeatureImageFilterTest
>>>>> >> ${ITK_LIBRARIES})
>>>>> >> > >
>>>>> >> > > please tel me wat the error is??
>>>>> >> > >
>>>>> >> > >
>>>>> >> > >
>>>>> >> > > --
>>>>> >> > > View this message in context:
>>>>> >> >
>>>>> >>
>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>>>>> >> > > Sent from the ITK Insight Users mailing list archive at
>>>>> Nabble.com.
>>>>> >> > > _____________________________________
>>>>> >> > > Powered by www.kitware.com
>>>>> >> > >
>>>>> >> > > Visit other Kitware open-source projects at
>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>>>>> >> > >
>>>>> >> > > Kitware offers ITK Training Courses, for more information visit:
>>>>> >> > > http://www.kitware.com/products/protraining.php
>>>>> >> > >
>>>>> >> > > Please keep messages on-topic and check the ITK FAQ at:
>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>>>>> >> > >
>>>>> >> > > Follow this link to subscribe/unsubscribe:
>>>>> >> > > http://public.kitware.com/mailman/listinfo/insight-users
>>>>> >> > _____________________________________
>>>>> >> > Powered by www.kitware.com
>>>>> >> >
>>>>> >> > Visit other Kitware open-source projects at
>>>>> >> > http://www.kitware.com/opensource/opensource.html
>>>>> >> >
>>>>> >> > Kitware offers ITK Training Courses, for more information visit:
>>>>> >> > http://www.kitware.com/products/protraining.php
>>>>> >> >
>>>>> >> > Please keep messages on-topic and check the ITK FAQ at:
>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
>>>>> >> >
>>>>> >> > Follow this link to subscribe/unsubscribe:
>>>>> >> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>> >> >
>>>>> >> >
>>>>> >> > ------------------------------
>>>>> >> > If you reply to this email, your message will be added to the
>>>>> discussion
>>>>> >> > below:
>>>>> >> >
>>>>> >> >
>>>>> >>
>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587952.html
>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by pixel, click here
>>>>> >> > < > .
>>>>> >> > NAML
>>>>> >> > <
>>>>> >>
>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>> >> >
>>>>> >> >
>>>>> >>
>>>>> >>
>>>>> >>
>>>>> >>
>>>>> >> --
>>>>> >> View this message in context:
>>>>> >>
>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>>>>> >> Sent from the ITK Insight Users mailing list archive at Nabble.com.
>>>>> >> _____________________________________
>>>>> >> Powered by www.kitware.com
>>>>> >>
>>>>> >> Visit other Kitware open-source projects at
>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>> >>
>>>>> >> Kitware offers ITK Training Courses, for more information visit:
>>>>> >> http://www.kitware.com/products/protraining.php
>>>>> >>
>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>> >>
>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>>> >>
>>>>> >
>>>>> >
>>>>> > _____________________________________
>>>>> > Powered by www.kitware.com
>>>>> >
>>>>> > Visit other Kitware open-source projects at
>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>> >
>>>>> > Kitware offers ITK Training Courses, for more information visit:
>>>>> > http://www.kitware.com/products/protraining.php
>>>>> >
>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>> >
>>>>> > Follow this link to subscribe/unsubscribe:
>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>> >
>>>>> >
>>>>> > ------------------------------
>>>>> > If you reply to this email, your message will be added to the
>>>>> discussion
>>>>> > below:
>>>>> >
>>>>> >
>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587961.html
>>>>> > To unsubscribe from [ITK-users] Texture pixel by pixel, click here
>>>>> > <
>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=unsubscribe_by_code&node=7587867&code=aXRraGVscGFjY0BnbWFpbC5jb218NzU4Nzg2N3wzNzEzNjYzNzk=
>>>>> >
>>>>> > .
>>>>> > NAML
>>>>> > <
>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>> >
>>>>> >
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> --
>>>>> View this message in context:
>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
>>>>> Sent from the ITK Insight Users mailing list archive at Nabble.com.
>>>>> _____________________________________
>>>>> Powered by www.kitware.com
>>>>>
>>>>> Visit other Kitware open-source projects at
>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>
>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>> http://www.kitware.com/products/protraining.php
>>>>>
>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>
>>>>> Follow this link to subscribe/unsubscribe:
>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>
>>>>
>>>> _____________________________________
>>>> Powered by www.kitware.com
>>>>
>>>> Visit other Kitware open-source projects at
>>>> http://www.kitware.com/opensource/opensource.html
>>>>
>>>> Kitware offers ITK Training Courses, for more information visit:
>>>> http://www.kitware.com/products/protraining.php
>>>>
>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>
>>>> Follow this link to subscribe/unsubscribe:
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>>>>
>>
>
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From samah.bouzidi at gmail.com  Thu Feb 11 06:13:41 2016
From: samah.bouzidi at gmail.com (samah)
Date: Thu, 11 Feb 2016 04:13:41 -0700 (MST)
Subject: [ITK-users] airway enhancement using
	Hessian3DToVesselnessMeasureImageFilter
Message-ID: <1455189221682-7588475.post@n2.nabble.com>

 Hi,

I tried to use Hessian3DToVesselnessMeasureImageFilter to segment airways
tree in the lung. i have modified the
Hessian3DToVesselnessMeasureImageFilter.hxx as follow:

   // Get the eigen value
    eigenValue = it.Get();

    // dark tubular structures will have a low value of $\lambda_1$ and
large positive values of $\lambda_2$ and $\lambda_3$

    double normalizeValue = vnl_math_min( eigenValue[1],  eigenValue[0]);

    // Similarity measure to a line structure
    if ( normalizeValue > 0 )
      {
      double lineMeasure;
      if ( eigenValue[2] <= 0 )
        {
        lineMeasure =
          std::exp( -0.5 * vnl_math_sqr( eigenValue[2] / ( m_Alpha1 *
normalizeValue ) ) );
        }
      else
        {
        lineMeasure =
          std::exp( -0.5 * vnl_math_sqr( eigenValue[2] / ( m_Alpha2 *
normalizeValue ) ) );
        }

      lineMeasure *= normalizeValue;
      oit.Set( static_cast< OutputPixelType >( lineMeasure ) );
      }
    else
      {
      oit.Set(NumericTraits< OutputPixelType >::ZeroValue());
      }

    ++it;
    ++oit;
    }

but it doesn't work, any suggestion please.

Regards
Samah,



--
View this message in context: http://itk-insight-users.2283740.n2.nabble.com/airway-enhancement-using-Hessian3DToVesselnessMeasureImageFilter-tp7588475.html
Sent from the ITK Insight Users mailing list archive at Nabble.com.

From skalexander at gmail.com  Thu Feb 11 10:41:13 2016
From: skalexander at gmail.com (Simon Alexander)
Date: Thu, 11 Feb 2016 15:41:13 +0000
Subject: [ITK-users] Write a result image witout resampling
In-Reply-To: <CA+-JtYUYnDVJHHMEt5qD=+bkezX0MF497Qdfori6ZsUePOv-7Q@mail.gmail.com>
References: <CAHpGi9frDCQ8CyYVNap5p2=tFHcF2A30-Xrki9Aqztnf8izwQg@mail.gmail.com>
 <CAPf2UMSZPgSfviE9=_sdyd4vX-hg7ZV0bhCmbSC=QxhUbzX49w@mail.gmail.com>
 <CAHpGi9ekkdr2--r14rYbtvN9+qGvdBTFtrXe+OFoE4ErG3KwYQ@mail.gmail.com>
 <CA+-JtYUYnDVJHHMEt5qD=+bkezX0MF497Qdfori6ZsUePOv-7Q@mail.gmail.com>
Message-ID: <CAJFNcCTvzrc9dEgCHyLFfnHxeGOfC10VeO2onHkY0PJwh1_TNA@mail.gmail.com>

In general it is only going to be possible to avoid re-sampling when your
transform is strictly rigid (i.e. the sampling lattice of the image can be
rigidly transformed and remain regularly shaped).   Rescaling the intensity
is a completely different issue, but can be used to avoid introducing extra
quantization error, for example if you use floating point images in ways
that will adjust the value range and then casting them to an integer type.

What are you trying to achieve?

On Wed, 10 Feb 2016 at 16:57 suneeza hanif <suneezahanif02 at gmail.com> wrote:

> Hello Gabriel,
>
> I have same problem when I do re-sampling, image quality is not same as
> before. You mentioned that you changed the cast filter type to  RescaleIntensityImageFilter
> type but when I tried to change it I got an error. As  RescaleIntensityImageFilter
> type already contains input and output image type and casting filter type
> also needs input and output image type.
>
> Can you please tell me in detail how did you manage to get the desired
> results. This would be of great help.
>
> Thanks.
>
> Best Regards,
> Suneeza
>
> On Tue, Jan 26, 2016 at 6:57 PM, Gabriel A. Gim?nez <
> gabrielgimenez85 at gmail.com> wrote:
>
>> Thanks D?enan Zuki?...., I changed the cast filter type
>> to RescaleIntensityImageFilter and I got the expected result.
>>
>> Best Regards...
>>
>> 2016-01-10 16:22 GMT-03:00 D?enan Zuki? <dzenanz at gmail.com>:
>>
>>> Hi Gabriel,
>>>
>>> you probably need to use interpolation method of a higher quality for
>>> the final resampling, i.e. windowed sinc
>>> <http://www.itk.org/Doxygen/html/classitk_1_1WindowedSincInterpolateImageFunction.html>
>>> instead of linear
>>> <http://www.itk.org/Doxygen/html/classitk_1_1LinearInterpolateImageFunction.html>
>>> .
>>>
>>> Regards,
>>> D?enan
>>>
>>> On Fri, Jan 8, 2016 at 9:17 PM, Gabriel A. Gim?nez <
>>> gabrielgimenez85 at gmail.com> wrote:
>>>
>>>> Hi everyone...how are you ?
>>>>
>>>> I'm going to point, to finish the registration process build the new
>>>> transformed fixed image (based on the manual examples), but the quality of
>>>> the generated image is degraded...how I can create a new image with the
>>>> same quality as the original image? I just need to apply the transformation
>>>> parameters.
>>>>
>>>> Regards and thanks in advance,
>>>>
>>>> --
>>>> *Gabriel Alberto Gim?nez.*
>>>>
>>>> _____________________________________
>>>> Powered by www.kitware.com
>>>>
>>>> Visit other Kitware open-source projects at
>>>> http://www.kitware.com/opensource/opensource.html
>>>>
>>>> Kitware offers ITK Training Courses, for more information visit:
>>>> http://www.kitware.com/products/protraining.php
>>>>
>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>
>>>> Follow this link to subscribe/unsubscribe:
>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>
>>>>
>>>
>>
>>
>> --
>> *Gabriel Alberto Gim?nez.*
>>
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://www.kitware.com/products/protraining.php
>>
>> Please keep messages on-topic and check the ITK FAQ at:
>> http://www.itk.org/Wiki/ITK_FAQ
>>
>> Follow this link to subscribe/unsubscribe:
>> http://public.kitware.com/mailman/listinfo/insight-users
>>
>>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
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From dzenanz at gmail.com  Thu Feb 11 11:16:08 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Thu, 11 Feb 2016 11:16:08 -0500
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <CAJqi3EJMqTscSxNdOn58Yz2NazfdSdcrTgOY6hRYAK3Z=3-Asw@mail.gmail.com>
References: <CAJqi3ELF4heOwTP_2-t-1bvGpLPxF4YMC8Haox58KwrMZGVd2w@mail.gmail.com>
 <CAJqi3EK8E+==0EugR2iofM7qKYTTi67XRC7ckq5c-8_BZbhUeg@mail.gmail.com>
 <E59BC232-F3AB-4585-B442-8105DCE3349B@mail.nih.gov>
 <CAJqi3EJoAKDqvUd7nqyEMSL=OHNqDNb5j-c5uYvwhUGxJfQ-ig@mail.gmail.com>
 <729B1C07-6BAA-41AD-8B16-A1A2ECE039DF@mail.nih.gov>
 <CAJqi3EKizCUP7_t0agkqf8PaS_okAv4KoSnjBgNC-QLZzTrapA@mail.gmail.com>
 <1443521320260-7587935.post@n2.nabble.com>
 <CALzTN-Sbdvmm=rrFjxeePTA3_tzdC6iuOmvsckGzvNx7KCbr_Q@mail.gmail.com>
 <CAPYv+6LzOEvzwksH8_pp_F3urprbV3NLy=o3+3oKNJDzz=HE=g@mail.gmail.com>
 <CAJqi3EK+xH6na+WLkLK9K2K+C95z5=LVDCK80_B0z4K496-YMA@mail.gmail.com>
 <CAPYv+6KFkZ_UydTpwXEa0fORuZkJ=QbSVLkQe3znqdmNSUsvgA@mail.gmail.com>
 <CAJqi3E+qm_mUNJBCScnzUO9daZ=Ta7PsCWb-5fozL8WK6=A6JA@mail.gmail.com>
 <84A225AE-400C-4FBA-97FA-6A027CB17208@mail.nih.gov>
 <CAJqi3EJu9PH9WG5WQomxwMpcNwd8zCcT0BZ2SYXkX4JMOQtT-w@mail.gmail.com>
 <CAJqi3E+eNQxJBbrUt-ReAPNqF+xZOLMFZa_KB_v9tDdbF1SNog@mail.gmail.com>
 <CAJqi3ELNovYUpgJ=cFStA2gq-ix1UiaY-4YvZTJ327OQ8LGn9w@mail.gmail.com>
 <CAJqi3EJMqTscSxNdOn58Yz2NazfdSdcrTgOY6hRYAK3Z=3-Asw@mail.gmail.com>
Message-ID: <CAPf2UMTwwE=7eLsCjNZpnWHTemQ3Kpi3waGA0p9tDkcWoU2aZQ@mail.gmail.com>

Hi Francisco,

"THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the error message
that goes along with the crash? In which file and line does it crash?

Regards

On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca <
franciscolopezdelafranca at gmail.com> wrote:

> Hi,
> Please, someone that could help me. I'm working in a pre-doctorate project
> and I need this class to work.
> I've read the chapter 13 in the ITK Software Guide on how to write a
> filter and now I see the fact of the threads due to inheritance of
> ImageToImageFilter.
> But, I keep on without understanding why the code crashes just when
> calling
> *const PixelType p3 = maskIter.GetPixel(iter->first);*
> It is just a call to read data, not to write.
>
> I guess somebody that had worked with creation of filters might see
> "easily" the problem, but not me.
>
> So, again, please, I need someone to help me with this because I'm stuck
> on this point.
>
> Thank you very much.
> KR.
> /Francisco
>
> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca <
> franciscolopezdelafranca at gmail.com>:
>
>> Hi Bradley again.
>> I'm modifying your class in order to be able to set a mask image (a
>> binary image) to be used as a limit in the histogram calculations, I mean,
>> I set an input, a mask and the class should take into account to calculate
>> the histograms only the voxels that belong to the input and to the mask
>> image and having the value 1 in the mask image.
>> The changes seem to be easy but I don?t know why my tests are not
>> working. It seems that 2 threads are working at the same time and when I
>> added my mask iterator, the code crashes.
>>
>> *** Consider that the input and mask images are the same origin, spacing
>> and size.
>>
>> I attach the main changes I've done, and I would thank you a lot if you
>> don't mind having a look and help me to find what I'm doing wrong:
>>
>> template< class TImageType, class TOutputImage >
>> void
>> TextureFeatureImageFilterV2< TImageType, TOutputImage >::*SetInput*(InputImageType
>> *image)
>> {
>>   // Process object is not const-correct so the const_cast is required
>> here
>>   this->ProcessObject::SetNthInput( 0,
>>                                     const_cast< InputImageType * >( image
>> ) );
>> }
>>
>> template< class TImageType, class TOutputImage >
>> void
>> TextureFeatureImageFilterV2< TImageType, TOutputImage >::*SetMaskImage*(InputImageType
>> *image)
>> {
>>   // Process object is not const-correct so the const_cast is required
>> here
>>   this->ProcessObject::SetNthInput( 1, const_cast< InputImageType * >(
>> image ) );
>>
>>   _maskImage = image; // _maskImage is a private member
>> }
>>
>> In the *ThreadedGenerateData*(const RegionType& outputRegionForThread,
>> ThreadIdType threadId ) method:
>> {
>>
>> ...
>>
>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
>>     {
>>     NeighborhoodIteratorType nIter( radius, input, *fit );
>>     *NeighborhoodIteratorType maskIter( radius, _maskImage, *fit);*
>>     OutputIterator           outIter(output, *fit);
>>
>>     OutputPixelType out;
>>     NumericTraits<OutputPixelType>::SetLength( out,
>> this->GetNumberOfOutputComponents() );
>>
>>     while( !nIter.IsAtEnd() )
>>       {
>>       this->FillHistogram( *histogram, nIter, *maskIter *);
>>
>>       ...
>>
>>       ++nIter;
>>       ++outIter;
>>      * ++maskIter;*
>>     ...
>>
>> In the *FillHistogram *method:
>> {
>>
>> ...
>>
>>   while( iter != m_CooccurenceOffsetVector.end() )
>>     {
>>
>>     const PixelType p1 = niter.GetPixel(iter->first);
>>     const PixelType p2 = niter.GetPixel(iter->second);
>>     std::cout << "Before p3" << std::endl;
>>
>> *    const PixelType p3 = maskIter.GetPixel(iter->first);    *std::cout
>> << "After p3: " << p3 << std::endl;
>>
>> *    const PixelType p4 = maskIter.GetPixel(iter->second);   * std::cout
>> << "After p4: " << p4 << std::endl;
>>
>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <= m_Max
>>             *&& p3 == _insidePixelValue && p4 == _insidePixelValue* ) //
>> The point
>>       {
>>
>> ...
>>
>>
>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>>
>> Thank you so much.
>> My kind regards.
>> /Paco
>>
>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca <
>> franciscolopezdelafranca at gmail.com>:
>>
>>> Hello Bradley again.
>>> Sorry but I'd like to re-open this issue because I need your class but
>>> with some modification.
>>> I pass to tell you.
>>>
>>> As my tests with your external class were not good taking into account
>>> the performance, I wonder if you could create a variant of it, but in which
>>> I can set a mask image and your class just return the VectorImage with all
>>> the features for that region (the masked locations) as
>>> itk::ScalarImageToTextureFeaturesFilter class does.
>>> I mean, to get the vector image with all the features but just calculate
>>> it for the regions belonging to the mask image. Positions not belonging to
>>> the mask region could have a pixel value of 0, for instance.
>>>
>>> I don?t know if it is very costly for you,  but I would thank you so
>>> much. Otherwise, I could try it but I'd need your suggestions on how to do
>>> it.
>>>
>>> Thanks a lot.
>>> Best regards.
>>>
>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca <
>>> franciscolopezdelafranca at gmail.com>:
>>>
>>>> Hello Bradley again,
>>>> I would like to ask you for a couple of favours. In the one hand, could
>>>> you please send me your 3D image so that I can test on it? And on the other
>>>> hand, could you test the example I have referenced in the previous email
>>>> with your image, not changing anything in the code, such as it is, and tell
>>>> me if the execution time is normal?
>>>> Thank you very much.
>>>> Regards,
>>>> /Francisco
>>>>
>>>> PS: All my application trace is printed via standard 'cout' command,
>>>> not due to a debugging compilation mode.
>>>>
>>>>
>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp <
>>>> blowekamp at mail.nih.gov> escribi?:
>>>>
>>>>> Hello,
>>>>>
>>>>> Did you compile TextureFeatureImage in Release mode?
>>>>>
>>>>> 1) The filter does not scale well with a large radius. And given by
>>>>> your initial report of print a very large number of offset you, it sounds
>>>>> like you are using a large radius with many offsets. I created a
>>>>> 224x224x300 unsigned short image and ran with the default offset and a
>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this filter is was ~10x
>>>>> faster than this example... things change though...
>>>>>
>>>>>
>>>>> 2) I sounds like the boundaries/limits of the histogram may be
>>>>> clipping you values. I would inspect the co-occurance matrix.
>>>>>
>>>>>
>>>>> HTH,
>>>>> Brad
>>>>>
>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca <
>>>>> franciscolopezdelafranca at gmail.com> wrote:
>>>>>
>>>>> I've tested with itkTextureFeatureImageFilter, with
>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures example,
>>>>> for a 3D image and here are my comments:
>>>>>
>>>>>
>>>>> 1. I had to interrupt the test after several hours and it kept on
>>>>> calculating. And this is for only a 3D image (224x224x300). I need to
>>>>> process around 35 images.
>>>>> 2. The result (texture features: entropy, energy, correlation, LH,
>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0, 7.83083e+247].
>>>>> These values were not what I expected based on my experience on another
>>>>> application I developed, but in that case, I calculated the texture
>>>>> features for an image as a whole, not voxel by voxel.
>>>>>
>>>>> Regards.
>>>>>
>>>>> 2015-09-30 8:46 GMT+02:00 vis <itkhelpacc at gmail.com>:
>>>>>
>>>>>> i yes i have tried radius = 3;
>>>>>> still no luck
>>>>>>
>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca [via ITK
>>>>>> Insight
>>>>>> Users] <ml-node+s2283740n7587961h47 at n2.nabble.com> wrote:
>>>>>>
>>>>>> > Have you tried with a radius of 3 instead of 1?
>>>>>> >
>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
>>>>>> >
>>>>>> >> hey Matt,
>>>>>> >> thanks for ur advice.. it did build successfully... but im not
>>>>>> able to run
>>>>>> >> the code for 2D png image... i tried to change the dimension to 2
>>>>>> and
>>>>>> >> build
>>>>>> >> it which it did.. but when i run the code using the command
>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png putput.png
>>>>>> 1... i see
>>>>>> >> this output
>>>>>> >>
>>>>>> >> offset: [-1, -1] [0, -1]
>>>>>> >> offset: [0, -1] [1, -1]
>>>>>> >> offset: [-1, 0] [0, 0]
>>>>>> >> offset: [0, 0] [1, 0]
>>>>>> >> offset: [-1, 1] [0, 1]
>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the program... if pls
>>>>>> tel me
>>>>>> >> how can i modify this code to work wid 2d image... forgive me if
>>>>>> my ques
>>>>>> >> are really silly im trying to learn something..
>>>>>> >> regards
>>>>>> >> Vis
>>>>>> >>
>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via ITK Insight
>>>>>> Users]
>>>>>> >> <
>>>>>> >> [hidden email] <
>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
>>>>>> >> wrote:
>>>>>> >>
>>>>>> >> > Hi,
>>>>>> >> >
>>>>>> >> > The function:
>>>>>> >> >
>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char *argv[])
>>>>>> >> >
>>>>>> >> > must be renamed to
>>>>>> >> >
>>>>>> >> >   main(int argc, char* argv[])
>>>>>> >> >
>>>>>> >> > HTH,
>>>>>> >> > Matt
>>>>>> >> >
>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>>>>>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>> wrote:
>>>>>> >> >
>>>>>> >> > > hi all,
>>>>>> >> > > im trying to build the itkTextureFeatureImageFilterTest.cxx
>>>>>> code but
>>>>>> >> im
>>>>>> >> > not
>>>>>> >> > > able to it is showing the following error
>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>>>>>> Configuration:
>>>>>> >> Debug
>>>>>> >> > x64
>>>>>> >> > > ------
>>>>>> >> > > 1>  Checking Build System
>>>>>> >> > > 1>  CMake does not need to re-run because
>>>>>> >> > >
>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>>>>>> >> > is
>>>>>> >> > > up-to-date.
>>>>>> >> > > 2>------ Rebuild All started: Project:
>>>>>> >> itkTextureFeatureImageFilterTest,
>>>>>> >> > > Configuration: Debug x64 ------
>>>>>> >> > > 2>  Building Custom Rule
>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>> >> > > 2>  CMake does not need to re-run because
>>>>>> >> > >
>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>> >> > is
>>>>>> >> > > up-to-date.
>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>>>>>> 'std::_Copy_impl':
>>>>>> >> > Function
>>>>>> >> > > call with parameters that may be unsafe - this call relies on
>>>>>> the
>>>>>> >> caller
>>>>>> >> > to
>>>>>> >> > > check that the passed values are correct. To disable this
>>>>>> warning, use
>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how to use
>>>>>> Visual C++
>>>>>> >> > > 'Checked Iterators'
>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>> 'std::_Copy_impl'
>>>>>> >> > > 2>
>>>>>> >> > >
>>>>>> >>
>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>>>>>> >> > see
>>>>>> >> > > reference to function template instantiation '_OutIt
>>>>>> std::copy<const
>>>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)' being
>>>>>> compiled
>>>>>> >> > > 2>          with
>>>>>> >> > > 2>          [
>>>>>> >> > > 2>              _OutIt=unsigned char *,
>>>>>> >> > > 2>              _InIt=const unsigned char *
>>>>>> >> > > 2>          ]
>>>>>> >> > > 2>
>>>>>> >> > >
>>>>>> >>
>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>>>>>> >> > > while compiling class template member function 'void
>>>>>> >> > > itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>>>>>> >> > > 2>          with
>>>>>> >> > > 2>          [
>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>> >> > > 2>          ]
>>>>>> >> > > 2>
>>>>>> >> > >
>>>>>> >> >
>>>>>> >>
>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>>>>>> >> >
>>>>>> >> > > : see reference to class template instantiation
>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>>>>>> >> > > 2>          with
>>>>>> >> > > 2>          [
>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>> >> > > 2>          ]
>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>> 'std::_Copy_impl'
>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>> 'std::_Copy_impl'
>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>> 'std::_Copy_impl'
>>>>>> >> > > 2>     Creating library
>>>>>> >> > >
>>>>>> >> >
>>>>>> >>
>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>>>>>> >> >
>>>>>> >> > > and object
>>>>>> >> > >
>>>>>> >> >
>>>>>> >>
>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>>>>>> >> >
>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved external
>>>>>> symbol
>>>>>> >> > main
>>>>>> >> > > referenced in function __tmainCRTStartup
>>>>>> >> > >
>>>>>> >> >
>>>>>> >>
>>>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>>>>>> >> >
>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>>>>>> Configuration: Debug
>>>>>> >> > x64
>>>>>> >> > > ------
>>>>>> >> > > 3>  Building Custom Rule
>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>> >> > > 3>  CMake does not need to re-run because
>>>>>> >> > >
>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>> >> > is
>>>>>> >> > > up-to-date.
>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0 skipped
>>>>>> ==========
>>>>>> >> > > im using the follwing CMakeList.txt
>>>>>> >> > > # This is the root ITK CMakeLists file.
>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>>>>>> >> > > endif()
>>>>>> >> > >
>>>>>> >> > >
>>>>>> >> > > # This project is designed to be built outside the Insight
>>>>>> source
>>>>>> >> tree.
>>>>>> >> > > project(HelloWorld)
>>>>>> >> > >
>>>>>> >> > > # Find ITK.
>>>>>> >> > > find_package(ITK REQUIRED)
>>>>>> >> > > include(${ITK_USE_FILE})
>>>>>> >> > >
>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>>>>>> >> > >
>>>>>> >> > > target_link_libraries(itkTextureFeatureImageFilterTest
>>>>>> >> ${ITK_LIBRARIES})
>>>>>> >> > >
>>>>>> >> > > please tel me wat the error is??
>>>>>> >> > >
>>>>>> >> > >
>>>>>> >> > >
>>>>>> >> > > --
>>>>>> >> > > View this message in context:
>>>>>> >> >
>>>>>> >>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>>>>>> >> > > Sent from the ITK Insight Users mailing list archive at
>>>>>> Nabble.com.
>>>>>> >> > > _____________________________________
>>>>>> >> > > Powered by www.kitware.com
>>>>>> >> > >
>>>>>> >> > > Visit other Kitware open-source projects at
>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>>>>>> >> > >
>>>>>> >> > > Kitware offers ITK Training Courses, for more information
>>>>>> visit:
>>>>>> >> > > http://www.kitware.com/products/protraining.php
>>>>>> >> > >
>>>>>> >> > > Please keep messages on-topic and check the ITK FAQ at:
>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >> > >
>>>>>> >> > > Follow this link to subscribe/unsubscribe:
>>>>>> >> > > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >> > _____________________________________
>>>>>> >> > Powered by www.kitware.com
>>>>>> >> >
>>>>>> >> > Visit other Kitware open-source projects at
>>>>>> >> > http://www.kitware.com/opensource/opensource.html
>>>>>> >> >
>>>>>> >> > Kitware offers ITK Training Courses, for more information visit:
>>>>>> >> > http://www.kitware.com/products/protraining.php
>>>>>> >> >
>>>>>> >> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >> >
>>>>>> >> > Follow this link to subscribe/unsubscribe:
>>>>>> >> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >> >
>>>>>> >> >
>>>>>> >> > ------------------------------
>>>>>> >> > If you reply to this email, your message will be added to the
>>>>>> discussion
>>>>>> >> > below:
>>>>>> >> >
>>>>>> >> >
>>>>>> >>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587952.html
>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by pixel, click
>>>>>> here
>>>>>> >> > < > .
>>>>>> >> > NAML
>>>>>> >> > <
>>>>>> >>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>> >> >
>>>>>> >> >
>>>>>> >>
>>>>>> >>
>>>>>> >>
>>>>>> >>
>>>>>> >> --
>>>>>> >> View this message in context:
>>>>>> >>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>>>>>> >> Sent from the ITK Insight Users mailing list archive at Nabble.com
>>>>>> .
>>>>>> >> _____________________________________
>>>>>> >> Powered by www.kitware.com
>>>>>> >>
>>>>>> >> Visit other Kitware open-source projects at
>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>> >>
>>>>>> >> Kitware offers ITK Training Courses, for more information visit:
>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>> >>
>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >>
>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >>
>>>>>> >
>>>>>> >
>>>>>> > _____________________________________
>>>>>> > Powered by www.kitware.com
>>>>>> >
>>>>>> > Visit other Kitware open-source projects at
>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>> >
>>>>>> > Kitware offers ITK Training Courses, for more information visit:
>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>> >
>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >
>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >
>>>>>> >
>>>>>> > ------------------------------
>>>>>> > If you reply to this email, your message will be added to the
>>>>>> discussion
>>>>>> > below:
>>>>>> >
>>>>>> >
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587961.html
>>>>>> > To unsubscribe from [ITK-users] Texture pixel by pixel, click here
>>>>>> > <
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=unsubscribe_by_code&node=7587867&code=aXRraGVscGFjY0BnbWFpbC5jb218NzU4Nzg2N3wzNzEzNjYzNzk=
>>>>>> >
>>>>>> > .
>>>>>> > NAML
>>>>>> > <
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>> >
>>>>>> >
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>> --
>>>>>> View this message in context:
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
>>>>>> Sent from the ITK Insight Users mailing list archive at Nabble.com.
>>>>>> _____________________________________
>>>>>> Powered by www.kitware.com
>>>>>>
>>>>>> Visit other Kitware open-source projects at
>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>
>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>
>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>
>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>
>>>>>
>>>>> _____________________________________
>>>>> Powered by www.kitware.com
>>>>>
>>>>> Visit other Kitware open-source projects at
>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>
>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>> http://www.kitware.com/products/protraining.php
>>>>>
>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>
>>>>> Follow this link to subscribe/unsubscribe:
>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>
>>>>>
>>>>>
>>>
>>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
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From suneezahanif02 at gmail.com  Thu Feb 11 11:16:57 2016
From: suneezahanif02 at gmail.com (suneeza hanif)
Date: Thu, 11 Feb 2016 17:16:57 +0100
Subject: [ITK-users] Write a result image witout resampling
In-Reply-To: <CAJFNcCTvzrc9dEgCHyLFfnHxeGOfC10VeO2onHkY0PJwh1_TNA@mail.gmail.com>
References: <CAHpGi9frDCQ8CyYVNap5p2=tFHcF2A30-Xrki9Aqztnf8izwQg@mail.gmail.com>
 <CAPf2UMSZPgSfviE9=_sdyd4vX-hg7ZV0bhCmbSC=QxhUbzX49w@mail.gmail.com>
 <CAHpGi9ekkdr2--r14rYbtvN9+qGvdBTFtrXe+OFoE4ErG3KwYQ@mail.gmail.com>
 <CA+-JtYUYnDVJHHMEt5qD=+bkezX0MF497Qdfori6ZsUePOv-7Q@mail.gmail.com>
 <CAJFNcCTvzrc9dEgCHyLFfnHxeGOfC10VeO2onHkY0PJwh1_TNA@mail.gmail.com>
Message-ID: <CA+-JtYWyuXzNjNOtLroAU56rQakf2sOvyqbNoRTYrhHnc70=hg@mail.gmail.com>

Hello Simon,

Thank you for your reply.

The problem is after doing registration, the transformed image is written
in a file. The quality of transformed image is not same as moving image.
When I change the window and level of an image then it look similar.

Best Regards,
Suneeza

On Thu, Feb 11, 2016 at 4:41 PM, Simon Alexander <skalexander at gmail.com>
wrote:

> In general it is only going to be possible to avoid re-sampling when your
> transform is strictly rigid (i.e. the sampling lattice of the image can be
> rigidly transformed and remain regularly shaped).   Rescaling the intensity
> is a completely different issue, but can be used to avoid introducing extra
> quantization error, for example if you use floating point images in ways
> that will adjust the value range and then casting them to an integer type.
>
> What are you trying to achieve?
>
> On Wed, 10 Feb 2016 at 16:57 suneeza hanif <suneezahanif02 at gmail.com>
> wrote:
>
>> Hello Gabriel,
>>
>> I have same problem when I do re-sampling, image quality is not same as
>> before. You mentioned that you changed the cast filter type to  RescaleIntensityImageFilter
>> type but when I tried to change it I got an error. As  RescaleIntensityImageFilter
>> type already contains input and output image type and casting filter type
>> also needs input and output image type.
>>
>> Can you please tell me in detail how did you manage to get the desired
>> results. This would be of great help.
>>
>> Thanks.
>>
>> Best Regards,
>> Suneeza
>>
>> On Tue, Jan 26, 2016 at 6:57 PM, Gabriel A. Gim?nez <
>> gabrielgimenez85 at gmail.com> wrote:
>>
>>> Thanks D?enan Zuki?...., I changed the cast filter type
>>> to RescaleIntensityImageFilter and I got the expected result.
>>>
>>> Best Regards...
>>>
>>> 2016-01-10 16:22 GMT-03:00 D?enan Zuki? <dzenanz at gmail.com>:
>>>
>>>> Hi Gabriel,
>>>>
>>>> you probably need to use interpolation method of a higher quality for
>>>> the final resampling, i.e. windowed sinc
>>>> <http://www.itk.org/Doxygen/html/classitk_1_1WindowedSincInterpolateImageFunction.html>
>>>> instead of linear
>>>> <http://www.itk.org/Doxygen/html/classitk_1_1LinearInterpolateImageFunction.html>
>>>> .
>>>>
>>>> Regards,
>>>> D?enan
>>>>
>>>> On Fri, Jan 8, 2016 at 9:17 PM, Gabriel A. Gim?nez <
>>>> gabrielgimenez85 at gmail.com> wrote:
>>>>
>>>>> Hi everyone...how are you ?
>>>>>
>>>>> I'm going to point, to finish the registration process build the new
>>>>> transformed fixed image (based on the manual examples), but the quality of
>>>>> the generated image is degraded...how I can create a new image with the
>>>>> same quality as the original image? I just need to apply the transformation
>>>>> parameters.
>>>>>
>>>>> Regards and thanks in advance,
>>>>>
>>>>> --
>>>>> *Gabriel Alberto Gim?nez.*
>>>>>
>>>>> _____________________________________
>>>>> Powered by www.kitware.com
>>>>>
>>>>> Visit other Kitware open-source projects at
>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>
>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>> http://www.kitware.com/products/protraining.php
>>>>>
>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>
>>>>> Follow this link to subscribe/unsubscribe:
>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>
>>>>>
>>>>
>>>
>>>
>>> --
>>> *Gabriel Alberto Gim?nez.*
>>>
>>> _____________________________________
>>> Powered by www.kitware.com
>>>
>>> Visit other Kitware open-source projects at
>>> http://www.kitware.com/opensource/opensource.html
>>>
>>> Kitware offers ITK Training Courses, for more information visit:
>>> http://www.kitware.com/products/protraining.php
>>>
>>> Please keep messages on-topic and check the ITK FAQ at:
>>> http://www.itk.org/Wiki/ITK_FAQ
>>>
>>> Follow this link to subscribe/unsubscribe:
>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>
>>>
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://www.kitware.com/products/protraining.php
>>
>> Please keep messages on-topic and check the ITK FAQ at:
>> http://www.itk.org/Wiki/ITK_FAQ
>>
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>> http://public.kitware.com/mailman/listinfo/insight-users
>>
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From dzenanz at gmail.com  Thu Feb 11 11:20:12 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Thu, 11 Feb 2016 11:20:12 -0500
Subject: [ITK-users] zoom image content
In-Reply-To: <1455175253042-36768.post@n7.nabble.com>
References: <1455175253042-36768.post@n7.nabble.com>
Message-ID: <CAPf2UMQfX=wHDhuQj07ZHuoVBFTcfc0h1m=dSoNDBfX93G8djg@mail.gmail.com>

Hi Filippo,

depending on what kind of enlargement you want, you might use resample
filter
<http://www.itk.org/Doxygen/html/classitk_1_1ResampleImageFilter.html>, dilate
filter
<http://www.itk.org/Doxygen/html/classitk_1_1BinaryDilateImageFilter.html>,
or do some manual hacking of the image's metadata (double the image
spacing, reduce the LargestPossibleRegion and possibly shift its center).

HTH,
D?enan

On Thu, Feb 11, 2016 at 2:20 AM, Filippo Brogi <filippo.brogi at topic.nl>
wrote:

> Hello everyone.
> As a result of a 2D segmentation I get a binary image with the segmented
> part in white. I would like to enlarge the white part by a scalar factor,
> without changing the size the image. Is it possible? Thanks in advance.
>
>
>
> --
> View this message in context:
> http://itk-users.7.n7.nabble.com/zoom-image-content-tp36768.html
> Sent from the ITK - Users mailing list archive at Nabble.com.
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
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From dzenanz at gmail.com  Thu Feb 11 11:25:31 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Thu, 11 Feb 2016 11:25:31 -0500
Subject: [ITK-users] Write a result image witout resampling
In-Reply-To: <CA+-JtYWyuXzNjNOtLroAU56rQakf2sOvyqbNoRTYrhHnc70=hg@mail.gmail.com>
References: <CAHpGi9frDCQ8CyYVNap5p2=tFHcF2A30-Xrki9Aqztnf8izwQg@mail.gmail.com>
 <CAPf2UMSZPgSfviE9=_sdyd4vX-hg7ZV0bhCmbSC=QxhUbzX49w@mail.gmail.com>
 <CAHpGi9ekkdr2--r14rYbtvN9+qGvdBTFtrXe+OFoE4ErG3KwYQ@mail.gmail.com>
 <CA+-JtYUYnDVJHHMEt5qD=+bkezX0MF497Qdfori6ZsUePOv-7Q@mail.gmail.com>
 <CAJFNcCTvzrc9dEgCHyLFfnHxeGOfC10VeO2onHkY0PJwh1_TNA@mail.gmail.com>
 <CA+-JtYWyuXzNjNOtLroAU56rQakf2sOvyqbNoRTYrhHnc70=hg@mail.gmail.com>
Message-ID: <CAPf2UMRJfXqxmHwpfQNOAXnV7gpMCy504yWfTO_AHMw1TZ9bHg@mail.gmail.com>

Hi Suneeza,

what is your input data format? Which tool are you using to visualize the
images? DICOM can have a lot of metadata, including a predefined window and
level. To eliminate some of the variables, can you use .mha or .nrrd format
for both input and output, and use a simple viewer such as ITK-SNAP
<http://www.itksnap.org/pmwiki/pmwiki.php> to view and compare the images?
Also worth verifying is that both input and output format have the same
pixel type e.g. unsigned short.

Regards,
D?enan

On Thu, Feb 11, 2016 at 11:16 AM, suneeza hanif <suneezahanif02 at gmail.com>
wrote:

> Hello Simon,
>
> Thank you for your reply.
>
> The problem is after doing registration, the transformed image is written
> in a file. The quality of transformed image is not same as moving image.
> When I change the window and level of an image then it look similar.
>
> Best Regards,
> Suneeza
>
> On Thu, Feb 11, 2016 at 4:41 PM, Simon Alexander <skalexander at gmail.com>
> wrote:
>
>> In general it is only going to be possible to avoid re-sampling when your
>> transform is strictly rigid (i.e. the sampling lattice of the image can be
>> rigidly transformed and remain regularly shaped).   Rescaling the intensity
>> is a completely different issue, but can be used to avoid introducing extra
>> quantization error, for example if you use floating point images in ways
>> that will adjust the value range and then casting them to an integer type.
>>
>> What are you trying to achieve?
>>
>> On Wed, 10 Feb 2016 at 16:57 suneeza hanif <suneezahanif02 at gmail.com>
>> wrote:
>>
>>> Hello Gabriel,
>>>
>>> I have same problem when I do re-sampling, image quality is not same as
>>> before. You mentioned that you changed the cast filter type to  RescaleIntensityImageFilter
>>> type but when I tried to change it I got an error. As  RescaleIntensityImageFilter
>>> type already contains input and output image type and casting filter type
>>> also needs input and output image type.
>>>
>>> Can you please tell me in detail how did you manage to get the desired
>>> results. This would be of great help.
>>>
>>> Thanks.
>>>
>>> Best Regards,
>>> Suneeza
>>>
>>> On Tue, Jan 26, 2016 at 6:57 PM, Gabriel A. Gim?nez <
>>> gabrielgimenez85 at gmail.com> wrote:
>>>
>>>> Thanks D?enan Zuki?...., I changed the cast filter type
>>>> to RescaleIntensityImageFilter and I got the expected result.
>>>>
>>>> Best Regards...
>>>>
>>>> 2016-01-10 16:22 GMT-03:00 D?enan Zuki? <dzenanz at gmail.com>:
>>>>
>>>>> Hi Gabriel,
>>>>>
>>>>> you probably need to use interpolation method of a higher quality for
>>>>> the final resampling, i.e. windowed sinc
>>>>> <http://www.itk.org/Doxygen/html/classitk_1_1WindowedSincInterpolateImageFunction.html>
>>>>> instead of linear
>>>>> <http://www.itk.org/Doxygen/html/classitk_1_1LinearInterpolateImageFunction.html>
>>>>> .
>>>>>
>>>>> Regards,
>>>>> D?enan
>>>>>
>>>>> On Fri, Jan 8, 2016 at 9:17 PM, Gabriel A. Gim?nez <
>>>>> gabrielgimenez85 at gmail.com> wrote:
>>>>>
>>>>>> Hi everyone...how are you ?
>>>>>>
>>>>>> I'm going to point, to finish the registration process build the new
>>>>>> transformed fixed image (based on the manual examples), but the quality of
>>>>>> the generated image is degraded...how I can create a new image with the
>>>>>> same quality as the original image? I just need to apply the transformation
>>>>>> parameters.
>>>>>>
>>>>>> Regards and thanks in advance,
>>>>>>
>>>>>> --
>>>>>> *Gabriel Alberto Gim?nez.*
>>>>>>
>>>>>> _____________________________________
>>>>>> Powered by www.kitware.com
>>>>>>
>>>>>> Visit other Kitware open-source projects at
>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>
>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>
>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>
>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>
>>>>>>
>>>>>
>>>>
>>>>
>>>> --
>>>> *Gabriel Alberto Gim?nez.*
>>>>
>>>> _____________________________________
>>>> Powered by www.kitware.com
>>>>
>>>> Visit other Kitware open-source projects at
>>>> http://www.kitware.com/opensource/opensource.html
>>>>
>>>> Kitware offers ITK Training Courses, for more information visit:
>>>> http://www.kitware.com/products/protraining.php
>>>>
>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>
>>>> Follow this link to subscribe/unsubscribe:
>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>
>>>>
>>> _____________________________________
>>> Powered by www.kitware.com
>>>
>>> Visit other Kitware open-source projects at
>>> http://www.kitware.com/opensource/opensource.html
>>>
>>> Kitware offers ITK Training Courses, for more information visit:
>>> http://www.kitware.com/products/protraining.php
>>>
>>> Please keep messages on-topic and check the ITK FAQ at:
>>> http://www.itk.org/Wiki/ITK_FAQ
>>>
>>> Follow this link to subscribe/unsubscribe:
>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>
>>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
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>
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From wer.wie.was.wiso.weshalb.warum at googlemail.com  Thu Feb 11 11:33:20 2016
From: wer.wie.was.wiso.weshalb.warum at googlemail.com (wer.wie.was.wiso.weshalb.warum at googlemail.com)
Date: Thu, 11 Feb 2016 17:33:20 +0100
Subject: [ITK-users] zoom image content
In-Reply-To: <1455175253042-36768.post@n7.nabble.com>
References: <1455175253042-36768.post@n7.nabble.com>
Message-ID: <20160211163320.GA20819@jerng.de>

Hi there,

You may want to have a look at morphological operations, particularly
itkBinaryDilateImageFilter.

Best,
JE

On 11.02.16, 00:20, Filippo Brogi wrote:
> Hello everyone.
> As a result of a 2D segmentation I get a binary image with the segmented
> part in white. I would like to enlarge the white part by a scalar factor,
> without changing the size the image. Is it possible? Thanks in advance.
> 
> 
> 
> --
> View this message in context: http://itk-users.7.n7.nabble.com/zoom-image-content-tp36768.html
> Sent from the ITK - Users mailing list archive at Nabble.com.
> _____________________________________
> Powered by www.kitware.com
> 
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
> 
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
> 
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
> 
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
> 

From franciscolopezdelafranca at gmail.com  Thu Feb 11 12:07:52 2016
From: franciscolopezdelafranca at gmail.com (Francisco Lopez de la Franca)
Date: Thu, 11 Feb 2016 18:07:52 +0100
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <CAPf2UMTwwE=7eLsCjNZpnWHTemQ3Kpi3waGA0p9tDkcWoU2aZQ@mail.gmail.com>
References: <CALzTN-Sbdvmm=rrFjxeePTA3_tzdC6iuOmvsckGzvNx7KCbr_Q@mail.gmail.com>
 <CAPYv+6LzOEvzwksH8_pp_F3urprbV3NLy=o3+3oKNJDzz=HE=g@mail.gmail.com>
 <CAJqi3EK+xH6na+WLkLK9K2K+C95z5=LVDCK80_B0z4K496-YMA@mail.gmail.com>
 <CAPYv+6KFkZ_UydTpwXEa0fORuZkJ=QbSVLkQe3znqdmNSUsvgA@mail.gmail.com>
 <CAJqi3E+qm_mUNJBCScnzUO9daZ=Ta7PsCWb-5fozL8WK6=A6JA@mail.gmail.com>
 <84A225AE-400C-4FBA-97FA-6A027CB17208@mail.nih.gov>
 <CAJqi3EJu9PH9WG5WQomxwMpcNwd8zCcT0BZ2SYXkX4JMOQtT-w@mail.gmail.com>
 <CAJqi3E+eNQxJBbrUt-ReAPNqF+xZOLMFZa_KB_v9tDdbF1SNog@mail.gmail.com>
 <CAJqi3ELNovYUpgJ=cFStA2gq-ix1UiaY-4YvZTJ327OQ8LGn9w@mail.gmail.com>
 <CAJqi3EJMqTscSxNdOn58Yz2NazfdSdcrTgOY6hRYAK3Z=3-Asw@mail.gmail.com>
 <CAPf2UMTwwE=7eLsCjNZpnWHTemQ3Kpi3waGA0p9tDkcWoU2aZQ@mail.gmail.com>
Message-ID: <CAJqi3EJ6gSjPxVG9tNguYNHf0pCatepBv3w-4sTtKOnRig_4vA@mail.gmail.com>

Hi Dzenan,
The original class is here:

https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h
https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx

I've just added setInput and setMaskImage methods and modify some lines in
the original class as I indicated in the yesterday mail within this thread.
I'm running it on Windows, and there is no error at all, just a crash. I
may have to include exceptions management.
The crash occurs just when calling p3 = maskIter.GetPixel(iter->first)

If you know why it could be or if you need more clarification, please let
me know.
Many thanks

2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
ml-node+s2283740n7588477h22 at n2.nabble.com>:

> Hi Francisco,
>
> "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the error message
> that goes along with the crash? In which file and line does it crash?
>
> Regards
>
> On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca <[hidden
> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0>> wrote:
>
>> Hi,
>> Please, someone that could help me. I'm working in a pre-doctorate
>> project and I need this class to work.
>> I've read the chapter 13 in the ITK Software Guide on how to write a
>> filter and now I see the fact of the threads due to inheritance of
>> ImageToImageFilter.
>> But, I keep on without understanding why the code crashes just when
>> calling
>> *const PixelType p3 = maskIter.GetPixel(iter->first);*
>> It is just a call to read data, not to write.
>>
>> I guess somebody that had worked with creation of filters might see
>> "easily" the problem, but not me.
>>
>> So, again, please, I need someone to help me with this because I'm stuck
>> on this point.
>>
>> Thank you very much.
>> KR.
>> /Francisco
>>
>> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca <[hidden email]
>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1>>:
>>
>>> Hi Bradley again.
>>> I'm modifying your class in order to be able to set a mask image (a
>>> binary image) to be used as a limit in the histogram calculations, I mean,
>>> I set an input, a mask and the class should take into account to calculate
>>> the histograms only the voxels that belong to the input and to the mask
>>> image and having the value 1 in the mask image.
>>> The changes seem to be easy but I don?t know why my tests are not
>>> working. It seems that 2 threads are working at the same time and when I
>>> added my mask iterator, the code crashes.
>>>
>>> *** Consider that the input and mask images are the same origin, spacing
>>> and size.
>>>
>>> I attach the main changes I've done, and I would thank you a lot if you
>>> don't mind having a look and help me to find what I'm doing wrong:
>>>
>>> template< class TImageType, class TOutputImage >
>>> void
>>> TextureFeatureImageFilterV2< TImageType, TOutputImage >::*SetInput*(InputImageType
>>> *image)
>>> {
>>>   // Process object is not const-correct so the const_cast is required
>>> here
>>>   this->ProcessObject::SetNthInput( 0,
>>>                                     const_cast< InputImageType * >(
>>> image ) );
>>> }
>>>
>>> template< class TImageType, class TOutputImage >
>>> void
>>> TextureFeatureImageFilterV2< TImageType, TOutputImage >::*SetMaskImage*(InputImageType
>>> *image)
>>> {
>>>   // Process object is not const-correct so the const_cast is required
>>> here
>>>   this->ProcessObject::SetNthInput( 1, const_cast< InputImageType * >(
>>> image ) );
>>>
>>>   _maskImage = image; // _maskImage is a private member
>>> }
>>>
>>> In the *ThreadedGenerateData*(const RegionType& outputRegionForThread,
>>> ThreadIdType threadId ) method:
>>> {
>>>
>>> ...
>>>
>>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
>>>     {
>>>     NeighborhoodIteratorType nIter( radius, input, *fit );
>>>     *NeighborhoodIteratorType maskIter( radius, _maskImage, *fit);*
>>>     OutputIterator           outIter(output, *fit);
>>>
>>>     OutputPixelType out;
>>>     NumericTraits<OutputPixelType>::SetLength( out,
>>> this->GetNumberOfOutputComponents() );
>>>
>>>     while( !nIter.IsAtEnd() )
>>>       {
>>>       this->FillHistogram( *histogram, nIter, *maskIter *);
>>>
>>>       ...
>>>
>>>       ++nIter;
>>>       ++outIter;
>>>      * ++maskIter;*
>>>     ...
>>>
>>> In the *FillHistogram *method:
>>> {
>>>
>>> ...
>>>
>>>   while( iter != m_CooccurenceOffsetVector.end() )
>>>     {
>>>
>>>     const PixelType p1 = niter.GetPixel(iter->first);
>>>     const PixelType p2 = niter.GetPixel(iter->second);
>>>     std::cout << "Before p3" << std::endl;
>>>
>>> *    const PixelType p3 = maskIter.GetPixel(iter->first);    *std::cout
>>> << "After p3: " << p3 << std::endl;
>>>
>>> *    const PixelType p4 = maskIter.GetPixel(iter->second);   *
>>> std::cout << "After p4: " << p4 << std::endl;
>>>
>>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <= m_Max
>>>             *&& p3 == _insidePixelValue && p4 == _insidePixelValue* )
>>> // The point
>>>       {
>>>
>>> ...
>>>
>>>
>>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>>>
>>> Thank you so much.
>>> My kind regards.
>>> /Paco
>>>
>>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca <[hidden email]
>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2>>:
>>>
>>>> Hello Bradley again.
>>>> Sorry but I'd like to re-open this issue because I need your class but
>>>> with some modification.
>>>> I pass to tell you.
>>>>
>>>> As my tests with your external class were not good taking into account
>>>> the performance, I wonder if you could create a variant of it, but in which
>>>> I can set a mask image and your class just return the VectorImage with all
>>>> the features for that region (the masked locations) as
>>>> itk::ScalarImageToTextureFeaturesFilter class does.
>>>> I mean, to get the vector image with all the features but just
>>>> calculate it for the regions belonging to the mask image. Positions not
>>>> belonging to the mask region could have a pixel value of 0, for instance.
>>>>
>>>> I don?t know if it is very costly for you,  but I would thank you so
>>>> much. Otherwise, I could try it but I'd need your suggestions on how to do
>>>> it.
>>>>
>>>> Thanks a lot.
>>>> Best regards.
>>>>
>>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca <[hidden email]
>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3>>:
>>>>
>>>>> Hello Bradley again,
>>>>> I would like to ask you for a couple of favours. In the one hand,
>>>>> could you please send me your 3D image so that I can test on it? And on the
>>>>> other hand, could you test the example I have referenced in the previous
>>>>> email with your image, not changing anything in the code, such as it is,
>>>>> and tell me if the execution time is normal?
>>>>> Thank you very much.
>>>>> Regards,
>>>>> /Francisco
>>>>>
>>>>> PS: All my application trace is printed via standard 'cout' command,
>>>>> not due to a debugging compilation mode.
>>>>>
>>>>>
>>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp <[hidden
>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=4>>
>>>>> escribi?:
>>>>>
>>>>>> Hello,
>>>>>>
>>>>>> Did you compile TextureFeatureImage in Release mode?
>>>>>>
>>>>>> 1) The filter does not scale well with a large radius. And given by
>>>>>> your initial report of print a very large number of offset you, it sounds
>>>>>> like you are using a large radius with many offsets. I created a
>>>>>> 224x224x300 unsigned short image and ran with the default offset and a
>>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this filter is was ~10x
>>>>>> faster than this example... things change though...
>>>>>>
>>>>>>
>>>>>> 2) I sounds like the boundaries/limits of the histogram may be
>>>>>> clipping you values. I would inspect the co-occurance matrix.
>>>>>>
>>>>>>
>>>>>> HTH,
>>>>>> Brad
>>>>>>
>>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca <[hidden
>>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=5>>
>>>>>> wrote:
>>>>>>
>>>>>> I've tested with itkTextureFeatureImageFilter, with
>>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures example,
>>>>>> for a 3D image and here are my comments:
>>>>>>
>>>>>>
>>>>>> 1. I had to interrupt the test after several hours and it kept on
>>>>>> calculating. And this is for only a 3D image (224x224x300). I need to
>>>>>> process around 35 images.
>>>>>> 2. The result (texture features: entropy, energy, correlation, LH,
>>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0, 7.83083e+247].
>>>>>> These values were not what I expected based on my experience on another
>>>>>> application I developed, but in that case, I calculated the texture
>>>>>> features for an image as a whole, not voxel by voxel.
>>>>>>
>>>>>> Regards.
>>>>>>
>>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6>>:
>>>>>>
>>>>>>> i yes i have tried radius = 3;
>>>>>>> still no luck
>>>>>>>
>>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca [via ITK
>>>>>>> Insight
>>>>>>> Users] <[hidden email]
>>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7>> wrote:
>>>>>>>
>>>>>>> > Have you tried with a radius of 3 instead of 1?
>>>>>>> >
>>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
>>>>>>> >
>>>>>>> >> hey Matt,
>>>>>>> >> thanks for ur advice.. it did build successfully... but im not
>>>>>>> able to run
>>>>>>> >> the code for 2D png image... i tried to change the dimension to 2
>>>>>>> and
>>>>>>> >> build
>>>>>>> >> it which it did.. but when i run the code using the command
>>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png putput.png
>>>>>>> 1... i see
>>>>>>> >> this output
>>>>>>> >>
>>>>>>> >> offset: [-1, -1] [0, -1]
>>>>>>> >> offset: [0, -1] [1, -1]
>>>>>>> >> offset: [-1, 0] [0, 0]
>>>>>>> >> offset: [0, 0] [1, 0]
>>>>>>> >> offset: [-1, 1] [0, 1]
>>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the program... if pls
>>>>>>> tel me
>>>>>>> >> how can i modify this code to work wid 2d image... forgive me if
>>>>>>> my ques
>>>>>>> >> are really silly im trying to learn something..
>>>>>>> >> regards
>>>>>>> >> Vis
>>>>>>> >>
>>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via ITK
>>>>>>> Insight Users]
>>>>>>> >> <
>>>>>>> >> [hidden email] <
>>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
>>>>>>> >> wrote:
>>>>>>> >>
>>>>>>> >> > Hi,
>>>>>>> >> >
>>>>>>> >> > The function:
>>>>>>> >> >
>>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char *argv[])
>>>>>>> >> >
>>>>>>> >> > must be renamed to
>>>>>>> >> >
>>>>>>> >> >   main(int argc, char* argv[])
>>>>>>> >> >
>>>>>>> >> > HTH,
>>>>>>> >> > Matt
>>>>>>> >> >
>>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>>>>>>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>> wrote:
>>>>>>> >> >
>>>>>>> >> > > hi all,
>>>>>>> >> > > im trying to build the itkTextureFeatureImageFilterTest.cxx
>>>>>>> code but
>>>>>>> >> im
>>>>>>> >> > not
>>>>>>> >> > > able to it is showing the following error
>>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>>>>>>> Configuration:
>>>>>>> >> Debug
>>>>>>> >> > x64
>>>>>>> >> > > ------
>>>>>>> >> > > 1>  Checking Build System
>>>>>>> >> > > 1>  CMake does not need to re-run because
>>>>>>> >> > >
>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>>>>>>> >> > is
>>>>>>> >> > > up-to-date.
>>>>>>> >> > > 2>------ Rebuild All started: Project:
>>>>>>> >> itkTextureFeatureImageFilterTest,
>>>>>>> >> > > Configuration: Debug x64 ------
>>>>>>> >> > > 2>  Building Custom Rule
>>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>> >> > > 2>  CMake does not need to re-run because
>>>>>>> >> > >
>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>> >> > is
>>>>>>> >> > > up-to-date.
>>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>>>>>>> 'std::_Copy_impl':
>>>>>>> >> > Function
>>>>>>> >> > > call with parameters that may be unsafe - this call relies on
>>>>>>> the
>>>>>>> >> caller
>>>>>>> >> > to
>>>>>>> >> > > check that the passed values are correct. To disable this
>>>>>>> warning, use
>>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how to use
>>>>>>> Visual C++
>>>>>>> >> > > 'Checked Iterators'
>>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>> 'std::_Copy_impl'
>>>>>>> >> > > 2>
>>>>>>> >> > >
>>>>>>> >>
>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>>>>>>> >> > see
>>>>>>> >> > > reference to function template instantiation '_OutIt
>>>>>>> std::copy<const
>>>>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)' being
>>>>>>> compiled
>>>>>>> >> > > 2>          with
>>>>>>> >> > > 2>          [
>>>>>>> >> > > 2>              _OutIt=unsigned char *,
>>>>>>> >> > > 2>              _InIt=const unsigned char *
>>>>>>> >> > > 2>          ]
>>>>>>> >> > > 2>
>>>>>>> >> > >
>>>>>>> >>
>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>>>>>>> >> > > while compiling class template member function 'void
>>>>>>> >> > > itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>>>>>>> >> > > 2>          with
>>>>>>> >> > > 2>          [
>>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>> >> > > 2>          ]
>>>>>>> >> > > 2>
>>>>>>> >> > >
>>>>>>> >> >
>>>>>>> >>
>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>>>>>>> >> >
>>>>>>> >> > > : see reference to class template instantiation
>>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>>>>>>> >> > > 2>          with
>>>>>>> >> > > 2>          [
>>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>> >> > > 2>          ]
>>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>> 'std::_Copy_impl'
>>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>> 'std::_Copy_impl'
>>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>> 'std::_Copy_impl'
>>>>>>> >> > > 2>     Creating library
>>>>>>> >> > >
>>>>>>> >> >
>>>>>>> >>
>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>>>>>>> >> >
>>>>>>> >> > > and object
>>>>>>> >> > >
>>>>>>> >> >
>>>>>>> >>
>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>>>>>>> >> >
>>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved
>>>>>>> external symbol
>>>>>>> >> > main
>>>>>>> >> > > referenced in function __tmainCRTStartup
>>>>>>> >> > >
>>>>>>> >> >
>>>>>>> >>
>>>>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>>>>>>> >> >
>>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>>>>>>> Configuration: Debug
>>>>>>> >> > x64
>>>>>>> >> > > ------
>>>>>>> >> > > 3>  Building Custom Rule
>>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>> >> > > 3>  CMake does not need to re-run because
>>>>>>> >> > >
>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>> >> > is
>>>>>>> >> > > up-to-date.
>>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0 skipped
>>>>>>> ==========
>>>>>>> >> > > im using the follwing CMakeList.txt
>>>>>>> >> > > # This is the root ITK CMakeLists file.
>>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>>>>>>> >> > > endif()
>>>>>>> >> > >
>>>>>>> >> > >
>>>>>>> >> > > # This project is designed to be built outside the Insight
>>>>>>> source
>>>>>>> >> tree.
>>>>>>> >> > > project(HelloWorld)
>>>>>>> >> > >
>>>>>>> >> > > # Find ITK.
>>>>>>> >> > > find_package(ITK REQUIRED)
>>>>>>> >> > > include(${ITK_USE_FILE})
>>>>>>> >> > >
>>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>>>>>>> >> > >
>>>>>>> >> > > target_link_libraries(itkTextureFeatureImageFilterTest
>>>>>>> >> ${ITK_LIBRARIES})
>>>>>>> >> > >
>>>>>>> >> > > please tel me wat the error is??
>>>>>>> >> > >
>>>>>>> >> > >
>>>>>>> >> > >
>>>>>>> >> > > --
>>>>>>> >> > > View this message in context:
>>>>>>> >> >
>>>>>>> >>
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>>>>>>> >> > > Sent from the ITK Insight Users mailing list archive at
>>>>>>> Nabble.com.
>>>>>>> >> > > _____________________________________
>>>>>>> >> > > Powered by www.kitware.com
>>>>>>> >> > >
>>>>>>> >> > > Visit other Kitware open-source projects at
>>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>>>>>>> >> > >
>>>>>>> >> > > Kitware offers ITK Training Courses, for more information
>>>>>>> visit:
>>>>>>> >> > > http://www.kitware.com/products/protraining.php
>>>>>>> >> > >
>>>>>>> >> > > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
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>>>>>>> >> > > Follow this link to subscribe/unsubscribe:
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>>>>>>> >> >
>>>>>>> >> > Visit other Kitware open-source projects at
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>>>>>>> >> >
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>>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by pixel, click
>>>>>>> here
>>>>>>> >> > < > .
>>>>>>> >> > NAML
>>>>>>> >> > <
>>>>>>> >>
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>> >> >
>>>>>>> >> >
>>>>>>> >>
>>>>>>> >>
>>>>>>> >>
>>>>>>> >>
>>>>>>> >> --
>>>>>>> >> View this message in context:
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>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>>>>>>> >> Sent from the ITK Insight Users mailing list archive at
>>>>>>> Nabble.com.
>>>>>>> >> _____________________________________
>>>>>>> >> Powered by www.kitware.com
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>>>>>>> >> Visit other Kitware open-source projects at
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>>>>>>> >> Kitware offers ITK Training Courses, for more information visit:
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>>>>>>> >> Follow this link to subscribe/unsubscribe:
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>>>>>>> >
>>>>>>> >
>>>>>>> > _____________________________________
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>>>>>>> >
>>>>>>> > Visit other Kitware open-source projects at
>>>>>>> > http://www.kitware.com/opensource/opensource.html
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>>>>>>> > Kitware offers ITK Training Courses, for more information visit:
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>>>>>>> > To unsubscribe from [ITK-users] Texture pixel by pixel, click here
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>>>>>>> > NAML
>>>>>>> > <
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>> >
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>>>>>>>
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>>>>>>>
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>>>>>>> View this message in context:
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>>>>>>> Sent from the ITK Insight Users mailing list archive at Nabble.com.
>>>>>>> _____________________________________
>>>>>>> Powered by www.kitware.com
>>>>>>>
>>>>>>> Visit other Kitware open-source projects at
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>>>>>> _____________________________________
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>>>>
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>>
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>>
>> Visit other Kitware open-source projects at
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From franciscolopezdelafranca at gmail.com  Thu Feb 11 12:08:12 2016
From: franciscolopezdelafranca at gmail.com (=?UTF-8?Q?Francisco_L=C3=B3pez-Franca?=)
Date: Thu, 11 Feb 2016 10:08:12 -0700 (MST)
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <CAPf2UMTwwE=7eLsCjNZpnWHTemQ3Kpi3waGA0p9tDkcWoU2aZQ@mail.gmail.com>
References: <CAPYv+6LzOEvzwksH8_pp_F3urprbV3NLy=o3+3oKNJDzz=HE=g@mail.gmail.com>
 <CAJqi3EK+xH6na+WLkLK9K2K+C95z5=LVDCK80_B0z4K496-YMA@mail.gmail.com>
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 <CAJqi3E+qm_mUNJBCScnzUO9daZ=Ta7PsCWb-5fozL8WK6=A6JA@mail.gmail.com>
 <84A225AE-400C-4FBA-97FA-6A027CB17208@mail.nih.gov>
 <CAJqi3EJu9PH9WG5WQomxwMpcNwd8zCcT0BZ2SYXkX4JMOQtT-w@mail.gmail.com>
 <CAJqi3E+eNQxJBbrUt-ReAPNqF+xZOLMFZa_KB_v9tDdbF1SNog@mail.gmail.com>
 <CAJqi3ELNovYUpgJ=cFStA2gq-ix1UiaY-4YvZTJ327OQ8LGn9w@mail.gmail.com>
 <CAJqi3EJMqTscSxNdOn58Yz2NazfdSdcrTgOY6hRYAK3Z=3-Asw@mail.gmail.com>
 <CAPf2UMTwwE=7eLsCjNZpnWHTemQ3Kpi3waGA0p9tDkcWoU2aZQ@mail.gmail.com>
Message-ID: <CAJqi3EJ6gSjPxVG9tNguYNHf0pCatepBv3w-4sTtKOnRig_4vA@mail.gmail.com>

Hi Dzenan,
The original class is here:

https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h
https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx

I've just added setInput and setMaskImage methods and modify some lines in
the original class as I indicated in the yesterday mail within this thread.
I'm running it on Windows, and there is no error at all, just a crash. I
may have to include exceptions management.
The crash occurs just when calling p3 = maskIter.GetPixel(iter->first)

If you know why it could be or if you need more clarification, please let
me know.
Many thanks

2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
ml-node+s2283740n7588477h22 at n2.nabble.com>:

> Hi Francisco,
>
> "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the error message
> that goes along with the crash? In which file and line does it crash?
>
> Regards
>
> On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca <[hidden
> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0>> wrote:
>
>> Hi,
>> Please, someone that could help me. I'm working in a pre-doctorate
>> project and I need this class to work.
>> I've read the chapter 13 in the ITK Software Guide on how to write a
>> filter and now I see the fact of the threads due to inheritance of
>> ImageToImageFilter.
>> But, I keep on without understanding why the code crashes just when
>> calling
>> *const PixelType p3 = maskIter.GetPixel(iter->first);*
>> It is just a call to read data, not to write.
>>
>> I guess somebody that had worked with creation of filters might see
>> "easily" the problem, but not me.
>>
>> So, again, please, I need someone to help me with this because I'm stuck
>> on this point.
>>
>> Thank you very much.
>> KR.
>> /Francisco
>>
>> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca <[hidden email]
>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1>>:
>>
>>> Hi Bradley again.
>>> I'm modifying your class in order to be able to set a mask image (a
>>> binary image) to be used as a limit in the histogram calculations, I mean,
>>> I set an input, a mask and the class should take into account to calculate
>>> the histograms only the voxels that belong to the input and to the mask
>>> image and having the value 1 in the mask image.
>>> The changes seem to be easy but I don?t know why my tests are not
>>> working. It seems that 2 threads are working at the same time and when I
>>> added my mask iterator, the code crashes.
>>>
>>> *** Consider that the input and mask images are the same origin, spacing
>>> and size.
>>>
>>> I attach the main changes I've done, and I would thank you a lot if you
>>> don't mind having a look and help me to find what I'm doing wrong:
>>>
>>> template< class TImageType, class TOutputImage >
>>> void
>>> TextureFeatureImageFilterV2< TImageType, TOutputImage >::*SetInput*(InputImageType
>>> *image)
>>> {
>>>   // Process object is not const-correct so the const_cast is required
>>> here
>>>   this->ProcessObject::SetNthInput( 0,
>>>                                     const_cast< InputImageType * >(
>>> image ) );
>>> }
>>>
>>> template< class TImageType, class TOutputImage >
>>> void
>>> TextureFeatureImageFilterV2< TImageType, TOutputImage >::*SetMaskImage*(InputImageType
>>> *image)
>>> {
>>>   // Process object is not const-correct so the const_cast is required
>>> here
>>>   this->ProcessObject::SetNthInput( 1, const_cast< InputImageType * >(
>>> image ) );
>>>
>>>   _maskImage = image; // _maskImage is a private member
>>> }
>>>
>>> In the *ThreadedGenerateData*(const RegionType& outputRegionForThread,
>>> ThreadIdType threadId ) method:
>>> {
>>>
>>> ...
>>>
>>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
>>>     {
>>>     NeighborhoodIteratorType nIter( radius, input, *fit );
>>>     *NeighborhoodIteratorType maskIter( radius, _maskImage, *fit);*
>>>     OutputIterator           outIter(output, *fit);
>>>
>>>     OutputPixelType out;
>>>     NumericTraits<OutputPixelType>::SetLength( out,
>>> this->GetNumberOfOutputComponents() );
>>>
>>>     while( !nIter.IsAtEnd() )
>>>       {
>>>       this->FillHistogram( *histogram, nIter, *maskIter *);
>>>
>>>       ...
>>>
>>>       ++nIter;
>>>       ++outIter;
>>>      * ++maskIter;*
>>>     ...
>>>
>>> In the *FillHistogram *method:
>>> {
>>>
>>> ...
>>>
>>>   while( iter != m_CooccurenceOffsetVector.end() )
>>>     {
>>>
>>>     const PixelType p1 = niter.GetPixel(iter->first);
>>>     const PixelType p2 = niter.GetPixel(iter->second);
>>>     std::cout << "Before p3" << std::endl;
>>>
>>> *    const PixelType p3 = maskIter.GetPixel(iter->first);    *std::cout
>>> << "After p3: " << p3 << std::endl;
>>>
>>> *    const PixelType p4 = maskIter.GetPixel(iter->second);   *
>>> std::cout << "After p4: " << p4 << std::endl;
>>>
>>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <= m_Max
>>>             *&& p3 == _insidePixelValue && p4 == _insidePixelValue* )
>>> // The point
>>>       {
>>>
>>> ...
>>>
>>>
>>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>>>
>>> Thank you so much.
>>> My kind regards.
>>> /Paco
>>>
>>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca <[hidden email]
>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2>>:
>>>
>>>> Hello Bradley again.
>>>> Sorry but I'd like to re-open this issue because I need your class but
>>>> with some modification.
>>>> I pass to tell you.
>>>>
>>>> As my tests with your external class were not good taking into account
>>>> the performance, I wonder if you could create a variant of it, but in which
>>>> I can set a mask image and your class just return the VectorImage with all
>>>> the features for that region (the masked locations) as
>>>> itk::ScalarImageToTextureFeaturesFilter class does.
>>>> I mean, to get the vector image with all the features but just
>>>> calculate it for the regions belonging to the mask image. Positions not
>>>> belonging to the mask region could have a pixel value of 0, for instance.
>>>>
>>>> I don?t know if it is very costly for you,  but I would thank you so
>>>> much. Otherwise, I could try it but I'd need your suggestions on how to do
>>>> it.
>>>>
>>>> Thanks a lot.
>>>> Best regards.
>>>>
>>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca <[hidden email]
>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3>>:
>>>>
>>>>> Hello Bradley again,
>>>>> I would like to ask you for a couple of favours. In the one hand,
>>>>> could you please send me your 3D image so that I can test on it? And on the
>>>>> other hand, could you test the example I have referenced in the previous
>>>>> email with your image, not changing anything in the code, such as it is,
>>>>> and tell me if the execution time is normal?
>>>>> Thank you very much.
>>>>> Regards,
>>>>> /Francisco
>>>>>
>>>>> PS: All my application trace is printed via standard 'cout' command,
>>>>> not due to a debugging compilation mode.
>>>>>
>>>>>
>>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp <[hidden
>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=4>>
>>>>> escribi?:
>>>>>
>>>>>> Hello,
>>>>>>
>>>>>> Did you compile TextureFeatureImage in Release mode?
>>>>>>
>>>>>> 1) The filter does not scale well with a large radius. And given by
>>>>>> your initial report of print a very large number of offset you, it sounds
>>>>>> like you are using a large radius with many offsets. I created a
>>>>>> 224x224x300 unsigned short image and ran with the default offset and a
>>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this filter is was ~10x
>>>>>> faster than this example... things change though...
>>>>>>
>>>>>>
>>>>>> 2) I sounds like the boundaries/limits of the histogram may be
>>>>>> clipping you values. I would inspect the co-occurance matrix.
>>>>>>
>>>>>>
>>>>>> HTH,
>>>>>> Brad
>>>>>>
>>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca <[hidden
>>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=5>>
>>>>>> wrote:
>>>>>>
>>>>>> I've tested with itkTextureFeatureImageFilter, with
>>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures example,
>>>>>> for a 3D image and here are my comments:
>>>>>>
>>>>>>
>>>>>> 1. I had to interrupt the test after several hours and it kept on
>>>>>> calculating. And this is for only a 3D image (224x224x300). I need to
>>>>>> process around 35 images.
>>>>>> 2. The result (texture features: entropy, energy, correlation, LH,
>>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0, 7.83083e+247].
>>>>>> These values were not what I expected based on my experience on another
>>>>>> application I developed, but in that case, I calculated the texture
>>>>>> features for an image as a whole, not voxel by voxel.
>>>>>>
>>>>>> Regards.
>>>>>>
>>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6>>:
>>>>>>
>>>>>>> i yes i have tried radius = 3;
>>>>>>> still no luck
>>>>>>>
>>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca [via ITK
>>>>>>> Insight
>>>>>>> Users] <[hidden email]
>>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7>> wrote:
>>>>>>>
>>>>>>> > Have you tried with a radius of 3 instead of 1?
>>>>>>> >
>>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
>>>>>>> >
>>>>>>> >> hey Matt,
>>>>>>> >> thanks for ur advice.. it did build successfully... but im not
>>>>>>> able to run
>>>>>>> >> the code for 2D png image... i tried to change the dimension to 2
>>>>>>> and
>>>>>>> >> build
>>>>>>> >> it which it did.. but when i run the code using the command
>>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png putput.png
>>>>>>> 1... i see
>>>>>>> >> this output
>>>>>>> >>
>>>>>>> >> offset: [-1, -1] [0, -1]
>>>>>>> >> offset: [0, -1] [1, -1]
>>>>>>> >> offset: [-1, 0] [0, 0]
>>>>>>> >> offset: [0, 0] [1, 0]
>>>>>>> >> offset: [-1, 1] [0, 1]
>>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the program... if pls
>>>>>>> tel me
>>>>>>> >> how can i modify this code to work wid 2d image... forgive me if
>>>>>>> my ques
>>>>>>> >> are really silly im trying to learn something..
>>>>>>> >> regards
>>>>>>> >> Vis
>>>>>>> >>
>>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via ITK
>>>>>>> Insight Users]
>>>>>>> >> <
>>>>>>> >> [hidden email] <
>>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
>>>>>>> >> wrote:
>>>>>>> >>
>>>>>>> >> > Hi,
>>>>>>> >> >
>>>>>>> >> > The function:
>>>>>>> >> >
>>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char *argv[])
>>>>>>> >> >
>>>>>>> >> > must be renamed to
>>>>>>> >> >
>>>>>>> >> >   main(int argc, char* argv[])
>>>>>>> >> >
>>>>>>> >> > HTH,
>>>>>>> >> > Matt
>>>>>>> >> >
>>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>>>>>>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>> wrote:
>>>>>>> >> >
>>>>>>> >> > > hi all,
>>>>>>> >> > > im trying to build the itkTextureFeatureImageFilterTest.cxx
>>>>>>> code but
>>>>>>> >> im
>>>>>>> >> > not
>>>>>>> >> > > able to it is showing the following error
>>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>>>>>>> Configuration:
>>>>>>> >> Debug
>>>>>>> >> > x64
>>>>>>> >> > > ------
>>>>>>> >> > > 1>  Checking Build System
>>>>>>> >> > > 1>  CMake does not need to re-run because
>>>>>>> >> > >
>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>>>>>>> >> > is
>>>>>>> >> > > up-to-date.
>>>>>>> >> > > 2>------ Rebuild All started: Project:
>>>>>>> >> itkTextureFeatureImageFilterTest,
>>>>>>> >> > > Configuration: Debug x64 ------
>>>>>>> >> > > 2>  Building Custom Rule
>>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>> >> > > 2>  CMake does not need to re-run because
>>>>>>> >> > >
>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>> >> > is
>>>>>>> >> > > up-to-date.
>>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>>>>>>> 'std::_Copy_impl':
>>>>>>> >> > Function
>>>>>>> >> > > call with parameters that may be unsafe - this call relies on
>>>>>>> the
>>>>>>> >> caller
>>>>>>> >> > to
>>>>>>> >> > > check that the passed values are correct. To disable this
>>>>>>> warning, use
>>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how to use
>>>>>>> Visual C++
>>>>>>> >> > > 'Checked Iterators'
>>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>> 'std::_Copy_impl'
>>>>>>> >> > > 2>
>>>>>>> >> > >
>>>>>>> >>
>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>>>>>>> >> > see
>>>>>>> >> > > reference to function template instantiation '_OutIt
>>>>>>> std::copy<const
>>>>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)' being
>>>>>>> compiled
>>>>>>> >> > > 2>          with
>>>>>>> >> > > 2>          [
>>>>>>> >> > > 2>              _OutIt=unsigned char *,
>>>>>>> >> > > 2>              _InIt=const unsigned char *
>>>>>>> >> > > 2>          ]
>>>>>>> >> > > 2>
>>>>>>> >> > >
>>>>>>> >>
>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>>>>>>> >> > > while compiling class template member function 'void
>>>>>>> >> > > itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>>>>>>> >> > > 2>          with
>>>>>>> >> > > 2>          [
>>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>> >> > > 2>          ]
>>>>>>> >> > > 2>
>>>>>>> >> > >
>>>>>>> >> >
>>>>>>> >>
>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>>>>>>> >> >
>>>>>>> >> > > : see reference to class template instantiation
>>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>>>>>>> >> > > 2>          with
>>>>>>> >> > > 2>          [
>>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>> >> > > 2>          ]
>>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>> 'std::_Copy_impl'
>>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>> 'std::_Copy_impl'
>>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>> 'std::_Copy_impl'
>>>>>>> >> > > 2>     Creating library
>>>>>>> >> > >
>>>>>>> >> >
>>>>>>> >>
>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>>>>>>> >> >
>>>>>>> >> > > and object
>>>>>>> >> > >
>>>>>>> >> >
>>>>>>> >>
>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>>>>>>> >> >
>>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved
>>>>>>> external symbol
>>>>>>> >> > main
>>>>>>> >> > > referenced in function __tmainCRTStartup
>>>>>>> >> > >
>>>>>>> >> >
>>>>>>> >>
>>>>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>>>>>>> >> >
>>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>>>>>>> Configuration: Debug
>>>>>>> >> > x64
>>>>>>> >> > > ------
>>>>>>> >> > > 3>  Building Custom Rule
>>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>> >> > > 3>  CMake does not need to re-run because
>>>>>>> >> > >
>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>> >> > is
>>>>>>> >> > > up-to-date.
>>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0 skipped
>>>>>>> ==========
>>>>>>> >> > > im using the follwing CMakeList.txt
>>>>>>> >> > > # This is the root ITK CMakeLists file.
>>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>>>>>>> >> > > endif()
>>>>>>> >> > >
>>>>>>> >> > >
>>>>>>> >> > > # This project is designed to be built outside the Insight
>>>>>>> source
>>>>>>> >> tree.
>>>>>>> >> > > project(HelloWorld)
>>>>>>> >> > >
>>>>>>> >> > > # Find ITK.
>>>>>>> >> > > find_package(ITK REQUIRED)
>>>>>>> >> > > include(${ITK_USE_FILE})
>>>>>>> >> > >
>>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>>>>>>> >> > >
>>>>>>> >> > > target_link_libraries(itkTextureFeatureImageFilterTest
>>>>>>> >> ${ITK_LIBRARIES})
>>>>>>> >> > >
>>>>>>> >> > > please tel me wat the error is??
>>>>>>> >> > >
>>>>>>> >> > >
>>>>>>> >> > >
>>>>>>> >> > > --
>>>>>>> >> > > View this message in context:
>>>>>>> >> >
>>>>>>> >>
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>>>>>>> >> > > Sent from the ITK Insight Users mailing list archive at
>>>>>>> Nabble.com.
>>>>>>> >> > > _____________________________________
>>>>>>> >> > > Powered by www.kitware.com
>>>>>>> >> > >
>>>>>>> >> > > Visit other Kitware open-source projects at
>>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>>>>>>> >> > >
>>>>>>> >> > > Kitware offers ITK Training Courses, for more information
>>>>>>> visit:
>>>>>>> >> > > http://www.kitware.com/products/protraining.php
>>>>>>> >> > >
>>>>>>> >> > > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>> >> > >
>>>>>>> >> > > Follow this link to subscribe/unsubscribe:
>>>>>>> >> > > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>> >> > _____________________________________
>>>>>>> >> > Powered by www.kitware.com
>>>>>>> >> >
>>>>>>> >> > Visit other Kitware open-source projects at
>>>>>>> >> > http://www.kitware.com/opensource/opensource.html
>>>>>>> >> >
>>>>>>> >> > Kitware offers ITK Training Courses, for more information visit:
>>>>>>> >> > http://www.kitware.com/products/protraining.php
>>>>>>> >> >
>>>>>>> >> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>> >> >
>>>>>>> >> > Follow this link to subscribe/unsubscribe:
>>>>>>> >> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>> >> >
>>>>>>> >> >
>>>>>>> >> > ------------------------------
>>>>>>> >> > If you reply to this email, your message will be added to the
>>>>>>> discussion
>>>>>>> >> > below:
>>>>>>> >> >
>>>>>>> >> >
>>>>>>> >>
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>>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by pixel, click
>>>>>>> here
>>>>>>> >> > < > .
>>>>>>> >> > NAML
>>>>>>> >> > <
>>>>>>> >>
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>> >> >
>>>>>>> >> >
>>>>>>> >>
>>>>>>> >>
>>>>>>> >>
>>>>>>> >>
>>>>>>> >> --
>>>>>>> >> View this message in context:
>>>>>>> >>
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>>>>>>> >> Sent from the ITK Insight Users mailing list archive at
>>>>>>> Nabble.com.
>>>>>>> >> _____________________________________
>>>>>>> >> Powered by www.kitware.com
>>>>>>> >>
>>>>>>> >> Visit other Kitware open-source projects at
>>>>>>> >> http://www.kitware.com/opensource/opensource.html
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>>>>>>> >> Kitware offers ITK Training Courses, for more information visit:
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>>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
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>>>>>>> >>
>>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>> >>
>>>>>>> >
>>>>>>> >
>>>>>>> > _____________________________________
>>>>>>> > Powered by www.kitware.com
>>>>>>> >
>>>>>>> > Visit other Kitware open-source projects at
>>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>>> >
>>>>>>> > Kitware offers ITK Training Courses, for more information visit:
>>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>>> >
>>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
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>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>> >
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>>>>>>>
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>>>>>>>
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>>>>>>> View this message in context:
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
>>>>>>> Sent from the ITK Insight Users mailing list archive at Nabble.com.
>>>>>>> _____________________________________
>>>>>>> Powered by www.kitware.com
>>>>>>>
>>>>>>> Visit other Kitware open-source projects at
>>>>>>> http://www.kitware.com/opensource/opensource.html
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>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>> http://www.kitware.com/products/protraining.php
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>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
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>>>>>>>
>>>>>>
>>>>>> _____________________________________
>>>>>> Powered by www.kitware.com
>>>>>>
>>>>>> Visit other Kitware open-source projects at
>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>
>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>
>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>
>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>
>>>>>>
>>>>>>
>>>>
>>>
>>
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
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>>
>> Please keep messages on-topic and check the ITK FAQ at:
>> http://www.itk.org/Wiki/ITK_FAQ
>>
>> Follow this link to subscribe/unsubscribe:
>> http://public.kitware.com/mailman/listinfo/insight-users
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>
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From filippo.brogi at topic.nl  Thu Feb 11 11:17:10 2016
From: filippo.brogi at topic.nl (Filippo Brogi)
Date: Thu, 11 Feb 2016 09:17:10 -0700 (MST)
Subject: [ITK-users] zoom image content
In-Reply-To: <CAPf2UMQfX=wHDhuQj07ZHuoVBFTcfc0h1m=dSoNDBfX93G8djg@mail.gmail.com>
References: <1455175253042-36768.post@n7.nabble.com>
 <CAPf2UMQfX=wHDhuQj07ZHuoVBFTcfc0h1m=dSoNDBfX93G8djg@mail.gmail.com>
Message-ID: <1455207430903-36778.post@n7.nabble.com>

Hi Dzenan,
thank for your answer. I think I'm going to use the dilate filter. I
basically need to enlarge the image and use as a mask for removing the
segmented part from the original image. Thanks a lot.



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From filippo.brogi at topic.nl  Thu Feb 11 11:36:51 2016
From: filippo.brogi at topic.nl (Filippo Brogi)
Date: Thu, 11 Feb 2016 09:36:51 -0700 (MST)
Subject: [ITK-users] zoom image content
In-Reply-To: <20160211163320.GA20819@jerng.de>
References: <1455175253042-36768.post@n7.nabble.com>
 <20160211163320.GA20819@jerng.de>
Message-ID: <1455208611962-36779.post@n7.nabble.com>

Hi JE,
a morphological operation is definitely what  I need. Thanks.



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From Ryan.Young at seattlechildrens.org  Thu Feb 11 20:00:46 2016
From: Ryan.Young at seattlechildrens.org (Young, Ryan)
Date: Fri, 12 Feb 2016 01:00:46 +0000
Subject: [ITK-users] rigid landmark registartion simpleITK (python)
Message-ID: <06D6E971FE505044A365F05BD51FFD830A531FB3@PPWEXD01d.childrens.sea.kids>

Hello,

I am trying to rigidly align a group of landmarked samples.  I have calculated a rigid transformation matrix.  When I apply this to the sample (see code below) is sample is commonly clipped.  It seems like the transformation is pushing the sample out out its physically defined space and the data is lost.  How should I set things up to that large translations and rotations do not result in parts of the image being lost.







affine_center = (0,0,0)
affine_translation =translation

affine_matrix =T.flatten(order='C')
affine = sitk.AffineTransform(affine_matrix, affine_translation, affine_center)

imAffine = sitk.Resample(im, imRef, affine,sitk.sitkLinear, sitk.sitkUInt32)
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From hans-johnson at uiowa.edu  Thu Feb 11 20:37:55 2016
From: hans-johnson at uiowa.edu (Johnson, Hans J)
Date: Fri, 12 Feb 2016 01:37:55 +0000
Subject: [ITK-users] rigid landmark registartion simpleITK (python)
Message-ID: <89A1A7A5-C1F9-4AEB-950D-0FCE88262560@uiowa.edu>

Ryan,

Have you tried applying the inverse of the rigid transform defined by landmarks?

A common mistake is apply the transform that works for aligning landmarks points to an image.  They are inverse problems.  The transform that is applied to align landmarks is the inverse of the transform that is needed to resample images.

Hans

--


From: Insight-users <insight-users-bounces at itk.org<mailto:insight-users-bounces at itk.org>> on behalf of "Young, Ryan" <Ryan.Young at seattlechildrens.org<mailto:Ryan.Young at seattlechildrens.org>>
Date: Thursday, February 11, 2016 at 7:00 PM
To: "insight-users at itk.org<mailto:insight-users at itk.org>" <insight-users at itk.org<mailto:insight-users at itk.org>>
Subject: [ITK-users] rigid landmark registartion simpleITK (python)

Hello,

I am trying to rigidly align a group of landmarked samples.  I have calculated a rigid transformation matrix.  When I apply this to the sample (see code below) is sample is commonly clipped.  It seems like the transformation is pushing the sample out out its physically defined space and the data is lost.  How should I set things up to that large translations and rotations do not result in parts of the image being lost.







affine_center = (0,0,0)
affine_translation =translation

affine_matrix =T.flatten(order='C')
affine = sitk.AffineTransform(affine_matrix, affine_translation, affine_center)

imAffine = sitk.Resample(im, imRef, affine,sitk.sitkLinear, sitk.sitkUInt32)
CONFIDENTIALITY NOTICE: This e-mail message, including any attachments, is for the sole use of the intended recipient(s) and may contain confidential and privileged information protected by law. Any unauthorized review, use, disclosure or distribution is prohibited. If you are not the intended recipient, please contact the sender by reply e-mail and destroy all copies of the original message.
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From seidel at cvrti.utah.edu  Thu Feb 11 23:32:15 2016
From: seidel at cvrti.utah.edu (Thomas Seidel)
Date: Thu, 11 Feb 2016 21:32:15 -0700
Subject: [ITK-users] Error in BinaryThinningImageFilter ?
Message-ID: <D2E2AE5F.E319D%seidel@cvrti.utah.edu>

Hi all,

I am using the BinaryThinningImageFilter to create the skeleton of 3D binary
objects.

I now found that the skeleton of a tilted object (let?s say I permute the x
and z axis) is NOT the same as the tilted skeleton.

This must be an error.

Or doesn?t it work in 3D and only creates a slice-by-slice 2D skeleton???

I?d appreciate your help.

Best,
Thomas



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From tevain at telecom-paristech.fr  Fri Feb 12 03:16:25 2016
From: tevain at telecom-paristech.fr (Timothee Evain)
Date: Fri, 12 Feb 2016 09:16:25 +0100 (CET)
Subject: [ITK-users] [ITK]  Error in BinaryThinningImageFilter ?
In-Reply-To: <D2E2AE5F.E319D%seidel@cvrti.utah.edu>
References: <D2E2AE5F.E319D%seidel@cvrti.utah.edu>
Message-ID: <2008803167.18213214.1455264985587.JavaMail.zimbra@enst.fr>


Hello Thomas,

As you can see in the documentation http://www.itk.org/Doxygen/html/classitk_1_1BinaryThinningImageFilter.html, this filter is made from a 2D implementation, and is not ready for nD.
For 3D, you can refer to the journal entry here http://www.insight-journal.org/browse/publication/181 based on another publication. Last time I used the code, it's worked easily.

HTH,

Tim



----- Mail original -----
De: "Thomas Seidel" <seidel at cvrti.utah.edu>
?: insight-users at itk.org
Envoy?: Vendredi 12 F?vrier 2016 05:32:15
Objet: [ITK] [ITK-users] Error in BinaryThinningImageFilter ?

Hi all, 

I am using the BinaryThinningImageFilter to create the skeleton of 3D binary objects. 

I now found that the skeleton of a tilted object (let?s say I permute the x and z axis) is NOT the same as the tilted skeleton. 

This must be an error. 

Or doesn?t it work in 3D and only creates a slice-by-slice 2D skeleton??? 

I?d appreciate your help. 

Best, 
Thomas 


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From dzenanz at gmail.com  Fri Feb 12 10:21:46 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Fri, 12 Feb 2016 10:21:46 -0500
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <CAJqi3EJ6gSjPxVG9tNguYNHf0pCatepBv3w-4sTtKOnRig_4vA@mail.gmail.com>
References: <CAPYv+6LzOEvzwksH8_pp_F3urprbV3NLy=o3+3oKNJDzz=HE=g@mail.gmail.com>
 <CAJqi3EK+xH6na+WLkLK9K2K+C95z5=LVDCK80_B0z4K496-YMA@mail.gmail.com>
 <CAPYv+6KFkZ_UydTpwXEa0fORuZkJ=QbSVLkQe3znqdmNSUsvgA@mail.gmail.com>
 <CAJqi3E+qm_mUNJBCScnzUO9daZ=Ta7PsCWb-5fozL8WK6=A6JA@mail.gmail.com>
 <84A225AE-400C-4FBA-97FA-6A027CB17208@mail.nih.gov>
 <CAJqi3EJu9PH9WG5WQomxwMpcNwd8zCcT0BZ2SYXkX4JMOQtT-w@mail.gmail.com>
 <CAJqi3E+eNQxJBbrUt-ReAPNqF+xZOLMFZa_KB_v9tDdbF1SNog@mail.gmail.com>
 <CAJqi3ELNovYUpgJ=cFStA2gq-ix1UiaY-4YvZTJ327OQ8LGn9w@mail.gmail.com>
 <CAJqi3EJMqTscSxNdOn58Yz2NazfdSdcrTgOY6hRYAK3Z=3-Asw@mail.gmail.com>
 <CAPf2UMTwwE=7eLsCjNZpnWHTemQ3Kpi3waGA0p9tDkcWoU2aZQ@mail.gmail.com>
 <CAJqi3EJ6gSjPxVG9tNguYNHf0pCatepBv3w-4sTtKOnRig_4vA@mail.gmail.com>
Message-ID: <CAPf2UMQdSHRVYWReSZ+i+=E4igTyUD91ysoqA48DB-O8R3EUTw@mail.gmail.com>

Hi Francisco,

do you mind attaching the modified files or pointing to your fork of it on
GitHub?

Regards

On Thu, Feb 11, 2016 at 12:08 PM, Francisco L?pez-Franca <
franciscolopezdelafranca at gmail.com> wrote:

> Hi Dzenan,
> The original class is here:
>
>
> https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h
>
> https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx
>
> I've just added setInput and setMaskImage methods and modify some lines in
> the original class as I indicated in the yesterday mail within this thread.
> I'm running it on Windows, and there is no error at all, just a crash. I
> may have to include exceptions management.
> The crash occurs just when calling p3 = maskIter.GetPixel(iter->first)
>
> If you know why it could be or if you need more clarification, please let
> me know.
> Many thanks
>
> 2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
> ml-node+s2283740n7588477h22 at n2.nabble.com>:
>
> > Hi Francisco,
> >
> > "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the error
> message
> > that goes along with the crash? In which file and line does it crash?
> >
> > Regards
> >
> > On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca <[hidden
> > email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0>> wrote:
> >
> >> Hi,
> >> Please, someone that could help me. I'm working in a pre-doctorate
> >> project and I need this class to work.
> >> I've read the chapter 13 in the ITK Software Guide on how to write a
> >> filter and now I see the fact of the threads due to inheritance of
> >> ImageToImageFilter.
> >> But, I keep on without understanding why the code crashes just when
> >> calling
> >> *const PixelType p3 = maskIter.GetPixel(iter->first);*
> >> It is just a call to read data, not to write.
> >>
> >> I guess somebody that had worked with creation of filters might see
> >> "easily" the problem, but not me.
> >>
> >> So, again, please, I need someone to help me with this because I'm stuck
> >> on this point.
> >>
> >> Thank you very much.
> >> KR.
> >> /Francisco
> >>
> >> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca <[hidden email]
> >> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1>>:
> >>
> >>> Hi Bradley again.
> >>> I'm modifying your class in order to be able to set a mask image (a
> >>> binary image) to be used as a limit in the histogram calculations, I
> mean,
> >>> I set an input, a mask and the class should take into account to
> calculate
> >>> the histograms only the voxels that belong to the input and to the mask
> >>> image and having the value 1 in the mask image.
> >>> The changes seem to be easy but I don?t know why my tests are not
> >>> working. It seems that 2 threads are working at the same time and when
> I
> >>> added my mask iterator, the code crashes.
> >>>
> >>> *** Consider that the input and mask images are the same origin,
> spacing
> >>> and size.
> >>>
> >>> I attach the main changes I've done, and I would thank you a lot if you
> >>> don't mind having a look and help me to find what I'm doing wrong:
> >>>
> >>> template< class TImageType, class TOutputImage >
> >>> void
> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
> >::*SetInput*(InputImageType
> >>> *image)
> >>> {
> >>>   // Process object is not const-correct so the const_cast is required
> >>> here
> >>>   this->ProcessObject::SetNthInput( 0,
> >>>                                     const_cast< InputImageType * >(
> >>> image ) );
> >>> }
> >>>
> >>> template< class TImageType, class TOutputImage >
> >>> void
> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
> >::*SetMaskImage*(InputImageType
> >>> *image)
> >>> {
> >>>   // Process object is not const-correct so the const_cast is required
> >>> here
> >>>   this->ProcessObject::SetNthInput( 1, const_cast< InputImageType * >(
> >>> image ) );
> >>>
> >>>   _maskImage = image; // _maskImage is a private member
> >>> }
> >>>
> >>> In the *ThreadedGenerateData*(const RegionType& outputRegionForThread,
> >>> ThreadIdType threadId ) method:
> >>> {
> >>>
> >>> ...
> >>>
> >>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
> >>>     {
> >>>     NeighborhoodIteratorType nIter( radius, input, *fit );
> >>>     *NeighborhoodIteratorType maskIter( radius, _maskImage, *fit);*
> >>>     OutputIterator           outIter(output, *fit);
> >>>
> >>>     OutputPixelType out;
> >>>     NumericTraits<OutputPixelType>::SetLength( out,
> >>> this->GetNumberOfOutputComponents() );
> >>>
> >>>     while( !nIter.IsAtEnd() )
> >>>       {
> >>>       this->FillHistogram( *histogram, nIter, *maskIter *);
> >>>
> >>>       ...
> >>>
> >>>       ++nIter;
> >>>       ++outIter;
> >>>      * ++maskIter;*
> >>>     ...
> >>>
> >>> In the *FillHistogram *method:
> >>> {
> >>>
> >>> ...
> >>>
> >>>   while( iter != m_CooccurenceOffsetVector.end() )
> >>>     {
> >>>
> >>>     const PixelType p1 = niter.GetPixel(iter->first);
> >>>     const PixelType p2 = niter.GetPixel(iter->second);
> >>>     std::cout << "Before p3" << std::endl;
> >>>
> >>> *    const PixelType p3 = maskIter.GetPixel(iter->first);    *std::cout
> >>> << "After p3: " << p3 << std::endl;
> >>>
> >>> *    const PixelType p4 = maskIter.GetPixel(iter->second);   *
> >>> std::cout << "After p4: " << p4 << std::endl;
> >>>
> >>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <= m_Max
> >>>             *&& p3 == _insidePixelValue && p4 == _insidePixelValue* )
> >>> // The point
> >>>       {
> >>>
> >>> ...
> >>>
> >>>
> >>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
> >>>
> >>> Thank you so much.
> >>> My kind regards.
> >>> /Paco
> >>>
> >>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca <[hidden email]
> >>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2>>:
> >>>
> >>>> Hello Bradley again.
> >>>> Sorry but I'd like to re-open this issue because I need your class but
> >>>> with some modification.
> >>>> I pass to tell you.
> >>>>
> >>>> As my tests with your external class were not good taking into account
> >>>> the performance, I wonder if you could create a variant of it, but in
> which
> >>>> I can set a mask image and your class just return the VectorImage
> with all
> >>>> the features for that region (the masked locations) as
> >>>> itk::ScalarImageToTextureFeaturesFilter class does.
> >>>> I mean, to get the vector image with all the features but just
> >>>> calculate it for the regions belonging to the mask image. Positions
> not
> >>>> belonging to the mask region could have a pixel value of 0, for
> instance.
> >>>>
> >>>> I don?t know if it is very costly for you,  but I would thank you so
> >>>> much. Otherwise, I could try it but I'd need your suggestions on how
> to do
> >>>> it.
> >>>>
> >>>> Thanks a lot.
> >>>> Best regards.
> >>>>
> >>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca <[hidden
> email]
> >>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3>>:
> >>>>
> >>>>> Hello Bradley again,
> >>>>> I would like to ask you for a couple of favours. In the one hand,
> >>>>> could you please send me your 3D image so that I can test on it? And
> on the
> >>>>> other hand, could you test the example I have referenced in the
> previous
> >>>>> email with your image, not changing anything in the code, such as it
> is,
> >>>>> and tell me if the execution time is normal?
> >>>>> Thank you very much.
> >>>>> Regards,
> >>>>> /Francisco
> >>>>>
> >>>>> PS: All my application trace is printed via standard 'cout' command,
> >>>>> not due to a debugging compilation mode.
> >>>>>
> >>>>>
> >>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp <[hidden
> >>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=4>>
> >>>>> escribi?:
> >>>>>
> >>>>>> Hello,
> >>>>>>
> >>>>>> Did you compile TextureFeatureImage in Release mode?
> >>>>>>
> >>>>>> 1) The filter does not scale well with a large radius. And given by
> >>>>>> your initial report of print a very large number of offset you, it
> sounds
> >>>>>> like you are using a large radius with many offsets. I created a
> >>>>>> 224x224x300 unsigned short image and ran with the default offset
> and a
> >>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this filter is
> was ~10x
> >>>>>> faster than this example... things change though...
> >>>>>>
> >>>>>>
> >>>>>> 2) I sounds like the boundaries/limits of the histogram may be
> >>>>>> clipping you values. I would inspect the co-occurance matrix.
> >>>>>>
> >>>>>>
> >>>>>> HTH,
> >>>>>> Brad
> >>>>>>
> >>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca <[hidden
> >>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=5>>
> >>>>>> wrote:
> >>>>>>
> >>>>>> I've tested with itkTextureFeatureImageFilter, with
> >>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
> >>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures
> example,
> >>>>>> for a 3D image and here are my comments:
> >>>>>>
> >>>>>>
> >>>>>> 1. I had to interrupt the test after several hours and it kept on
> >>>>>> calculating. And this is for only a 3D image (224x224x300). I need
> to
> >>>>>> process around 35 images.
> >>>>>> 2. The result (texture features: entropy, energy, correlation, LH,
> >>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0,
> 7.83083e+247].
> >>>>>> These values were not what I expected based on my experience on
> another
> >>>>>> application I developed, but in that case, I calculated the texture
> >>>>>> features for an image as a whole, not voxel by voxel.
> >>>>>>
> >>>>>> Regards.
> >>>>>>
> >>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
> >>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6>>:
> >>>>>>
> >>>>>>> i yes i have tried radius = 3;
> >>>>>>> still no luck
> >>>>>>>
> >>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca [via ITK
> >>>>>>> Insight
> >>>>>>> Users] <[hidden email]
> >>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7>> wrote:
> >>>>>>>
> >>>>>>> > Have you tried with a radius of 3 instead of 1?
> >>>>>>> >
> >>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
> >>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
> >>>>>>> >
> >>>>>>> >> hey Matt,
> >>>>>>> >> thanks for ur advice.. it did build successfully... but im not
> >>>>>>> able to run
> >>>>>>> >> the code for 2D png image... i tried to change the dimension to
> 2
> >>>>>>> and
> >>>>>>> >> build
> >>>>>>> >> it which it did.. but when i run the code using the command
> >>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png putput.png
> >>>>>>> 1... i see
> >>>>>>> >> this output
> >>>>>>> >>
> >>>>>>> >> offset: [-1, -1] [0, -1]
> >>>>>>> >> offset: [0, -1] [1, -1]
> >>>>>>> >> offset: [-1, 0] [0, 0]
> >>>>>>> >> offset: [0, 0] [1, 0]
> >>>>>>> >> offset: [-1, 1] [0, 1]
> >>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the program... if
> pls
> >>>>>>> tel me
> >>>>>>> >> how can i modify this code to work wid 2d image... forgive me if
> >>>>>>> my ques
> >>>>>>> >> are really silly im trying to learn something..
> >>>>>>> >> regards
> >>>>>>> >> Vis
> >>>>>>> >>
> >>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via ITK
> >>>>>>> Insight Users]
> >>>>>>> >> <
> >>>>>>> >> [hidden email] <
> >>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
> >>>>>>> >> wrote:
> >>>>>>> >>
> >>>>>>> >> > Hi,
> >>>>>>> >> >
> >>>>>>> >> > The function:
> >>>>>>> >> >
> >>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char *argv[])
> >>>>>>> >> >
> >>>>>>> >> > must be renamed to
> >>>>>>> >> >
> >>>>>>> >> >   main(int argc, char* argv[])
> >>>>>>> >> >
> >>>>>>> >> > HTH,
> >>>>>>> >> > Matt
> >>>>>>> >> >
> >>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
> >>>>>>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>>
> wrote:
> >>>>>>> >> >
> >>>>>>> >> > > hi all,
> >>>>>>> >> > > im trying to build the itkTextureFeatureImageFilterTest.cxx
> >>>>>>> code but
> >>>>>>> >> im
> >>>>>>> >> > not
> >>>>>>> >> > > able to it is showing the following error
> >>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
> >>>>>>> Configuration:
> >>>>>>> >> Debug
> >>>>>>> >> > x64
> >>>>>>> >> > > ------
> >>>>>>> >> > > 1>  Checking Build System
> >>>>>>> >> > > 1>  CMake does not need to re-run because
> >>>>>>> >> > >
> >>>>>>>
> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
> >>>>>>> >> > is
> >>>>>>> >> > > up-to-date.
> >>>>>>> >> > > 2>------ Rebuild All started: Project:
> >>>>>>> >> itkTextureFeatureImageFilterTest,
> >>>>>>> >> > > Configuration: Debug x64 ------
> >>>>>>> >> > > 2>  Building Custom Rule
> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
> >>>>>>> >> > > 2>  CMake does not need to re-run because
> >>>>>>> >> > >
> >>>>>>>
> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
> >>>>>>> >> > is
> >>>>>>> >> > > up-to-date.
> >>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
> >>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
> >>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
> >>>>>>> 'std::_Copy_impl':
> >>>>>>> >> > Function
> >>>>>>> >> > > call with parameters that may be unsafe - this call relies
> on
> >>>>>>> the
> >>>>>>> >> caller
> >>>>>>> >> > to
> >>>>>>> >> > > check that the passed values are correct. To disable this
> >>>>>>> warning, use
> >>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how to use
> >>>>>>> Visual C++
> >>>>>>> >> > > 'Checked Iterators'
> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
> >>>>>>> 'std::_Copy_impl'
> >>>>>>> >> > > 2>
> >>>>>>> >> > >
> >>>>>>> >>
> >>>>>>>
> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
> >>>>>>> >> > see
> >>>>>>> >> > > reference to function template instantiation '_OutIt
> >>>>>>> std::copy<const
> >>>>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)' being
> >>>>>>> compiled
> >>>>>>> >> > > 2>          with
> >>>>>>> >> > > 2>          [
> >>>>>>> >> > > 2>              _OutIt=unsigned char *,
> >>>>>>> >> > > 2>              _InIt=const unsigned char *
> >>>>>>> >> > > 2>          ]
> >>>>>>> >> > > 2>
> >>>>>>> >> > >
> >>>>>>> >>
> >>>>>>>
> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
> >>>>>>> >> > > while compiling class template member function 'void
> >>>>>>> >> > > itk::ImageFileReader<TOutputImage>::GenerateData(void)'
> >>>>>>> >> > > 2>          with
> >>>>>>> >> > > 2>          [
> >>>>>>> >> > > 2>              TOutputImage=InputImageType
> >>>>>>> >> > > 2>          ]
> >>>>>>> >> > > 2>
> >>>>>>> >> > >
> >>>>>>> >> >
> >>>>>>> >>
> >>>>>>>
> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
> >>>>>>> >> >
> >>>>>>> >> > > : see reference to class template instantiation
> >>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
> >>>>>>> >> > > 2>          with
> >>>>>>> >> > > 2>          [
> >>>>>>> >> > > 2>              TOutputImage=InputImageType
> >>>>>>> >> > > 2>          ]
> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
> >>>>>>> 'std::_Copy_impl'
> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
> >>>>>>> 'std::_Copy_impl'
> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
> >>>>>>> 'std::_Copy_impl'
> >>>>>>> >> > > 2>     Creating library
> >>>>>>> >> > >
> >>>>>>> >> >
> >>>>>>> >>
> >>>>>>>
> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
> >>>>>>> >> >
> >>>>>>> >> > > and object
> >>>>>>> >> > >
> >>>>>>> >> >
> >>>>>>> >>
> >>>>>>>
> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
> >>>>>>> >> >
> >>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved
> >>>>>>> external symbol
> >>>>>>> >> > main
> >>>>>>> >> > > referenced in function __tmainCRTStartup
> >>>>>>> >> > >
> >>>>>>> >> >
> >>>>>>> >>
> >>>>>>>
> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
> >>>>>>> >> >
> >>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
> >>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
> >>>>>>> Configuration: Debug
> >>>>>>> >> > x64
> >>>>>>> >> > > ------
> >>>>>>> >> > > 3>  Building Custom Rule
> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
> >>>>>>> >> > > 3>  CMake does not need to re-run because
> >>>>>>> >> > >
> >>>>>>>
> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
> >>>>>>> >> > is
> >>>>>>> >> > > up-to-date.
> >>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0 skipped
> >>>>>>> ==========
> >>>>>>> >> > > im using the follwing CMakeList.txt
> >>>>>>> >> > > # This is the root ITK CMakeLists file.
> >>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
> >>>>>>> >> > > if(COMMAND CMAKE_POLICY)
> >>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
> >>>>>>> >> > > endif()
> >>>>>>> >> > >
> >>>>>>> >> > >
> >>>>>>> >> > > # This project is designed to be built outside the Insight
> >>>>>>> source
> >>>>>>> >> tree.
> >>>>>>> >> > > project(HelloWorld)
> >>>>>>> >> > >
> >>>>>>> >> > > # Find ITK.
> >>>>>>> >> > > find_package(ITK REQUIRED)
> >>>>>>> >> > > include(${ITK_USE_FILE})
> >>>>>>> >> > >
> >>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
> >>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
> >>>>>>> >> > >
> >>>>>>> >> > > target_link_libraries(itkTextureFeatureImageFilterTest
> >>>>>>> >> ${ITK_LIBRARIES})
> >>>>>>> >> > >
> >>>>>>> >> > > please tel me wat the error is??
> >>>>>>> >> > >
> >>>>>>> >> > >
> >>>>>>> >> > >
> >>>>>>> >> > > --
> >>>>>>> >> > > View this message in context:
> >>>>>>> >> >
> >>>>>>> >>
> >>>>>>>
> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
> >>>>>>> >> > > Sent from the ITK Insight Users mailing list archive at
> >>>>>>> Nabble.com.
> >>>>>>> >> > > _____________________________________
> >>>>>>> >> > > Powered by www.kitware.com
> >>>>>>> >> > >
> >>>>>>> >> > > Visit other Kitware open-source projects at
> >>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
> >>>>>>> >> > >
> >>>>>>> >> > > Kitware offers ITK Training Courses, for more information
> >>>>>>> visit:
> >>>>>>> >> > > http://www.kitware.com/products/protraining.php
> >>>>>>> >> > >
> >>>>>>> >> > > Please keep messages on-topic and check the ITK FAQ at:
> >>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
> >>>>>>> >> > >
> >>>>>>> >> > > Follow this link to subscribe/unsubscribe:
> >>>>>>> >> > > http://public.kitware.com/mailman/listinfo/insight-users
> >>>>>>> >> > _____________________________________
> >>>>>>> >> > Powered by www.kitware.com
> >>>>>>> >> >
> >>>>>>> >> > Visit other Kitware open-source projects at
> >>>>>>> >> > http://www.kitware.com/opensource/opensource.html
> >>>>>>> >> >
> >>>>>>> >> > Kitware offers ITK Training Courses, for more information
> visit:
> >>>>>>> >> > http://www.kitware.com/products/protraining.php
> >>>>>>> >> >
> >>>>>>> >> > Please keep messages on-topic and check the ITK FAQ at:
> >>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
> >>>>>>> >> >
> >>>>>>> >> > Follow this link to subscribe/unsubscribe:
> >>>>>>> >> > http://public.kitware.com/mailman/listinfo/insight-users
> >>>>>>> >> >
> >>>>>>> >> >
> >>>>>>> >> > ------------------------------
> >>>>>>> >> > If you reply to this email, your message will be added to the
> >>>>>>> discussion
> >>>>>>> >> > below:
> >>>>>>> >> >
> >>>>>>> >> >
> >>>>>>> >>
> >>>>>>>
> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587952.html
> >>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by pixel, click
> >>>>>>> here
> >>>>>>> >> > < > .
> >>>>>>> >> > NAML
> >>>>>>> >> > <
> >>>>>>> >>
> >>>>>>>
> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
> >>>>>>> >> >
> >>>>>>> >> >
> >>>>>>> >>
> >>>>>>> >>
> >>>>>>> >>
> >>>>>>> >>
> >>>>>>> >> --
> >>>>>>> >> View this message in context:
> >>>>>>> >>
> >>>>>>>
> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
> >>>>>>> >> Sent from the ITK Insight Users mailing list archive at
> >>>>>>> Nabble.com.
> >>>>>>> >> _____________________________________
> >>>>>>> >> Powered by www.kitware.com
> >>>>>>> >>
> >>>>>>> >> Visit other Kitware open-source projects at
> >>>>>>> >> http://www.kitware.com/opensource/opensource.html
> >>>>>>> >>
> >>>>>>> >> Kitware offers ITK Training Courses, for more information visit:
> >>>>>>> >> http://www.kitware.com/products/protraining.php
> >>>>>>> >>
> >>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
> >>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
> >>>>>>> >>
> >>>>>>> >> Follow this link to subscribe/unsubscribe:
> >>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
> >>>>>>> >>
> >>>>>>> >
> >>>>>>> >
> >>>>>>> > _____________________________________
> >>>>>>> > Powered by www.kitware.com
> >>>>>>> >
> >>>>>>> > Visit other Kitware open-source projects at
> >>>>>>> > http://www.kitware.com/opensource/opensource.html
> >>>>>>> >
> >>>>>>> > Kitware offers ITK Training Courses, for more information visit:
> >>>>>>> > http://www.kitware.com/products/protraining.php
> >>>>>>> >
> >>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
> >>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
> >>>>>>> >
> >>>>>>> > Follow this link to subscribe/unsubscribe:
> >>>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
> >>>>>>> >
> >>>>>>> >
> >>>>>>> > ------------------------------
> >>>>>>> > If you reply to this email, your message will be added to the
> >>>>>>> discussion
> >>>>>>> > below:
> >>>>>>> >
> >>>>>>> >
> >>>>>>>
> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587961.html
> >>>>>>> > To unsubscribe from [ITK-users] Texture pixel by pixel, click
> here
> >>>>>>> > < > .
> >>>>>>> > NAML
> >>>>>>> > <
> >>>>>>>
> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
> >>>>>>> >
> >>>>>>> >
> >>>>>>>
> >>>>>>>
> >>>>>>>
> >>>>>>>
> >>>>>>> --
> >>>>>>> View this message in context:
> >>>>>>>
> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
> >>>>>>> Sent from the ITK Insight Users mailing list archive at Nabble.com.
> >>>>>>> _____________________________________
> >>>>>>> Powered by www.kitware.com
> >>>>>>>
> >>>>>>> Visit other Kitware open-source projects at
> >>>>>>> http://www.kitware.com/opensource/opensource.html
> >>>>>>>
> >>>>>>> Kitware offers ITK Training Courses, for more information visit:
> >>>>>>> http://www.kitware.com/products/protraining.php
> >>>>>>>
> >>>>>>> Please keep messages on-topic and check the ITK FAQ at:
> >>>>>>> http://www.itk.org/Wiki/ITK_FAQ
> >>>>>>>
> >>>>>>> Follow this link to subscribe/unsubscribe:
> >>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
> >>>>>>>
> >>>>>>
> >>>>>> _____________________________________
> >>>>>> Powered by www.kitware.com
> >>>>>>
> >>>>>> Visit other Kitware open-source projects at
> >>>>>> http://www.kitware.com/opensource/opensource.html
> >>>>>>
> >>>>>> Kitware offers ITK Training Courses, for more information visit:
> >>>>>> http://www.kitware.com/products/protraining.php
> >>>>>>
> >>>>>> Please keep messages on-topic and check the ITK FAQ at:
> >>>>>> http://www.itk.org/Wiki/ITK_FAQ
> >>>>>>
> >>>>>> Follow this link to subscribe/unsubscribe:
> >>>>>> http://public.kitware.com/mailman/listinfo/insight-users
> >>>>>>
> >>>>>>
> >>>>>>
> >>>>
> >>>
> >>
> >> _____________________________________
> >> Powered by www.kitware.com
> >>
> >> Visit other Kitware open-source projects at
> >> http://www.kitware.com/opensource/opensource.html
> >>
> >> Kitware offers ITK Training Courses, for more information visit:
> >> http://www.kitware.com/products/protraining.php
> >>
> >> Please keep messages on-topic and check the ITK FAQ at:
> >> http://www.itk.org/Wiki/ITK_FAQ
> >>
> >> Follow this link to subscribe/unsubscribe:
> >> http://public.kitware.com/mailman/listinfo/insight-users
> >>
> >>
> >
> > _____________________________________
> > Powered by www.kitware.com
> >
> > Visit other Kitware open-source projects at
> > http://www.kitware.com/opensource/opensource.html
> >
> > Kitware offers ITK Training Courses, for more information visit:
> > http://www.kitware.com/products/protraining.php
> >
> > Please keep messages on-topic and check the ITK FAQ at:
> > http://www.itk.org/Wiki/ITK_FAQ
> >
> > Follow this link to subscribe/unsubscribe:
> > http://public.kitware.com/mailman/listinfo/insight-users
> >
> >
> > ------------------------------
> > If you reply to this email, your message will be added to the discussion
> > below:
> >
> >
> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588477.html
> > To start a new topic under ITK Insight Users, email
> > ml-node+s2283740n2283740h75 at n2.nabble.com
> > To unsubscribe from ITK Insight Users, click here
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> >
> > .
> > NAML
> > <
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> >
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>
>
>
>
> --
> View this message in context:
> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588483.html
> Sent from the ITK Insight Users mailing list archive at Nabble.com.
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
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From filippo.brogi at topic.nl  Fri Feb 12 10:55:41 2016
From: filippo.brogi at topic.nl (Filippo Brogi)
Date: Fri, 12 Feb 2016 08:55:41 -0700 (MST)
Subject: [ITK-users] ContourExtractor2DImageFilter issue
Message-ID: <1455292541350-36785.post@n7.nabble.com>

I have segmented a binary 2D image and then I'm trying to extract the level
set 255. using the 
ContourExtractor2DImageFilter but sometimes the number of extracted contours
is 0, even when the image contains valid pixels. This is the way I'm using
the filter


    ContourExtractor2DImageFilterType::Pointer pContour =
ContourExtractor2DImageFilterType::New();
    pContour->SetContourValue(0);
    pContour->VertexConnectHighPixelsOff();
    pContour->ReverseContourOrientationOff();


I also tried with different contour values, but stil facing with the same
issue. For sure the input image contains only 0-255 values. Thanks



--
View this message in context: http://itk-users.7.n7.nabble.com/ContourExtractor2DImageFilter-issue-tp36785.html
Sent from the ITK - Users mailing list archive at Nabble.com.

From artioml at post.bgu.ac.il  Sat Feb 13 01:53:45 2016
From: artioml at post.bgu.ac.il (artioml)
Date: Fri, 12 Feb 2016 23:53:45 -0700 (MST)
Subject: [ITK-users] Deformable registration of RGB image
Message-ID: <1455346424847-36786.post@n7.nabble.com>

Hello,

I try to perform B-Spline deformable registration of RGB images. I found a
test named 'itkMeanSquaresImageToImageMetricv4VectorRegistrationTest', which
uses itkVectorImageToImageMetricTraitsv4.

I tried to edit DeformaleRegistration7 example and replaced the lines that
defines image and metric to:

...

  const    unsigned int    ImageDimension = 2;
  //typedef  float           PixelType;
  typedef itk::Vector<float, 3>   PixelType;

  typedef itk::Image< PixelType, ImageDimension >  FixedImageType;
  typedef itk::Image< PixelType, ImageDimension >  MovingImageType;

...

  typedef itk::Image< float, ImageDimension>  VirtualImageType;
  typedef itk::VectorImageToImageMetricTraitsv4< FixedImageType,
MovingImageType, VirtualImageType, PixelType::Length> MetricTraitsType;
  typedef itk::MeanSquaresImageToImageMetricv4 < FixedImageType,
MovingImageType, VirtualImageType, float, MetricTraitsType >  MetricType;
  typedef MetricType::FixedSampledPointSetType  PointSetType;


When i try to compile the code I get a really long error message, I will put
it bellow.
Any idea how can I fix it? Is it possible to perform deformable registration
on vector images?

Thank you!

In file included from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkLightObject.h:21:0,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkObject.h:31,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkDataObject.h:31,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkProcessObject.h:31,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.h:21,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:1:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkConceptChecking.h:
In instantiation of ?struct
itk::Concept::IsFloatingPoint<itk::Vector&lt;double, 3u> >?:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkDefaultImageToImageMetricTraitsv4.h:146:3:  
required from ?class
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double>?
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkImageToImageMetricv4.h:291:60:  
required from ?class
itk::ImageToImageMetricv4<itk::Image&lt;itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, itk::Image<itk::Vector&lt;float,
3u>, 2u>, double,
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double> >?
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.h:184:71:  
required from ?class
itk::ImageRegistrationMethodv4<itk::Image&lt;itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u> >?
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:99:19:  
required from here
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkMacro.h:699:53:
error: ?is_integer? is not a member of
?itk::NumericTraits<itk::Vector&lt;double, 3u> >?
 #define itkStaticConstMacro(name, type, value) enum { name = value }
                                                     ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkConceptChecking.h:782:3:
note: in expansion of macro ?itkStaticConstMacro?
   itkStaticConstMacro(Integral, bool, NumericTraits< T >::is_integer);
   ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkMacro.h:699:53:
error: ?is_exact? is not a member of
?itk::NumericTraits<itk::Vector&lt;double, 3u> >?
 #define itkStaticConstMacro(name, type, value) enum { name = value }
                                                     ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkConceptChecking.h:783:3:
note: in expansion of macro ?itkStaticConstMacro?
   itkStaticConstMacro(IsExact, bool, NumericTraits< T >::is_exact);
   ^
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:
In function ?int main(int, char**)?:
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:102:49:
error: no matching function for call to
?itk::ImageRegistrationMethodv4<itk::Image&lt;itk::Vector&lt;float, 3u>,
2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>
>::SetMetric(itk::MeanSquaresImageToImageMetricv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>, itk::Image<float, 2u>,
float,
itk::VectorImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>, itk::Image<float, 2u>,
3u> >::Pointer&)?
   registration->SetMetric(        metric        );
                                                 ^
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:102:49:
note: candidate is:
In file included from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkLightObject.h:21:0,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkObject.h:31,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkDataObject.h:31,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkProcessObject.h:31,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.h:21,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:1:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkMacro.h:963:16:
note: void itk::ImageRegistrationMethodv4<TFixedImage, TMovingImage,
TOutputTransform, TVirtualImage,
TPointSet>::SetMetric(itk::ImageRegistrationMethodv4<TFixedImage,
TMovingImage, TOutputTransform, TVirtualImage, TPointSet>::MetricType*)
[with TFixedImage = itk::Image<itk::Vector&lt;float, 3u>, 2u>; TMovingImage
= itk::Image<itk::Vector&lt;float, 3u>, 2u>; TOutputTransform =
itk::Transform<double, 2u, 2u>; TVirtualImage =
itk::Image<itk::Vector&lt;float, 3u>, 2u>; TPointSet =
itk::PointSet<unsigned int, 2u, itk::DefaultStaticMeshTraits&lt;unsigned
int, 2u, 2u, float, float, unsigned int> >;
itk::ImageRegistrationMethodv4<TFixedImage, TMovingImage, TOutputTransform,
TVirtualImage, TPointSet>::MetricType =
itk::ObjectToObjectMetricBaseTemplate<double>; typename
TOutputTransform::ScalarType = double]
   virtual void Set##name (type * _arg)                 \
                ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.h:250:3:
note: in expansion of macro ?itkSetObjectMacro?
   itkSetObjectMacro( Metric, MetricType );
   ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkMacro.h:963:16:
note:   no known conversion for argument 1 from
?itk::MeanSquaresImageToImageMetricv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>, itk::Image<float, 2u>,
float,
itk::VectorImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>, itk::Image<float, 2u>,
3u> >::Pointer {aka
itk::SmartPointer<itk::MeanSquaresImageToImageMetricv4&lt;itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>, itk::Image<float, 2u>,
float,
itk::VectorImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>, itk::Image<float, 2u>,
3u> > >}? to
?itk::ImageRegistrationMethodv4<itk::Image&lt;itk::Vector&lt;float, 3u>,
2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u> >::MetricType* {aka
itk::ObjectToObjectMetricBaseTemplate<double>*}?
   virtual void Set##name (type * _arg)                 \
                ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.h:250:3:
note: in expansion of macro ?itkSetObjectMacro?
   itkSetObjectMacro( Metric, MetricType );
   ^
In file included from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkAtomicInt.h:38:0,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkLightObject.h:25,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkObject.h:31,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkDataObject.h:31,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkProcessObject.h:31,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.h:21,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:1:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkConceptChecking.h:
In instantiation of ?void itk::Concept::Convertible<T1,
T2>::Constraints::constraints() [with T1 = itk::Vector<float, 3u>; T2 =
unsigned char]?:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkConceptChecking.h:192:3:  
required from ?struct itk::Concept::Convertible<itk::Vector&lt;float, 3u>,
unsigned char>?
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageFilterBase/include/itkCastImageFilter.h:126:3:  
required from ?class
itk::CastImageFilter<itk::Image&lt;itk::Vector&lt;float, 3u>, 2u>,
itk::Image<unsigned char, 2u> >?
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:260:17:  
required from here
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkConceptChecking.h:185:35:
error: invalid static_cast from type ?itk::Vector<float, 3u>? to type
?unsigned char?
       T2 b = static_cast< T2 >( a );
                                   ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkConceptChecking.h:
In instantiation of ?void itk::Concept::Convertible<T1,
T2>::Constraints::constraints() [with T1 = itk::Vector<float, 3u>; T2 =
double]?:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkConceptChecking.h:192:3:  
required from ?struct itk::Concept::Convertible<itk::Vector&lt;float, 3u>,
double>?
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageCompare/include/itkSquaredDifferenceImageFilter.h:115:3:  
required from ?class
itk::SquaredDifferenceImageFilter<itk::Image&lt;itk::Vector&lt;float, 3u>,
2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>, itk::Image<unsigned char,
2u> >?
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:286:23:  
required from here
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkConceptChecking.h:185:35:
error: invalid static_cast from type ?itk::Vector<float, 3u>? to type
?double?
In file included from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader.h:138:0,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4.h:22,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.hxx:29,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.h:518,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:1:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader.hxx:
In instantiation of ?bool
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::ProcessPoint(const
VirtualIndexType&, const VirtualPointType&, const FixedImagePointType&,
const FixedImagePixelType&, const FixedImageGradientType&, const
MovingImagePointType&, const MovingImagePixelType&, const
MovingImageGradientType&,
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::MeasureType&,
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::DerivativeType&,
itk::ThreadIdType) const [with TDomainPartitioner =
itk::ThreadedIndexedContainerPartitioner; TImageToImageMetric =
itk::ImageToImageMetricv4<itk::Image&lt;itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, itk::Image<itk::Vector&lt;float,
3u>, 2u>, double,
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double> >;
TMattesMutualInformationMetric =
itk::MattesMutualInformationImageToImageMetricv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double,
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double> >;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::VirtualIndexType =
itk::Index<2u>;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::VirtualPointType =
itk::Point<double, 2u>;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::FixedImagePointType =
itk::Point<double, 2u>;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::FixedImagePixelType =
itk::Vector<float, 3u>;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::FixedImageGradientType
= itk::CovariantVector<double, 2u>;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::MovingImagePointType =
itk::Point<double, 2u>;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::MovingImagePixelType =
itk::Vector<float, 3u>;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric,
TMattesMutualInformationMetric>::MovingImageGradientType =
itk::CovariantVector<double, 2u>;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::MeasureType = double;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::DerivativeType =
itk::Array<double>; itk::ThreadIdType = unsigned int]?:
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:378:1:  
required from here
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader.hxx:236:24:
error: no match for ?operator<? (operand types are ?const
MovingImagePixelType {aka const itk::Vector<float, 3u>}? and
?itk::MattesMutualInformationImageToImageMetricv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double,
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double> >::PDFValueType {aka
double}?)
   if( movingImageValue < this->m_MattesAssociate->m_MovingImageTrueMin )
                        ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader.hxx:240:29:
error: no match for ?operator>? (operand types are ?const
MovingImagePixelType {aka const itk::Vector<float, 3u>}? and
?itk::MattesMutualInformationImageToImageMetricv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double,
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double> >::PDFValueType {aka
double}?)
   else if( movingImageValue > this->m_MattesAssociate->m_MovingImageTrueMax
)
                             ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader.hxx:246:144:
error: cannot convert ?itk::Vector<float, 3u>? to ?const PDFValueType {aka
const double}? in initialization
   const PDFValueType movingImageParzenWindowTerm = movingImageValue /
this->m_MattesAssociate->m_MovingImageBinSize -
this->m_MattesAssociate->m_MovingImageNormalizedMin;
                                                                                                                                               
^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader.hxx:
In instantiation of ?bool
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::ProcessPoint(const
VirtualIndexType&, const VirtualPointType&, const FixedImagePointType&,
const FixedImagePixelType&, const FixedImageGradientType&, const
MovingImagePointType&, const MovingImagePixelType&, const
MovingImageGradientType&,
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::MeasureType&,
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::DerivativeType&,
itk::ThreadIdType) const [with TDomainPartitioner =
itk::ThreadedImageRegionPartitioner<2u>; TImageToImageMetric =
itk::ImageToImageMetricv4<itk::Image&lt;itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, itk::Image<itk::Vector&lt;float,
3u>, 2u>, double,
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double> >;
TMattesMutualInformationMetric =
itk::MattesMutualInformationImageToImageMetricv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double,
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double> >;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::VirtualIndexType =
itk::Index<2u>;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::VirtualPointType =
itk::Point<double, 2u>;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::FixedImagePointType =
itk::Point<double, 2u>;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::FixedImagePixelType =
itk::Vector<float, 3u>;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::FixedImageGradientType
= itk::CovariantVector<double, 2u>;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::MovingImagePointType =
itk::Point<double, 2u>;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::MovingImagePixelType =
itk::Vector<float, 3u>;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric,
TMattesMutualInformationMetric>::MovingImageGradientType =
itk::CovariantVector<double, 2u>;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::MeasureType = double;
itk::MattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader<TDomainPartitioner,
TImageToImageMetric, TMattesMutualInformationMetric>::DerivativeType =
itk::Array<double>; itk::ThreadIdType = unsigned int]?:
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:378:1:  
required from here
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader.hxx:236:24:
error: no match for ?operator<? (operand types are ?const
MovingImagePixelType {aka const itk::Vector<float, 3u>}? and
?itk::MattesMutualInformationImageToImageMetricv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double,
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double> >::PDFValueType {aka
double}?)
   if( movingImageValue < this->m_MattesAssociate->m_MovingImageTrueMin )
                        ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader.hxx:240:29:
error: no match for ?operator>? (operand types are ?const
MovingImagePixelType {aka const itk::Vector<float, 3u>}? and
?itk::MattesMutualInformationImageToImageMetricv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double,
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double> >::PDFValueType {aka
double}?)
   else if( movingImageValue > this->m_MattesAssociate->m_MovingImageTrueMax
)
                             ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4GetValueAndDerivativeThreader.hxx:246:144:
error: cannot convert ?itk::Vector<float, 3u>? to ?const PDFValueType {aka
const double}? in initialization
   const PDFValueType movingImageParzenWindowTerm = movingImageValue /
this->m_MattesAssociate->m_MovingImageBinSize -
this->m_MattesAssociate->m_MovingImageNormalizedMin;
                                                                                                                                               
^
In file included from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4.h:290:0,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.hxx:29,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.h:518,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:1:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4.hxx:
In instantiation of ?void
itk::MattesMutualInformationImageToImageMetricv4<TFixedImage, TMovingImage,
TVirtualImage, TInternalComputationValueType, TMetricTraits>::Initialize()
[with TFixedImage = itk::Image<itk::Vector&lt;float, 3u>, 2u>; TMovingImage
= itk::Image<itk::Vector&lt;float, 3u>, 2u>; TVirtualImage =
itk::Image<itk::Vector&lt;float, 3u>, 2u>; TInternalComputationValueType =
double; TMetricTraits =
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double>]?:
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:378:1:  
required from here
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4.hxx:101:29:
error: cannot convert ?const Self {aka const itk::Vector<float, 3u>}? to
?itk::MattesMutualInformationImageToImageMetricv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double,
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double> >::PDFValueType {aka
double}? in assignment
   this->m_FixedImageTrueMin = NumericTraits<typename
TFixedImage::PixelType>::max();
                             ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4.hxx:102:29:
error: cannot convert ?const Self {aka const itk::Vector<float, 3u>}? to
?itk::MattesMutualInformationImageToImageMetricv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double,
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double> >::PDFValueType {aka
double}? in assignment
   this->m_FixedImageTrueMax = NumericTraits<typename
TFixedImage::PixelType>::NonpositiveMin();
                             ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4.hxx:103:30:
error: cannot convert ?const Self {aka const itk::Vector<float, 3u>}? to
?itk::MattesMutualInformationImageToImageMetricv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double,
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double> >::PDFValueType {aka
double}? in assignment
   this->m_MovingImageTrueMin = NumericTraits<typename
TMovingImage::PixelType>::max();
                              ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4.hxx:104:30:
error: cannot convert ?const Self {aka const itk::Vector<float, 3u>}? to
?itk::MattesMutualInformationImageToImageMetricv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double,
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double> >::PDFValueType {aka
double}? in assignment
   this->m_MovingImageTrueMax = NumericTraits<typename
TMovingImage::PixelType>::NonpositiveMin();
                              ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4.hxx:121:56:
error: no match for ?operator<? (operand types are
?itk::MattesMutualInformationImageToImageMetricv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double,
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double> >::PDFValueType {aka
double}? and ?const PixelType {aka const itk::Vector<float, 3u>}?)
       this->m_FixedImageTrueMin = (m_FixedImageTrueMin < currValue) ?
this->m_FixedImageTrueMin : currValue;
                                                        ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4.hxx:122:56:
error: no match for ?operator>? (operand types are
?itk::MattesMutualInformationImageToImageMetricv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double,
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double> >::PDFValueType {aka
double}? and ?const PixelType {aka const itk::Vector<float, 3u>}?)
       this->m_FixedImageTrueMax = (m_FixedImageTrueMax > currValue) ?
this->m_FixedImageTrueMax : currValue;
                                                        ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4.hxx:142:58:
error: no match for ?operator<? (operand types are
?itk::MattesMutualInformationImageToImageMetricv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double,
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double> >::PDFValueType {aka
double}? and ?const PixelType {aka const itk::Vector<float, 3u>}?)
       this->m_MovingImageTrueMin = (m_MovingImageTrueMin < currValue) ?
this->m_MovingImageTrueMin : currValue;
                                                          ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkMattesMutualInformationImageToImageMetricv4.hxx:143:58:
error: no match for ?operator>? (operand types are
?itk::MattesMutualInformationImageToImageMetricv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double,
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double> >::PDFValueType {aka
double}? and ?const PixelType {aka const itk::Vector<float, 3u>}?)
       this->m_MovingImageTrueMax = (m_MovingImageTrueMax > currValue) ?
this->m_MovingImageTrueMax : currValue;
                                                          ^
In file included from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageGradient/include/itkGradientRecursiveGaussianImageFilter.h:265:0,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkDefaultImageToImageMetricTraitsv4.h:24,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkImageToImageMetricv4.h:33,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.h:28,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:1:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageGradient/include/itkGradientRecursiveGaussianImageFilter.hxx:
In instantiation of ?void
itk::GradientRecursiveGaussianImageFilter<TInputImage,
TOutputImage>::GenerateData() [with TInputImage =
itk::Image<itk::Vector&lt;float, 3u>, 2u>; TOutputImage =
itk::Image<itk::CovariantVector&lt;itk::Vector&lt;double, 3u>, 2u>, 2u>]?:
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:378:1:  
required from here
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageGradient/include/itkGradientRecursiveGaussianImageFilter.hxx:313:9:
error: no matching function for call to
?itk::ImageRegionIteratorWithIndex<itk::NthElementImageAdaptor&lt;itk::Image&lt;itk::CovariantVector&lt;itk::Vector&lt;double,
3u>, 2u>, 2u>, float>
>::Set(itk::GradientRecursiveGaussianImageFilter<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::CovariantVector&lt;itk::Vector&lt;double, 3u>,
2u>, 2u> >::OutputComponentType&)?
         ot.Set( outValue );
         ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageGradient/include/itkGradientRecursiveGaussianImageFilter.hxx:313:9:
note: candidate is:
In file included from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/DisplacementField/include/itkDisplacementFieldTransform.hxx:25:0,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/DisplacementField/include/itkDisplacementFieldTransform.h:488,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Numerics/Optimizersv4/include/itkObjectToObjectMetric.h:24,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkObjectToObjectMultiMetricv4.h:22,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.h:26,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:1:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkImageRegionIteratorWithIndex.h:106:8:
note: void itk::ImageRegionIteratorWithIndex<TImage>::Set(const PixelType&)
const [with TImage =
itk::NthElementImageAdaptor<itk::Image&lt;itk::CovariantVector&lt;itk::Vector&lt;double,
3u>, 2u>, 2u>, float>; itk::ImageRegionIteratorWithIndex<TImage>::PixelType
= float]
   void Set(const PixelType & value) const
        ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkImageRegionIteratorWithIndex.h:106:8:
note:   no known conversion for argument 1 from
?itk::GradientRecursiveGaussianImageFilter<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::CovariantVector&lt;itk::Vector&lt;double, 3u>,
2u>, 2u> >::OutputComponentType {aka itk::Vector<double, 3u>}? to ?const
PixelType& {aka const float&}?
In file included from
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:9:0:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageCompare/include/itkSquaredDifferenceImageFilter.h:
In instantiation of ?TOutput itk::Functor::SquaredDifference2<TInput1,
TInput2, TOutput>::operator()(const TInput1&, const TInput2&) const [with
TInput1 = itk::Vector<float, 3u>; TInput2 = itk::Vector<float, 3u>; TOutput
= unsigned char]?:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageFilterBase/include/itkBinaryFunctorImageFilter.hxx:238:9:  
required from ?void itk::BinaryFunctorImageFilter<TInputImage1,
TInputImage2, TOutputImage, TFunction>::ThreadedGenerateData(const
OutputImageRegionType&, itk::ThreadIdType) [with TInputImage1 =
itk::Image<itk::Vector&lt;float, 3u>, 2u>; TInputImage2 =
itk::Image<itk::Vector&lt;float, 3u>, 2u>; TOutputImage =
itk::Image<unsigned char, 2u>; TFunction =
itk::Functor::SquaredDifference2<itk::Vector&lt;float, 3u>,
itk::Vector<float, 3u>, unsigned char>;
itk::BinaryFunctorImageFilter<TInputImage1, TInputImage2, TOutputImage,
TFunction>::OutputImageRegionType = itk::ImageRegion<2u>; itk::ThreadIdType
= unsigned int]?
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:378:1:  
required from here
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageCompare/include/itkSquaredDifferenceImageFilter.h:74:48:
error: invalid static_cast from type ?const itk::Vector<float, 3u>? to type
?double?
     const double dA = static_cast< double >( A );
                                                ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageCompare/include/itkSquaredDifferenceImageFilter.h:75:48:
error: invalid static_cast from type ?const itk::Vector<float, 3u>? to type
?double?
     const double dB = static_cast< double >( B );
                                                ^
In file included from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageGrid/include/itkBSplineScatteredDataPointSetToImageFilter.hxx:25:0,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageGrid/include/itkBSplineScatteredDataPointSetToImageFilter.h:428,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Numerics/Optimizersv4/include/itkWindowConvergenceMonitoringFunction.hxx:24,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Numerics/Optimizersv4/include/itkWindowConvergenceMonitoringFunction.h:97,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Numerics/Optimizersv4/include/itkGradientDescentOptimizerBasev4.h:22,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Numerics/Optimizersv4/include/itkGradientDescentOptimizerv4.h:21,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.hxx:24,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.h:518,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:1:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageFilterBase/include/itkCastImageFilter.h:
In instantiation of ?TOutput itk::Functor::Cast<TInput,
TOutput>::operator()(const TInput&) const [with TInput = itk::Vector<float,
3u>; TOutput = unsigned char]?:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkUnaryFunctorImageFilter.hxx:183:7:  
required from ?void itk::UnaryFunctorImageFilter<TInputImage, TOutputImage,
TFunction>::ThreadedGenerateData(const OutputImageRegionType&,
itk::ThreadIdType) [with TInputImage = itk::Image<itk::Vector&lt;float, 3u>,
2u>; TOutputImage = itk::Image<unsigned char, 2u>; TFunction =
itk::Functor::Cast<itk::Vector&lt;float, 3u>, unsigned char>;
itk::UnaryFunctorImageFilter<TInputImage, TOutputImage,
TFunction>::OutputImageRegionType = itk::ImageRegion<2u>; itk::ThreadIdType
= unsigned int]?
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:378:1:  
required from here
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageFilterBase/include/itkCastImageFilter.h:53:38:
error: invalid static_cast from type ?const itk::Vector<float, 3u>? to type
?unsigned char?
     return static_cast< TOutput >( A );
                                      ^
In file included from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/ImageFunction/include/itkCentralDifferenceImageFunction.h:255:0,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkDefaultImageToImageMetricTraitsv4.h:23,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkImageToImageMetricv4.h:33,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.h:28,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:1:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/ImageFunction/include/itkCentralDifferenceImageFunction.hxx:
In instantiation of ?void itk::CentralDifferenceImageFunction<TInputImage,
TCoordRep, TOutputType>::EvaluateSpecialized(const PointType&,
itk::CentralDifferenceImageFunction<TInputImage, TCoordRep,
TOutputType>::OutputType&, itk::CentralDifferenceImageFunction<TInputImage,
TCoordRep, TOutputType>::OutputTypeSpecializationStructType<typename
itk::ImageFunction<TInputImage, TOutputType, TCoordRep>::OutputType>) const
[with Type = itk::CovariantVector<double, 2u>; TInputImage =
itk::Image<itk::Vector&lt;float, 3u>, 2u>; TCoordRep = double; TOutputType =
itk::CovariantVector<double, 2u>;
itk::CentralDifferenceImageFunction<TInputImage, TCoordRep,
TOutputType>::PointType = itk::Point<double, 2u>;
itk::CentralDifferenceImageFunction<TInputImage, TCoordRep,
TOutputType>::OutputType = itk::CovariantVector<double, 2u>; typename
itk::ImageFunction<TInputImage, TOutputType, TCoordRep>::OutputType =
itk::CovariantVector<double, 2u>]?:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/ImageFunction/include/itkCentralDifferenceImageFunction.hxx:273:22:  
required from ?itk::CentralDifferenceImageFunction<TInputImage, TCoordRep,
TOutputType>::OutputType itk::CentralDifferenceImageFunction<TInputImage,
TCoordRep, TOutputType>::Evaluate(const PointType&) const [with TInputImage
= itk::Image<itk::Vector&lt;float, 3u>, 2u>; TCoordRep = double; TOutputType
= itk::CovariantVector<double, 2u>;
itk::CentralDifferenceImageFunction<TInputImage, TCoordRep,
TOutputType>::OutputType = itk::CovariantVector<double, 2u>;
itk::CentralDifferenceImageFunction<TInputImage, TCoordRep,
TOutputType>::PointType = itk::Point<double, 2u>]?
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:378:1:  
required from here
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/ImageFunction/include/itkCentralDifferenceImageFunction.hxx:325:31:
error: cannot convert ?itk::Vector<double, 3u>::Self {aka
itk::Vector<double, 3u>}? to ?itk::FixedArray<double, 2u>::ValueType {aka
double}? in assignment
       orientedDerivative[dim] = ( this->m_Interpolator->Evaluate(
neighPoint2 ) - this->m_Interpolator->Evaluate( neighPoint1 ) ) / delta;
                               ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/ImageFunction/include/itkCentralDifferenceImageFunction.hxx:
In instantiation of ?void itk::CentralDifferenceImageFunction<TInputImage,
TCoordRep, TOutputType>::EvaluateAtIndexSpecialized(const IndexType&,
itk::CentralDifferenceImageFunction<TInputImage, TCoordRep,
TOutputType>::OutputType&, itk::CentralDifferenceImageFunction<TInputImage,
TCoordRep, TOutputType>::OutputTypeSpecializationStructType<typename
itk::ImageFunction<TInputImage, TOutputType, TCoordRep>::OutputType>) const
[with Type = itk::CovariantVector<double, 2u>; TInputImage =
itk::Image<itk::Vector&lt;float, 3u>, 2u>; TCoordRep = double; TOutputType =
itk::CovariantVector<double, 2u>;
itk::CentralDifferenceImageFunction<TInputImage, TCoordRep,
TOutputType>::IndexType = itk::Index<2u>;
itk::CentralDifferenceImageFunction<TInputImage, TCoordRep,
TOutputType>::OutputType = itk::CovariantVector<double, 2u>; typename
itk::ImageFunction<TInputImage, TOutputType, TCoordRep>::OutputType =
itk::CovariantVector<double, 2u>]?:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/ImageFunction/include/itkCentralDifferenceImageFunction.hxx:117:29:  
required from ?itk::CentralDifferenceImageFunction<TInputImage, TCoordRep,
TOutputType>::OutputType itk::CentralDifferenceImageFunction<TInputImage,
TCoordRep, TOutputType>::EvaluateAtIndex(const IndexType&) const [with
TInputImage = itk::Image<itk::Vector&lt;float, 3u>, 2u>; TCoordRep = double;
TOutputType = itk::CovariantVector<double, 2u>;
itk::CentralDifferenceImageFunction<TInputImage, TCoordRep,
TOutputType>::OutputType = itk::CovariantVector<double, 2u>;
itk::CentralDifferenceImageFunction<TInputImage, TCoordRep,
TOutputType>::IndexType = itk::Index<2u>]?
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:378:1:  
required from here
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/ImageFunction/include/itkCentralDifferenceImageFunction.hxx:158:21:
error: cannot convert ?const itk::Vector<float, 3u>? to
?itk::FixedArray<double, 2u>::ValueType {aka double}? in assignment
     derivative[dim] = inputImage->GetPixel(neighIndex);
                     ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/ImageFunction/include/itkCentralDifferenceImageFunction.hxx:161:21:
error: no match for ?operator-=? (operand types are ?itk::FixedArray<double,
2u>::ValueType {aka double}? and ?const itk::Vector<float, 3u>?)
     derivative[dim] -= inputImage->GetPixel(neighIndex);
                     ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/ImageFunction/include/itkCentralDifferenceImageFunction.hxx:
In instantiation of ?void itk::CentralDifferenceImageFunction<TInputImage,
TCoordRep, TOutputType>::EvaluateAtContinuousIndexSpecialized(const
ContinuousIndexType&, itk::CentralDifferenceImageFunction<TInputImage,
TCoordRep, TOutputType>::OutputType&,
itk::CentralDifferenceImageFunction<TInputImage, TCoordRep,
TOutputType>::OutputTypeSpecializationStructType<typename
itk::ImageFunction<TInputImage, TOutputType, TCoordRep>::OutputType>) const
[with Type = itk::CovariantVector<double, 2u>; TInputImage =
itk::Image<itk::Vector&lt;float, 3u>, 2u>; TCoordRep = double; TOutputType =
itk::CovariantVector<double, 2u>;
itk::CentralDifferenceImageFunction<TInputImage, TCoordRep,
TOutputType>::ContinuousIndexType = itk::ContinuousIndex<double, 2u>;
itk::CentralDifferenceImageFunction<TInputImage, TCoordRep,
TOutputType>::OutputType = itk::CovariantVector<double, 2u>; typename
itk::ImageFunction<TInputImage, TOutputType, TCoordRep>::OutputType =
itk::CovariantVector<double, 2u>]?:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/ImageFunction/include/itkCentralDifferenceImageFunction.hxx:470:3:  
required from ?itk::CentralDifferenceImageFunction<TInputImage, TCoordRep,
TOutputType>::OutputType itk::CentralDifferenceImageFunction<TInputImage,
TCoordRep, TOutputType>::EvaluateAtContinuousIndex(const
ContinuousIndexType&) const [with TInputImage =
itk::Image<itk::Vector&lt;float, 3u>, 2u>; TCoordRep = double; TOutputType =
itk::CovariantVector<double, 2u>;
itk::CentralDifferenceImageFunction<TInputImage, TCoordRep,
TOutputType>::OutputType = itk::CovariantVector<double, 2u>;
itk::CentralDifferenceImageFunction<TInputImage, TCoordRep,
TOutputType>::ContinuousIndexType = itk::ContinuousIndex<double, 2u>]?
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:378:1:  
required from here
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/ImageFunction/include/itkCentralDifferenceImageFunction.hxx:511:21:
error: cannot convert
?itk::InterpolateImageFunction<itk::Image&lt;itk::Vector&lt;float, 3u>, 2u>,
double>::OutputType {aka itk::Vector<double, 3u>}? to
?itk::FixedArray<double, 2u>::ValueType {aka double}? in assignment
     derivative[dim] =
this->m_Interpolator->EvaluateAtContinuousIndex(neighIndex);
                     ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/ImageFunction/include/itkCentralDifferenceImageFunction.hxx:514:21:
error: no match for ?operator-=? (operand types are ?itk::FixedArray<double,
2u>::ValueType {aka double}? and
?itk::InterpolateImageFunction<itk::Image&lt;itk::Vector&lt;float, 3u>, 2u>,
double>::OutputType {aka itk::Vector<double, 3u>}?)
     derivative[dim] -=
this->m_Interpolator->EvaluateAtContinuousIndex(neighIndex);
                     ^
In file included from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkNumericTraits.h:1656:0,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkConceptChecking.h:32,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkAtomicInt.h:38,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkLightObject.h:25,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkObject.h:31,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkDataObject.h:31,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkProcessObject.h:31,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.h:21,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:1:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkFixedArray.h:
In instantiation of ?itk::FixedArray<TValue, VLength>&
itk::FixedArray<TValue, VLength>::operator=(const
itk::FixedArray<TFixedArrayValueType, VLength>&) [with TFixedArrayValueType
= itk::Vector<double, 3u>; TValue = double; unsigned int VLength = 2u]?:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkCovariantVector.h:131:27:  
required from ?itk::CovariantVector<T, NVectorDimension>::Self&
itk::CovariantVector<T, NVectorDimension>::operator=(const Tt&) [with Tt =
itk::CovariantVector<itk::Vector&lt;double, 3u>, 2u>; T = double; unsigned
int NVectorDimension = 2u; itk::CovariantVector<T, NVectorDimension>::Self =
itk::CovariantVector<double, 2u>]?
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/Metricsv4/include/itkImageToImageMetricv4.hxx:383:14:  
required from ?void itk::ImageToImageMetricv4<TFixedImage, TMovingImage,
TVirtualImage, TInternalComputationValueType,
TMetricTraits>::ComputeFixedImageGradientAtPoint(const FixedImagePointType&,
itk::ImageToImageMetricv4<TFixedImage, TMovingImage, TVirtualImage,
TInternalComputationValueType, TMetricTraits>::FixedImageGradientType&)
const [with TFixedImage = itk::Image<itk::Vector&lt;float, 3u>, 2u>;
TMovingImage = itk::Image<itk::Vector&lt;float, 3u>, 2u>; TVirtualImage =
itk::Image<itk::Vector&lt;float, 3u>, 2u>; TInternalComputationValueType =
double; TMetricTraits =
itk::DefaultImageToImageMetricTraitsv4<itk::Image&lt;itk::Vector&lt;float,
3u>, 2u>, itk::Image<itk::Vector&lt;float, 3u>, 2u>,
itk::Image<itk::Vector&lt;float, 3u>, 2u>, double>;
itk::ImageToImageMetricv4<TFixedImage, TMovingImage, TVirtualImage,
TInternalComputationValueType, TMetricTraits>::FixedImagePointType =
itk::Point<double, 2u>; itk::ImageToImageMetricv4<TFixedImage, TMovingImage,
TVirtualImage, TInternalComputationValueType,
TMetricTraits>::FixedImageGradientType = itk::CovariantVector<double, 2u>]?
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:378:1:  
required from here
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkFixedArray.h:178:14:
error: invalid static_cast from type ?const ValueType {aka const
itk::Vector<double, 3u>}? to type ?double?
         *i++ = static_cast< TValue >( *input++ );
              ^
In file included from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkImageAlgorithm.h:223:0,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkStreamingImageFilter.hxx:22,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkStreamingImageFilter.h:133,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/Smoothing/include/itkDiscreteGaussianImageFilter.hxx:26,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/Smoothing/include/itkDiscreteGaussianImageFilter.h:283,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.hxx:23,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.h:518,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:1:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkImageAlgorithm.hxx:
In instantiation of ?static void itk::ImageAlgorithm::DispatchedCopy(const
InputImageType*, OutputImageType*, const typename
InputImageType::RegionType&, const typename OutputImageType::RegionType&,
itk::ImageAlgorithm::FalseType) [with InputImageType =
itk::Image<itk::Vector&lt;float, 3u>, 2u>; OutputImageType =
itk::Image<unsigned char, 2u>; typename InputImageType::RegionType =
itk::ImageRegion<2u>; typename OutputImageType::RegionType =
itk::ImageRegion<2u>; itk::ImageAlgorithm::FalseType =
std::tr1::integral_constant<bool, false>]?:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkImageAlgorithm.h:112:7:  
required from ?static void itk::ImageAlgorithm::Copy(const
itk::Image<TPixel1, VImageDimension>*, itk::Image<TPixel2,
VImageDimension>*, const typename itk::Image<TPixel1,
VImageDimension>::RegionType&, const typename itk::Image<TPixel2,
VImageDimension>::RegionType&) [with TPixel1 = itk::Vector<float, 3u>;
TPixel2 = unsigned char; unsigned int VImageDimension = 2u; typename
itk::Image<TPixel1, VImageDimension>::RegionType = itk::ImageRegion<2u>;
typename itk::Image<TPixel2, VImageDimension>::RegionType =
itk::ImageRegion<2u>]?
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageFilterBase/include/itkCastImageFilter.hxx:73:90:  
required from ?void itk::CastImageFilter<TInputImage,
TOutputImage>::ThreadedGenerateData(const OutputImageRegionType&,
itk::ThreadIdType) [with TInputImage = itk::Image<itk::Vector&lt;float, 3u>,
2u>; TOutputImage = itk::Image<unsigned char, 2u>;
itk::CastImageFilter<TInputImage, TOutputImage>::OutputImageRegionType =
itk::ImageRegion<2u>; itk::ThreadIdType = unsigned int]?
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:378:1:  
required from here
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkImageAlgorithm.hxx:45:9:
error: invalid static_cast from type
?itk::ImageConstIterator<itk::Image&lt;itk::Vector&lt;float, 3u>, 2u>
>::PixelType {aka itk::Vector<float, 3u>}? to type ?itk::Image<unsigned
char, 2u>::PixelType {aka unsigned char}?
         ot.Set( static_cast< typename OutputImageType::PixelType >(
it.Get() ) );
         ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkImageAlgorithm.hxx:60:5:
error: invalid static_cast from type
?itk::ImageConstIterator<itk::Image&lt;itk::Vector&lt;float, 3u>, 2u>
>::PixelType {aka itk::Vector<float, 3u>}? to type ?itk::Image<unsigned
char, 2u>::PixelType {aka unsigned char}?
     ot.Set( static_cast< typename OutputImageType::PixelType >( it.Get() )
);
     ^
In file included from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageGrid/include/itkBSplineScatteredDataPointSetToImageFilter.hxx:25:0,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageGrid/include/itkBSplineScatteredDataPointSetToImageFilter.h:428,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Numerics/Optimizersv4/include/itkWindowConvergenceMonitoringFunction.hxx:24,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Numerics/Optimizersv4/include/itkWindowConvergenceMonitoringFunction.h:97,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Numerics/Optimizersv4/include/itkGradientDescentOptimizerBasev4.h:22,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Numerics/Optimizersv4/include/itkGradientDescentOptimizerv4.h:21,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.hxx:24,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.h:518,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:1:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageFilterBase/include/itkCastImageFilter.h:
In instantiation of ?TOutput itk::Functor::Cast<TInput,
TOutput>::operator()(const TInput&) const [with TInput = itk::Vector<float,
3u>; TOutput = double]?:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkUnaryFunctorImageFilter.hxx:183:7:  
required from ?void itk::UnaryFunctorImageFilter<TInputImage, TOutputImage,
TFunction>::ThreadedGenerateData(const OutputImageRegionType&,
itk::ThreadIdType) [with TInputImage = itk::Image<itk::Vector&lt;float, 3u>,
2u>; TOutputImage = itk::Image<double, 2u>; TFunction =
itk::Functor::Cast<itk::Vector&lt;float, 3u>, double>;
itk::UnaryFunctorImageFilter<TInputImage, TOutputImage,
TFunction>::OutputImageRegionType = itk::ImageRegion<2u>; itk::ThreadIdType
= unsigned int]?
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:378:1:  
required from here
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageFilterBase/include/itkCastImageFilter.h:53:38:
error: invalid static_cast from type ?const itk::Vector<float, 3u>? to type
?double?
     return static_cast< TOutput >( A );
                                      ^
In file included from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkImageAlgorithm.h:223:0,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkStreamingImageFilter.hxx:22,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkStreamingImageFilter.h:133,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/Smoothing/include/itkDiscreteGaussianImageFilter.hxx:26,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/Smoothing/include/itkDiscreteGaussianImageFilter.h:283,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.hxx:23,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.h:518,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:1:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkImageAlgorithm.hxx:
In instantiation of ?static void itk::ImageAlgorithm::DispatchedCopy(const
InputImageType*, OutputImageType*, const typename
InputImageType::RegionType&, const typename OutputImageType::RegionType&,
itk::ImageAlgorithm::FalseType) [with InputImageType =
itk::Image<itk::Vector&lt;float, 3u>, 2u>; OutputImageType =
itk::Image<double, 2u>; typename InputImageType::RegionType =
itk::ImageRegion<2u>; typename OutputImageType::RegionType =
itk::ImageRegion<2u>; itk::ImageAlgorithm::FalseType =
std::tr1::integral_constant<bool, false>]?:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkImageAlgorithm.h:112:7:  
required from ?static void itk::ImageAlgorithm::Copy(const
itk::Image<TPixel1, VImageDimension>*, itk::Image<TPixel2,
VImageDimension>*, const typename itk::Image<TPixel1,
VImageDimension>::RegionType&, const typename itk::Image<TPixel2,
VImageDimension>::RegionType&) [with TPixel1 = itk::Vector<float, 3u>;
TPixel2 = double; unsigned int VImageDimension = 2u; typename
itk::Image<TPixel1, VImageDimension>::RegionType = itk::ImageRegion<2u>;
typename itk::Image<TPixel2, VImageDimension>::RegionType =
itk::ImageRegion<2u>]?
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageFilterBase/include/itkCastImageFilter.hxx:73:90:  
required from ?void itk::CastImageFilter<TInputImage,
TOutputImage>::ThreadedGenerateData(const OutputImageRegionType&,
itk::ThreadIdType) [with TInputImage = itk::Image<itk::Vector&lt;float, 3u>,
2u>; TOutputImage = itk::Image<double, 2u>;
itk::CastImageFilter<TInputImage, TOutputImage>::OutputImageRegionType =
itk::ImageRegion<2u>; itk::ThreadIdType = unsigned int]?
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:378:1:  
required from here
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkImageAlgorithm.hxx:45:9:
error: invalid static_cast from type
?itk::ImageConstIterator<itk::Image&lt;itk::Vector&lt;float, 3u>, 2u>
>::PixelType {aka itk::Vector<float, 3u>}? to type ?itk::Image<double,
2u>::PixelType {aka double}?
         ot.Set( static_cast< typename OutputImageType::PixelType >(
it.Get() ) );
         ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Core/Common/include/itkImageAlgorithm.hxx:60:5:
error: invalid static_cast from type
?itk::ImageConstIterator<itk::Image&lt;itk::Vector&lt;float, 3u>, 2u>
>::PixelType {aka itk::Vector<float, 3u>}? to type ?itk::Image<double,
2u>::PixelType {aka double}?
     ot.Set( static_cast< typename OutputImageType::PixelType >( it.Get() )
);
     ^
In file included from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageGrid/include/itkBSplineScatteredDataPointSetToImageFilter.hxx:25:0,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageGrid/include/itkBSplineScatteredDataPointSetToImageFilter.h:428,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Numerics/Optimizersv4/include/itkWindowConvergenceMonitoringFunction.hxx:24,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Numerics/Optimizersv4/include/itkWindowConvergenceMonitoringFunction.h:97,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Numerics/Optimizersv4/include/itkGradientDescentOptimizerBasev4.h:22,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Numerics/Optimizersv4/include/itkGradientDescentOptimizerv4.h:21,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.hxx:24,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Registration/RegistrationMethodsv4/include/itkImageRegistrationMethodv4.h:518,
                 from
/home/art/SourceCode/InsightToolkit-4.8.2/Examples/ArtTest/DeformableRegistrationArt.cxx:1:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageFilterBase/include/itkCastImageFilter.h:
In member function ?TOutput itk::Functor::Cast<TInput,
TOutput>::operator()(const TInput&) const [with TInput = itk::Vector<float,
3u>; TOutput = double]?:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageFilterBase/include/itkCastImageFilter.h:54:3:
warning: control reaches end of non-void function [-Wreturn-type]
   }
   ^
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageFilterBase/include/itkCastImageFilter.h:
In member function ?TOutput itk::Functor::Cast<TInput,
TOutput>::operator()(const TInput&) const [with TInput = itk::Vector<float,
3u>; TOutput = unsigned char]?:
/home/art/SourceCode/InsightToolkit-4.8.2/Modules/Filtering/ImageFilterBase/include/itkCastImageFilter.h:54:3:
warning: control reaches end of non-void function [-Wreturn-type]
   }
   ^
make[3]: ***
[Examples/ArtTest/CMakeFiles/DeformableRegistrationArt.dir/DeformableRegistrationArt.cxx.o]
Error 1
make[2]: *** [Examples/ArtTest/CMakeFiles/DeformableRegistrationArt.dir/all]
Error 2
make[1]: ***
[Examples/ArtTest/CMakeFiles/DeformableRegistrationArt.dir/rule] Error 2
make: *** [DeformableRegistrationArt] Error 2



--
View this message in context: http://itk-users.7.n7.nabble.com/Deformable-registration-of-RGB-image-tp36786.html
Sent from the ITK - Users mailing list archive at Nabble.com.

From franciscolopezdelafranca at gmail.com  Mon Feb 15 01:36:15 2016
From: franciscolopezdelafranca at gmail.com (Francisco Lopez de la Franca)
Date: Mon, 15 Feb 2016 07:36:15 +0100
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <CAPf2UMQdSHRVYWReSZ+i+=E4igTyUD91ysoqA48DB-O8R3EUTw@mail.gmail.com>
References: <CAJqi3EK+xH6na+WLkLK9K2K+C95z5=LVDCK80_B0z4K496-YMA@mail.gmail.com>
 <CAPYv+6KFkZ_UydTpwXEa0fORuZkJ=QbSVLkQe3znqdmNSUsvgA@mail.gmail.com>
 <CAJqi3E+qm_mUNJBCScnzUO9daZ=Ta7PsCWb-5fozL8WK6=A6JA@mail.gmail.com>
 <84A225AE-400C-4FBA-97FA-6A027CB17208@mail.nih.gov>
 <CAJqi3EJu9PH9WG5WQomxwMpcNwd8zCcT0BZ2SYXkX4JMOQtT-w@mail.gmail.com>
 <CAJqi3E+eNQxJBbrUt-ReAPNqF+xZOLMFZa_KB_v9tDdbF1SNog@mail.gmail.com>
 <CAJqi3ELNovYUpgJ=cFStA2gq-ix1UiaY-4YvZTJ327OQ8LGn9w@mail.gmail.com>
 <CAJqi3EJMqTscSxNdOn58Yz2NazfdSdcrTgOY6hRYAK3Z=3-Asw@mail.gmail.com>
 <CAPf2UMTwwE=7eLsCjNZpnWHTemQ3Kpi3waGA0p9tDkcWoU2aZQ@mail.gmail.com>
 <CAJqi3EJ6gSjPxVG9tNguYNHf0pCatepBv3w-4sTtKOnRig_4vA@mail.gmail.com>
 <CAPf2UMQdSHRVYWReSZ+i+=E4igTyUD91ysoqA48DB-O8R3EUTw@mail.gmail.com>
Message-ID: <CAJqi3EJU6L=R=KUyFvHvLg2w0m=MYQpuWTODcP=W4TiKZXE2eA@mail.gmail.com>

Hi,
Here they are.
KR.

2016-02-12 16:22 GMT+01:00 dzenanz [via ITK Insight Users] <
ml-node+s2283740n7588490h25 at n2.nabble.com>:

> Hi Francisco,
>
> do you mind attaching the modified files or pointing to your fork of it on
> GitHub?
>
> Regards
>
> On Thu, Feb 11, 2016 at 12:08 PM, Francisco L?pez-Franca <[hidden email]
> <http:///user/SendEmail.jtp?type=node&node=7588490&i=0>> wrote:
>
>> Hi Dzenan,
>> The original class is here:
>>
>>
>> https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h
>>
>> https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx
>>
>> I've just added setInput and setMaskImage methods and modify some lines in
>> the original class as I indicated in the yesterday mail within this
>> thread.
>> I'm running it on Windows, and there is no error at all, just a crash. I
>> may have to include exceptions management.
>> The crash occurs just when calling p3 = maskIter.GetPixel(iter->first)
>>
>> If you know why it could be or if you need more clarification, please let
>> me know.
>> Many thanks
>>
>> 2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
>> [hidden email] <http:///user/SendEmail.jtp?type=node&node=7588490&i=1>>:
>>
>> > Hi Francisco,
>> >
>> > "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the error
>> message
>> > that goes along with the crash? In which file and line does it crash?
>> >
>> > Regards
>> >
>> > On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca <[hidden
>> > email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0>> wrote:
>> >
>> >> Hi,
>> >> Please, someone that could help me. I'm working in a pre-doctorate
>> >> project and I need this class to work.
>> >> I've read the chapter 13 in the ITK Software Guide on how to write a
>> >> filter and now I see the fact of the threads due to inheritance of
>> >> ImageToImageFilter.
>> >> But, I keep on without understanding why the code crashes just when
>> >> calling
>> >> *const PixelType p3 = maskIter.GetPixel(iter->first);*
>> >> It is just a call to read data, not to write.
>> >>
>> >> I guess somebody that had worked with creation of filters might see
>> >> "easily" the problem, but not me.
>> >>
>> >> So, again, please, I need someone to help me with this because I'm
>> stuck
>> >> on this point.
>> >>
>> >> Thank you very much.
>> >> KR.
>> >> /Francisco
>> >>
>> >> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca <[hidden email]
>> >> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1>>:
>> >>
>> >>> Hi Bradley again.
>> >>> I'm modifying your class in order to be able to set a mask image (a
>> >>> binary image) to be used as a limit in the histogram calculations, I
>> mean,
>> >>> I set an input, a mask and the class should take into account to
>> calculate
>> >>> the histograms only the voxels that belong to the input and to the
>> mask
>> >>> image and having the value 1 in the mask image.
>> >>> The changes seem to be easy but I don?t know why my tests are not
>> >>> working. It seems that 2 threads are working at the same time and
>> when I
>> >>> added my mask iterator, the code crashes.
>> >>>
>> >>> *** Consider that the input and mask images are the same origin,
>> spacing
>> >>> and size.
>> >>>
>> >>> I attach the main changes I've done, and I would thank you a lot if
>> you
>> >>> don't mind having a look and help me to find what I'm doing wrong:
>> >>>
>> >>> template< class TImageType, class TOutputImage >
>> >>> void
>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>> >::*SetInput*(InputImageType
>> >>> *image)
>> >>> {
>> >>>   // Process object is not const-correct so the const_cast is required
>> >>> here
>> >>>   this->ProcessObject::SetNthInput( 0,
>> >>>                                     const_cast< InputImageType * >(
>> >>> image ) );
>> >>> }
>> >>>
>> >>> template< class TImageType, class TOutputImage >
>> >>> void
>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>> >::*SetMaskImage*(InputImageType
>> >>> *image)
>> >>> {
>> >>>   // Process object is not const-correct so the const_cast is required
>> >>> here
>> >>>   this->ProcessObject::SetNthInput( 1, const_cast< InputImageType * >(
>> >>> image ) );
>> >>>
>> >>>   _maskImage = image; // _maskImage is a private member
>> >>> }
>> >>>
>> >>> In the *ThreadedGenerateData*(const RegionType& outputRegionForThread,
>> >>> ThreadIdType threadId ) method:
>> >>> {
>> >>>
>> >>> ...
>> >>>
>> >>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
>> >>>     {
>> >>>     NeighborhoodIteratorType nIter( radius, input, *fit );
>> >>>     *NeighborhoodIteratorType maskIter( radius, _maskImage, *fit);*
>> >>>     OutputIterator           outIter(output, *fit);
>> >>>
>> >>>     OutputPixelType out;
>> >>>     NumericTraits<OutputPixelType>::SetLength( out,
>> >>> this->GetNumberOfOutputComponents() );
>> >>>
>> >>>     while( !nIter.IsAtEnd() )
>> >>>       {
>> >>>       this->FillHistogram( *histogram, nIter, *maskIter *);
>> >>>
>> >>>       ...
>> >>>
>> >>>       ++nIter;
>> >>>       ++outIter;
>> >>>      * ++maskIter;*
>> >>>     ...
>> >>>
>> >>> In the *FillHistogram *method:
>> >>> {
>> >>>
>> >>> ...
>> >>>
>> >>>   while( iter != m_CooccurenceOffsetVector.end() )
>> >>>     {
>> >>>
>> >>>     const PixelType p1 = niter.GetPixel(iter->first);
>> >>>     const PixelType p2 = niter.GetPixel(iter->second);
>> >>>     std::cout << "Before p3" << std::endl;
>> >>>
>> >>> *    const PixelType p3 = maskIter.GetPixel(iter->first);
>> *std::cout
>> >>> << "After p3: " << p3 << std::endl;
>> >>>
>> >>> *    const PixelType p4 = maskIter.GetPixel(iter->second);   *
>> >>> std::cout << "After p4: " << p4 << std::endl;
>> >>>
>> >>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <= m_Max
>> >>>             *&& p3 == _insidePixelValue && p4 == _insidePixelValue* )
>> >>> // The point
>> >>>       {
>> >>>
>> >>> ...
>> >>>
>> >>>
>> >>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>> >>>
>> >>> Thank you so much.
>> >>> My kind regards.
>> >>> /Paco
>> >>>
>> >>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca <[hidden
>> email]
>> >>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2>>:
>> >>>
>> >>>> Hello Bradley again.
>> >>>> Sorry but I'd like to re-open this issue because I need your class
>> but
>> >>>> with some modification.
>> >>>> I pass to tell you.
>> >>>>
>> >>>> As my tests with your external class were not good taking into
>> account
>> >>>> the performance, I wonder if you could create a variant of it, but
>> in which
>> >>>> I can set a mask image and your class just return the VectorImage
>> with all
>> >>>> the features for that region (the masked locations) as
>> >>>> itk::ScalarImageToTextureFeaturesFilter class does.
>> >>>> I mean, to get the vector image with all the features but just
>> >>>> calculate it for the regions belonging to the mask image. Positions
>> not
>> >>>> belonging to the mask region could have a pixel value of 0, for
>> instance.
>> >>>>
>> >>>> I don?t know if it is very costly for you,  but I would thank you so
>> >>>> much. Otherwise, I could try it but I'd need your suggestions on how
>> to do
>> >>>> it.
>> >>>>
>> >>>> Thanks a lot.
>> >>>> Best regards.
>> >>>>
>> >>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca <[hidden
>> email]
>> >>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3>>:
>> >>>>
>> >>>>> Hello Bradley again,
>> >>>>> I would like to ask you for a couple of favours. In the one hand,
>> >>>>> could you please send me your 3D image so that I can test on it?
>> And on the
>> >>>>> other hand, could you test the example I have referenced in the
>> previous
>> >>>>> email with your image, not changing anything in the code, such as
>> it is,
>> >>>>> and tell me if the execution time is normal?
>> >>>>> Thank you very much.
>> >>>>> Regards,
>> >>>>> /Francisco
>> >>>>>
>> >>>>> PS: All my application trace is printed via standard 'cout' command,
>> >>>>> not due to a debugging compilation mode.
>> >>>>>
>> >>>>>
>> >>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp <[hidden
>> >>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=4>>
>> >>>>> escribi?:
>> >>>>>
>> >>>>>> Hello,
>> >>>>>>
>> >>>>>> Did you compile TextureFeatureImage in Release mode?
>> >>>>>>
>> >>>>>> 1) The filter does not scale well with a large radius. And given by
>> >>>>>> your initial report of print a very large number of offset you, it
>> sounds
>> >>>>>> like you are using a large radius with many offsets. I created a
>> >>>>>> 224x224x300 unsigned short image and ran with the default offset
>> and a
>> >>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this filter is
>> was ~10x
>> >>>>>> faster than this example... things change though...
>> >>>>>>
>> >>>>>>
>> >>>>>> 2) I sounds like the boundaries/limits of the histogram may be
>> >>>>>> clipping you values. I would inspect the co-occurance matrix.
>> >>>>>>
>> >>>>>>
>> >>>>>> HTH,
>> >>>>>> Brad
>> >>>>>>
>> >>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca <[hidden
>> >>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=5>>
>> >>>>>> wrote:
>> >>>>>>
>> >>>>>> I've tested with itkTextureFeatureImageFilter, with
>> >>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>> >>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures
>> example,
>> >>>>>> for a 3D image and here are my comments:
>> >>>>>>
>> >>>>>>
>> >>>>>> 1. I had to interrupt the test after several hours and it kept on
>> >>>>>> calculating. And this is for only a 3D image (224x224x300). I need
>> to
>> >>>>>> process around 35 images.
>> >>>>>> 2. The result (texture features: entropy, energy, correlation, LH,
>> >>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0,
>> 7.83083e+247].
>> >>>>>> These values were not what I expected based on my experience on
>> another
>> >>>>>> application I developed, but in that case, I calculated the texture
>> >>>>>> features for an image as a whole, not voxel by voxel.
>> >>>>>>
>> >>>>>> Regards.
>> >>>>>>
>> >>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
>> >>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6>>:
>> >>>>>>
>> >>>>>>> i yes i have tried radius = 3;
>> >>>>>>> still no luck
>> >>>>>>>
>> >>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca [via ITK
>> >>>>>>> Insight
>> >>>>>>> Users] <[hidden email]
>> >>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7>> wrote:
>> >>>>>>>
>> >>>>>>> > Have you tried with a radius of 3 instead of 1?
>> >>>>>>> >
>> >>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>> >>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
>> >>>>>>> >
>> >>>>>>> >> hey Matt,
>> >>>>>>> >> thanks for ur advice.. it did build successfully... but im not
>> >>>>>>> able to run
>> >>>>>>> >> the code for 2D png image... i tried to change the dimension
>> to 2
>> >>>>>>> and
>> >>>>>>> >> build
>> >>>>>>> >> it which it did.. but when i run the code using the command
>> >>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png putput.png
>> >>>>>>> 1... i see
>> >>>>>>> >> this output
>> >>>>>>> >>
>> >>>>>>> >> offset: [-1, -1] [0, -1]
>> >>>>>>> >> offset: [0, -1] [1, -1]
>> >>>>>>> >> offset: [-1, 0] [0, 0]
>> >>>>>>> >> offset: [0, 0] [1, 0]
>> >>>>>>> >> offset: [-1, 1] [0, 1]
>> >>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the program... if
>> pls
>> >>>>>>> tel me
>> >>>>>>> >> how can i modify this code to work wid 2d image... forgive me
>> if
>> >>>>>>> my ques
>> >>>>>>> >> are really silly im trying to learn something..
>> >>>>>>> >> regards
>> >>>>>>> >> Vis
>> >>>>>>> >>
>> >>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via ITK
>> >>>>>>> Insight Users]
>> >>>>>>> >> <
>> >>>>>>> >> [hidden email] <
>> >>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
>> >>>>>>> >> wrote:
>> >>>>>>> >>
>> >>>>>>> >> > Hi,
>> >>>>>>> >> >
>> >>>>>>> >> > The function:
>> >>>>>>> >> >
>> >>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char *argv[])
>> >>>>>>> >> >
>> >>>>>>> >> > must be renamed to
>> >>>>>>> >> >
>> >>>>>>> >> >   main(int argc, char* argv[])
>> >>>>>>> >> >
>> >>>>>>> >> > HTH,
>> >>>>>>> >> > Matt
>> >>>>>>> >> >
>> >>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>> >>>>>>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>>
>> wrote:
>> >>>>>>> >> >
>> >>>>>>> >> > > hi all,
>> >>>>>>> >> > > im trying to build the itkTextureFeatureImageFilterTest.cxx
>> >>>>>>> code but
>> >>>>>>> >> im
>> >>>>>>> >> > not
>> >>>>>>> >> > > able to it is showing the following error
>> >>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>> >>>>>>> Configuration:
>> >>>>>>> >> Debug
>> >>>>>>> >> > x64
>> >>>>>>> >> > > ------
>> >>>>>>> >> > > 1>  Checking Build System
>> >>>>>>> >> > > 1>  CMake does not need to re-run because
>> >>>>>>> >> > >
>> >>>>>>>
>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>> >>>>>>> >> > is
>> >>>>>>> >> > > up-to-date.
>> >>>>>>> >> > > 2>------ Rebuild All started: Project:
>> >>>>>>> >> itkTextureFeatureImageFilterTest,
>> >>>>>>> >> > > Configuration: Debug x64 ------
>> >>>>>>> >> > > 2>  Building Custom Rule
>> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>> >>>>>>> >> > > 2>  CMake does not need to re-run because
>> >>>>>>> >> > >
>> >>>>>>>
>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>> >>>>>>> >> > is
>> >>>>>>> >> > > up-to-date.
>> >>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>> >>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>> >>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>> >>>>>>> 'std::_Copy_impl':
>> >>>>>>> >> > Function
>> >>>>>>> >> > > call with parameters that may be unsafe - this call relies
>> on
>> >>>>>>> the
>> >>>>>>> >> caller
>> >>>>>>> >> > to
>> >>>>>>> >> > > check that the passed values are correct. To disable this
>> >>>>>>> warning, use
>> >>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how to use
>> >>>>>>> Visual C++
>> >>>>>>> >> > > 'Checked Iterators'
>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>> >>>>>>> 'std::_Copy_impl'
>> >>>>>>> >> > > 2>
>> >>>>>>> >> > >
>> >>>>>>> >>
>> >>>>>>>
>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>> >>>>>>> >> > see
>> >>>>>>> >> > > reference to function template instantiation '_OutIt
>> >>>>>>> std::copy<const
>> >>>>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)' being
>> >>>>>>> compiled
>> >>>>>>> >> > > 2>          with
>> >>>>>>> >> > > 2>          [
>> >>>>>>> >> > > 2>              _OutIt=unsigned char *,
>> >>>>>>> >> > > 2>              _InIt=const unsigned char *
>> >>>>>>> >> > > 2>          ]
>> >>>>>>> >> > > 2>
>> >>>>>>> >> > >
>> >>>>>>> >>
>> >>>>>>>
>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>> >>>>>>> >> > > while compiling class template member function 'void
>> >>>>>>> >> > > itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>> >>>>>>> >> > > 2>          with
>> >>>>>>> >> > > 2>          [
>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>> >>>>>>> >> > > 2>          ]
>> >>>>>>> >> > > 2>
>> >>>>>>> >> > >
>> >>>>>>> >> >
>> >>>>>>> >>
>> >>>>>>>
>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>> >>>>>>> >> >
>> >>>>>>> >> > > : see reference to class template instantiation
>> >>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>> >>>>>>> >> > > 2>          with
>> >>>>>>> >> > > 2>          [
>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>> >>>>>>> >> > > 2>          ]
>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>> >>>>>>> 'std::_Copy_impl'
>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>> >>>>>>> 'std::_Copy_impl'
>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>> >>>>>>> 'std::_Copy_impl'
>> >>>>>>> >> > > 2>     Creating library
>> >>>>>>> >> > >
>> >>>>>>> >> >
>> >>>>>>> >>
>> >>>>>>>
>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>> >>>>>>> >> >
>> >>>>>>> >> > > and object
>> >>>>>>> >> > >
>> >>>>>>> >> >
>> >>>>>>> >>
>> >>>>>>>
>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>> >>>>>>> >> >
>> >>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved
>> >>>>>>> external symbol
>> >>>>>>> >> > main
>> >>>>>>> >> > > referenced in function __tmainCRTStartup
>> >>>>>>> >> > >
>> >>>>>>> >> >
>> >>>>>>> >>
>> >>>>>>>
>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>> >>>>>>> >> >
>> >>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>> >>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>> >>>>>>> Configuration: Debug
>> >>>>>>> >> > x64
>> >>>>>>> >> > > ------
>> >>>>>>> >> > > 3>  Building Custom Rule
>> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>> >>>>>>> >> > > 3>  CMake does not need to re-run because
>> >>>>>>> >> > >
>> >>>>>>>
>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>> >>>>>>> >> > is
>> >>>>>>> >> > > up-to-date.
>> >>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0 skipped
>> >>>>>>> ==========
>> >>>>>>> >> > > im using the follwing CMakeList.txt
>> >>>>>>> >> > > # This is the root ITK CMakeLists file.
>> >>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>> >>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>> >>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>> >>>>>>> >> > > endif()
>> >>>>>>> >> > >
>> >>>>>>> >> > >
>> >>>>>>> >> > > # This project is designed to be built outside the Insight
>> >>>>>>> source
>> >>>>>>> >> tree.
>> >>>>>>> >> > > project(HelloWorld)
>> >>>>>>> >> > >
>> >>>>>>> >> > > # Find ITK.
>> >>>>>>> >> > > find_package(ITK REQUIRED)
>> >>>>>>> >> > > include(${ITK_USE_FILE})
>> >>>>>>> >> > >
>> >>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>> >>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>> >>>>>>> >> > >
>> >>>>>>> >> > > target_link_libraries(itkTextureFeatureImageFilterTest
>> >>>>>>> >> ${ITK_LIBRARIES})
>> >>>>>>> >> > >
>> >>>>>>> >> > > please tel me wat the error is??
>> >>>>>>> >> > >
>> >>>>>>> >> > >
>> >>>>>>> >> > >
>> >>>>>>> >> > > --
>> >>>>>>> >> > > View this message in context:
>> >>>>>>> >> >
>> >>>>>>> >>
>> >>>>>>>
>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>> >>>>>>> >> > > Sent from the ITK Insight Users mailing list archive at
>> >>>>>>> Nabble.com.
>> >>>>>>> >> > > _____________________________________
>> >>>>>>> >> > > Powered by www.kitware.com
>> >>>>>>> >> > >
>> >>>>>>> >> > > Visit other Kitware open-source projects at
>> >>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>> >>>>>>> >> > >
>> >>>>>>> >> > > Kitware offers ITK Training Courses, for more information
>> >>>>>>> visit:
>> >>>>>>> >> > > http://www.kitware.com/products/protraining.php
>> >>>>>>> >> > >
>> >>>>>>> >> > > Please keep messages on-topic and check the ITK FAQ at:
>> >>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>> >>>>>>> >> > >
>> >>>>>>> >> > > Follow this link to subscribe/unsubscribe:
>> >>>>>>> >> > > http://public.kitware.com/mailman/listinfo/insight-users
>> >>>>>>> >> > _____________________________________
>> >>>>>>> >> > Powered by www.kitware.com
>> >>>>>>> >> >
>> >>>>>>> >> > Visit other Kitware open-source projects at
>> >>>>>>> >> > http://www.kitware.com/opensource/opensource.html
>> >>>>>>> >> >
>> >>>>>>> >> > Kitware offers ITK Training Courses, for more information
>> visit:
>> >>>>>>> >> > http://www.kitware.com/products/protraining.php
>> >>>>>>> >> >
>> >>>>>>> >> > Please keep messages on-topic and check the ITK FAQ at:
>> >>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
>> >>>>>>> >> >
>> >>>>>>> >> > Follow this link to subscribe/unsubscribe:
>> >>>>>>> >> > http://public.kitware.com/mailman/listinfo/insight-users
>> >>>>>>> >> >
>> >>>>>>> >> >
>> >>>>>>> >> > ------------------------------
>> >>>>>>> >> > If you reply to this email, your message will be added to the
>> >>>>>>> discussion
>> >>>>>>> >> > below:
>> >>>>>>> >> >
>> >>>>>>> >> >
>> >>>>>>> >>
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>> >>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by pixel, click
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>> >>>>>>> >> >
>> >>>>>>> >> >
>> >>>>>>> >>
>> >>>>>>> >>
>> >>>>>>> >>
>> >>>>>>> >>
>> >>>>>>> >> --
>> >>>>>>> >> View this message in context:
>> >>>>>>> >>
>> >>>>>>>
>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>> >>>>>>> >> Sent from the ITK Insight Users mailing list archive at
>> >>>>>>> Nabble.com.
>> >>>>>>> >> _____________________________________
>> >>>>>>> >> Powered by www.kitware.com
>> >>>>>>> >>
>> >>>>>>> >> Visit other Kitware open-source projects at
>> >>>>>>> >> http://www.kitware.com/opensource/opensource.html
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>> >>>>>>> >> Kitware offers ITK Training Courses, for more information
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>> >>>>>>> >>
>> >>>>>>> >> Follow this link to subscribe/unsubscribe:
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>> >>>>>>> >>
>> >>>>>>> >
>> >>>>>>> >
>> >>>>>>> > _____________________________________
>> >>>>>>> > Powered by www.kitware.com
>> >>>>>>> >
>> >>>>>>> > Visit other Kitware open-source projects at
>> >>>>>>> > http://www.kitware.com/opensource/opensource.html
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>> >>>>>>> >
>> >>>>>>> >
>> >>>>>>>
>> >>>>>>>
>> >>>>>>>
>> >>>>>>>
>> >>>>>>> --
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>> >>>>>>>
>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
>> >>>>>>> Sent from the ITK Insight Users mailing list archive at
>> Nabble.com.
>> >>>>>>> _____________________________________
>> >>>>>>> Powered by www.kitware.com
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>> >>>>>>> Visit other Kitware open-source projects at
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>> >>>>>>
>> >>>>>> Visit other Kitware open-source projects at
>> >>>>>> http://www.kitware.com/opensource/opensource.html
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>> >>>>
>> >>>
>> >>
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/*=========================================================================
 *
 *  Copyright Bradley Lowekamp
 *
 *  Licensed under the Apache License, Version 2.0 (the "License");
 *  you may not use this file except in compliance with the License.
 *  You may obtain a copy of the License at
 *
 *         http://www.apache.org/licenses/LICENSE-2.0.txt
 *
 *  Unless required by applicable law or agreed to in writing, software
 *  distributed under the License is distributed on an "AS IS" BASIS,
 *  WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
 *  See the License for the specific language governing permissions and
 *  limitations under the License.
 *
 *=========================================================================*/
#ifndef __itkTextureFeatureImageFilterV2_hxx
#define __itkTextureFeatureImageFilterV2_hxx

#include "itkTextureFeatureImageFilterV2.h"

#include "vnl/vnl_math.h"
#include "itkNeighborhoodAlgorithm.h"
#include "itkProgressReporter.h"
#include "itkHistogramToTextureFeaturesFilter.h"

namespace itk
{
namespace External
{
template< class TImageType, class TOutputImage>
TextureFeatureImageFilterV2< TImageType, TOutputImage>
::TextureFeatureImageFilterV2()
{
	this->SetNumberOfRequiredInputs(1);
	this->SetNumberOfRequiredOutputs(1);

	//this->m_GLCMGenerator = CooccurrenceMatrixFilterType::New();
	//this->m_GLCMCalculator = TextureFeaturesFilterType::New();
	//this->m_GLCMCalculator->SetInput( this->m_GLCMGenerator->GetOutput() );

	this->m_Min = NumericTraits< PixelType >::NonpositiveMin();
	this->m_Max = NumericTraits< PixelType >::max();

	this->_insidePixelValue = 1; // Default value if not set manually

	this->m_NumberOfBinsPerAxis = DefaultBinsPerAxis;
	this->m_Normalize = false;

	m_WindowSize.Fill( 10 );

	_maskImage = NULL;

	// Set the offset directions to their defaults: half of all the possible
	// directions 1 pixel away. (The other half is included by symmetry.)
	// We use a neighborhood iterator to calculate the appropriate offsets.
	/*typedef Neighborhood< typename InputImageType::PixelType, InputImageType::ImageDimension > NeighborhoodType;
	NeighborhoodType hood;
	hood.SetRadius(1);

	// select all "previous" neighbors that are face+edge+vertex
	// connected to the current pixel. do not include the center pixel.
	unsigned int        centerIndex = hood.GetCenterNeighborhoodIndex();
	OffsetType          offset;
	OffsetVectorPointer offsets = OffsetVector::New();
	for ( unsigned int d = 0; d < centerIndex; d++ )
	{
		offset = hood.GetOffset(d);
		offsets->push_back(offset);
	}
	this->SetOffsets(offsets);*/

}

template< class TImageType, class TOutputImage>
void
TextureFeatureImageFilterV2< TImageType, TOutputImage >::SetOffset(const OffsetType &offset)
{
  OffsetVectorType offsetVector;

  offsetVector.push_back(offset);
  this->SetOffsets(offsetVector);
}


template< class TImageType, class TOutputImage>
void
TextureFeatureImageFilterV2< TImageType, TOutputImage>::SetPixelValueMinMax(PixelType min, PixelType max)
{
  itkDebugMacro("setting Min to " << min << "and Max to " << max);
  m_Min = min;
  m_Max = max;
  //m_GLCMGenerator->SetPixelValueMinMax(min, max);
  this->Modified();
}

template< class TImageType, class TOutputImage >
void
TextureFeatureImageFilterV2< TImageType, TOutputImage >::SetInput(InputImageType *image)
{
  // Process object is not const-correct so the const_cast is required here
  this->ProcessObject::SetNthInput( 0,
                                    const_cast< InputImageType * >( image ) );

  //m_GLCMGenerator->SetInput(image);
}

template< class TImageType, class TOutputImage >
void
TextureFeatureImageFilterV2< TImageType, TOutputImage >::SetMaskImage(InputImageType *image)
{
  // Process object is not const-correct so the const_cast is required here
  this->ProcessObject::SetNthInput( 1, const_cast< InputImageType * >( image ) );

  _maskImage = image;
  //m_GLCMGenerator->SetMaskImage(image);

  InputImageType *input = (InputImageType*) this->GetInput();

  std::cout << "Scalar SubImage Origin: " << input->GetOrigin() << std::endl;
  std::cout << "Scalar SubImage Spacing: " << input->GetSpacing() << std::endl;
  std::cout << "Scalar SubImage Size: " << input->GetLargestPossibleRegion().GetSize() << std::endl;

  std::cout << "Binary SubImage Origin: " << _maskImage->GetOrigin() << std::endl;
  std::cout << "Binary SubImage Spacing: " << _maskImage->GetSpacing() << std::endl;
  std::cout << "Binary SubImage Size: " << _maskImage->GetLargestPossibleRegion().GetSize() << std::endl;
}

/*template< class TImageType, class TOutputImage >
const InputImageType *
TextureFeatureImageFilterV2< TImageType, TOutputImage >::GetMaskImage() const
{
  return _maskImage;
}*/

template< class TImageType, class TOutputImage >
void
TextureFeatureImageFilterV2< TImageType, TOutputImage >::SetInsidePixelValue(PixelType insidePixelValue)
{
  itkDebugMacro("setting InsidePixelValue to " << insidePixelValue);
  _insidePixelValue = insidePixelValue;
  //m_GLCMGenerator->SetInsidePixelValue(insidePixelValue);
  this->Modified();
}

template< class TImageType, class TOutputImage>
void
TextureFeatureImageFilterV2< TImageType, TOutputImage>::GenerateOutputInformation()
{
  // this methods is overloaded so that if the output image is a
  // VectorImage then the correct number of components are set.

  Superclass::GenerateOutputInformation();
  OutputImageType* output = this->GetOutput();

  if ( !output )
    {
    return;
    }
  if ( output->GetNumberOfComponentsPerPixel() != this->GetNumberOfOutputComponents() )
    {
    output->SetNumberOfComponentsPerPixel( this->GetNumberOfOutputComponents() );
    }
}

template< class TImageType, class TOutputImage>
void
TextureFeatureImageFilterV2< TImageType, TOutputImage>::BeforeThreadedGenerateData( )
{

  m_CooccurenceOffsetVector.clear();

  OffsetType o1;
  OffsetType o2;

  // calculate all offsets pairs
  for( unsigned int i = 0; i < InputImageType::ImageDimension; ++i )
    {
    o1[i] = -m_WindowSize[i];
    }


  // iterate over all point in the window
  do
    {
    typename OffsetVectorType::const_iterator iter;
    for( iter = this->m_Offsets.begin(); iter != this->m_Offsets.end(); ++iter )
      {
      o2 = o1 + *iter;

      bool ok = true;
      for( unsigned int i = 0; i < InputImageType::ImageDimension; ++i )
        {
        if ( vcl_abs(o2[i]) > m_WindowSize[i])
          {
          ok = false;
          break;
          }
        }

      if ( ok )
        {
        m_CooccurenceOffsetVector.push_back( std::make_pair( o1, o2 ) );

        //std::cout << "offset: " << o1 << " " << o2 << std::endl;
        itkDebugMacro("offset: " << o1 << " " << o2 << std::endl);
        }
      }

    // increment the offset 1
    ++o1[0];
    for( unsigned int i = 1; i < InputImageType::ImageDimension; ++i )
      {
      if (o1[i-1] > static_cast<typename OffsetType::OffsetValueType>(m_WindowSize[i-1]) )
        {
        o1[i-1] = -m_WindowSize[i-1];
        ++o1[i];
        }
      }
    }  while ( o1[InputImageType::ImageDimension-1] <= static_cast<typename OffsetType::OffsetValueType>(m_WindowSize[InputImageType::ImageDimension-1])  );


}
template< class TImageType, class TOutputImage>
void
TextureFeatureImageFilterV2< TImageType, TOutputImage>
::ThreadedGenerateData(const RegionType& outputRegionForThread,
                            ThreadIdType threadId )
{
  InputImageType *input = (InputImageType*) this->GetInput();
  if ( _maskImage == NULL )
  {
	  _maskImage = input;
  }

	  std::cout << "input: " << input << std::endl;
	  std::cout << "_maskImage: " << _maskImage << std::endl;

  OutputImageType *output = this->GetOutput();

  // constant for a coocurrence matrix.
  const unsigned int measurementVectorSize = 2;

  //
  // Create Histogram
  //
  typename HistogramType::Pointer histogram = HistogramType::New();

  histogram->SetMeasurementVectorSize(measurementVectorSize);


  //initialize parameters
  MeasurementVectorType lowerBound(measurementVectorSize);
  MeasurementVectorType upperBound(measurementVectorSize);

  lowerBound.Fill( this->GetMin() );
  upperBound.Fill( this->GetMax() +1 );


  // First, create an appropriate histogram with the right number of bins
  // and mins and maxs correct for the image type.
  typename HistogramType::SizeType size( histogram->GetMeasurementVectorSize() );
  size.Fill(m_NumberOfBinsPerAxis);
  histogram->Initialize(size, lowerBound, upperBound);

  typedef Statistics::HistogramToTextureFeaturesFilter<HistogramType> FeatureFilterType;
  typename FeatureFilterType::Pointer featureFilter = FeatureFilterType::New();


  // support progress methods/callbacks
  ProgressReporter progress(this, threadId, outputRegionForThread.GetNumberOfPixels());


  typedef ImageRegionIterator<OutputImageType>             OutputIterator;
  typedef itk::ConstNeighborhoodIterator< InputImageType > NeighborhoodIteratorType;
  typename NeighborhoodIteratorType::RadiusType radius = m_WindowSize;

  typedef itk::NeighborhoodAlgorithm::ImageBoundaryFacesCalculator< InputImageType > FaceCalculatorType;
  FaceCalculatorType faceCalculator;
  typename FaceCalculatorType::FaceListType faceList;
  typename FaceCalculatorType::FaceListType::iterator fit;

  faceList = faceCalculator( input, outputRegionForThread, radius );

  for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
    {
    NeighborhoodIteratorType nIter( radius, input, *fit );
    NeighborhoodIteratorType maskIter( radius, _maskImage, *fit);
    OutputIterator           outIter(output, *fit);

    OutputPixelType out;
    NumericTraits<OutputPixelType>::SetLength( out, this->GetNumberOfOutputComponents() );

    while( !nIter.IsAtEnd() )
      {
      this->FillHistogram( *histogram, nIter, maskIter );

      featureFilter->SetInput( histogram );
      featureFilter->Modified();
      featureFilter->Update();

      out[0] = featureFilter->GetEnergy();
      out[1] = featureFilter->GetEntropy();
      out[2] = featureFilter->GetCorrelation();
      out[3] = featureFilter->GetInverseDifferenceMoment();
      out[4] = featureFilter->GetInertia();
      out[5] = featureFilter->GetClusterShade();
      out[6] = featureFilter->GetClusterProminence();
      out[7] = featureFilter->GetHaralickCorrelation();

      outIter.Set( out );

      histogram->SetToZero();
      ++nIter;
      ++outIter;
      ++maskIter;
      progress.CompletedPixel();
      }
    }


}


template< class TImageType, class TOutputImage>
void
TextureFeatureImageFilterV2< TImageType, TOutputImage>
::FillHistogram( HistogramType &histogram,
				 const itk::ConstNeighborhoodIterator< InputImageType > &niter,
				 const itk::ConstNeighborhoodIterator<InputImageType> &maskIter) const
{


  MeasurementVectorType cooccur( histogram.GetMeasurementVectorSize() );

  typename std::vector<std::pair< OffsetType, OffsetType > >::const_iterator iter = m_CooccurenceOffsetVector.begin();
  while( iter != m_CooccurenceOffsetVector.end() )
    {

	  std::cout << "iter.first: " << iter->first << " iter.second: " << iter->second << std::endl;

	  std::cout << "niter index: " << niter.GetIndex() << std::endl;
	  std::cout << "maskIter index: " << maskIter.GetIndex() << std::endl;

    const PixelType p1 = niter.GetPixel(iter->first);
    const PixelType p2 = niter.GetPixel(iter->second);
    std::cout << "Before p3" << std::endl;
    const PixelType p3 = maskIter.GetPixel(iter->first);
    std::cout << "After p3: " << p3 << std::endl;
    const PixelType p4 = maskIter.GetPixel(iter->second);
    std::cout << "After p4: " << p4 << std::endl;
    /*const PixelType p3 = _insidePixelValue;
    const PixelType p4 = _insidePixelValue;*/

    if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <= m_Max
    		&& p3 == _insidePixelValue && p4 == _insidePixelValue ) // The point belongs to the mask
      {
      cooccur[0] = p1;
      cooccur[1] = p2;
      histogram.IncreaseFrequencyOfMeasurement(cooccur, 1.0 );

      cooccur[1] = p1;
      cooccur[0] = p2;
      histogram.IncreaseFrequencyOfMeasurement(cooccur, 1.0 );
      }

    ++iter;
    }

}

template< class TImageType, class TOutputImage>
void
TextureFeatureImageFilterV2< TImageType, TOutputImage>
::PrintSelf(std::ostream & os, Indent indent) const
{
  Superclass::PrintSelf(os, indent);

//fixme
//  os << indent << "Offsets: " << this->GetOffsets() << std::endl;
  os << indent << "Min: " << this->GetMin() << std::endl;
  os << indent << "Max: " << this->GetMax() << std::endl;
  os << indent << "NumberOfBinsPerAxis: " << this->GetNumberOfBinsPerAxis() << std::endl;
  os << indent << "Normalize: " << this->GetNormalize() << std::endl;
}
} // end of namespace External
} // end of namespace itk

#endif

template class itk::External::TextureFeatureImageFilterV2<itk::Image<unsigned char, 2>, itk::VectorImage< float, 2 > >;
template class itk::External::TextureFeatureImageFilterV2<itk::Image<unsigned char, 3>, itk::VectorImage< float, 3 > >;
template class itk::External::TextureFeatureImageFilterV2<itk::Image<unsigned short, 2>, itk::VectorImage< float, 2 > >;
template class itk::External::TextureFeatureImageFilterV2<itk::Image<unsigned short, 3>, itk::VectorImage< float, 3 > >;
template class itk::External::TextureFeatureImageFilterV2<itk::Image<float, 2>, itk::VectorImage< float, 2 > >;
template class itk::External::TextureFeatureImageFilterV2<itk::Image<float, 3>, itk::VectorImage< float, 3 > >;

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From franciscolopezdelafranca at gmail.com  Mon Feb 15 01:36:35 2016
From: franciscolopezdelafranca at gmail.com (=?UTF-8?Q?Francisco_L=C3=B3pez-Franca?=)
Date: Sun, 14 Feb 2016 23:36:35 -0700 (MST)
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <CAPf2UMQdSHRVYWReSZ+i+=E4igTyUD91ysoqA48DB-O8R3EUTw@mail.gmail.com>
References: <CAPYv+6KFkZ_UydTpwXEa0fORuZkJ=QbSVLkQe3znqdmNSUsvgA@mail.gmail.com>
 <CAJqi3E+qm_mUNJBCScnzUO9daZ=Ta7PsCWb-5fozL8WK6=A6JA@mail.gmail.com>
 <84A225AE-400C-4FBA-97FA-6A027CB17208@mail.nih.gov>
 <CAJqi3EJu9PH9WG5WQomxwMpcNwd8zCcT0BZ2SYXkX4JMOQtT-w@mail.gmail.com>
 <CAJqi3E+eNQxJBbrUt-ReAPNqF+xZOLMFZa_KB_v9tDdbF1SNog@mail.gmail.com>
 <CAJqi3ELNovYUpgJ=cFStA2gq-ix1UiaY-4YvZTJ327OQ8LGn9w@mail.gmail.com>
 <CAJqi3EJMqTscSxNdOn58Yz2NazfdSdcrTgOY6hRYAK3Z=3-Asw@mail.gmail.com>
 <CAPf2UMTwwE=7eLsCjNZpnWHTemQ3Kpi3waGA0p9tDkcWoU2aZQ@mail.gmail.com>
 <CAJqi3EJ6gSjPxVG9tNguYNHf0pCatepBv3w-4sTtKOnRig_4vA@mail.gmail.com>
 <CAPf2UMQdSHRVYWReSZ+i+=E4igTyUD91ysoqA48DB-O8R3EUTw@mail.gmail.com>
Message-ID: <CAJqi3EJU6L=R=KUyFvHvLg2w0m=MYQpuWTODcP=W4TiKZXE2eA@mail.gmail.com>

Hi,
Here they are.
KR.

2016-02-12 16:22 GMT+01:00 dzenanz [via ITK Insight Users] <
ml-node+s2283740n7588490h25 at n2.nabble.com>:

> Hi Francisco,
>
> do you mind attaching the modified files or pointing to your fork of it on
> GitHub?
>
> Regards
>
> On Thu, Feb 11, 2016 at 12:08 PM, Francisco L?pez-Franca <[hidden email]
> <http:///user/SendEmail.jtp?type=node&node=7588490&i=0>> wrote:
>
>> Hi Dzenan,
>> The original class is here:
>>
>>
>> https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h
>>
>> https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx
>>
>> I've just added setInput and setMaskImage methods and modify some lines in
>> the original class as I indicated in the yesterday mail within this
>> thread.
>> I'm running it on Windows, and there is no error at all, just a crash. I
>> may have to include exceptions management.
>> The crash occurs just when calling p3 = maskIter.GetPixel(iter->first)
>>
>> If you know why it could be or if you need more clarification, please let
>> me know.
>> Many thanks
>>
>> 2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
>> [hidden email] <http:///user/SendEmail.jtp?type=node&node=7588490&i=1>>:
>>
>> > Hi Francisco,
>> >
>> > "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the error
>> message
>> > that goes along with the crash? In which file and line does it crash?
>> >
>> > Regards
>> >
>> > On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca <[hidden
>> > email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0>> wrote:
>> >
>> >> Hi,
>> >> Please, someone that could help me. I'm working in a pre-doctorate
>> >> project and I need this class to work.
>> >> I've read the chapter 13 in the ITK Software Guide on how to write a
>> >> filter and now I see the fact of the threads due to inheritance of
>> >> ImageToImageFilter.
>> >> But, I keep on without understanding why the code crashes just when
>> >> calling
>> >> *const PixelType p3 = maskIter.GetPixel(iter->first);*
>> >> It is just a call to read data, not to write.
>> >>
>> >> I guess somebody that had worked with creation of filters might see
>> >> "easily" the problem, but not me.
>> >>
>> >> So, again, please, I need someone to help me with this because I'm
>> stuck
>> >> on this point.
>> >>
>> >> Thank you very much.
>> >> KR.
>> >> /Francisco
>> >>
>> >> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca <[hidden email]
>> >> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1>>:
>> >>
>> >>> Hi Bradley again.
>> >>> I'm modifying your class in order to be able to set a mask image (a
>> >>> binary image) to be used as a limit in the histogram calculations, I
>> mean,
>> >>> I set an input, a mask and the class should take into account to
>> calculate
>> >>> the histograms only the voxels that belong to the input and to the
>> mask
>> >>> image and having the value 1 in the mask image.
>> >>> The changes seem to be easy but I don?t know why my tests are not
>> >>> working. It seems that 2 threads are working at the same time and
>> when I
>> >>> added my mask iterator, the code crashes.
>> >>>
>> >>> *** Consider that the input and mask images are the same origin,
>> spacing
>> >>> and size.
>> >>>
>> >>> I attach the main changes I've done, and I would thank you a lot if
>> you
>> >>> don't mind having a look and help me to find what I'm doing wrong:
>> >>>
>> >>> template< class TImageType, class TOutputImage >
>> >>> void
>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>> >::*SetInput*(InputImageType
>> >>> *image)
>> >>> {
>> >>>   // Process object is not const-correct so the const_cast is required
>> >>> here
>> >>>   this->ProcessObject::SetNthInput( 0,
>> >>>                                     const_cast< InputImageType * >(
>> >>> image ) );
>> >>> }
>> >>>
>> >>> template< class TImageType, class TOutputImage >
>> >>> void
>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>> >::*SetMaskImage*(InputImageType
>> >>> *image)
>> >>> {
>> >>>   // Process object is not const-correct so the const_cast is required
>> >>> here
>> >>>   this->ProcessObject::SetNthInput( 1, const_cast< InputImageType * >(
>> >>> image ) );
>> >>>
>> >>>   _maskImage = image; // _maskImage is a private member
>> >>> }
>> >>>
>> >>> In the *ThreadedGenerateData*(const RegionType& outputRegionForThread,
>> >>> ThreadIdType threadId ) method:
>> >>> {
>> >>>
>> >>> ...
>> >>>
>> >>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
>> >>>     {
>> >>>     NeighborhoodIteratorType nIter( radius, input, *fit );
>> >>>     *NeighborhoodIteratorType maskIter( radius, _maskImage, *fit);*
>> >>>     OutputIterator           outIter(output, *fit);
>> >>>
>> >>>     OutputPixelType out;
>> >>>     NumericTraits<OutputPixelType>::SetLength( out,
>> >>> this->GetNumberOfOutputComponents() );
>> >>>
>> >>>     while( !nIter.IsAtEnd() )
>> >>>       {
>> >>>       this->FillHistogram( *histogram, nIter, *maskIter *);
>> >>>
>> >>>       ...
>> >>>
>> >>>       ++nIter;
>> >>>       ++outIter;
>> >>>      * ++maskIter;*
>> >>>     ...
>> >>>
>> >>> In the *FillHistogram *method:
>> >>> {
>> >>>
>> >>> ...
>> >>>
>> >>>   while( iter != m_CooccurenceOffsetVector.end() )
>> >>>     {
>> >>>
>> >>>     const PixelType p1 = niter.GetPixel(iter->first);
>> >>>     const PixelType p2 = niter.GetPixel(iter->second);
>> >>>     std::cout << "Before p3" << std::endl;
>> >>>
>> >>> *    const PixelType p3 = maskIter.GetPixel(iter->first);
>> *std::cout
>> >>> << "After p3: " << p3 << std::endl;
>> >>>
>> >>> *    const PixelType p4 = maskIter.GetPixel(iter->second);   *
>> >>> std::cout << "After p4: " << p4 << std::endl;
>> >>>
>> >>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <= m_Max
>> >>>             *&& p3 == _insidePixelValue && p4 == _insidePixelValue* )
>> >>> // The point
>> >>>       {
>> >>>
>> >>> ...
>> >>>
>> >>>
>> >>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>> >>>
>> >>> Thank you so much.
>> >>> My kind regards.
>> >>> /Paco
>> >>>
>> >>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca <[hidden
>> email]
>> >>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2>>:
>> >>>
>> >>>> Hello Bradley again.
>> >>>> Sorry but I'd like to re-open this issue because I need your class
>> but
>> >>>> with some modification.
>> >>>> I pass to tell you.
>> >>>>
>> >>>> As my tests with your external class were not good taking into
>> account
>> >>>> the performance, I wonder if you could create a variant of it, but
>> in which
>> >>>> I can set a mask image and your class just return the VectorImage
>> with all
>> >>>> the features for that region (the masked locations) as
>> >>>> itk::ScalarImageToTextureFeaturesFilter class does.
>> >>>> I mean, to get the vector image with all the features but just
>> >>>> calculate it for the regions belonging to the mask image. Positions
>> not
>> >>>> belonging to the mask region could have a pixel value of 0, for
>> instance.
>> >>>>
>> >>>> I don?t know if it is very costly for you,  but I would thank you so
>> >>>> much. Otherwise, I could try it but I'd need your suggestions on how
>> to do
>> >>>> it.
>> >>>>
>> >>>> Thanks a lot.
>> >>>> Best regards.
>> >>>>
>> >>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca <[hidden
>> email]
>> >>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3>>:
>> >>>>
>> >>>>> Hello Bradley again,
>> >>>>> I would like to ask you for a couple of favours. In the one hand,
>> >>>>> could you please send me your 3D image so that I can test on it?
>> And on the
>> >>>>> other hand, could you test the example I have referenced in the
>> previous
>> >>>>> email with your image, not changing anything in the code, such as
>> it is,
>> >>>>> and tell me if the execution time is normal?
>> >>>>> Thank you very much.
>> >>>>> Regards,
>> >>>>> /Francisco
>> >>>>>
>> >>>>> PS: All my application trace is printed via standard 'cout' command,
>> >>>>> not due to a debugging compilation mode.
>> >>>>>
>> >>>>>
>> >>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp <[hidden
>> >>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=4>>
>> >>>>> escribi?:
>> >>>>>
>> >>>>>> Hello,
>> >>>>>>
>> >>>>>> Did you compile TextureFeatureImage in Release mode?
>> >>>>>>
>> >>>>>> 1) The filter does not scale well with a large radius. And given by
>> >>>>>> your initial report of print a very large number of offset you, it
>> sounds
>> >>>>>> like you are using a large radius with many offsets. I created a
>> >>>>>> 224x224x300 unsigned short image and ran with the default offset
>> and a
>> >>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this filter is
>> was ~10x
>> >>>>>> faster than this example... things change though...
>> >>>>>>
>> >>>>>>
>> >>>>>> 2) I sounds like the boundaries/limits of the histogram may be
>> >>>>>> clipping you values. I would inspect the co-occurance matrix.
>> >>>>>>
>> >>>>>>
>> >>>>>> HTH,
>> >>>>>> Brad
>> >>>>>>
>> >>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca <[hidden
>> >>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=5>>
>> >>>>>> wrote:
>> >>>>>>
>> >>>>>> I've tested with itkTextureFeatureImageFilter, with
>> >>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>> >>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures
>> example,
>> >>>>>> for a 3D image and here are my comments:
>> >>>>>>
>> >>>>>>
>> >>>>>> 1. I had to interrupt the test after several hours and it kept on
>> >>>>>> calculating. And this is for only a 3D image (224x224x300). I need
>> to
>> >>>>>> process around 35 images.
>> >>>>>> 2. The result (texture features: entropy, energy, correlation, LH,
>> >>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0,
>> 7.83083e+247].
>> >>>>>> These values were not what I expected based on my experience on
>> another
>> >>>>>> application I developed, but in that case, I calculated the texture
>> >>>>>> features for an image as a whole, not voxel by voxel.
>> >>>>>>
>> >>>>>> Regards.
>> >>>>>>
>> >>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
>> >>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6>>:
>> >>>>>>
>> >>>>>>> i yes i have tried radius = 3;
>> >>>>>>> still no luck
>> >>>>>>>
>> >>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca [via ITK
>> >>>>>>> Insight
>> >>>>>>> Users] <[hidden email]
>> >>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7>> wrote:
>> >>>>>>>
>> >>>>>>> > Have you tried with a radius of 3 instead of 1?
>> >>>>>>> >
>> >>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>> >>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
>> >>>>>>> >
>> >>>>>>> >> hey Matt,
>> >>>>>>> >> thanks for ur advice.. it did build successfully... but im not
>> >>>>>>> able to run
>> >>>>>>> >> the code for 2D png image... i tried to change the dimension
>> to 2
>> >>>>>>> and
>> >>>>>>> >> build
>> >>>>>>> >> it which it did.. but when i run the code using the command
>> >>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png putput.png
>> >>>>>>> 1... i see
>> >>>>>>> >> this output
>> >>>>>>> >>
>> >>>>>>> >> offset: [-1, -1] [0, -1]
>> >>>>>>> >> offset: [0, -1] [1, -1]
>> >>>>>>> >> offset: [-1, 0] [0, 0]
>> >>>>>>> >> offset: [0, 0] [1, 0]
>> >>>>>>> >> offset: [-1, 1] [0, 1]
>> >>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the program... if
>> pls
>> >>>>>>> tel me
>> >>>>>>> >> how can i modify this code to work wid 2d image... forgive me
>> if
>> >>>>>>> my ques
>> >>>>>>> >> are really silly im trying to learn something..
>> >>>>>>> >> regards
>> >>>>>>> >> Vis
>> >>>>>>> >>
>> >>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via ITK
>> >>>>>>> Insight Users]
>> >>>>>>> >> <
>> >>>>>>> >> [hidden email] <
>> >>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
>> >>>>>>> >> wrote:
>> >>>>>>> >>
>> >>>>>>> >> > Hi,
>> >>>>>>> >> >
>> >>>>>>> >> > The function:
>> >>>>>>> >> >
>> >>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char *argv[])
>> >>>>>>> >> >
>> >>>>>>> >> > must be renamed to
>> >>>>>>> >> >
>> >>>>>>> >> >   main(int argc, char* argv[])
>> >>>>>>> >> >
>> >>>>>>> >> > HTH,
>> >>>>>>> >> > Matt
>> >>>>>>> >> >
>> >>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>> >>>>>>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>>
>> wrote:
>> >>>>>>> >> >
>> >>>>>>> >> > > hi all,
>> >>>>>>> >> > > im trying to build the itkTextureFeatureImageFilterTest.cxx
>> >>>>>>> code but
>> >>>>>>> >> im
>> >>>>>>> >> > not
>> >>>>>>> >> > > able to it is showing the following error
>> >>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>> >>>>>>> Configuration:
>> >>>>>>> >> Debug
>> >>>>>>> >> > x64
>> >>>>>>> >> > > ------
>> >>>>>>> >> > > 1>  Checking Build System
>> >>>>>>> >> > > 1>  CMake does not need to re-run because
>> >>>>>>> >> > >
>> >>>>>>>
>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>> >>>>>>> >> > is
>> >>>>>>> >> > > up-to-date.
>> >>>>>>> >> > > 2>------ Rebuild All started: Project:
>> >>>>>>> >> itkTextureFeatureImageFilterTest,
>> >>>>>>> >> > > Configuration: Debug x64 ------
>> >>>>>>> >> > > 2>  Building Custom Rule
>> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>> >>>>>>> >> > > 2>  CMake does not need to re-run because
>> >>>>>>> >> > >
>> >>>>>>>
>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>> >>>>>>> >> > is
>> >>>>>>> >> > > up-to-date.
>> >>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>> >>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>> >>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>> >>>>>>> 'std::_Copy_impl':
>> >>>>>>> >> > Function
>> >>>>>>> >> > > call with parameters that may be unsafe - this call relies
>> on
>> >>>>>>> the
>> >>>>>>> >> caller
>> >>>>>>> >> > to
>> >>>>>>> >> > > check that the passed values are correct. To disable this
>> >>>>>>> warning, use
>> >>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how to use
>> >>>>>>> Visual C++
>> >>>>>>> >> > > 'Checked Iterators'
>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>> >>>>>>> 'std::_Copy_impl'
>> >>>>>>> >> > > 2>
>> >>>>>>> >> > >
>> >>>>>>> >>
>> >>>>>>>
>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>> >>>>>>> >> > see
>> >>>>>>> >> > > reference to function template instantiation '_OutIt
>> >>>>>>> std::copy<const
>> >>>>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)' being
>> >>>>>>> compiled
>> >>>>>>> >> > > 2>          with
>> >>>>>>> >> > > 2>          [
>> >>>>>>> >> > > 2>              _OutIt=unsigned char *,
>> >>>>>>> >> > > 2>              _InIt=const unsigned char *
>> >>>>>>> >> > > 2>          ]
>> >>>>>>> >> > > 2>
>> >>>>>>> >> > >
>> >>>>>>> >>
>> >>>>>>>
>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>> >>>>>>> >> > > while compiling class template member function 'void
>> >>>>>>> >> > > itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>> >>>>>>> >> > > 2>          with
>> >>>>>>> >> > > 2>          [
>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>> >>>>>>> >> > > 2>          ]
>> >>>>>>> >> > > 2>
>> >>>>>>> >> > >
>> >>>>>>> >> >
>> >>>>>>> >>
>> >>>>>>>
>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>> >>>>>>> >> >
>> >>>>>>> >> > > : see reference to class template instantiation
>> >>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>> >>>>>>> >> > > 2>          with
>> >>>>>>> >> > > 2>          [
>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>> >>>>>>> >> > > 2>          ]
>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>> >>>>>>> 'std::_Copy_impl'
>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>> >>>>>>> 'std::_Copy_impl'
>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>> >>>>>>> 'std::_Copy_impl'
>> >>>>>>> >> > > 2>     Creating library
>> >>>>>>> >> > >
>> >>>>>>> >> >
>> >>>>>>> >>
>> >>>>>>>
>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>> >>>>>>> >> >
>> >>>>>>> >> > > and object
>> >>>>>>> >> > >
>> >>>>>>> >> >
>> >>>>>>> >>
>> >>>>>>>
>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>> >>>>>>> >> >
>> >>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved
>> >>>>>>> external symbol
>> >>>>>>> >> > main
>> >>>>>>> >> > > referenced in function __tmainCRTStartup
>> >>>>>>> >> > >
>> >>>>>>> >> >
>> >>>>>>> >>
>> >>>>>>>
>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>> >>>>>>> >> >
>> >>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>> >>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>> >>>>>>> Configuration: Debug
>> >>>>>>> >> > x64
>> >>>>>>> >> > > ------
>> >>>>>>> >> > > 3>  Building Custom Rule
>> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>> >>>>>>> >> > > 3>  CMake does not need to re-run because
>> >>>>>>> >> > >
>> >>>>>>>
>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>> >>>>>>> >> > is
>> >>>>>>> >> > > up-to-date.
>> >>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0 skipped
>> >>>>>>> ==========
>> >>>>>>> >> > > im using the follwing CMakeList.txt
>> >>>>>>> >> > > # This is the root ITK CMakeLists file.
>> >>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>> >>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>> >>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>> >>>>>>> >> > > endif()
>> >>>>>>> >> > >
>> >>>>>>> >> > >
>> >>>>>>> >> > > # This project is designed to be built outside the Insight
>> >>>>>>> source
>> >>>>>>> >> tree.
>> >>>>>>> >> > > project(HelloWorld)
>> >>>>>>> >> > >
>> >>>>>>> >> > > # Find ITK.
>> >>>>>>> >> > > find_package(ITK REQUIRED)
>> >>>>>>> >> > > include(${ITK_USE_FILE})
>> >>>>>>> >> > >
>> >>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>> >>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>> >>>>>>> >> > >
>> >>>>>>> >> > > target_link_libraries(itkTextureFeatureImageFilterTest
>> >>>>>>> >> ${ITK_LIBRARIES})
>> >>>>>>> >> > >
>> >>>>>>> >> > > please tel me wat the error is??
>> >>>>>>> >> > >
>> >>>>>>> >> > >
>> >>>>>>> >> > >
>> >>>>>>> >> > > --
>> >>>>>>> >> > > View this message in context:
>> >>>>>>> >> >
>> >>>>>>> >>
>> >>>>>>>
>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>> >>>>>>> >> > > Sent from the ITK Insight Users mailing list archive at
>> >>>>>>> Nabble.com.
>> >>>>>>> >> > > _____________________________________
>> >>>>>>> >> > > Powered by www.kitware.com
>> >>>>>>> >> > >
>> >>>>>>> >> > > Visit other Kitware open-source projects at
>> >>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>> >>>>>>> >> > >
>> >>>>>>> >> > > Kitware offers ITK Training Courses, for more information
>> >>>>>>> visit:
>> >>>>>>> >> > > http://www.kitware.com/products/protraining.php
>> >>>>>>> >> > >
>> >>>>>>> >> > > Please keep messages on-topic and check the ITK FAQ at:
>> >>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>> >>>>>>> >> > >
>> >>>>>>> >> > > Follow this link to subscribe/unsubscribe:
>> >>>>>>> >> > > http://public.kitware.com/mailman/listinfo/insight-users
>> >>>>>>> >> > _____________________________________
>> >>>>>>> >> > Powered by www.kitware.com
>> >>>>>>> >> >
>> >>>>>>> >> > Visit other Kitware open-source projects at
>> >>>>>>> >> > http://www.kitware.com/opensource/opensource.html
>> >>>>>>> >> >
>> >>>>>>> >> > Kitware offers ITK Training Courses, for more information
>> visit:
>> >>>>>>> >> > http://www.kitware.com/products/protraining.php
>> >>>>>>> >> >
>> >>>>>>> >> > Please keep messages on-topic and check the ITK FAQ at:
>> >>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
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>> >>>>>>> >> > Follow this link to subscribe/unsubscribe:
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>> >>>>>>> >> >
>> >>>>>>> >> > ------------------------------
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>> >>>>>>> discussion
>> >>>>>>> >> > below:
>> >>>>>>> >> >
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>> >>>>>>> >>
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>> >>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by pixel, click
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>> >>>>>>> >> >
>> >>>>>>> >> >
>> >>>>>>> >>
>> >>>>>>> >>
>> >>>>>>> >>
>> >>>>>>> >>
>> >>>>>>> >> --
>> >>>>>>> >> View this message in context:
>> >>>>>>> >>
>> >>>>>>>
>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>> >>>>>>> >> Sent from the ITK Insight Users mailing list archive at
>> >>>>>>> Nabble.com.
>> >>>>>>> >> _____________________________________
>> >>>>>>> >> Powered by www.kitware.com
>> >>>>>>> >>
>> >>>>>>> >> Visit other Kitware open-source projects at
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>> >>>>>>> >> Kitware offers ITK Training Courses, for more information
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>> >>>>>>> >>
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>> >>>>>>> >>
>> >>>>>>> >
>> >>>>>>> >
>> >>>>>>> > _____________________________________
>> >>>>>>> > Powered by www.kitware.com
>> >>>>>>> >
>> >>>>>>> > Visit other Kitware open-source projects at
>> >>>>>>> > http://www.kitware.com/opensource/opensource.html
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>> >>>>>>> >
>> >>>>>>> >
>> >>>>>>>
>> >>>>>>>
>> >>>>>>>
>> >>>>>>>
>> >>>>>>> --
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>> >>>>>>>
>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
>> >>>>>>> Sent from the ITK Insight Users mailing list archive at
>> Nabble.com.
>> >>>>>>> _____________________________________
>> >>>>>>> Powered by www.kitware.com
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>> >>>>>>> Visit other Kitware open-source projects at
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>> >>>>>>
>> >>>>>> Visit other Kitware open-source projects at
>> >>>>>> http://www.kitware.com/opensource/opensource.html
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>> >>>>
>> >>>
>> >>
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>> >>
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itkTextureFeatureImageFilterv2.cxx (18K) <http://itk-insight-users.2283740.n2.nabble.com/attachment/7588494/0/itkTextureFeatureImageFilterv2.cxx>
itkTextureFeatureImageFilterv2.h (9K) <http://itk-insight-users.2283740.n2.nabble.com/attachment/7588494/1/itkTextureFeatureImageFilterv2.h>




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From dzenanz at gmail.com  Mon Feb 15 11:14:22 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Mon, 15 Feb 2016 11:14:22 -0500
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <CAJqi3EJU6L=R=KUyFvHvLg2w0m=MYQpuWTODcP=W4TiKZXE2eA@mail.gmail.com>
References: <CAJqi3EK+xH6na+WLkLK9K2K+C95z5=LVDCK80_B0z4K496-YMA@mail.gmail.com>
 <CAPYv+6KFkZ_UydTpwXEa0fORuZkJ=QbSVLkQe3znqdmNSUsvgA@mail.gmail.com>
 <CAJqi3E+qm_mUNJBCScnzUO9daZ=Ta7PsCWb-5fozL8WK6=A6JA@mail.gmail.com>
 <84A225AE-400C-4FBA-97FA-6A027CB17208@mail.nih.gov>
 <CAJqi3EJu9PH9WG5WQomxwMpcNwd8zCcT0BZ2SYXkX4JMOQtT-w@mail.gmail.com>
 <CAJqi3E+eNQxJBbrUt-ReAPNqF+xZOLMFZa_KB_v9tDdbF1SNog@mail.gmail.com>
 <CAJqi3ELNovYUpgJ=cFStA2gq-ix1UiaY-4YvZTJ327OQ8LGn9w@mail.gmail.com>
 <CAJqi3EJMqTscSxNdOn58Yz2NazfdSdcrTgOY6hRYAK3Z=3-Asw@mail.gmail.com>
 <CAPf2UMTwwE=7eLsCjNZpnWHTemQ3Kpi3waGA0p9tDkcWoU2aZQ@mail.gmail.com>
 <CAJqi3EJ6gSjPxVG9tNguYNHf0pCatepBv3w-4sTtKOnRig_4vA@mail.gmail.com>
 <CAPf2UMQdSHRVYWReSZ+i+=E4igTyUD91ysoqA48DB-O8R3EUTw@mail.gmail.com>
 <CAJqi3EJU6L=R=KUyFvHvLg2w0m=MYQpuWTODcP=W4TiKZXE2eA@mail.gmail.com>
Message-ID: <CAPf2UMSs-q8_s=5k6KcX48zjEsyKWQ-RzJ3O0ik1ihFcHcp+vg@mail.gmail.com>

Hi Francisco,

both your code and Brad's code run in debug mode (I did not wait for the
end), and both crash in release mode immediately on startup. Here is a
sample output:

Progress input: 0000000002868970
input: 0000000002868970
_maskImage: 0000000002868970
_maskImage: 0000000002868970
input: 0000000002868970
_maskImage: 0000000002868970
iter.first: iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
[-5, -5, -5] iter.second: [-4, -5, -5]
niter index: [5, 5, 210]
niter index: [5, 5, 140]
maskIter index: [5, 5, 140]
maskIter index: [5, 5, 210]
Before p3
input: 0000000002868970
_maskImage: 0000000002868970
After p3:  | 0niter index: [5, 5, 70]
iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
niter index: [5, 5, 5]
?
maskIter index: [5, 5, 70]
After p4: ?
Before p3
Before p3
After p3: ?iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
niter index: [5, 5, 140]
maskIter index: [5, 5, 140]
maskIter index: [5, 5, 5]
Before p3
After p3: ?
After p3: ?
After p4: ?
After p4: ?
iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
niter index: [5, 5, 5]
maskIter index: [5, 5, 5]

iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
Before p3
Before p3
After p4: ?
After p3: ?
After p4: ?

Regards,
D?enan

On Mon, Feb 15, 2016 at 1:36 AM, Francisco Lopez de la Franca <
franciscolopezdelafranca at gmail.com> wrote:

> Hi,
> Here they are.
> KR.
>
> 2016-02-12 16:22 GMT+01:00 dzenanz [via ITK Insight Users] <
> ml-node+s2283740n7588490h25 at n2.nabble.com>:
>
>> Hi Francisco,
>>
>> do you mind attaching the modified files or pointing to your fork of it
>> on GitHub?
>>
>> Regards
>>
>> On Thu, Feb 11, 2016 at 12:08 PM, Francisco L?pez-Franca <[hidden email]
>> <http:///user/SendEmail.jtp?type=node&node=7588490&i=0>> wrote:
>>
>>> Hi Dzenan,
>>> The original class is here:
>>>
>>>
>>> https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h
>>>
>>> https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx
>>>
>>> I've just added setInput and setMaskImage methods and modify some lines
>>> in
>>> the original class as I indicated in the yesterday mail within this
>>> thread.
>>> I'm running it on Windows, and there is no error at all, just a crash. I
>>> may have to include exceptions management.
>>> The crash occurs just when calling p3 = maskIter.GetPixel(iter->first)
>>>
>>> If you know why it could be or if you need more clarification, please let
>>> me know.
>>> Many thanks
>>>
>>> 2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
>>> [hidden email] <http:///user/SendEmail.jtp?type=node&node=7588490&i=1>>:
>>>
>>> > Hi Francisco,
>>> >
>>> > "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the error
>>> message
>>> > that goes along with the crash? In which file and line does it crash?
>>> >
>>> > Regards
>>> >
>>> > On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca <[hidden
>>> > email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0>> wrote:
>>> >
>>> >> Hi,
>>> >> Please, someone that could help me. I'm working in a pre-doctorate
>>> >> project and I need this class to work.
>>> >> I've read the chapter 13 in the ITK Software Guide on how to write a
>>> >> filter and now I see the fact of the threads due to inheritance of
>>> >> ImageToImageFilter.
>>> >> But, I keep on without understanding why the code crashes just when
>>> >> calling
>>> >> *const PixelType p3 = maskIter.GetPixel(iter->first);*
>>> >> It is just a call to read data, not to write.
>>> >>
>>> >> I guess somebody that had worked with creation of filters might see
>>> >> "easily" the problem, but not me.
>>> >>
>>> >> So, again, please, I need someone to help me with this because I'm
>>> stuck
>>> >> on this point.
>>> >>
>>> >> Thank you very much.
>>> >> KR.
>>> >> /Francisco
>>> >>
>>> >> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca <[hidden
>>> email]
>>> >> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1>>:
>>> >>
>>> >>> Hi Bradley again.
>>> >>> I'm modifying your class in order to be able to set a mask image (a
>>> >>> binary image) to be used as a limit in the histogram calculations, I
>>> mean,
>>> >>> I set an input, a mask and the class should take into account to
>>> calculate
>>> >>> the histograms only the voxels that belong to the input and to the
>>> mask
>>> >>> image and having the value 1 in the mask image.
>>> >>> The changes seem to be easy but I don?t know why my tests are not
>>> >>> working. It seems that 2 threads are working at the same time and
>>> when I
>>> >>> added my mask iterator, the code crashes.
>>> >>>
>>> >>> *** Consider that the input and mask images are the same origin,
>>> spacing
>>> >>> and size.
>>> >>>
>>> >>> I attach the main changes I've done, and I would thank you a lot if
>>> you
>>> >>> don't mind having a look and help me to find what I'm doing wrong:
>>> >>>
>>> >>> template< class TImageType, class TOutputImage >
>>> >>> void
>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>> >::*SetInput*(InputImageType
>>> >>> *image)
>>> >>> {
>>> >>>   // Process object is not const-correct so the const_cast is
>>> required
>>> >>> here
>>> >>>   this->ProcessObject::SetNthInput( 0,
>>> >>>                                     const_cast< InputImageType * >(
>>> >>> image ) );
>>> >>> }
>>> >>>
>>> >>> template< class TImageType, class TOutputImage >
>>> >>> void
>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>> >::*SetMaskImage*(InputImageType
>>> >>> *image)
>>> >>> {
>>> >>>   // Process object is not const-correct so the const_cast is
>>> required
>>> >>> here
>>> >>>   this->ProcessObject::SetNthInput( 1, const_cast< InputImageType *
>>> >(
>>> >>> image ) );
>>> >>>
>>> >>>   _maskImage = image; // _maskImage is a private member
>>> >>> }
>>> >>>
>>> >>> In the *ThreadedGenerateData*(const RegionType&
>>> outputRegionForThread,
>>> >>> ThreadIdType threadId ) method:
>>> >>> {
>>> >>>
>>> >>> ...
>>> >>>
>>> >>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
>>> >>>     {
>>> >>>     NeighborhoodIteratorType nIter( radius, input, *fit );
>>> >>>     *NeighborhoodIteratorType maskIter( radius, _maskImage, *fit);*
>>> >>>     OutputIterator           outIter(output, *fit);
>>> >>>
>>> >>>     OutputPixelType out;
>>> >>>     NumericTraits<OutputPixelType>::SetLength( out,
>>> >>> this->GetNumberOfOutputComponents() );
>>> >>>
>>> >>>     while( !nIter.IsAtEnd() )
>>> >>>       {
>>> >>>       this->FillHistogram( *histogram, nIter, *maskIter *);
>>> >>>
>>> >>>       ...
>>> >>>
>>> >>>       ++nIter;
>>> >>>       ++outIter;
>>> >>>      * ++maskIter;*
>>> >>>     ...
>>> >>>
>>> >>> In the *FillHistogram *method:
>>> >>> {
>>> >>>
>>> >>> ...
>>> >>>
>>> >>>   while( iter != m_CooccurenceOffsetVector.end() )
>>> >>>     {
>>> >>>
>>> >>>     const PixelType p1 = niter.GetPixel(iter->first);
>>> >>>     const PixelType p2 = niter.GetPixel(iter->second);
>>> >>>     std::cout << "Before p3" << std::endl;
>>> >>>
>>> >>> *    const PixelType p3 = maskIter.GetPixel(iter->first);
>>> *std::cout
>>> >>> << "After p3: " << p3 << std::endl;
>>> >>>
>>> >>> *    const PixelType p4 = maskIter.GetPixel(iter->second);   *
>>> >>> std::cout << "After p4: " << p4 << std::endl;
>>> >>>
>>> >>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <= m_Max
>>> >>>             *&& p3 == _insidePixelValue && p4 == _insidePixelValue* )
>>> >>> // The point
>>> >>>       {
>>> >>>
>>> >>> ...
>>> >>>
>>> >>>
>>> >>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>>> >>>
>>> >>> Thank you so much.
>>> >>> My kind regards.
>>> >>> /Paco
>>> >>>
>>> >>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca <[hidden
>>> email]
>>> >>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2>>:
>>> >>>
>>> >>>> Hello Bradley again.
>>> >>>> Sorry but I'd like to re-open this issue because I need your class
>>> but
>>> >>>> with some modification.
>>> >>>> I pass to tell you.
>>> >>>>
>>> >>>> As my tests with your external class were not good taking into
>>> account
>>> >>>> the performance, I wonder if you could create a variant of it, but
>>> in which
>>> >>>> I can set a mask image and your class just return the VectorImage
>>> with all
>>> >>>> the features for that region (the masked locations) as
>>> >>>> itk::ScalarImageToTextureFeaturesFilter class does.
>>> >>>> I mean, to get the vector image with all the features but just
>>> >>>> calculate it for the regions belonging to the mask image. Positions
>>> not
>>> >>>> belonging to the mask region could have a pixel value of 0, for
>>> instance.
>>> >>>>
>>> >>>> I don?t know if it is very costly for you,  but I would thank you so
>>> >>>> much. Otherwise, I could try it but I'd need your suggestions on
>>> how to do
>>> >>>> it.
>>> >>>>
>>> >>>> Thanks a lot.
>>> >>>> Best regards.
>>> >>>>
>>> >>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca <[hidden
>>> email]
>>> >>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3>>:
>>> >>>>
>>> >>>>> Hello Bradley again,
>>> >>>>> I would like to ask you for a couple of favours. In the one hand,
>>> >>>>> could you please send me your 3D image so that I can test on it?
>>> And on the
>>> >>>>> other hand, could you test the example I have referenced in the
>>> previous
>>> >>>>> email with your image, not changing anything in the code, such as
>>> it is,
>>> >>>>> and tell me if the execution time is normal?
>>> >>>>> Thank you very much.
>>> >>>>> Regards,
>>> >>>>> /Francisco
>>> >>>>>
>>> >>>>> PS: All my application trace is printed via standard 'cout'
>>> command,
>>> >>>>> not due to a debugging compilation mode.
>>> >>>>>
>>> >>>>>
>>> >>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp <[hidden
>>> >>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=4>>
>>> >>>>> escribi?:
>>> >>>>>
>>> >>>>>> Hello,
>>> >>>>>>
>>> >>>>>> Did you compile TextureFeatureImage in Release mode?
>>> >>>>>>
>>> >>>>>> 1) The filter does not scale well with a large radius. And given
>>> by
>>> >>>>>> your initial report of print a very large number of offset you,
>>> it sounds
>>> >>>>>> like you are using a large radius with many offsets. I created a
>>> >>>>>> 224x224x300 unsigned short image and ran with the default offset
>>> and a
>>> >>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this filter
>>> is was ~10x
>>> >>>>>> faster than this example... things change though...
>>> >>>>>>
>>> >>>>>>
>>> >>>>>> 2) I sounds like the boundaries/limits of the histogram may be
>>> >>>>>> clipping you values. I would inspect the co-occurance matrix.
>>> >>>>>>
>>> >>>>>>
>>> >>>>>> HTH,
>>> >>>>>> Brad
>>> >>>>>>
>>> >>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca <[hidden
>>> >>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=5>>
>>> >>>>>> wrote:
>>> >>>>>>
>>> >>>>>> I've tested with itkTextureFeatureImageFilter, with
>>> >>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>>> >>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures
>>> example,
>>> >>>>>> for a 3D image and here are my comments:
>>> >>>>>>
>>> >>>>>>
>>> >>>>>> 1. I had to interrupt the test after several hours and it kept on
>>> >>>>>> calculating. And this is for only a 3D image (224x224x300). I
>>> need to
>>> >>>>>> process around 35 images.
>>> >>>>>> 2. The result (texture features: entropy, energy, correlation, LH,
>>> >>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0,
>>> 7.83083e+247].
>>> >>>>>> These values were not what I expected based on my experience on
>>> another
>>> >>>>>> application I developed, but in that case, I calculated the
>>> texture
>>> >>>>>> features for an image as a whole, not voxel by voxel.
>>> >>>>>>
>>> >>>>>> Regards.
>>> >>>>>>
>>> >>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
>>> >>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6>>:
>>> >>>>>>
>>> >>>>>>> i yes i have tried radius = 3;
>>> >>>>>>> still no luck
>>> >>>>>>>
>>> >>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca [via ITK
>>> >>>>>>> Insight
>>> >>>>>>> Users] <[hidden email]
>>> >>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7>> wrote:
>>> >>>>>>>
>>> >>>>>>> > Have you tried with a radius of 3 instead of 1?
>>> >>>>>>> >
>>> >>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>>> >>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
>>> >>>>>>> >
>>> >>>>>>> >> hey Matt,
>>> >>>>>>> >> thanks for ur advice.. it did build successfully... but im not
>>> >>>>>>> able to run
>>> >>>>>>> >> the code for 2D png image... i tried to change the dimension
>>> to 2
>>> >>>>>>> and
>>> >>>>>>> >> build
>>> >>>>>>> >> it which it did.. but when i run the code using the command
>>> >>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png
>>> putput.png
>>> >>>>>>> 1... i see
>>> >>>>>>> >> this output
>>> >>>>>>> >>
>>> >>>>>>> >> offset: [-1, -1] [0, -1]
>>> >>>>>>> >> offset: [0, -1] [1, -1]
>>> >>>>>>> >> offset: [-1, 0] [0, 0]
>>> >>>>>>> >> offset: [0, 0] [1, 0]
>>> >>>>>>> >> offset: [-1, 1] [0, 1]
>>> >>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the program... if
>>> pls
>>> >>>>>>> tel me
>>> >>>>>>> >> how can i modify this code to work wid 2d image... forgive me
>>> if
>>> >>>>>>> my ques
>>> >>>>>>> >> are really silly im trying to learn something..
>>> >>>>>>> >> regards
>>> >>>>>>> >> Vis
>>> >>>>>>> >>
>>> >>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via ITK
>>> >>>>>>> Insight Users]
>>> >>>>>>> >> <
>>> >>>>>>> >> [hidden email] <
>>> >>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
>>> >>>>>>> >> wrote:
>>> >>>>>>> >>
>>> >>>>>>> >> > Hi,
>>> >>>>>>> >> >
>>> >>>>>>> >> > The function:
>>> >>>>>>> >> >
>>> >>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char *argv[])
>>> >>>>>>> >> >
>>> >>>>>>> >> > must be renamed to
>>> >>>>>>> >> >
>>> >>>>>>> >> >   main(int argc, char* argv[])
>>> >>>>>>> >> >
>>> >>>>>>> >> > HTH,
>>> >>>>>>> >> > Matt
>>> >>>>>>> >> >
>>> >>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>>> >>>>>>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>>
>>> wrote:
>>> >>>>>>> >> >
>>> >>>>>>> >> > > hi all,
>>> >>>>>>> >> > > im trying to build the
>>> itkTextureFeatureImageFilterTest.cxx
>>> >>>>>>> code but
>>> >>>>>>> >> im
>>> >>>>>>> >> > not
>>> >>>>>>> >> > > able to it is showing the following error
>>> >>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>>> >>>>>>> Configuration:
>>> >>>>>>> >> Debug
>>> >>>>>>> >> > x64
>>> >>>>>>> >> > > ------
>>> >>>>>>> >> > > 1>  Checking Build System
>>> >>>>>>> >> > > 1>  CMake does not need to re-run because
>>> >>>>>>> >> > >
>>> >>>>>>>
>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>>> >>>>>>> >> > is
>>> >>>>>>> >> > > up-to-date.
>>> >>>>>>> >> > > 2>------ Rebuild All started: Project:
>>> >>>>>>> >> itkTextureFeatureImageFilterTest,
>>> >>>>>>> >> > > Configuration: Debug x64 ------
>>> >>>>>>> >> > > 2>  Building Custom Rule
>>> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>> >>>>>>> >> > > 2>  CMake does not need to re-run because
>>> >>>>>>> >> > >
>>> >>>>>>>
>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>> >>>>>>> >> > is
>>> >>>>>>> >> > > up-to-date.
>>> >>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>>> >>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>>> >>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>>> >>>>>>> 'std::_Copy_impl':
>>> >>>>>>> >> > Function
>>> >>>>>>> >> > > call with parameters that may be unsafe - this call
>>> relies on
>>> >>>>>>> the
>>> >>>>>>> >> caller
>>> >>>>>>> >> > to
>>> >>>>>>> >> > > check that the passed values are correct. To disable this
>>> >>>>>>> warning, use
>>> >>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how to use
>>> >>>>>>> Visual C++
>>> >>>>>>> >> > > 'Checked Iterators'
>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>> >>>>>>> 'std::_Copy_impl'
>>> >>>>>>> >> > > 2>
>>> >>>>>>> >> > >
>>> >>>>>>> >>
>>> >>>>>>>
>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>>> >>>>>>> >> > see
>>> >>>>>>> >> > > reference to function template instantiation '_OutIt
>>> >>>>>>> std::copy<const
>>> >>>>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)' being
>>> >>>>>>> compiled
>>> >>>>>>> >> > > 2>          with
>>> >>>>>>> >> > > 2>          [
>>> >>>>>>> >> > > 2>              _OutIt=unsigned char *,
>>> >>>>>>> >> > > 2>              _InIt=const unsigned char *
>>> >>>>>>> >> > > 2>          ]
>>> >>>>>>> >> > > 2>
>>> >>>>>>> >> > >
>>> >>>>>>> >>
>>> >>>>>>>
>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>>> >>>>>>> >> > > while compiling class template member function 'void
>>> >>>>>>> >> > > itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>>> >>>>>>> >> > > 2>          with
>>> >>>>>>> >> > > 2>          [
>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>> >>>>>>> >> > > 2>          ]
>>> >>>>>>> >> > > 2>
>>> >>>>>>> >> > >
>>> >>>>>>> >> >
>>> >>>>>>> >>
>>> >>>>>>>
>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>>> >>>>>>> >> >
>>> >>>>>>> >> > > : see reference to class template instantiation
>>> >>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>>> >>>>>>> >> > > 2>          with
>>> >>>>>>> >> > > 2>          [
>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>> >>>>>>> >> > > 2>          ]
>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>> >>>>>>> 'std::_Copy_impl'
>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>> >>>>>>> 'std::_Copy_impl'
>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>> >>>>>>> 'std::_Copy_impl'
>>> >>>>>>> >> > > 2>     Creating library
>>> >>>>>>> >> > >
>>> >>>>>>> >> >
>>> >>>>>>> >>
>>> >>>>>>>
>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>>> >>>>>>> >> >
>>> >>>>>>> >> > > and object
>>> >>>>>>> >> > >
>>> >>>>>>> >> >
>>> >>>>>>> >>
>>> >>>>>>>
>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>>> >>>>>>> >> >
>>> >>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved
>>> >>>>>>> external symbol
>>> >>>>>>> >> > main
>>> >>>>>>> >> > > referenced in function __tmainCRTStartup
>>> >>>>>>> >> > >
>>> >>>>>>> >> >
>>> >>>>>>> >>
>>> >>>>>>>
>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>>> >>>>>>> >> >
>>> >>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>>> >>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>>> >>>>>>> Configuration: Debug
>>> >>>>>>> >> > x64
>>> >>>>>>> >> > > ------
>>> >>>>>>> >> > > 3>  Building Custom Rule
>>> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>> >>>>>>> >> > > 3>  CMake does not need to re-run because
>>> >>>>>>> >> > >
>>> >>>>>>>
>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>> >>>>>>> >> > is
>>> >>>>>>> >> > > up-to-date.
>>> >>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0 skipped
>>> >>>>>>> ==========
>>> >>>>>>> >> > > im using the follwing CMakeList.txt
>>> >>>>>>> >> > > # This is the root ITK CMakeLists file.
>>> >>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>>> >>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>>> >>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>>> >>>>>>> >> > > endif()
>>> >>>>>>> >> > >
>>> >>>>>>> >> > >
>>> >>>>>>> >> > > # This project is designed to be built outside the Insight
>>> >>>>>>> source
>>> >>>>>>> >> tree.
>>> >>>>>>> >> > > project(HelloWorld)
>>> >>>>>>> >> > >
>>> >>>>>>> >> > > # Find ITK.
>>> >>>>>>> >> > > find_package(ITK REQUIRED)
>>> >>>>>>> >> > > include(${ITK_USE_FILE})
>>> >>>>>>> >> > >
>>> >>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>>> >>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>>> >>>>>>> >> > >
>>> >>>>>>> >> > > target_link_libraries(itkTextureFeatureImageFilterTest
>>> >>>>>>> >> ${ITK_LIBRARIES})
>>> >>>>>>> >> > >
>>> >>>>>>> >> > > please tel me wat the error is??
>>> >>>>>>> >> > >
>>> >>>>>>> >> > >
>>> >>>>>>> >> > >
>>> >>>>>>> >> > > --
>>> >>>>>>> >> > > View this message in context:
>>> >>>>>>> >> >
>>> >>>>>>> >>
>>> >>>>>>>
>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>>> >>>>>>> >> > > Sent from the ITK Insight Users mailing list archive at
>>> >>>>>>> Nabble.com.
>>> >>>>>>> >> > > _____________________________________
>>> >>>>>>> >> > > Powered by www.kitware.com
>>> >>>>>>> >> > >
>>> >>>>>>> >> > > Visit other Kitware open-source projects at
>>> >>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>>> >>>>>>> >> > >
>>> >>>>>>> >> > > Kitware offers ITK Training Courses, for more information
>>> >>>>>>> visit:
>>> >>>>>>> >> > > http://www.kitware.com/products/protraining.php
>>> >>>>>>> >> > >
>>> >>>>>>> >> > > Please keep messages on-topic and check the ITK FAQ at:
>>> >>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>>> >>>>>>> >> > >
>>> >>>>>>> >> > > Follow this link to subscribe/unsubscribe:
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>>> >>>>>>> >> >
>>> >>>>>>> >> > Visit other Kitware open-source projects at
>>> >>>>>>> >> > http://www.kitware.com/opensource/opensource.html
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>>> >>>>>>> >> > Kitware offers ITK Training Courses, for more information
>>> visit:
>>> >>>>>>> >> > http://www.kitware.com/products/protraining.php
>>> >>>>>>> >> >
>>> >>>>>>> >> > Please keep messages on-topic and check the ITK FAQ at:
>>> >>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
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>>> >>>>>>> >> >
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>>> >>>>>>> >> > If you reply to this email, your message will be added to
>>> the
>>> >>>>>>> discussion
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>>> >>>>>>> >> >
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>>> >>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by pixel,
>>> click
>>> >>>>>>> here
>>> >>>>>>> >> > < > .
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>>> >>>>>>> >> >
>>> >>>>>>> >> >
>>> >>>>>>> >>
>>> >>>>>>> >>
>>> >>>>>>> >>
>>> >>>>>>> >>
>>> >>>>>>> >> --
>>> >>>>>>> >> View this message in context:
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>>> >>>>>>>
>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>>> >>>>>>> >> Sent from the ITK Insight Users mailing list archive at
>>> >>>>>>> Nabble.com.
>>> >>>>>>> >> _____________________________________
>>> >>>>>>> >> Powered by www.kitware.com
>>> >>>>>>> >>
>>> >>>>>>> >> Visit other Kitware open-source projects at
>>> >>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>> >>>>>>> >>
>>> >>>>>>> >> Kitware offers ITK Training Courses, for more information
>>> visit:
>>> >>>>>>> >> http://www.kitware.com/products/protraining.php
>>> >>>>>>> >>
>>> >>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
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>>> >>>>>>> >>
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>>> >>>>>>> >>
>>> >>>>>>> >
>>> >>>>>>> >
>>> >>>>>>> > _____________________________________
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>>> >>>>>>> >
>>> >>>>>>> > Visit other Kitware open-source projects at
>>> >>>>>>> > http://www.kitware.com/opensource/opensource.html
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>>> >>>>>>> > Kitware offers ITK Training Courses, for more information
>>> visit:
>>> >>>>>>> > http://www.kitware.com/products/protraining.php
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>>> >>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
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>>> >>>>>>> >
>>> >>>>>>> >
>>> >>>>>>>
>>> >>>>>>>
>>> >>>>>>>
>>> >>>>>>>
>>> >>>>>>> --
>>> >>>>>>> View this message in context:
>>> >>>>>>>
>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
>>> >>>>>>> Sent from the ITK Insight Users mailing list archive at
>>> Nabble.com.
>>> >>>>>>> _____________________________________
>>> >>>>>>> Powered by www.kitware.com
>>> >>>>>>>
>>> >>>>>>> Visit other Kitware open-source projects at
>>> >>>>>>> http://www.kitware.com/opensource/opensource.html
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>>> >>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>> >>>>>>> http://www.kitware.com/products/protraining.php
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>>> >>>>>>> Please keep messages on-topic and check the ITK FAQ at:
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>>> >>>>>> Powered by www.kitware.com
>>> >>>>>>
>>> >>>>>> Visit other Kitware open-source projects at
>>> >>>>>> http://www.kitware.com/opensource/opensource.html
>>> >>>>>>
>>> >>>>>> Kitware offers ITK Training Courses, for more information visit:
>>> >>>>>> http://www.kitware.com/products/protraining.php
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>>> >>>>>>
>>> >>>>
>>> >>>
>>> >>
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>>> >>
>>> >> Visit other Kitware open-source projects at
>>> >> http://www.kitware.com/opensource/opensource.html
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>>> >> Kitware offers ITK Training Courses, for more information visit:
>>> >> http://www.kitware.com/products/protraining.php
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>>> >> Please keep messages on-topic and check the ITK FAQ at:
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>>> > Visit other Kitware open-source projects at
>>> > http://www.kitware.com/opensource/opensource.html
>>> >
>>> > Kitware offers ITK Training Courses, for more information visit:
>>> > http://www.kitware.com/products/protraining.php
>>> >
>>> > Please keep messages on-topic and check the ITK FAQ at:
>>> > http://www.itk.org/Wiki/ITK_FAQ
>>> >
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>>> > http://public.kitware.com/mailman/listinfo/insight-users
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>>> > If you reply to this email, your message will be added to the
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>>> > below:
>>> >
>>> >
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>>> > To start a new topic under ITK Insight Users, email
>>> > [hidden email] <http:///user/SendEmail.jtp?type=node&node=7588490&i=2>
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>>> > <
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>>> >
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>>>
>>>
>>>
>>>
>>> --
>>> View this message in context:
>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588483.html
>>> Sent from the ITK Insight Users mailing list archive at Nabble.com.
>>> _____________________________________
>>> Powered by www.kitware.com
>>>
>>> Visit other Kitware open-source projects at
>>> http://www.kitware.com/opensource/opensource.html
>>>
>>> Kitware offers ITK Training Courses, for more information visit:
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>>
>>
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://www.kitware.com/products/protraining.php
>>
>> Please keep messages on-topic and check the ITK FAQ at:
>> http://www.itk.org/Wiki/ITK_FAQ
>>
>> Follow this link to subscribe/unsubscribe:
>> http://public.kitware.com/mailman/listinfo/insight-users
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>>
>> ------------------------------
>> If you reply to this email, your message will be added to the discussion
>> below:
>>
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>> To start a new topic under ITK Insight Users, email
>> ml-node+s2283740n2283740h75 at n2.nabble.com
>> To unsubscribe from ITK Insight Users, click here
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>> .
>> NAML
>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
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From kolin9105 at gmail.com  Mon Feb 15 12:05:30 2016
From: kolin9105 at gmail.com (meikolin saimara)
Date: Tue, 16 Feb 2016 00:05:30 +0700
Subject: [ITK-users] (no subject)
Message-ID: <CAEiw7u6AyY84CzVzZ0S0_Xy-OVOs9cJs-WoDMrZ41=8mtY0qdA@mail.gmail.com>

hello every one.
I am beginner in ITK.
I have a Question.
I had a image (threshold)  and then I want to  know the black pixel of the
image before that I have processed using confidence connected.
can you give the source code how to get value of black pixel ??
pleas help me.
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From dzenanz at gmail.com  Mon Feb 15 12:59:55 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Mon, 15 Feb 2016 12:59:55 -0500
Subject: [ITK-users] (no subject)
In-Reply-To: <CAEiw7u6AyY84CzVzZ0S0_Xy-OVOs9cJs-WoDMrZ41=8mtY0qdA@mail.gmail.com>
References: <CAEiw7u6AyY84CzVzZ0S0_Xy-OVOs9cJs-WoDMrZ41=8mtY0qdA@mail.gmail.com>
Message-ID: <CAPf2UMQG5h28WmzbOxJ0niQGeEMkVzzuDo1o8rxexoixJmbPXA@mail.gmail.com>

Hi Saimara,

did you take a look at the wiki example
<http://www.itk.org/Wiki/ITK/Examples/ImageSegmentation/ConfidenceConnectedImageFilter>?
Or other examples referenced in the documentation
<http://www.itk.org/Doxygen/html/classitk_1_1ConfidenceConnectedImageFilter.html>
?

Regards,
D?enan

On Mon, Feb 15, 2016 at 12:05 PM, meikolin saimara <kolin9105 at gmail.com>
wrote:

> hello every one.
> I am beginner in ITK.
> I have a Question.
> I had a image (threshold)  and then I want to  know the black pixel of the
> image before that I have processed using confidence connected.
> can you give the source code how to get value of black pixel ??
> pleas help me.
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
>
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From kolin9105 at gmail.com  Tue Feb 16 00:37:21 2016
From: kolin9105 at gmail.com (meikolin saimara)
Date: Tue, 16 Feb 2016 12:37:21 +0700
Subject: [ITK-users] (no subject)
Message-ID: <CAEiw7u5Gs5CK+TZ=rx3-FMLWuh9uEOKpRTYUxEtNnuoG8-SHxw@mail.gmail.com>

hello guys.

I am beginner in itk.
in RGBImage we can found red pixel but
how we can get black pixel value of image.
I have a image with view  black and white.
but I just need black pixel value..
Pleas help me guys.
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From franciscolopezdelafranca at gmail.com  Tue Feb 16 01:52:02 2016
From: franciscolopezdelafranca at gmail.com (Francisco Lopez de la Franca)
Date: Tue, 16 Feb 2016 07:52:02 +0100
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <CAPf2UMSs-q8_s=5k6KcX48zjEsyKWQ-RzJ3O0ik1ihFcHcp+vg@mail.gmail.com>
References: <CAJqi3E+qm_mUNJBCScnzUO9daZ=Ta7PsCWb-5fozL8WK6=A6JA@mail.gmail.com>
 <84A225AE-400C-4FBA-97FA-6A027CB17208@mail.nih.gov>
 <CAJqi3EJu9PH9WG5WQomxwMpcNwd8zCcT0BZ2SYXkX4JMOQtT-w@mail.gmail.com>
 <CAJqi3E+eNQxJBbrUt-ReAPNqF+xZOLMFZa_KB_v9tDdbF1SNog@mail.gmail.com>
 <CAJqi3ELNovYUpgJ=cFStA2gq-ix1UiaY-4YvZTJ327OQ8LGn9w@mail.gmail.com>
 <CAJqi3EJMqTscSxNdOn58Yz2NazfdSdcrTgOY6hRYAK3Z=3-Asw@mail.gmail.com>
 <CAPf2UMTwwE=7eLsCjNZpnWHTemQ3Kpi3waGA0p9tDkcWoU2aZQ@mail.gmail.com>
 <CAJqi3EJ6gSjPxVG9tNguYNHf0pCatepBv3w-4sTtKOnRig_4vA@mail.gmail.com>
 <CAPf2UMQdSHRVYWReSZ+i+=E4igTyUD91ysoqA48DB-O8R3EUTw@mail.gmail.com>
 <CAJqi3EJU6L=R=KUyFvHvLg2w0m=MYQpuWTODcP=W4TiKZXE2eA@mail.gmail.com>
 <CAPf2UMSs-q8_s=5k6KcX48zjEsyKWQ-RzJ3O0ik1ihFcHcp+vg@mail.gmail.com>
Message-ID: <CAJqi3E+ghXk2AaMYF_eb2_6ZsxJPNYWtFqHaQkKxjJXWuGTEOw@mail.gmail.com>

Excuse me Dzenanz, but that's not completely true, because I've tested
Brad's class and it works right.
The problem seems to be that when you add a new neighbor iterator to
include just the mask points in the "histogram" then it is when the
application crashes, and I donot understand why.
If you just comment the 'maskIter' references you'll see that the
application works.
I've created a single threaded class based on the Brad's code and it works
but it is twice slower, that is why I'm interesting on Brad's class
(multi-threaded) to make it work.


2016-02-15 17:15 GMT+01:00 dzenanz [via ITK Insight Users] <
ml-node+s2283740n7588495h80 at n2.nabble.com>:

> Hi Francisco,
>
> both your code and Brad's code run in debug mode (I did not wait for the
> end), and both crash in release mode immediately on startup. Here is a
> sample output:
>
> Progress input: 0000000002868970
> input: 0000000002868970
> _maskImage: 0000000002868970
> _maskImage: 0000000002868970
> input: 0000000002868970
> _maskImage: 0000000002868970
> iter.first: iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
> [-5, -5, -5] iter.second: [-4, -5, -5]
> niter index: [5, 5, 210]
> niter index: [5, 5, 140]
> maskIter index: [5, 5, 140]
> maskIter index: [5, 5, 210]
> Before p3
> input: 0000000002868970
> _maskImage: 0000000002868970
> After p3:  | 0niter index: [5, 5, 70]
> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
> niter index: [5, 5, 5]
> ?
> maskIter index: [5, 5, 70]
> After p4: ?
> Before p3
> Before p3
> After p3: ?iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
> niter index: [5, 5, 140]
> maskIter index: [5, 5, 140]
> maskIter index: [5, 5, 5]
> Before p3
> After p3: ?
> After p3: ?
> After p4: ?
> After p4: ?
> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
> niter index: [5, 5, 5]
> maskIter index: [5, 5, 5]
>
> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
> Before p3
> Before p3
> After p4: ?
> After p3: ?
> After p4: ?
>
> Regards,
> D?enan
>
> On Mon, Feb 15, 2016 at 1:36 AM, Francisco Lopez de la Franca <[hidden
> email] <http:///user/SendEmail.jtp?type=node&node=7588495&i=0>> wrote:
>
>> Hi,
>> Here they are.
>> KR.
>>
>> 2016-02-12 16:22 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>> email] <http:///user/SendEmail.jtp?type=node&node=7588495&i=1>>:
>>
>>> Hi Francisco,
>>>
>>> do you mind attaching the modified files or pointing to your fork of it
>>> on GitHub?
>>>
>>> Regards
>>>
>>> On Thu, Feb 11, 2016 at 12:08 PM, Francisco L?pez-Franca <[hidden email]
>>> <http:///user/SendEmail.jtp?type=node&node=7588490&i=0>> wrote:
>>>
>>>> Hi Dzenan,
>>>> The original class is here:
>>>>
>>>>
>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h
>>>>
>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx
>>>>
>>>> I've just added setInput and setMaskImage methods and modify some lines
>>>> in
>>>> the original class as I indicated in the yesterday mail within this
>>>> thread.
>>>> I'm running it on Windows, and there is no error at all, just a crash. I
>>>> may have to include exceptions management.
>>>> The crash occurs just when calling p3 = maskIter.GetPixel(iter->first)
>>>>
>>>> If you know why it could be or if you need more clarification, please
>>>> let
>>>> me know.
>>>> Many thanks
>>>>
>>>> 2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
>>>> [hidden email] <http:///user/SendEmail.jtp?type=node&node=7588490&i=1>
>>>> >:
>>>>
>>>> > Hi Francisco,
>>>> >
>>>> > "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the error
>>>> message
>>>> > that goes along with the crash? In which file and line does it crash?
>>>> >
>>>> > Regards
>>>> >
>>>> > On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca <[hidden
>>>> > email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0>>
>>>> wrote:
>>>> >
>>>> >> Hi,
>>>> >> Please, someone that could help me. I'm working in a pre-doctorate
>>>> >> project and I need this class to work.
>>>> >> I've read the chapter 13 in the ITK Software Guide on how to write a
>>>> >> filter and now I see the fact of the threads due to inheritance of
>>>> >> ImageToImageFilter.
>>>> >> But, I keep on without understanding why the code crashes just when
>>>> >> calling
>>>> >> *const PixelType p3 = maskIter.GetPixel(iter->first);*
>>>> >> It is just a call to read data, not to write.
>>>> >>
>>>> >> I guess somebody that had worked with creation of filters might see
>>>> >> "easily" the problem, but not me.
>>>> >>
>>>> >> So, again, please, I need someone to help me with this because I'm
>>>> stuck
>>>> >> on this point.
>>>> >>
>>>> >> Thank you very much.
>>>> >> KR.
>>>> >> /Francisco
>>>> >>
>>>> >> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca <[hidden
>>>> email]
>>>> >> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1>>:
>>>> >>
>>>> >>> Hi Bradley again.
>>>> >>> I'm modifying your class in order to be able to set a mask image (a
>>>> >>> binary image) to be used as a limit in the histogram calculations,
>>>> I mean,
>>>> >>> I set an input, a mask and the class should take into account to
>>>> calculate
>>>> >>> the histograms only the voxels that belong to the input and to the
>>>> mask
>>>> >>> image and having the value 1 in the mask image.
>>>> >>> The changes seem to be easy but I don?t know why my tests are not
>>>> >>> working. It seems that 2 threads are working at the same time and
>>>> when I
>>>> >>> added my mask iterator, the code crashes.
>>>> >>>
>>>> >>> *** Consider that the input and mask images are the same origin,
>>>> spacing
>>>> >>> and size.
>>>> >>>
>>>> >>> I attach the main changes I've done, and I would thank you a lot if
>>>> you
>>>> >>> don't mind having a look and help me to find what I'm doing wrong:
>>>> >>>
>>>> >>> template< class TImageType, class TOutputImage >
>>>> >>> void
>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>> >::*SetInput*(InputImageType
>>>> >>> *image)
>>>> >>> {
>>>> >>>   // Process object is not const-correct so the const_cast is
>>>> required
>>>> >>> here
>>>> >>>   this->ProcessObject::SetNthInput( 0,
>>>> >>>                                     const_cast< InputImageType * >(
>>>> >>> image ) );
>>>> >>> }
>>>> >>>
>>>> >>> template< class TImageType, class TOutputImage >
>>>> >>> void
>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>> >::*SetMaskImage*(InputImageType
>>>> >>> *image)
>>>> >>> {
>>>> >>>   // Process object is not const-correct so the const_cast is
>>>> required
>>>> >>> here
>>>> >>>   this->ProcessObject::SetNthInput( 1, const_cast< InputImageType *
>>>> >(
>>>> >>> image ) );
>>>> >>>
>>>> >>>   _maskImage = image; // _maskImage is a private member
>>>> >>> }
>>>> >>>
>>>> >>> In the *ThreadedGenerateData*(const RegionType&
>>>> outputRegionForThread,
>>>> >>> ThreadIdType threadId ) method:
>>>> >>> {
>>>> >>>
>>>> >>> ...
>>>> >>>
>>>> >>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
>>>> >>>     {
>>>> >>>     NeighborhoodIteratorType nIter( radius, input, *fit );
>>>> >>>     *NeighborhoodIteratorType maskIter( radius, _maskImage, *fit);*
>>>> >>>     OutputIterator           outIter(output, *fit);
>>>> >>>
>>>> >>>     OutputPixelType out;
>>>> >>>     NumericTraits<OutputPixelType>::SetLength( out,
>>>> >>> this->GetNumberOfOutputComponents() );
>>>> >>>
>>>> >>>     while( !nIter.IsAtEnd() )
>>>> >>>       {
>>>> >>>       this->FillHistogram( *histogram, nIter, *maskIter *);
>>>> >>>
>>>> >>>       ...
>>>> >>>
>>>> >>>       ++nIter;
>>>> >>>       ++outIter;
>>>> >>>      * ++maskIter;*
>>>> >>>     ...
>>>> >>>
>>>> >>> In the *FillHistogram *method:
>>>> >>> {
>>>> >>>
>>>> >>> ...
>>>> >>>
>>>> >>>   while( iter != m_CooccurenceOffsetVector.end() )
>>>> >>>     {
>>>> >>>
>>>> >>>     const PixelType p1 = niter.GetPixel(iter->first);
>>>> >>>     const PixelType p2 = niter.GetPixel(iter->second);
>>>> >>>     std::cout << "Before p3" << std::endl;
>>>> >>>
>>>> >>> *    const PixelType p3 = maskIter.GetPixel(iter->first);
>>>> *std::cout
>>>> >>> << "After p3: " << p3 << std::endl;
>>>> >>>
>>>> >>> *    const PixelType p4 = maskIter.GetPixel(iter->second);   *
>>>> >>> std::cout << "After p4: " << p4 << std::endl;
>>>> >>>
>>>> >>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <= m_Max
>>>> >>>             *&& p3 == _insidePixelValue && p4 == _insidePixelValue*
>>>> )
>>>> >>> // The point
>>>> >>>       {
>>>> >>>
>>>> >>> ...
>>>> >>>
>>>> >>>
>>>> >>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>>>> >>>
>>>> >>> Thank you so much.
>>>> >>> My kind regards.
>>>> >>> /Paco
>>>> >>>
>>>> >>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca <[hidden
>>>> email]
>>>> >>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2>>:
>>>> >>>
>>>> >>>> Hello Bradley again.
>>>> >>>> Sorry but I'd like to re-open this issue because I need your class
>>>> but
>>>> >>>> with some modification.
>>>> >>>> I pass to tell you.
>>>> >>>>
>>>> >>>> As my tests with your external class were not good taking into
>>>> account
>>>> >>>> the performance, I wonder if you could create a variant of it, but
>>>> in which
>>>> >>>> I can set a mask image and your class just return the VectorImage
>>>> with all
>>>> >>>> the features for that region (the masked locations) as
>>>> >>>> itk::ScalarImageToTextureFeaturesFilter class does.
>>>> >>>> I mean, to get the vector image with all the features but just
>>>> >>>> calculate it for the regions belonging to the mask image.
>>>> Positions not
>>>> >>>> belonging to the mask region could have a pixel value of 0, for
>>>> instance.
>>>> >>>>
>>>> >>>> I don?t know if it is very costly for you,  but I would thank you
>>>> so
>>>> >>>> much. Otherwise, I could try it but I'd need your suggestions on
>>>> how to do
>>>> >>>> it.
>>>> >>>>
>>>> >>>> Thanks a lot.
>>>> >>>> Best regards.
>>>> >>>>
>>>> >>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca <[hidden
>>>> email]
>>>> >>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3>>:
>>>> >>>>
>>>> >>>>> Hello Bradley again,
>>>> >>>>> I would like to ask you for a couple of favours. In the one hand,
>>>> >>>>> could you please send me your 3D image so that I can test on it?
>>>> And on the
>>>> >>>>> other hand, could you test the example I have referenced in the
>>>> previous
>>>> >>>>> email with your image, not changing anything in the code, such as
>>>> it is,
>>>> >>>>> and tell me if the execution time is normal?
>>>> >>>>> Thank you very much.
>>>> >>>>> Regards,
>>>> >>>>> /Francisco
>>>> >>>>>
>>>> >>>>> PS: All my application trace is printed via standard 'cout'
>>>> command,
>>>> >>>>> not due to a debugging compilation mode.
>>>> >>>>>
>>>> >>>>>
>>>> >>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp <[hidden
>>>> >>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=4>>
>>>> >>>>> escribi?:
>>>> >>>>>
>>>> >>>>>> Hello,
>>>> >>>>>>
>>>> >>>>>> Did you compile TextureFeatureImage in Release mode?
>>>> >>>>>>
>>>> >>>>>> 1) The filter does not scale well with a large radius. And given
>>>> by
>>>> >>>>>> your initial report of print a very large number of offset you,
>>>> it sounds
>>>> >>>>>> like you are using a large radius with many offsets. I created a
>>>> >>>>>> 224x224x300 unsigned short image and ran with the default offset
>>>> and a
>>>> >>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this filter
>>>> is was ~10x
>>>> >>>>>> faster than this example... things change though...
>>>> >>>>>>
>>>> >>>>>>
>>>> >>>>>> 2) I sounds like the boundaries/limits of the histogram may be
>>>> >>>>>> clipping you values. I would inspect the co-occurance matrix.
>>>> >>>>>>
>>>> >>>>>>
>>>> >>>>>> HTH,
>>>> >>>>>> Brad
>>>> >>>>>>
>>>> >>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca
>>>> <[hidden
>>>> >>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=5>>
>>>> >>>>>> wrote:
>>>> >>>>>>
>>>> >>>>>> I've tested with itkTextureFeatureImageFilter, with
>>>> >>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>>>> >>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures
>>>> example,
>>>> >>>>>> for a 3D image and here are my comments:
>>>> >>>>>>
>>>> >>>>>>
>>>> >>>>>> 1. I had to interrupt the test after several hours and it kept on
>>>> >>>>>> calculating. And this is for only a 3D image (224x224x300). I
>>>> need to
>>>> >>>>>> process around 35 images.
>>>> >>>>>> 2. The result (texture features: entropy, energy, correlation,
>>>> LH,
>>>> >>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0,
>>>> 7.83083e+247].
>>>> >>>>>> These values were not what I expected based on my experience on
>>>> another
>>>> >>>>>> application I developed, but in that case, I calculated the
>>>> texture
>>>> >>>>>> features for an image as a whole, not voxel by voxel.
>>>> >>>>>>
>>>> >>>>>> Regards.
>>>> >>>>>>
>>>> >>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
>>>> >>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6>>:
>>>> >>>>>>
>>>> >>>>>>> i yes i have tried radius = 3;
>>>> >>>>>>> still no luck
>>>> >>>>>>>
>>>> >>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca [via
>>>> ITK
>>>> >>>>>>> Insight
>>>> >>>>>>> Users] <[hidden email]
>>>> >>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7>> wrote:
>>>> >>>>>>>
>>>> >>>>>>> > Have you tried with a radius of 3 instead of 1?
>>>> >>>>>>> >
>>>> >>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>>>> >>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
>>>> >>>>>>> >
>>>> >>>>>>> >> hey Matt,
>>>> >>>>>>> >> thanks for ur advice.. it did build successfully... but im
>>>> not
>>>> >>>>>>> able to run
>>>> >>>>>>> >> the code for 2D png image... i tried to change the dimension
>>>> to 2
>>>> >>>>>>> and
>>>> >>>>>>> >> build
>>>> >>>>>>> >> it which it did.. but when i run the code using the command
>>>> >>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png
>>>> putput.png
>>>> >>>>>>> 1... i see
>>>> >>>>>>> >> this output
>>>> >>>>>>> >>
>>>> >>>>>>> >> offset: [-1, -1] [0, -1]
>>>> >>>>>>> >> offset: [0, -1] [1, -1]
>>>> >>>>>>> >> offset: [-1, 0] [0, 0]
>>>> >>>>>>> >> offset: [0, 0] [1, 0]
>>>> >>>>>>> >> offset: [-1, 1] [0, 1]
>>>> >>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the program...
>>>> if pls
>>>> >>>>>>> tel me
>>>> >>>>>>> >> how can i modify this code to work wid 2d image... forgive
>>>> me if
>>>> >>>>>>> my ques
>>>> >>>>>>> >> are really silly im trying to learn something..
>>>> >>>>>>> >> regards
>>>> >>>>>>> >> Vis
>>>> >>>>>>> >>
>>>> >>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via ITK
>>>> >>>>>>> Insight Users]
>>>> >>>>>>> >> <
>>>> >>>>>>> >> [hidden email] <
>>>> >>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
>>>> >>>>>>> >> wrote:
>>>> >>>>>>> >>
>>>> >>>>>>> >> > Hi,
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > The function:
>>>> >>>>>>> >> >
>>>> >>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char *argv[])
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > must be renamed to
>>>> >>>>>>> >> >
>>>> >>>>>>> >> >   main(int argc, char* argv[])
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > HTH,
>>>> >>>>>>> >> > Matt
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>>>> >>>>>>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>>
>>>> wrote:
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > > hi all,
>>>> >>>>>>> >> > > im trying to build the
>>>> itkTextureFeatureImageFilterTest.cxx
>>>> >>>>>>> code but
>>>> >>>>>>> >> im
>>>> >>>>>>> >> > not
>>>> >>>>>>> >> > > able to it is showing the following error
>>>> >>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>>>> >>>>>>> Configuration:
>>>> >>>>>>> >> Debug
>>>> >>>>>>> >> > x64
>>>> >>>>>>> >> > > ------
>>>> >>>>>>> >> > > 1>  Checking Build System
>>>> >>>>>>> >> > > 1>  CMake does not need to re-run because
>>>> >>>>>>> >> > >
>>>> >>>>>>>
>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>>>> >>>>>>> >> > is
>>>> >>>>>>> >> > > up-to-date.
>>>> >>>>>>> >> > > 2>------ Rebuild All started: Project:
>>>> >>>>>>> >> itkTextureFeatureImageFilterTest,
>>>> >>>>>>> >> > > Configuration: Debug x64 ------
>>>> >>>>>>> >> > > 2>  Building Custom Rule
>>>> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>> >>>>>>> >> > > 2>  CMake does not need to re-run because
>>>> >>>>>>> >> > >
>>>> >>>>>>>
>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>> >>>>>>> >> > is
>>>> >>>>>>> >> > > up-to-date.
>>>> >>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>>>> >>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>>>> >>>>>>> 'std::_Copy_impl':
>>>> >>>>>>> >> > Function
>>>> >>>>>>> >> > > call with parameters that may be unsafe - this call
>>>> relies on
>>>> >>>>>>> the
>>>> >>>>>>> >> caller
>>>> >>>>>>> >> > to
>>>> >>>>>>> >> > > check that the passed values are correct. To disable this
>>>> >>>>>>> warning, use
>>>> >>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how to
>>>> use
>>>> >>>>>>> Visual C++
>>>> >>>>>>> >> > > 'Checked Iterators'
>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>> Studio
>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>> >>>>>>> 'std::_Copy_impl'
>>>> >>>>>>> >> > > 2>
>>>> >>>>>>> >> > >
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>>>> >>>>>>> >> > see
>>>> >>>>>>> >> > > reference to function template instantiation '_OutIt
>>>> >>>>>>> std::copy<const
>>>> >>>>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)' being
>>>> >>>>>>> compiled
>>>> >>>>>>> >> > > 2>          with
>>>> >>>>>>> >> > > 2>          [
>>>> >>>>>>> >> > > 2>              _OutIt=unsigned char *,
>>>> >>>>>>> >> > > 2>              _InIt=const unsigned char *
>>>> >>>>>>> >> > > 2>          ]
>>>> >>>>>>> >> > > 2>
>>>> >>>>>>> >> > >
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>>>> >>>>>>> >> > > while compiling class template member function 'void
>>>> >>>>>>> >> > > itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>>>> >>>>>>> >> > > 2>          with
>>>> >>>>>>> >> > > 2>          [
>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>> >>>>>>> >> > > 2>          ]
>>>> >>>>>>> >> > > 2>
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> >
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > > : see reference to class template instantiation
>>>> >>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>>>> >>>>>>> >> > > 2>          with
>>>> >>>>>>> >> > > 2>          [
>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>> >>>>>>> >> > > 2>          ]
>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>> Studio
>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>> >>>>>>> 'std::_Copy_impl'
>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>> Studio
>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>> >>>>>>> 'std::_Copy_impl'
>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>> Studio
>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>> >>>>>>> 'std::_Copy_impl'
>>>> >>>>>>> >> > > 2>     Creating library
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> >
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > > and object
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> >
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved
>>>> >>>>>>> external symbol
>>>> >>>>>>> >> > main
>>>> >>>>>>> >> > > referenced in function __tmainCRTStartup
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> >
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>>>> >>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>>>> >>>>>>> Configuration: Debug
>>>> >>>>>>> >> > x64
>>>> >>>>>>> >> > > ------
>>>> >>>>>>> >> > > 3>  Building Custom Rule
>>>> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>> >>>>>>> >> > > 3>  CMake does not need to re-run because
>>>> >>>>>>> >> > >
>>>> >>>>>>>
>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>> >>>>>>> >> > is
>>>> >>>>>>> >> > > up-to-date.
>>>> >>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0 skipped
>>>> >>>>>>> ==========
>>>> >>>>>>> >> > > im using the follwing CMakeList.txt
>>>> >>>>>>> >> > > # This is the root ITK CMakeLists file.
>>>> >>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>>>> >>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>>>> >>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>>>> >>>>>>> >> > > endif()
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > # This project is designed to be built outside the
>>>> Insight
>>>> >>>>>>> source
>>>> >>>>>>> >> tree.
>>>> >>>>>>> >> > > project(HelloWorld)
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > # Find ITK.
>>>> >>>>>>> >> > > find_package(ITK REQUIRED)
>>>> >>>>>>> >> > > include(${ITK_USE_FILE})
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>>>> >>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > target_link_libraries(itkTextureFeatureImageFilterTest
>>>> >>>>>>> >> ${ITK_LIBRARIES})
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > please tel me wat the error is??
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > --
>>>> >>>>>>> >> > > View this message in context:
>>>> >>>>>>> >> >
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>>>> >>>>>>> >> > > Sent from the ITK Insight Users mailing list archive at
>>>> >>>>>>> Nabble.com.
>>>> >>>>>>> >> > > _____________________________________
>>>> >>>>>>> >> > > Powered by www.kitware.com
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > Visit other Kitware open-source projects at
>>>> >>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > Kitware offers ITK Training Courses, for more information
>>>> >>>>>>> visit:
>>>> >>>>>>> >> > > http://www.kitware.com/products/protraining.php
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > Please keep messages on-topic and check the ITK FAQ at:
>>>> >>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > Follow this link to subscribe/unsubscribe:
>>>> >>>>>>> >> > > http://public.kitware.com/mailman/listinfo/insight-users
>>>> >>>>>>> >> > _____________________________________
>>>> >>>>>>> >> > Powered by www.kitware.com
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > Visit other Kitware open-source projects at
>>>> >>>>>>> >> > http://www.kitware.com/opensource/opensource.html
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > Kitware offers ITK Training Courses, for more information
>>>> visit:
>>>> >>>>>>> >> > http://www.kitware.com/products/protraining.php
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > Please keep messages on-topic and check the ITK FAQ at:
>>>> >>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > Follow this link to subscribe/unsubscribe:
>>>> >>>>>>> >> > http://public.kitware.com/mailman/listinfo/insight-users
>>>> >>>>>>> >> >
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > ------------------------------
>>>> >>>>>>> >> > If you reply to this email, your message will be added to
>>>> the
>>>> >>>>>>> discussion
>>>> >>>>>>> >> > below:
>>>> >>>>>>> >> >
>>>> >>>>>>> >> >
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587952.html
>>>> >>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by pixel,
>>>> click
>>>> >>>>>>> here
>>>> >>>>>>> >> > < > .
>>>> >>>>>>> >> > NAML
>>>> >>>>>>> >> > <
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>> >>>>>>> >> >
>>>> >>>>>>> >> >
>>>> >>>>>>> >>
>>>> >>>>>>> >>
>>>> >>>>>>> >>
>>>> >>>>>>> >>
>>>> >>>>>>> >> --
>>>> >>>>>>> >> View this message in context:
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>>>> >>>>>>> >> Sent from the ITK Insight Users mailing list archive at
>>>> >>>>>>> Nabble.com.
>>>> >>>>>>> >> _____________________________________
>>>> >>>>>>> >> Powered by www.kitware.com
>>>> >>>>>>> >>
>>>> >>>>>>> >> Visit other Kitware open-source projects at
>>>> >>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>> >>>>>>> >>
>>>> >>>>>>> >> Kitware offers ITK Training Courses, for more information
>>>> visit:
>>>> >>>>>>> >> http://www.kitware.com/products/protraining.php
>>>> >>>>>>> >>
>>>> >>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>> >>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>> >>>>>>> >>
>>>> >>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>> >>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>> >>>>>>> >>
>>>> >>>>>>> >
>>>> >>>>>>> >
>>>> >>>>>>> > _____________________________________
>>>> >>>>>>> > Powered by www.kitware.com
>>>> >>>>>>> >
>>>> >>>>>>> > Visit other Kitware open-source projects at
>>>> >>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>> >>>>>>> >
>>>> >>>>>>> > Kitware offers ITK Training Courses, for more information
>>>> visit:
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From franciscolopezdelafranca at gmail.com  Tue Feb 16 01:52:21 2016
From: franciscolopezdelafranca at gmail.com (=?UTF-8?Q?Francisco_L=C3=B3pez-Franca?=)
Date: Mon, 15 Feb 2016 23:52:21 -0700 (MST)
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <CAPf2UMSs-q8_s=5k6KcX48zjEsyKWQ-RzJ3O0ik1ihFcHcp+vg@mail.gmail.com>
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Message-ID: <CAJqi3E+ghXk2AaMYF_eb2_6ZsxJPNYWtFqHaQkKxjJXWuGTEOw@mail.gmail.com>

Excuse me Dzenanz, but that's not completely true, because I've tested
Brad's class and it works right.
The problem seems to be that when you add a new neighbor iterator to
include just the mask points in the "histogram" then it is when the
application crashes, and I donot understand why.
If you just comment the 'maskIter' references you'll see that the
application works.
I've created a single threaded class based on the Brad's code and it works
but it is twice slower, that is why I'm interesting on Brad's class
(multi-threaded) to make it work.


2016-02-15 17:15 GMT+01:00 dzenanz [via ITK Insight Users] <
ml-node+s2283740n7588495h80 at n2.nabble.com>:

> Hi Francisco,
>
> both your code and Brad's code run in debug mode (I did not wait for the
> end), and both crash in release mode immediately on startup. Here is a
> sample output:
>
> Progress input: 0000000002868970
> input: 0000000002868970
> _maskImage: 0000000002868970
> _maskImage: 0000000002868970
> input: 0000000002868970
> _maskImage: 0000000002868970
> iter.first: iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
> [-5, -5, -5] iter.second: [-4, -5, -5]
> niter index: [5, 5, 210]
> niter index: [5, 5, 140]
> maskIter index: [5, 5, 140]
> maskIter index: [5, 5, 210]
> Before p3
> input: 0000000002868970
> _maskImage: 0000000002868970
> After p3:  | 0niter index: [5, 5, 70]
> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
> niter index: [5, 5, 5]
> ?
> maskIter index: [5, 5, 70]
> After p4: ?
> Before p3
> Before p3
> After p3: ?iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
> niter index: [5, 5, 140]
> maskIter index: [5, 5, 140]
> maskIter index: [5, 5, 5]
> Before p3
> After p3: ?
> After p3: ?
> After p4: ?
> After p4: ?
> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
> niter index: [5, 5, 5]
> maskIter index: [5, 5, 5]
>
> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
> Before p3
> Before p3
> After p4: ?
> After p3: ?
> After p4: ?
>
> Regards,
> D?enan
>
> On Mon, Feb 15, 2016 at 1:36 AM, Francisco Lopez de la Franca <[hidden
> email] <http:///user/SendEmail.jtp?type=node&node=7588495&i=0>> wrote:
>
>> Hi,
>> Here they are.
>> KR.
>>
>> 2016-02-12 16:22 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>> email] <http:///user/SendEmail.jtp?type=node&node=7588495&i=1>>:
>>
>>> Hi Francisco,
>>>
>>> do you mind attaching the modified files or pointing to your fork of it
>>> on GitHub?
>>>
>>> Regards
>>>
>>> On Thu, Feb 11, 2016 at 12:08 PM, Francisco L?pez-Franca <[hidden email]
>>> <http:///user/SendEmail.jtp?type=node&node=7588490&i=0>> wrote:
>>>
>>>> Hi Dzenan,
>>>> The original class is here:
>>>>
>>>>
>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h
>>>>
>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx
>>>>
>>>> I've just added setInput and setMaskImage methods and modify some lines
>>>> in
>>>> the original class as I indicated in the yesterday mail within this
>>>> thread.
>>>> I'm running it on Windows, and there is no error at all, just a crash. I
>>>> may have to include exceptions management.
>>>> The crash occurs just when calling p3 = maskIter.GetPixel(iter->first)
>>>>
>>>> If you know why it could be or if you need more clarification, please
>>>> let
>>>> me know.
>>>> Many thanks
>>>>
>>>> 2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
>>>> [hidden email] <http:///user/SendEmail.jtp?type=node&node=7588490&i=1>
>>>> >:
>>>>
>>>> > Hi Francisco,
>>>> >
>>>> > "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the error
>>>> message
>>>> > that goes along with the crash? In which file and line does it crash?
>>>> >
>>>> > Regards
>>>> >
>>>> > On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca <[hidden
>>>> > email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0>>
>>>> wrote:
>>>> >
>>>> >> Hi,
>>>> >> Please, someone that could help me. I'm working in a pre-doctorate
>>>> >> project and I need this class to work.
>>>> >> I've read the chapter 13 in the ITK Software Guide on how to write a
>>>> >> filter and now I see the fact of the threads due to inheritance of
>>>> >> ImageToImageFilter.
>>>> >> But, I keep on without understanding why the code crashes just when
>>>> >> calling
>>>> >> *const PixelType p3 = maskIter.GetPixel(iter->first);*
>>>> >> It is just a call to read data, not to write.
>>>> >>
>>>> >> I guess somebody that had worked with creation of filters might see
>>>> >> "easily" the problem, but not me.
>>>> >>
>>>> >> So, again, please, I need someone to help me with this because I'm
>>>> stuck
>>>> >> on this point.
>>>> >>
>>>> >> Thank you very much.
>>>> >> KR.
>>>> >> /Francisco
>>>> >>
>>>> >> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca <[hidden
>>>> email]
>>>> >> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1>>:
>>>> >>
>>>> >>> Hi Bradley again.
>>>> >>> I'm modifying your class in order to be able to set a mask image (a
>>>> >>> binary image) to be used as a limit in the histogram calculations,
>>>> I mean,
>>>> >>> I set an input, a mask and the class should take into account to
>>>> calculate
>>>> >>> the histograms only the voxels that belong to the input and to the
>>>> mask
>>>> >>> image and having the value 1 in the mask image.
>>>> >>> The changes seem to be easy but I don?t know why my tests are not
>>>> >>> working. It seems that 2 threads are working at the same time and
>>>> when I
>>>> >>> added my mask iterator, the code crashes.
>>>> >>>
>>>> >>> *** Consider that the input and mask images are the same origin,
>>>> spacing
>>>> >>> and size.
>>>> >>>
>>>> >>> I attach the main changes I've done, and I would thank you a lot if
>>>> you
>>>> >>> don't mind having a look and help me to find what I'm doing wrong:
>>>> >>>
>>>> >>> template< class TImageType, class TOutputImage >
>>>> >>> void
>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>> >::*SetInput*(InputImageType
>>>> >>> *image)
>>>> >>> {
>>>> >>>   // Process object is not const-correct so the const_cast is
>>>> required
>>>> >>> here
>>>> >>>   this->ProcessObject::SetNthInput( 0,
>>>> >>>                                     const_cast< InputImageType * >(
>>>> >>> image ) );
>>>> >>> }
>>>> >>>
>>>> >>> template< class TImageType, class TOutputImage >
>>>> >>> void
>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>> >::*SetMaskImage*(InputImageType
>>>> >>> *image)
>>>> >>> {
>>>> >>>   // Process object is not const-correct so the const_cast is
>>>> required
>>>> >>> here
>>>> >>>   this->ProcessObject::SetNthInput( 1, const_cast< InputImageType *
>>>> >(
>>>> >>> image ) );
>>>> >>>
>>>> >>>   _maskImage = image; // _maskImage is a private member
>>>> >>> }
>>>> >>>
>>>> >>> In the *ThreadedGenerateData*(const RegionType&
>>>> outputRegionForThread,
>>>> >>> ThreadIdType threadId ) method:
>>>> >>> {
>>>> >>>
>>>> >>> ...
>>>> >>>
>>>> >>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
>>>> >>>     {
>>>> >>>     NeighborhoodIteratorType nIter( radius, input, *fit );
>>>> >>>     *NeighborhoodIteratorType maskIter( radius, _maskImage, *fit);*
>>>> >>>     OutputIterator           outIter(output, *fit);
>>>> >>>
>>>> >>>     OutputPixelType out;
>>>> >>>     NumericTraits<OutputPixelType>::SetLength( out,
>>>> >>> this->GetNumberOfOutputComponents() );
>>>> >>>
>>>> >>>     while( !nIter.IsAtEnd() )
>>>> >>>       {
>>>> >>>       this->FillHistogram( *histogram, nIter, *maskIter *);
>>>> >>>
>>>> >>>       ...
>>>> >>>
>>>> >>>       ++nIter;
>>>> >>>       ++outIter;
>>>> >>>      * ++maskIter;*
>>>> >>>     ...
>>>> >>>
>>>> >>> In the *FillHistogram *method:
>>>> >>> {
>>>> >>>
>>>> >>> ...
>>>> >>>
>>>> >>>   while( iter != m_CooccurenceOffsetVector.end() )
>>>> >>>     {
>>>> >>>
>>>> >>>     const PixelType p1 = niter.GetPixel(iter->first);
>>>> >>>     const PixelType p2 = niter.GetPixel(iter->second);
>>>> >>>     std::cout << "Before p3" << std::endl;
>>>> >>>
>>>> >>> *    const PixelType p3 = maskIter.GetPixel(iter->first);
>>>> *std::cout
>>>> >>> << "After p3: " << p3 << std::endl;
>>>> >>>
>>>> >>> *    const PixelType p4 = maskIter.GetPixel(iter->second);   *
>>>> >>> std::cout << "After p4: " << p4 << std::endl;
>>>> >>>
>>>> >>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <= m_Max
>>>> >>>             *&& p3 == _insidePixelValue && p4 == _insidePixelValue*
>>>> )
>>>> >>> // The point
>>>> >>>       {
>>>> >>>
>>>> >>> ...
>>>> >>>
>>>> >>>
>>>> >>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>>>> >>>
>>>> >>> Thank you so much.
>>>> >>> My kind regards.
>>>> >>> /Paco
>>>> >>>
>>>> >>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca <[hidden
>>>> email]
>>>> >>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2>>:
>>>> >>>
>>>> >>>> Hello Bradley again.
>>>> >>>> Sorry but I'd like to re-open this issue because I need your class
>>>> but
>>>> >>>> with some modification.
>>>> >>>> I pass to tell you.
>>>> >>>>
>>>> >>>> As my tests with your external class were not good taking into
>>>> account
>>>> >>>> the performance, I wonder if you could create a variant of it, but
>>>> in which
>>>> >>>> I can set a mask image and your class just return the VectorImage
>>>> with all
>>>> >>>> the features for that region (the masked locations) as
>>>> >>>> itk::ScalarImageToTextureFeaturesFilter class does.
>>>> >>>> I mean, to get the vector image with all the features but just
>>>> >>>> calculate it for the regions belonging to the mask image.
>>>> Positions not
>>>> >>>> belonging to the mask region could have a pixel value of 0, for
>>>> instance.
>>>> >>>>
>>>> >>>> I don?t know if it is very costly for you,  but I would thank you
>>>> so
>>>> >>>> much. Otherwise, I could try it but I'd need your suggestions on
>>>> how to do
>>>> >>>> it.
>>>> >>>>
>>>> >>>> Thanks a lot.
>>>> >>>> Best regards.
>>>> >>>>
>>>> >>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca <[hidden
>>>> email]
>>>> >>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3>>:
>>>> >>>>
>>>> >>>>> Hello Bradley again,
>>>> >>>>> I would like to ask you for a couple of favours. In the one hand,
>>>> >>>>> could you please send me your 3D image so that I can test on it?
>>>> And on the
>>>> >>>>> other hand, could you test the example I have referenced in the
>>>> previous
>>>> >>>>> email with your image, not changing anything in the code, such as
>>>> it is,
>>>> >>>>> and tell me if the execution time is normal?
>>>> >>>>> Thank you very much.
>>>> >>>>> Regards,
>>>> >>>>> /Francisco
>>>> >>>>>
>>>> >>>>> PS: All my application trace is printed via standard 'cout'
>>>> command,
>>>> >>>>> not due to a debugging compilation mode.
>>>> >>>>>
>>>> >>>>>
>>>> >>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp <[hidden
>>>> >>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=4>>
>>>> >>>>> escribi?:
>>>> >>>>>
>>>> >>>>>> Hello,
>>>> >>>>>>
>>>> >>>>>> Did you compile TextureFeatureImage in Release mode?
>>>> >>>>>>
>>>> >>>>>> 1) The filter does not scale well with a large radius. And given
>>>> by
>>>> >>>>>> your initial report of print a very large number of offset you,
>>>> it sounds
>>>> >>>>>> like you are using a large radius with many offsets. I created a
>>>> >>>>>> 224x224x300 unsigned short image and ran with the default offset
>>>> and a
>>>> >>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this filter
>>>> is was ~10x
>>>> >>>>>> faster than this example... things change though...
>>>> >>>>>>
>>>> >>>>>>
>>>> >>>>>> 2) I sounds like the boundaries/limits of the histogram may be
>>>> >>>>>> clipping you values. I would inspect the co-occurance matrix.
>>>> >>>>>>
>>>> >>>>>>
>>>> >>>>>> HTH,
>>>> >>>>>> Brad
>>>> >>>>>>
>>>> >>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca
>>>> <[hidden
>>>> >>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=5>>
>>>> >>>>>> wrote:
>>>> >>>>>>
>>>> >>>>>> I've tested with itkTextureFeatureImageFilter, with
>>>> >>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>>>> >>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures
>>>> example,
>>>> >>>>>> for a 3D image and here are my comments:
>>>> >>>>>>
>>>> >>>>>>
>>>> >>>>>> 1. I had to interrupt the test after several hours and it kept on
>>>> >>>>>> calculating. And this is for only a 3D image (224x224x300). I
>>>> need to
>>>> >>>>>> process around 35 images.
>>>> >>>>>> 2. The result (texture features: entropy, energy, correlation,
>>>> LH,
>>>> >>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0,
>>>> 7.83083e+247].
>>>> >>>>>> These values were not what I expected based on my experience on
>>>> another
>>>> >>>>>> application I developed, but in that case, I calculated the
>>>> texture
>>>> >>>>>> features for an image as a whole, not voxel by voxel.
>>>> >>>>>>
>>>> >>>>>> Regards.
>>>> >>>>>>
>>>> >>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
>>>> >>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6>>:
>>>> >>>>>>
>>>> >>>>>>> i yes i have tried radius = 3;
>>>> >>>>>>> still no luck
>>>> >>>>>>>
>>>> >>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca [via
>>>> ITK
>>>> >>>>>>> Insight
>>>> >>>>>>> Users] <[hidden email]
>>>> >>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7>> wrote:
>>>> >>>>>>>
>>>> >>>>>>> > Have you tried with a radius of 3 instead of 1?
>>>> >>>>>>> >
>>>> >>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>>>> >>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
>>>> >>>>>>> >
>>>> >>>>>>> >> hey Matt,
>>>> >>>>>>> >> thanks for ur advice.. it did build successfully... but im
>>>> not
>>>> >>>>>>> able to run
>>>> >>>>>>> >> the code for 2D png image... i tried to change the dimension
>>>> to 2
>>>> >>>>>>> and
>>>> >>>>>>> >> build
>>>> >>>>>>> >> it which it did.. but when i run the code using the command
>>>> >>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png
>>>> putput.png
>>>> >>>>>>> 1... i see
>>>> >>>>>>> >> this output
>>>> >>>>>>> >>
>>>> >>>>>>> >> offset: [-1, -1] [0, -1]
>>>> >>>>>>> >> offset: [0, -1] [1, -1]
>>>> >>>>>>> >> offset: [-1, 0] [0, 0]
>>>> >>>>>>> >> offset: [0, 0] [1, 0]
>>>> >>>>>>> >> offset: [-1, 1] [0, 1]
>>>> >>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the program...
>>>> if pls
>>>> >>>>>>> tel me
>>>> >>>>>>> >> how can i modify this code to work wid 2d image... forgive
>>>> me if
>>>> >>>>>>> my ques
>>>> >>>>>>> >> are really silly im trying to learn something..
>>>> >>>>>>> >> regards
>>>> >>>>>>> >> Vis
>>>> >>>>>>> >>
>>>> >>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via ITK
>>>> >>>>>>> Insight Users]
>>>> >>>>>>> >> <
>>>> >>>>>>> >> [hidden email] <
>>>> >>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
>>>> >>>>>>> >> wrote:
>>>> >>>>>>> >>
>>>> >>>>>>> >> > Hi,
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > The function:
>>>> >>>>>>> >> >
>>>> >>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char *argv[])
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > must be renamed to
>>>> >>>>>>> >> >
>>>> >>>>>>> >> >   main(int argc, char* argv[])
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > HTH,
>>>> >>>>>>> >> > Matt
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>>>> >>>>>>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>>
>>>> wrote:
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > > hi all,
>>>> >>>>>>> >> > > im trying to build the
>>>> itkTextureFeatureImageFilterTest.cxx
>>>> >>>>>>> code but
>>>> >>>>>>> >> im
>>>> >>>>>>> >> > not
>>>> >>>>>>> >> > > able to it is showing the following error
>>>> >>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>>>> >>>>>>> Configuration:
>>>> >>>>>>> >> Debug
>>>> >>>>>>> >> > x64
>>>> >>>>>>> >> > > ------
>>>> >>>>>>> >> > > 1>  Checking Build System
>>>> >>>>>>> >> > > 1>  CMake does not need to re-run because
>>>> >>>>>>> >> > >
>>>> >>>>>>>
>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>>>> >>>>>>> >> > is
>>>> >>>>>>> >> > > up-to-date.
>>>> >>>>>>> >> > > 2>------ Rebuild All started: Project:
>>>> >>>>>>> >> itkTextureFeatureImageFilterTest,
>>>> >>>>>>> >> > > Configuration: Debug x64 ------
>>>> >>>>>>> >> > > 2>  Building Custom Rule
>>>> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>> >>>>>>> >> > > 2>  CMake does not need to re-run because
>>>> >>>>>>> >> > >
>>>> >>>>>>>
>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>> >>>>>>> >> > is
>>>> >>>>>>> >> > > up-to-date.
>>>> >>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>>>> >>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>>>> >>>>>>> 'std::_Copy_impl':
>>>> >>>>>>> >> > Function
>>>> >>>>>>> >> > > call with parameters that may be unsafe - this call
>>>> relies on
>>>> >>>>>>> the
>>>> >>>>>>> >> caller
>>>> >>>>>>> >> > to
>>>> >>>>>>> >> > > check that the passed values are correct. To disable this
>>>> >>>>>>> warning, use
>>>> >>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how to
>>>> use
>>>> >>>>>>> Visual C++
>>>> >>>>>>> >> > > 'Checked Iterators'
>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>> Studio
>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>> >>>>>>> 'std::_Copy_impl'
>>>> >>>>>>> >> > > 2>
>>>> >>>>>>> >> > >
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>>>> >>>>>>> >> > see
>>>> >>>>>>> >> > > reference to function template instantiation '_OutIt
>>>> >>>>>>> std::copy<const
>>>> >>>>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)' being
>>>> >>>>>>> compiled
>>>> >>>>>>> >> > > 2>          with
>>>> >>>>>>> >> > > 2>          [
>>>> >>>>>>> >> > > 2>              _OutIt=unsigned char *,
>>>> >>>>>>> >> > > 2>              _InIt=const unsigned char *
>>>> >>>>>>> >> > > 2>          ]
>>>> >>>>>>> >> > > 2>
>>>> >>>>>>> >> > >
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>>>> >>>>>>> >> > > while compiling class template member function 'void
>>>> >>>>>>> >> > > itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>>>> >>>>>>> >> > > 2>          with
>>>> >>>>>>> >> > > 2>          [
>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>> >>>>>>> >> > > 2>          ]
>>>> >>>>>>> >> > > 2>
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> >
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > > : see reference to class template instantiation
>>>> >>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>>>> >>>>>>> >> > > 2>          with
>>>> >>>>>>> >> > > 2>          [
>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>> >>>>>>> >> > > 2>          ]
>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>> Studio
>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>> >>>>>>> 'std::_Copy_impl'
>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>> Studio
>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>> >>>>>>> 'std::_Copy_impl'
>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>> Studio
>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>> >>>>>>> 'std::_Copy_impl'
>>>> >>>>>>> >> > > 2>     Creating library
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> >
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > > and object
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> >
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved
>>>> >>>>>>> external symbol
>>>> >>>>>>> >> > main
>>>> >>>>>>> >> > > referenced in function __tmainCRTStartup
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> >
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>>>> >>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>>>> >>>>>>> Configuration: Debug
>>>> >>>>>>> >> > x64
>>>> >>>>>>> >> > > ------
>>>> >>>>>>> >> > > 3>  Building Custom Rule
>>>> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>> >>>>>>> >> > > 3>  CMake does not need to re-run because
>>>> >>>>>>> >> > >
>>>> >>>>>>>
>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>> >>>>>>> >> > is
>>>> >>>>>>> >> > > up-to-date.
>>>> >>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0 skipped
>>>> >>>>>>> ==========
>>>> >>>>>>> >> > > im using the follwing CMakeList.txt
>>>> >>>>>>> >> > > # This is the root ITK CMakeLists file.
>>>> >>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>>>> >>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>>>> >>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>>>> >>>>>>> >> > > endif()
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > # This project is designed to be built outside the
>>>> Insight
>>>> >>>>>>> source
>>>> >>>>>>> >> tree.
>>>> >>>>>>> >> > > project(HelloWorld)
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > # Find ITK.
>>>> >>>>>>> >> > > find_package(ITK REQUIRED)
>>>> >>>>>>> >> > > include(${ITK_USE_FILE})
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>>>> >>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > target_link_libraries(itkTextureFeatureImageFilterTest
>>>> >>>>>>> >> ${ITK_LIBRARIES})
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > please tel me wat the error is??
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > --
>>>> >>>>>>> >> > > View this message in context:
>>>> >>>>>>> >> >
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>>>> >>>>>>> >> > > Sent from the ITK Insight Users mailing list archive at
>>>> >>>>>>> Nabble.com.
>>>> >>>>>>> >> > > _____________________________________
>>>> >>>>>>> >> > > Powered by www.kitware.com
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > Visit other Kitware open-source projects at
>>>> >>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > Kitware offers ITK Training Courses, for more information
>>>> >>>>>>> visit:
>>>> >>>>>>> >> > > http://www.kitware.com/products/protraining.php
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > Please keep messages on-topic and check the ITK FAQ at:
>>>> >>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>>>> >>>>>>> >> > >
>>>> >>>>>>> >> > > Follow this link to subscribe/unsubscribe:
>>>> >>>>>>> >> > > http://public.kitware.com/mailman/listinfo/insight-users
>>>> >>>>>>> >> > _____________________________________
>>>> >>>>>>> >> > Powered by www.kitware.com
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > Visit other Kitware open-source projects at
>>>> >>>>>>> >> > http://www.kitware.com/opensource/opensource.html
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > Kitware offers ITK Training Courses, for more information
>>>> visit:
>>>> >>>>>>> >> > http://www.kitware.com/products/protraining.php
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > Please keep messages on-topic and check the ITK FAQ at:
>>>> >>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > Follow this link to subscribe/unsubscribe:
>>>> >>>>>>> >> > http://public.kitware.com/mailman/listinfo/insight-users
>>>> >>>>>>> >> >
>>>> >>>>>>> >> >
>>>> >>>>>>> >> > ------------------------------
>>>> >>>>>>> >> > If you reply to this email, your message will be added to
>>>> the
>>>> >>>>>>> discussion
>>>> >>>>>>> >> > below:
>>>> >>>>>>> >> >
>>>> >>>>>>> >> >
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587952.html
>>>> >>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by pixel,
>>>> click
>>>> >>>>>>> here
>>>> >>>>>>> >> > < > .
>>>> >>>>>>> >> > NAML
>>>> >>>>>>> >> > <
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>> >>>>>>> >> >
>>>> >>>>>>> >> >
>>>> >>>>>>> >>
>>>> >>>>>>> >>
>>>> >>>>>>> >>
>>>> >>>>>>> >>
>>>> >>>>>>> >> --
>>>> >>>>>>> >> View this message in context:
>>>> >>>>>>> >>
>>>> >>>>>>>
>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>>>> >>>>>>> >> Sent from the ITK Insight Users mailing list archive at
>>>> >>>>>>> Nabble.com.
>>>> >>>>>>> >> _____________________________________
>>>> >>>>>>> >> Powered by www.kitware.com
>>>> >>>>>>> >>
>>>> >>>>>>> >> Visit other Kitware open-source projects at
>>>> >>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>> >>>>>>> >>
>>>> >>>>>>> >> Kitware offers ITK Training Courses, for more information
>>>> visit:
>>>> >>>>>>> >> http://www.kitware.com/products/protraining.php
>>>> >>>>>>> >>
>>>> >>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>> >>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>> >>>>>>> >>
>>>> >>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>> >>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>> >>>>>>> >>
>>>> >>>>>>> >
>>>> >>>>>>> >
>>>> >>>>>>> > _____________________________________
>>>> >>>>>>> > Powered by www.kitware.com
>>>> >>>>>>> >
>>>> >>>>>>> > Visit other Kitware open-source projects at
>>>> >>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>> >>>>>>> >
>>>> >>>>>>> > Kitware offers ITK Training Courses, for more information
>>>> visit:
>>>> >>>>>>> > http://www.kitware.com/products/protraining.php
>>>> >>>>>>> >
>>>> >>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>> >>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>> >>>>>>> >
>>>> >>>>>>> > Follow this link to subscribe/unsubscribe:
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>>>> >>>>>>> >
>>>> >>>>>>> >
>>>> >>>>>>> > ------------------------------
>>>> >>>>>>> > If you reply to this email, your message will be added to the
>>>> >>>>>>> discussion
>>>> >>>>>>> > below:
>>>> >>>>>>> >
>>>> >>>>>>> >
>>>> >>>>>>>
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>>>> >>>>>>> > To unsubscribe from [ITK-users] Texture pixel by pixel, click
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>>>> >>>>>>> >
>>>> >>>>>>> >
>>>> >>>>>>>
>>>> >>>>>>>
>>>> >>>>>>>
>>>> >>>>>>>
>>>> >>>>>>> --
>>>> >>>>>>> View this message in context:
>>>> >>>>>>>
>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
>>>> >>>>>>> Sent from the ITK Insight Users mailing list archive at
>>>> Nabble.com.
>>>> >>>>>>> _____________________________________
>>>> >>>>>>> Powered by www.kitware.com
>>>> >>>>>>>
>>>> >>>>>>> Visit other Kitware open-source projects at
>>>> >>>>>>> http://www.kitware.com/opensource/opensource.html
>>>> >>>>>>>
>>>> >>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>> >>>>>>> http://www.kitware.com/products/protraining.php
>>>> >>>>>>>
>>>> >>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>> >>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>> >>>>>>>
>>>> >>>>>>> Follow this link to subscribe/unsubscribe:
>>>> >>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>> >>>>>>>
>>>> >>>>>>
>>>> >>>>>> _____________________________________
>>>> >>>>>> Powered by www.kitware.com
>>>> >>>>>>
>>>> >>>>>> Visit other Kitware open-source projects at
>>>> >>>>>> http://www.kitware.com/opensource/opensource.html
>>>> >>>>>>
>>>> >>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>> >>>>>> http://www.kitware.com/products/protraining.php
>>>> >>>>>>
>>>> >>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>> >>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>> >>>>>>
>>>> >>>>>> Follow this link to subscribe/unsubscribe:
>>>> >>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>> >>>>>>
>>>> >>>>>>
>>>> >>>>>>
>>>> >>>>
>>>> >>>
>>>> >>
>>>> >> _____________________________________
>>>> >> Powered by www.kitware.com
>>>> >>
>>>> >> Visit other Kitware open-source projects at
>>>> >> http://www.kitware.com/opensource/opensource.html
>>>> >>
>>>> >> Kitware offers ITK Training Courses, for more information visit:
>>>> >> http://www.kitware.com/products/protraining.php
>>>> >>
>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>> >>
>>>> >> Follow this link to subscribe/unsubscribe:
>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>> >>
>>>> >>
>>>> >
>>>> > _____________________________________
>>>> > Powered by www.kitware.com
>>>> >
>>>> > Visit other Kitware open-source projects at
>>>> > http://www.kitware.com/opensource/opensource.html
>>>> >
>>>> > Kitware offers ITK Training Courses, for more information visit:
>>>> > http://www.kitware.com/products/protraining.php
>>>> >
>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>> >
>>>> > Follow this link to subscribe/unsubscribe:
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>>>> >
>>>> > ------------------------------
>>>> > If you reply to this email, your message will be added to the
>>>> discussion
>>>> > below:
>>>> >
>>>> >
>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588477.html
>>>> > To start a new topic under ITK Insight Users, email
>>>> > [hidden email]
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>>>> >
>>>> >
>>>>
>>>>
>>>>
>>>>
>>>> --
>>>> View this message in context:
>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588483.html
>>>> Sent from the ITK Insight Users mailing list archive at Nabble.com.
>>>> _____________________________________
>>>> Powered by www.kitware.com
>>>>
>>>> Visit other Kitware open-source projects at
>>>> http://www.kitware.com/opensource/opensource.html
>>>>
>>>> Kitware offers ITK Training Courses, for more information visit:
>>>> http://www.kitware.com/products/protraining.php
>>>>
>>>> Please keep messages on-topic and check the ITK FAQ at:
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>>>
>>>
>>> _____________________________________
>>> Powered by www.kitware.com
>>>
>>> Visit other Kitware open-source projects at
>>> http://www.kitware.com/opensource/opensource.html
>>>
>>> Kitware offers ITK Training Courses, for more information visit:
>>> http://www.kitware.com/products/protraining.php
>>>
>>> Please keep messages on-topic and check the ITK FAQ at:
>>> http://www.itk.org/Wiki/ITK_FAQ
>>>
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From dzenanz at gmail.com  Tue Feb 16 10:16:22 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Tue, 16 Feb 2016 10:16:22 -0500
Subject: [ITK-users] Issue with Seed points in Geodesic Active contour
In-Reply-To: <SG2PR04MB1246CAE80A09392277BF81B1FBAD0@SG2PR04MB1246.apcprd04.prod.outlook.com>
References: <SG2PR04MB12463AA9590DA6F3A5D5B788FBD60@SG2PR04MB1246.apcprd04.prod.outlook.com>
 <CAPf2UMS_E3ONdE4ajOR3MxoLGa8xi6ctuXncbFwiS0GpJK+akA@mail.gmail.com>
 <SG2PR04MB1246CAE80A09392277BF81B1FBAD0@SG2PR04MB1246.apcprd04.prod.outlook.com>
Message-ID: <CAPf2UMRt3N6q2LiidwwKO4Bm7WhRqheVsOv_qJZJj9MoxXQeXw@mail.gmail.com>

Hi Naik,

with directions being identity matrix and

Size: [240, 240, 155]
Spacing: [1, 1, 1]
Origin: [0, -239, 0]

the physical extent of your image is x: -0.5 to 239.5, y: -239.5 to 0.5 and
z: -0.5 to 154.5 (all millimeters). In other words, x and z are positive,
while y is negative.

HTH,
D?enan

On Tue, Feb 16, 2016 at 7:40 AM, Gunjan Naik <gunjan_naik at persistent.com>
wrote:

> Hi D?enan
>
>
>
> I am using T1 weighted brain tumor image from BRATS challenge.
>
>
>
> The meta information is as follows:
>
> Image (00000000193D62F0)
>
>   RTTI typeinfo:   class itk::Image<short,3>
>
>   Reference Count: 1
>
>   Modified Time: 1194
>
>   Debug: Off
>
>   Object Name:
>
>   Observers:
>
>     none
>
>   Source: (none)
>
>   Source output name: (none)
>
>   Release Data: Off
>
>   Data Released: False
>
>   Global Release Data: Off
>
>   PipelineMTime: 1034
>
>   UpdateMTime: 1193
>
>   RealTimeStamp: 0 seconds
>
>   LargestPossibleRegion:
>
>     Dimension: 3
>
>     Index: [0, 0, 0]
>
>     Size: [240, 240, 155]
>
>   BufferedRegion:
>
>     Dimension: 3
>
>     Index: [0, 0, 0]
>
>     Size: [240, 240, 155]
>
>   RequestedRegion:
>
>     Dimension: 3
>
>     Index: [0, 0, 0]
>
>     Size: [240, 240, 155]
>
>   Spacing: [1, 1, 1]
>
>   Origin: [0, -239, 0]
>
>   Direction:
>
> 1 0 0
>
> 0 1 0
>
> 0 0 1
>
>
>
>   IndexToPointMatrix:
>
> 1 0 0
>
> 0 1 0
>
> 0 0 1
>
>
>
>   PointToIndexMatrix:
>
> 1 0 0
>
> 0 1 0
>
> 0 0 1
>
>
>
>   Inverse Direction:
>
> 1 0 0
>
> 0 1 0
>
> 0 0 1
>
>
>
>   PixelContainer:
>
>     ImportImageContainer (000000001917BD50)
>
>       RTTI typeinfo:   class itk::ImportImageContainer<unsigned
> __int64,short>
>
>       Reference Count: 1
>
>       Modified Time: 1190
>
>       Debug: Off
>
>       Object Name:
>
>       Observers:
>
>         none
>
>       Pointer: 000000001B8E0040
>
>       Container manages memory: true
>
>       Size: 8928000
>
>       Capacity: 8928000
>
>
>
> I am passing co-ordinate to tumor region using Opencv.
>
>
>
> Thanks and Regards,
>
> Gunjan Naik
>
>
>
> *Gunjan G. Naik **|** Persistent LABS | PhD Student ? University of Pune*
>
> *gunjan_naik at persistent.com <gunjan_naik at persistent.com>* *|** Cell:
> +91-8087996979 <%2B91-8087996979> **| **Tel: +91-20-670 34878*
>
> *Persistent Systems Ltd. | **Partners in Innovation **| *
> *www.persistent.com* <http://www.persistent.com/>
>
>
>
> *From:* D?enan Zuki? [mailto:dzenanz at gmail.com]
> *Sent:* Tuesday, February 09, 2016 8:53 PM
> *To:* Gunjan Naik <gunjan_naik at persistent.com>
> *Cc:* insight-users at itk.org
> *Subject:* Re: [ITK-users] Issue with Seed points in Geodesic Active
> contour
>
>
>
> Hi Naik,
>
>
>
> you should provide your image's meta-information e.g. by:
>
> std::cout<<theImageInQuestion;
>
> as well as coordinates of the point which you try to pass. Then we will be
> able to tell you what is wrong.
>
>
>
> Regards,
>
> D?enan
>
>
>
> On Tue, Feb 9, 2016 at 1:12 AM, Gunjan Naik <gunjan_naik at persistent.com>
> wrote:
>
> Hi All,
>
>
>
> I am using geodesic active contour for brain tumor segmentation.
>
>
>
> In that, I have to give seed points for creating level set.
>
>
>
> I have calculated seed points using opencv, but when I input these points
> using ?TransformPhysicalPointToIndex? it throws error stating that index
> out of bounds.
>
>
>
> It works for only points [(0,0)].
>
>
>
> Please provide me directions.
>
>
>
> Thanks and Regards,
>
> Gunjan Naik
>
>
>
>
>
> *Gunjan G. Naik **|** Persistent LABS | PhD Student ? University of Pune*
>
> *gunjan_naik at persistent.com <gunjan_naik at persistent.com>* *|** Cell:
> +91-8087996979 <%2B91-8087996979> **| **Tel: +91-20-670 34878*
>
> *Persistent Systems Ltd. | **Partners in Innovation **| *
> *www.persistent.com* <http://www.persistent.com/>
>
>
>
> DISCLAIMER ========== This e-mail may contain privileged and confidential
> information which is the property of Persistent Systems Ltd. It is intended
> only for the use of the individual or entity to which it is addressed. If
> you are not the intended recipient, you are not authorized to read, retain,
> copy, print, distribute or use this message. If you have received this
> communication in error, please notify the sender and delete all copies of
> this message. Persistent Systems Ltd. does not accept any liability for
> virus infected mails.
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
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> only for the use of the individual or entity to which it is addressed. If
> you are not the intended recipient, you are not authorized to read, retain,
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From dzenanz at gmail.com  Tue Feb 16 10:27:46 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Tue, 16 Feb 2016 10:27:46 -0500
Subject: [ITK-users] (no subject)
In-Reply-To: <CAEiw7u5Gs5CK+TZ=rx3-FMLWuh9uEOKpRTYUxEtNnuoG8-SHxw@mail.gmail.com>
References: <CAEiw7u5Gs5CK+TZ=rx3-FMLWuh9uEOKpRTYUxEtNnuoG8-SHxw@mail.gmail.com>
Message-ID: <CAPf2UMQH5gvJbW29wuodm+Vdj67AQSi+byrJCmAbx7Tprk2r4w@mail.gmail.com>

Maybe you want to use one of the threshold filters:
http://www.itk.org/Doxygen/html/classitk_1_1BinaryThresholdImageFilter.html
http://www.itk.org/Doxygen/html/classitk_1_1ThresholdImageFilter.html

HTH

On Tue, Feb 16, 2016 at 12:37 AM, meikolin saimara <kolin9105 at gmail.com>
wrote:

> hello guys.
>
> I am beginner in itk.
> in RGBImage we can found red pixel but
> how we can get black pixel value of image.
> I have a image with view  black and white.
> but I just need black pixel value..
> Pleas help me guys.
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
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From dzenanz at gmail.com  Tue Feb 16 10:35:29 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Tue, 16 Feb 2016 10:35:29 -0500
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <CAJqi3E+ghXk2AaMYF_eb2_6ZsxJPNYWtFqHaQkKxjJXWuGTEOw@mail.gmail.com>
References: <CAJqi3E+qm_mUNJBCScnzUO9daZ=Ta7PsCWb-5fozL8WK6=A6JA@mail.gmail.com>
 <84A225AE-400C-4FBA-97FA-6A027CB17208@mail.nih.gov>
 <CAJqi3EJu9PH9WG5WQomxwMpcNwd8zCcT0BZ2SYXkX4JMOQtT-w@mail.gmail.com>
 <CAJqi3E+eNQxJBbrUt-ReAPNqF+xZOLMFZa_KB_v9tDdbF1SNog@mail.gmail.com>
 <CAJqi3ELNovYUpgJ=cFStA2gq-ix1UiaY-4YvZTJ327OQ8LGn9w@mail.gmail.com>
 <CAJqi3EJMqTscSxNdOn58Yz2NazfdSdcrTgOY6hRYAK3Z=3-Asw@mail.gmail.com>
 <CAPf2UMTwwE=7eLsCjNZpnWHTemQ3Kpi3waGA0p9tDkcWoU2aZQ@mail.gmail.com>
 <CAJqi3EJ6gSjPxVG9tNguYNHf0pCatepBv3w-4sTtKOnRig_4vA@mail.gmail.com>
 <CAPf2UMQdSHRVYWReSZ+i+=E4igTyUD91ysoqA48DB-O8R3EUTw@mail.gmail.com>
 <CAJqi3EJU6L=R=KUyFvHvLg2w0m=MYQpuWTODcP=W4TiKZXE2eA@mail.gmail.com>
 <CAPf2UMSs-q8_s=5k6KcX48zjEsyKWQ-RzJ3O0ik1ihFcHcp+vg@mail.gmail.com>
 <CAJqi3E+ghXk2AaMYF_eb2_6ZsxJPNYWtFqHaQkKxjJXWuGTEOw@mail.gmail.com>
Message-ID: <CAPf2UMR=TyVatKidw8Z_OcxUQ82JVXQnx8QcK73X3fsC+E2j1A@mail.gmail.com>

I have set up a project using one of the tests from Brad's repository
(attached), and it works in debug mode both with his original code and with
your modified class, and crashes in release mode both with his original
code and with your modified class. I will now compile ITK in RelWithDebInfo
in an attempt to figure out where is the crash occurring.

Regards,
D?enan

On Tue, Feb 16, 2016 at 1:52 AM, Francisco Lopez de la Franca <
franciscolopezdelafranca at gmail.com> wrote:

> Excuse me Dzenanz, but that's not completely true, because I've tested
> Brad's class and it works right.
> The problem seems to be that when you add a new neighbor iterator to
> include just the mask points in the "histogram" then it is when the
> application crashes, and I donot understand why.
> If you just comment the 'maskIter' references you'll see that the
> application works.
> I've created a single threaded class based on the Brad's code and it works
> but it is twice slower, that is why I'm interesting on Brad's class
> (multi-threaded) to make it work.
>
>
> 2016-02-15 17:15 GMT+01:00 dzenanz [via ITK Insight Users] <
> ml-node+s2283740n7588495h80 at n2.nabble.com>:
>
>> Hi Francisco,
>>
>> both your code and Brad's code run in debug mode (I did not wait for the
>> end), and both crash in release mode immediately on startup. Here is a
>> sample output:
>>
>> Progress input: 0000000002868970
>> input: 0000000002868970
>> _maskImage: 0000000002868970
>> _maskImage: 0000000002868970
>> input: 0000000002868970
>> _maskImage: 0000000002868970
>> iter.first: iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>> [-5, -5, -5] iter.second: [-4, -5, -5]
>> niter index: [5, 5, 210]
>> niter index: [5, 5, 140]
>> maskIter index: [5, 5, 140]
>> maskIter index: [5, 5, 210]
>> Before p3
>> input: 0000000002868970
>> _maskImage: 0000000002868970
>> After p3:  | 0niter index: [5, 5, 70]
>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>> niter index: [5, 5, 5]
>> ?
>> maskIter index: [5, 5, 70]
>> After p4: ?
>> Before p3
>> Before p3
>> After p3: ?iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>> niter index: [5, 5, 140]
>> maskIter index: [5, 5, 140]
>> maskIter index: [5, 5, 5]
>> Before p3
>> After p3: ?
>> After p3: ?
>> After p4: ?
>> After p4: ?
>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>> niter index: [5, 5, 5]
>> maskIter index: [5, 5, 5]
>>
>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>> Before p3
>> Before p3
>> After p4: ?
>> After p3: ?
>> After p4: ?
>>
>> Regards,
>> D?enan
>>
>> On Mon, Feb 15, 2016 at 1:36 AM, Francisco Lopez de la Franca <[hidden
>> email] <http:///user/SendEmail.jtp?type=node&node=7588495&i=0>> wrote:
>>
>>> Hi,
>>> Here they are.
>>> KR.
>>>
>>> 2016-02-12 16:22 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>> email] <http:///user/SendEmail.jtp?type=node&node=7588495&i=1>>:
>>>
>>>> Hi Francisco,
>>>>
>>>> do you mind attaching the modified files or pointing to your fork of it
>>>> on GitHub?
>>>>
>>>> Regards
>>>>
>>>> On Thu, Feb 11, 2016 at 12:08 PM, Francisco L?pez-Franca <[hidden
>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588490&i=0>> wrote:
>>>>
>>>>> Hi Dzenan,
>>>>> The original class is here:
>>>>>
>>>>>
>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h
>>>>>
>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx
>>>>>
>>>>> I've just added setInput and setMaskImage methods and modify some
>>>>> lines in
>>>>> the original class as I indicated in the yesterday mail within this
>>>>> thread.
>>>>> I'm running it on Windows, and there is no error at all, just a crash.
>>>>> I
>>>>> may have to include exceptions management.
>>>>> The crash occurs just when calling p3 = maskIter.GetPixel(iter->first)
>>>>>
>>>>> If you know why it could be or if you need more clarification, please
>>>>> let
>>>>> me know.
>>>>> Many thanks
>>>>>
>>>>> 2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
>>>>> [hidden email] <http:///user/SendEmail.jtp?type=node&node=7588490&i=1>
>>>>> >:
>>>>>
>>>>> > Hi Francisco,
>>>>> >
>>>>> > "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the error
>>>>> message
>>>>> > that goes along with the crash? In which file and line does it crash?
>>>>> >
>>>>> > Regards
>>>>> >
>>>>> > On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca
>>>>> <[hidden
>>>>> > email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0>>
>>>>> wrote:
>>>>> >
>>>>> >> Hi,
>>>>> >> Please, someone that could help me. I'm working in a pre-doctorate
>>>>> >> project and I need this class to work.
>>>>> >> I've read the chapter 13 in the ITK Software Guide on how to write a
>>>>> >> filter and now I see the fact of the threads due to inheritance of
>>>>> >> ImageToImageFilter.
>>>>> >> But, I keep on without understanding why the code crashes just when
>>>>> >> calling
>>>>> >> *const PixelType p3 = maskIter.GetPixel(iter->first);*
>>>>> >> It is just a call to read data, not to write.
>>>>> >>
>>>>> >> I guess somebody that had worked with creation of filters might see
>>>>> >> "easily" the problem, but not me.
>>>>> >>
>>>>> >> So, again, please, I need someone to help me with this because I'm
>>>>> stuck
>>>>> >> on this point.
>>>>> >>
>>>>> >> Thank you very much.
>>>>> >> KR.
>>>>> >> /Francisco
>>>>> >>
>>>>> >> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca <[hidden
>>>>> email]
>>>>> >> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1>>:
>>>>> >>
>>>>> >>> Hi Bradley again.
>>>>> >>> I'm modifying your class in order to be able to set a mask image (a
>>>>> >>> binary image) to be used as a limit in the histogram calculations,
>>>>> I mean,
>>>>> >>> I set an input, a mask and the class should take into account to
>>>>> calculate
>>>>> >>> the histograms only the voxels that belong to the input and to the
>>>>> mask
>>>>> >>> image and having the value 1 in the mask image.
>>>>> >>> The changes seem to be easy but I don?t know why my tests are not
>>>>> >>> working. It seems that 2 threads are working at the same time and
>>>>> when I
>>>>> >>> added my mask iterator, the code crashes.
>>>>> >>>
>>>>> >>> *** Consider that the input and mask images are the same origin,
>>>>> spacing
>>>>> >>> and size.
>>>>> >>>
>>>>> >>> I attach the main changes I've done, and I would thank you a lot
>>>>> if you
>>>>> >>> don't mind having a look and help me to find what I'm doing wrong:
>>>>> >>>
>>>>> >>> template< class TImageType, class TOutputImage >
>>>>> >>> void
>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>> >::*SetInput*(InputImageType
>>>>> >>> *image)
>>>>> >>> {
>>>>> >>>   // Process object is not const-correct so the const_cast is
>>>>> required
>>>>> >>> here
>>>>> >>>   this->ProcessObject::SetNthInput( 0,
>>>>> >>>                                     const_cast< InputImageType * >(
>>>>> >>> image ) );
>>>>> >>> }
>>>>> >>>
>>>>> >>> template< class TImageType, class TOutputImage >
>>>>> >>> void
>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>> >::*SetMaskImage*(InputImageType
>>>>> >>> *image)
>>>>> >>> {
>>>>> >>>   // Process object is not const-correct so the const_cast is
>>>>> required
>>>>> >>> here
>>>>> >>>   this->ProcessObject::SetNthInput( 1, const_cast< InputImageType
>>>>> * >(
>>>>> >>> image ) );
>>>>> >>>
>>>>> >>>   _maskImage = image; // _maskImage is a private member
>>>>> >>> }
>>>>> >>>
>>>>> >>> In the *ThreadedGenerateData*(const RegionType&
>>>>> outputRegionForThread,
>>>>> >>> ThreadIdType threadId ) method:
>>>>> >>> {
>>>>> >>>
>>>>> >>> ...
>>>>> >>>
>>>>> >>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
>>>>> >>>     {
>>>>> >>>     NeighborhoodIteratorType nIter( radius, input, *fit );
>>>>> >>>     *NeighborhoodIteratorType maskIter( radius, _maskImage, *fit);*
>>>>> >>>     OutputIterator           outIter(output, *fit);
>>>>> >>>
>>>>> >>>     OutputPixelType out;
>>>>> >>>     NumericTraits<OutputPixelType>::SetLength( out,
>>>>> >>> this->GetNumberOfOutputComponents() );
>>>>> >>>
>>>>> >>>     while( !nIter.IsAtEnd() )
>>>>> >>>       {
>>>>> >>>       this->FillHistogram( *histogram, nIter, *maskIter *);
>>>>> >>>
>>>>> >>>       ...
>>>>> >>>
>>>>> >>>       ++nIter;
>>>>> >>>       ++outIter;
>>>>> >>>      * ++maskIter;*
>>>>> >>>     ...
>>>>> >>>
>>>>> >>> In the *FillHistogram *method:
>>>>> >>> {
>>>>> >>>
>>>>> >>> ...
>>>>> >>>
>>>>> >>>   while( iter != m_CooccurenceOffsetVector.end() )
>>>>> >>>     {
>>>>> >>>
>>>>> >>>     const PixelType p1 = niter.GetPixel(iter->first);
>>>>> >>>     const PixelType p2 = niter.GetPixel(iter->second);
>>>>> >>>     std::cout << "Before p3" << std::endl;
>>>>> >>>
>>>>> >>> *    const PixelType p3 = maskIter.GetPixel(iter->first);
>>>>> *std::cout
>>>>> >>> << "After p3: " << p3 << std::endl;
>>>>> >>>
>>>>> >>> *    const PixelType p4 = maskIter.GetPixel(iter->second);   *
>>>>> >>> std::cout << "After p4: " << p4 << std::endl;
>>>>> >>>
>>>>> >>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <=
>>>>> m_Max
>>>>> >>>             *&& p3 == _insidePixelValue && p4 ==
>>>>> _insidePixelValue* )
>>>>> >>> // The point
>>>>> >>>       {
>>>>> >>>
>>>>> >>> ...
>>>>> >>>
>>>>> >>>
>>>>> >>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>>>>> >>>
>>>>> >>> Thank you so much.
>>>>> >>> My kind regards.
>>>>> >>> /Paco
>>>>> >>>
>>>>> >>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca <[hidden
>>>>> email]
>>>>> >>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2>>:
>>>>> >>>
>>>>> >>>> Hello Bradley again.
>>>>> >>>> Sorry but I'd like to re-open this issue because I need your
>>>>> class but
>>>>> >>>> with some modification.
>>>>> >>>> I pass to tell you.
>>>>> >>>>
>>>>> >>>> As my tests with your external class were not good taking into
>>>>> account
>>>>> >>>> the performance, I wonder if you could create a variant of it,
>>>>> but in which
>>>>> >>>> I can set a mask image and your class just return the VectorImage
>>>>> with all
>>>>> >>>> the features for that region (the masked locations) as
>>>>> >>>> itk::ScalarImageToTextureFeaturesFilter class does.
>>>>> >>>> I mean, to get the vector image with all the features but just
>>>>> >>>> calculate it for the regions belonging to the mask image.
>>>>> Positions not
>>>>> >>>> belonging to the mask region could have a pixel value of 0, for
>>>>> instance.
>>>>> >>>>
>>>>> >>>> I don?t know if it is very costly for you,  but I would thank you
>>>>> so
>>>>> >>>> much. Otherwise, I could try it but I'd need your suggestions on
>>>>> how to do
>>>>> >>>> it.
>>>>> >>>>
>>>>> >>>> Thanks a lot.
>>>>> >>>> Best regards.
>>>>> >>>>
>>>>> >>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca <[hidden
>>>>> email]
>>>>> >>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3>>:
>>>>> >>>>
>>>>> >>>>> Hello Bradley again,
>>>>> >>>>> I would like to ask you for a couple of favours. In the one hand,
>>>>> >>>>> could you please send me your 3D image so that I can test on it?
>>>>> And on the
>>>>> >>>>> other hand, could you test the example I have referenced in the
>>>>> previous
>>>>> >>>>> email with your image, not changing anything in the code, such
>>>>> as it is,
>>>>> >>>>> and tell me if the execution time is normal?
>>>>> >>>>> Thank you very much.
>>>>> >>>>> Regards,
>>>>> >>>>> /Francisco
>>>>> >>>>>
>>>>> >>>>> PS: All my application trace is printed via standard 'cout'
>>>>> command,
>>>>> >>>>> not due to a debugging compilation mode.
>>>>> >>>>>
>>>>> >>>>>
>>>>> >>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp <[hidden
>>>>> >>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=4>>
>>>>> >>>>> escribi?:
>>>>> >>>>>
>>>>> >>>>>> Hello,
>>>>> >>>>>>
>>>>> >>>>>> Did you compile TextureFeatureImage in Release mode?
>>>>> >>>>>>
>>>>> >>>>>> 1) The filter does not scale well with a large radius. And
>>>>> given by
>>>>> >>>>>> your initial report of print a very large number of offset you,
>>>>> it sounds
>>>>> >>>>>> like you are using a large radius with many offsets. I created a
>>>>> >>>>>> 224x224x300 unsigned short image and ran with the default
>>>>> offset and a
>>>>> >>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this filter
>>>>> is was ~10x
>>>>> >>>>>> faster than this example... things change though...
>>>>> >>>>>>
>>>>> >>>>>>
>>>>> >>>>>> 2) I sounds like the boundaries/limits of the histogram may be
>>>>> >>>>>> clipping you values. I would inspect the co-occurance matrix.
>>>>> >>>>>>
>>>>> >>>>>>
>>>>> >>>>>> HTH,
>>>>> >>>>>> Brad
>>>>> >>>>>>
>>>>> >>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca
>>>>> <[hidden
>>>>> >>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=5>>
>>>>> >>>>>> wrote:
>>>>> >>>>>>
>>>>> >>>>>> I've tested with itkTextureFeatureImageFilter, with
>>>>> >>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>>>>> >>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures
>>>>> example,
>>>>> >>>>>> for a 3D image and here are my comments:
>>>>> >>>>>>
>>>>> >>>>>>
>>>>> >>>>>> 1. I had to interrupt the test after several hours and it kept
>>>>> on
>>>>> >>>>>> calculating. And this is for only a 3D image (224x224x300). I
>>>>> need to
>>>>> >>>>>> process around 35 images.
>>>>> >>>>>> 2. The result (texture features: entropy, energy, correlation,
>>>>> LH,
>>>>> >>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0,
>>>>> 7.83083e+247].
>>>>> >>>>>> These values were not what I expected based on my experience on
>>>>> another
>>>>> >>>>>> application I developed, but in that case, I calculated the
>>>>> texture
>>>>> >>>>>> features for an image as a whole, not voxel by voxel.
>>>>> >>>>>>
>>>>> >>>>>> Regards.
>>>>> >>>>>>
>>>>> >>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
>>>>> >>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6>>:
>>>>> >>>>>>
>>>>> >>>>>>> i yes i have tried radius = 3;
>>>>> >>>>>>> still no luck
>>>>> >>>>>>>
>>>>> >>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca [via
>>>>> ITK
>>>>> >>>>>>> Insight
>>>>> >>>>>>> Users] <[hidden email]
>>>>> >>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7>>
>>>>> wrote:
>>>>> >>>>>>>
>>>>> >>>>>>> > Have you tried with a radius of 3 instead of 1?
>>>>> >>>>>>> >
>>>>> >>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>>>>> >>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
>>>>> >>>>>>> >
>>>>> >>>>>>> >> hey Matt,
>>>>> >>>>>>> >> thanks for ur advice.. it did build successfully... but im
>>>>> not
>>>>> >>>>>>> able to run
>>>>> >>>>>>> >> the code for 2D png image... i tried to change the
>>>>> dimension to 2
>>>>> >>>>>>> and
>>>>> >>>>>>> >> build
>>>>> >>>>>>> >> it which it did.. but when i run the code using the command
>>>>> >>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png
>>>>> putput.png
>>>>> >>>>>>> 1... i see
>>>>> >>>>>>> >> this output
>>>>> >>>>>>> >>
>>>>> >>>>>>> >> offset: [-1, -1] [0, -1]
>>>>> >>>>>>> >> offset: [0, -1] [1, -1]
>>>>> >>>>>>> >> offset: [-1, 0] [0, 0]
>>>>> >>>>>>> >> offset: [0, 0] [1, 0]
>>>>> >>>>>>> >> offset: [-1, 1] [0, 1]
>>>>> >>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the program...
>>>>> if pls
>>>>> >>>>>>> tel me
>>>>> >>>>>>> >> how can i modify this code to work wid 2d image... forgive
>>>>> me if
>>>>> >>>>>>> my ques
>>>>> >>>>>>> >> are really silly im trying to learn something..
>>>>> >>>>>>> >> regards
>>>>> >>>>>>> >> Vis
>>>>> >>>>>>> >>
>>>>> >>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via ITK
>>>>> >>>>>>> Insight Users]
>>>>> >>>>>>> >> <
>>>>> >>>>>>> >> [hidden email] <
>>>>> >>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
>>>>> >>>>>>> >> wrote:
>>>>> >>>>>>> >>
>>>>> >>>>>>> >> > Hi,
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >> > The function:
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char *argv[])
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >> > must be renamed to
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >> >   main(int argc, char* argv[])
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >> > HTH,
>>>>> >>>>>>> >> > Matt
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>>>>> >>>>>>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>>
>>>>> wrote:
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >> > > hi all,
>>>>> >>>>>>> >> > > im trying to build the
>>>>> itkTextureFeatureImageFilterTest.cxx
>>>>> >>>>>>> code but
>>>>> >>>>>>> >> im
>>>>> >>>>>>> >> > not
>>>>> >>>>>>> >> > > able to it is showing the following error
>>>>> >>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>>>>> >>>>>>> Configuration:
>>>>> >>>>>>> >> Debug
>>>>> >>>>>>> >> > x64
>>>>> >>>>>>> >> > > ------
>>>>> >>>>>>> >> > > 1>  Checking Build System
>>>>> >>>>>>> >> > > 1>  CMake does not need to re-run because
>>>>> >>>>>>> >> > >
>>>>> >>>>>>>
>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>>>>> >>>>>>> >> > is
>>>>> >>>>>>> >> > > up-to-date.
>>>>> >>>>>>> >> > > 2>------ Rebuild All started: Project:
>>>>> >>>>>>> >> itkTextureFeatureImageFilterTest,
>>>>> >>>>>>> >> > > Configuration: Debug x64 ------
>>>>> >>>>>>> >> > > 2>  Building Custom Rule
>>>>> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>> >>>>>>> >> > > 2>  CMake does not need to re-run because
>>>>> >>>>>>> >> > >
>>>>> >>>>>>>
>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>> >>>>>>> >> > is
>>>>> >>>>>>> >> > > up-to-date.
>>>>> >>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>>>>> >>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>>>>> >>>>>>> 'std::_Copy_impl':
>>>>> >>>>>>> >> > Function
>>>>> >>>>>>> >> > > call with parameters that may be unsafe - this call
>>>>> relies on
>>>>> >>>>>>> the
>>>>> >>>>>>> >> caller
>>>>> >>>>>>> >> > to
>>>>> >>>>>>> >> > > check that the passed values are correct. To disable
>>>>> this
>>>>> >>>>>>> warning, use
>>>>> >>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how to
>>>>> use
>>>>> >>>>>>> Visual C++
>>>>> >>>>>>> >> > > 'Checked Iterators'
>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>> Studio
>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>> >>>>>>> 'std::_Copy_impl'
>>>>> >>>>>>> >> > > 2>
>>>>> >>>>>>> >> > >
>>>>> >>>>>>> >>
>>>>> >>>>>>>
>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>>>>> >>>>>>> >> > see
>>>>> >>>>>>> >> > > reference to function template instantiation '_OutIt
>>>>> >>>>>>> std::copy<const
>>>>> >>>>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)'
>>>>> being
>>>>> >>>>>>> compiled
>>>>> >>>>>>> >> > > 2>          with
>>>>> >>>>>>> >> > > 2>          [
>>>>> >>>>>>> >> > > 2>              _OutIt=unsigned char *,
>>>>> >>>>>>> >> > > 2>              _InIt=const unsigned char *
>>>>> >>>>>>> >> > > 2>          ]
>>>>> >>>>>>> >> > > 2>
>>>>> >>>>>>> >> > >
>>>>> >>>>>>> >>
>>>>> >>>>>>>
>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>>>>> >>>>>>> >> > > while compiling class template member function 'void
>>>>> >>>>>>> >> > > itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>>>>> >>>>>>> >> > > 2>          with
>>>>> >>>>>>> >> > > 2>          [
>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>> >>>>>>> >> > > 2>          ]
>>>>> >>>>>>> >> > > 2>
>>>>> >>>>>>> >> > >
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >>
>>>>> >>>>>>>
>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >> > > : see reference to class template instantiation
>>>>> >>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>>>>> >>>>>>> >> > > 2>          with
>>>>> >>>>>>> >> > > 2>          [
>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>> >>>>>>> >> > > 2>          ]
>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>> Studio
>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>> >>>>>>> 'std::_Copy_impl'
>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>> Studio
>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>> >>>>>>> 'std::_Copy_impl'
>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>> Studio
>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>> >>>>>>> 'std::_Copy_impl'
>>>>> >>>>>>> >> > > 2>     Creating library
>>>>> >>>>>>> >> > >
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >>
>>>>> >>>>>>>
>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >> > > and object
>>>>> >>>>>>> >> > >
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >>
>>>>> >>>>>>>
>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved
>>>>> >>>>>>> external symbol
>>>>> >>>>>>> >> > main
>>>>> >>>>>>> >> > > referenced in function __tmainCRTStartup
>>>>> >>>>>>> >> > >
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >>
>>>>> >>>>>>>
>>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>>>>> >>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>>>>> >>>>>>> Configuration: Debug
>>>>> >>>>>>> >> > x64
>>>>> >>>>>>> >> > > ------
>>>>> >>>>>>> >> > > 3>  Building Custom Rule
>>>>> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>> >>>>>>> >> > > 3>  CMake does not need to re-run because
>>>>> >>>>>>> >> > >
>>>>> >>>>>>>
>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>> >>>>>>> >> > is
>>>>> >>>>>>> >> > > up-to-date.
>>>>> >>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0 skipped
>>>>> >>>>>>> ==========
>>>>> >>>>>>> >> > > im using the follwing CMakeList.txt
>>>>> >>>>>>> >> > > # This is the root ITK CMakeLists file.
>>>>> >>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>>>>> >>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>>>>> >>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>>>>> >>>>>>> >> > > endif()
>>>>> >>>>>>> >> > >
>>>>> >>>>>>> >> > >
>>>>> >>>>>>> >> > > # This project is designed to be built outside the
>>>>> Insight
>>>>> >>>>>>> source
>>>>> >>>>>>> >> tree.
>>>>> >>>>>>> >> > > project(HelloWorld)
>>>>> >>>>>>> >> > >
>>>>> >>>>>>> >> > > # Find ITK.
>>>>> >>>>>>> >> > > find_package(ITK REQUIRED)
>>>>> >>>>>>> >> > > include(${ITK_USE_FILE})
>>>>> >>>>>>> >> > >
>>>>> >>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>>>>> >>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>>>>> >>>>>>> >> > >
>>>>> >>>>>>> >> > > target_link_libraries(itkTextureFeatureImageFilterTest
>>>>> >>>>>>> >> ${ITK_LIBRARIES})
>>>>> >>>>>>> >> > >
>>>>> >>>>>>> >> > > please tel me wat the error is??
>>>>> >>>>>>> >> > >
>>>>> >>>>>>> >> > >
>>>>> >>>>>>> >> > >
>>>>> >>>>>>> >> > > --
>>>>> >>>>>>> >> > > View this message in context:
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >>
>>>>> >>>>>>>
>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>>>>> >>>>>>> >> > > Sent from the ITK Insight Users mailing list archive at
>>>>> >>>>>>> Nabble.com.
>>>>> >>>>>>> >> > > _____________________________________
>>>>> >>>>>>> >> > > Powered by www.kitware.com
>>>>> >>>>>>> >> > >
>>>>> >>>>>>> >> > > Visit other Kitware open-source projects at
>>>>> >>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>>>>> >>>>>>> >> > >
>>>>> >>>>>>> >> > > Kitware offers ITK Training Courses, for more
>>>>> information
>>>>> >>>>>>> visit:
>>>>> >>>>>>> >> > > http://www.kitware.com/products/protraining.php
>>>>> >>>>>>> >> > >
>>>>> >>>>>>> >> > > Please keep messages on-topic and check the ITK FAQ at:
>>>>> >>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>>>>> >>>>>>> >> > >
>>>>> >>>>>>> >> > > Follow this link to subscribe/unsubscribe:
>>>>> >>>>>>> >> > >
>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>> >>>>>>> >> > _____________________________________
>>>>> >>>>>>> >> > Powered by www.kitware.com
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >> > Visit other Kitware open-source projects at
>>>>> >>>>>>> >> > http://www.kitware.com/opensource/opensource.html
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >> > Kitware offers ITK Training Courses, for more information
>>>>> visit:
>>>>> >>>>>>> >> > http://www.kitware.com/products/protraining.php
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >> > Please keep messages on-topic and check the ITK FAQ at:
>>>>> >>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >> > Follow this link to subscribe/unsubscribe:
>>>>> >>>>>>> >> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >> > ------------------------------
>>>>> >>>>>>> >> > If you reply to this email, your message will be added to
>>>>> the
>>>>> >>>>>>> discussion
>>>>> >>>>>>> >> > below:
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >>
>>>>> >>>>>>>
>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587952.html
>>>>> >>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by pixel,
>>>>> click
>>>>> >>>>>>> here
>>>>> >>>>>>> >> > < > .
>>>>> >>>>>>> >> > NAML
>>>>> >>>>>>> >> > <
>>>>> >>>>>>> >>
>>>>> >>>>>>>
>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >> >
>>>>> >>>>>>> >>
>>>>> >>>>>>> >>
>>>>> >>>>>>> >>
>>>>> >>>>>>> >>
>>>>> >>>>>>> >> --
>>>>> >>>>>>> >> View this message in context:
>>>>> >>>>>>> >>
>>>>> >>>>>>>
>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>>>>> >>>>>>> >> Sent from the ITK Insight Users mailing list archive at
>>>>> >>>>>>> Nabble.com.
>>>>> >>>>>>> >> _____________________________________
>>>>> >>>>>>> >> Powered by www.kitware.com
>>>>> >>>>>>> >>
>>>>> >>>>>>> >> Visit other Kitware open-source projects at
>>>>> >>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>> >>>>>>> >>
>>>>> >>>>>>> >> Kitware offers ITK Training Courses, for more information
>>>>> visit:
>>>>> >>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>> >>>>>>> >>
>>>>> >>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>> >>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>> >>>>>>> >>
>>>>> >>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>> >>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>>> >>>>>>> >>
>>>>> >>>>>>> >
>>>>> >>>>>>> >
>>>>> >>>>>>> > _____________________________________
>>>>> >>>>>>> > Powered by www.kitware.com
>>>>> >>>>>>> >
>>>>> >>>>>>> > Visit other Kitware open-source projects at
>>>>> >>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>> >>>>>>> >
>>>>> >>>>>>> > Kitware offers ITK Training Courses, for more information
>>>>> visit:
>>>>> >>>>>>> > http://www.kitware.com/products/protraining.php
>>>>> >>>>>>> >
>>>>> >>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>> >>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>> >>>>>>> >
>>>>> >>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>> >>>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>> >>>>>>> >
>>>>> >>>>>>> >
>>>>> >>>>>>> > ------------------------------
>>>>> >>>>>>> > If you reply to this email, your message will be added to the
>>>>> >>>>>>> discussion
>>>>> >>>>>>> > below:
>>>>> >>>>>>> >
>>>>> >>>>>>> >
>>>>> >>>>>>>
>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587961.html
>>>>> >>>>>>> > To unsubscribe from [ITK-users] Texture pixel by pixel,
>>>>> click here
>>>>> >>>>>>> > < > .
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>>>>> >>>>>>> > <
>>>>> >>>>>>>
>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>> >>>>>>> >
>>>>> >>>>>>> >
>>>>> >>>>>>>
>>>>> >>>>>>>
>>>>> >>>>>>>
>>>>> >>>>>>>
>>>>> >>>>>>> --
>>>>> >>>>>>> View this message in context:
>>>>> >>>>>>>
>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
>>>>> >>>>>>> Sent from the ITK Insight Users mailing list archive at
>>>>> Nabble.com.
>>>>> >>>>>>> _____________________________________
>>>>> >>>>>>> Powered by www.kitware.com
>>>>> >>>>>>>
>>>>> >>>>>>> Visit other Kitware open-source projects at
>>>>> >>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>> >>>>>>>
>>>>> >>>>>>> Kitware offers ITK Training Courses, for more information
>>>>> visit:
>>>>> >>>>>>> http://www.kitware.com/products/protraining.php
>>>>> >>>>>>>
>>>>> >>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>> >>>>>>> http://www.itk.org/Wiki/ITK_FAQ
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From blowekamp at mail.nih.gov  Tue Feb 16 16:03:45 2016
From: blowekamp at mail.nih.gov (Bradley Lowekamp)
Date: Tue, 16 Feb 2016 16:03:45 -0500
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <CAPf2UMR=TyVatKidw8Z_OcxUQ82JVXQnx8QcK73X3fsC+E2j1A@mail.gmail.com>
References: <CAJqi3E+qm_mUNJBCScnzUO9daZ=Ta7PsCWb-5fozL8WK6=A6JA@mail.gmail.com>
 <84A225AE-400C-4FBA-97FA-6A027CB17208@mail.nih.gov>
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 <CAJqi3E+eNQxJBbrUt-ReAPNqF+xZOLMFZa_KB_v9tDdbF1SNog@mail.gmail.com>
 <CAJqi3ELNovYUpgJ=cFStA2gq-ix1UiaY-4YvZTJ327OQ8LGn9w@mail.gmail.com>
 <CAJqi3EJMqTscSxNdOn58Yz2NazfdSdcrTgOY6hRYAK3Z=3-Asw@mail.gmail.com>
 <CAPf2UMTwwE=7eLsCjNZpnWHTemQ3Kpi3waGA0p9tDkcWoU2aZQ@mail.gmail.com>
 <CAJqi3EJ6gSjPxVG9tNguYNHf0pCatepBv3w-4sTtKOnRig_4vA@mail.gmail.com>
 <CAPf2UMQdSHRVYWReSZ+i+=E4igTyUD91ysoqA48DB-O8R3EUTw@mail.gmail.com>
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 <CAPf2UMSs-q8_s=5k6KcX48zjEsyKWQ-RzJ3O0ik1ihFcHcp+vg@mail.gmail.com>
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Message-ID: <3F877AC4-BCD1-43FF-B8B3-7B30F9B6D30B@mail.nih.gov>

Hello,

Please take a look at these changes:
https://github.com/blowekamp/itkTextureAnalysis/commit/9654d74ea1d09f0677f1d1b93242cc94340591bf

Brad

> On Feb 16, 2016, at 10:35 AM, D?enan Zuki? <dzenanz at gmail.com> wrote:
> 
> I have set up a project using one of the tests from Brad's repository (attached), and it works in debug mode both with his original code and with your modified class, and crashes in release mode both with his original code and with your modified class. I will now compile ITK in RelWithDebInfo in an attempt to figure out where is the crash occurring.
> 
> Regards,
> D?enan
> 
> On Tue, Feb 16, 2016 at 1:52 AM, Francisco Lopez de la Franca <franciscolopezdelafranca at gmail.com <mailto:franciscolopezdelafranca at gmail.com>> wrote:
> Excuse me Dzenanz, but that's not completely true, because I've tested Brad's class and it works right.
> The problem seems to be that when you add a new neighbor iterator to include just the mask points in the "histogram" then it is when the application crashes, and I donot understand why.
> If you just comment the 'maskIter' references you'll see that the application works.
> I've created a single threaded class based on the Brad's code and it works but it is twice slower, that is why I'm interesting on Brad's class (multi-threaded) to make it work.
> 
> 
> 2016-02-15 17:15 GMT+01:00 dzenanz [via ITK Insight Users] <ml-node+s2283740n7588495h80 at n2.nabble.com <mailto:ml-node+s2283740n7588495h80 at n2.nabble.com>>:
> Hi Francisco,
> 
> both your code and Brad's code run in debug mode (I did not wait for the end), and both crash in release mode immediately on startup. Here is a sample output:
> 
> Progress input: 0000000002868970
> input: 0000000002868970
> _maskImage: 0000000002868970
> _maskImage: 0000000002868970
> input: 0000000002868970
> _maskImage: 0000000002868970
> iter.first: iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
> [-5, -5, -5] iter.second: [-4, -5, -5]
> niter index: [5, 5, 210]
> niter index: [5, 5, 140]
> maskIter index: [5, 5, 140]
> maskIter index: [5, 5, 210]
> Before p3
> input: 0000000002868970
> _maskImage: 0000000002868970
> After p3:  | 0niter index: [5, 5, 70]
> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
> niter index: [5, 5, 5]
> ?
> maskIter index: [5, 5, 70]
> After p4: ?
> Before p3
> Before p3
> After p3: ?iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
> niter index: [5, 5, 140]
> maskIter index: [5, 5, 140]
> maskIter index: [5, 5, 5]
> Before p3
> After p3: ?
> After p3: ?
> After p4: ?
> After p4: ?
> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
> niter index: [5, 5, 5]
> maskIter index: [5, 5, 5]
> 
> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
> Before p3
> Before p3
> After p4: ?
> After p3: ?
> After p4: ?
> 
> Regards,
> D?enan
> 
> On Mon, Feb 15, 2016 at 1:36 AM, Francisco Lopez de la Franca <[hidden email] <http://user/SendEmail.jtp?type=node&node=7588495&i=0>> wrote:
> Hi,
> Here they are.
> KR.
> 
> 2016-02-12 16:22 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden email] <http://user/SendEmail.jtp?type=node&node=7588495&i=1>>:
> Hi Francisco,
> 
> do you mind attaching the modified files or pointing to your fork of it on GitHub?
> 
> Regards
> 
> On Thu, Feb 11, 2016 at 12:08 PM, Francisco L?pez-Franca <[hidden email] <http://user/SendEmail.jtp?type=node&node=7588490&i=0>> wrote:
> Hi Dzenan,
> The original class is here:
> 
> https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h <https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h>
> https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx <https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx>
> 
> I've just added setInput and setMaskImage methods and modify some lines in
> the original class as I indicated in the yesterday mail within this thread.
> I'm running it on Windows, and there is no error at all, just a crash. I
> may have to include exceptions management.
> The crash occurs just when calling p3 = maskIter.GetPixel(iter->first)
> 
> If you know why it could be or if you need more clarification, please let
> me know.
> Many thanks
> 
> 2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
> [hidden email] <http://user/SendEmail.jtp?type=node&node=7588490&i=1>>:
> 
> > Hi Francisco,
> >
> > "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the error message
> > that goes along with the crash? In which file and line does it crash?
> >
> > Regards
> >
> > On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca <[hidden
> > email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0>> wrote:
> >
> >> Hi,
> >> Please, someone that could help me. I'm working in a pre-doctorate
> >> project and I need this class to work.
> >> I've read the chapter 13 in the ITK Software Guide on how to write a
> >> filter and now I see the fact of the threads due to inheritance of
> >> ImageToImageFilter.
> >> But, I keep on without understanding why the code crashes just when
> >> calling
> >> *const PixelType p3 = maskIter.GetPixel(iter->first);*
> >> It is just a call to read data, not to write.
> >>
> >> I guess somebody that had worked with creation of filters might see
> >> "easily" the problem, but not me.
> >>
> >> So, again, please, I need someone to help me with this because I'm stuck
> >> on this point.
> >>
> >> Thank you very much.
> >> KR.
> >> /Francisco
> >>
> >> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca <[hidden email]
> >> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1>>:
> >>
> >>> Hi Bradley again.
> >>> I'm modifying your class in order to be able to set a mask image (a
> >>> binary image) to be used as a limit in the histogram calculations, I mean,
> >>> I set an input, a mask and the class should take into account to calculate
> >>> the histograms only the voxels that belong to the input and to the mask
> >>> image and having the value 1 in the mask image.
> >>> The changes seem to be easy but I don?t know why my tests are not
> >>> working. It seems that 2 threads are working at the same time and when I
> >>> added my mask iterator, the code crashes.
> >>>
> >>> *** Consider that the input and mask images are the same origin, spacing
> >>> and size.
> >>>
> >>> I attach the main changes I've done, and I would thank you a lot if you
> >>> don't mind having a look and help me to find what I'm doing wrong:
> >>>
> >>> template< class TImageType, class TOutputImage >
> >>> void
> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage >::*SetInput*(InputImageType
> >>> *image)
> >>> {
> >>>   // Process object is not const-correct so the const_cast is required
> >>> here
> >>>   this->ProcessObject::SetNthInput( 0,
> >>>                                     const_cast< InputImageType * >(
> >>> image ) );
> >>> }
> >>>
> >>> template< class TImageType, class TOutputImage >
> >>> void
> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage >::*SetMaskImage*(InputImageType
> >>> *image)
> >>> {
> >>>   // Process object is not const-correct so the const_cast is required
> >>> here
> >>>   this->ProcessObject::SetNthInput( 1, const_cast< InputImageType * >(
> >>> image ) );
> >>>
> >>>   _maskImage = image; // _maskImage is a private member
> >>> }
> >>>
> >>> In the *ThreadedGenerateData*(const RegionType& outputRegionForThread,
> >>> ThreadIdType threadId ) method:
> >>> {
> >>>
> >>> ...
> >>>
> >>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
> >>>     {
> >>>     NeighborhoodIteratorType nIter( radius, input, *fit );
> >>>     *NeighborhoodIteratorType maskIter( radius, _maskImage, *fit);*
> >>>     OutputIterator           outIter(output, *fit);
> >>>
> >>>     OutputPixelType out;
> >>>     NumericTraits<OutputPixelType>::SetLength( out,
> >>> this->GetNumberOfOutputComponents() );
> >>>
> >>>     while( !nIter.IsAtEnd() )
> >>>       {
> >>>       this->FillHistogram( *histogram, nIter, *maskIter *);
> >>>
> >>>       ...
> >>>
> >>>       ++nIter;
> >>>       ++outIter;
> >>>      * ++maskIter;*
> >>>     ...
> >>>
> >>> In the *FillHistogram *method:
> >>> {
> >>>
> >>> ...
> >>>
> >>>   while( iter != m_CooccurenceOffsetVector.end() )
> >>>     {
> >>>
> >>>     const PixelType p1 = niter.GetPixel(iter->first);
> >>>     const PixelType p2 = niter.GetPixel(iter->second);
> >>>     std::cout << "Before p3" << std::endl;
> >>>
> >>> *    const PixelType p3 = maskIter.GetPixel(iter->first);    *std::cout
> >>> << "After p3: " << p3 << std::endl;
> >>>
> >>> *    const PixelType p4 = maskIter.GetPixel(iter->second);   *
> >>> std::cout << "After p4: " << p4 << std::endl;
> >>>
> >>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <= m_Max
> >>>             *&& p3 == _insidePixelValue && p4 == _insidePixelValue* )
> >>> // The point
> >>>       {
> >>>
> >>> ...
> >>>
> >>>
> >>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
> >>>
> >>> Thank you so much.
> >>> My kind regards.
> >>> /Paco
> >>>
> >>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca <[hidden email]
> >>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2>>:
> >>>
> >>>> Hello Bradley again.
> >>>> Sorry but I'd like to re-open this issue because I need your class but
> >>>> with some modification.
> >>>> I pass to tell you.
> >>>>
> >>>> As my tests with your external class were not good taking into account
> >>>> the performance, I wonder if you could create a variant of it, but in which
> >>>> I can set a mask image and your class just return the VectorImage with all
> >>>> the features for that region (the masked locations) as
> >>>> itk::ScalarImageToTextureFeaturesFilter class does.
> >>>> I mean, to get the vector image with all the features but just
> >>>> calculate it for the regions belonging to the mask image. Positions not
> >>>> belonging to the mask region could have a pixel value of 0, for instance.
> >>>>
> >>>> I don?t know if it is very costly for you,  but I would thank you so
> >>>> much. Otherwise, I could try it but I'd need your suggestions on how to do
> >>>> it.
> >>>>
> >>>> Thanks a lot.
> >>>> Best regards.
> >>>>
> >>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca <[hidden email]
> >>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3>>:
> >>>>
> >>>>> Hello Bradley again,
> >>>>> I would like to ask you for a couple of favours. In the one hand,
> >>>>> could you please send me your 3D image so that I can test on it? And on the
> >>>>> other hand, could you test the example I have referenced in the previous
> >>>>> email with your image, not changing anything in the code, such as it is,
> >>>>> and tell me if the execution time is normal?
> >>>>> Thank you very much.
> >>>>> Regards,
> >>>>> /Francisco
> >>>>>
> >>>>> PS: All my application trace is printed via standard 'cout' command,
> >>>>> not due to a debugging compilation mode.
> >>>>>
> >>>>>
> >>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp <[hidden
> >>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=4>>
> >>>>> escribi?:
> >>>>>
> >>>>>> Hello,
> >>>>>>
> >>>>>> Did you compile TextureFeatureImage in Release mode?
> >>>>>>
> >>>>>> 1) The filter does not scale well with a large radius. And given by
> >>>>>> your initial report of print a very large number of offset you, it sounds
> >>>>>> like you are using a large radius with many offsets. I created a
> >>>>>> 224x224x300 unsigned short image and ran with the default offset and a
> >>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this filter is was ~10x
> >>>>>> faster than this example... things change though...
> >>>>>>
> >>>>>>
> >>>>>> 2) I sounds like the boundaries/limits of the histogram may be
> >>>>>> clipping you values. I would inspect the co-occurance matrix.
> >>>>>>
> >>>>>>
> >>>>>> HTH,
> >>>>>> Brad
> >>>>>>
> >>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca <[hidden
> >>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=5>>
> >>>>>> wrote:
> >>>>>>
> >>>>>> I've tested with itkTextureFeatureImageFilter, with
> >>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
> >>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures <http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures> example,
> >>>>>> for a 3D image and here are my comments:
> >>>>>>
> >>>>>>
> >>>>>> 1. I had to interrupt the test after several hours and it kept on
> >>>>>> calculating. And this is for only a 3D image (224x224x300). I need to
> >>>>>> process around 35 images.
> >>>>>> 2. The result (texture features: entropy, energy, correlation, LH,
> >>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0, 7.83083e+247].
> >>>>>> These values were not what I expected based on my experience on another
> >>>>>> application I developed, but in that case, I calculated the texture
> >>>>>> features for an image as a whole, not voxel by voxel.
> >>>>>>
> >>>>>> Regards.
> >>>>>>
> >>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
> >>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6>>:
> >>>>>>
> >>>>>>> i yes i have tried radius = 3;
> >>>>>>> still no luck
> >>>>>>>
> >>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca [via ITK
> >>>>>>> Insight
> >>>>>>> Users] <[hidden email]
> >>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7>> wrote:
> >>>>>>>
> >>>>>>> > Have you tried with a radius of 3 instead of 1?
> >>>>>>> >
> >>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
> >>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
> >>>>>>> >
> >>>>>>> >> hey Matt,
> >>>>>>> >> thanks for ur advice.. it did build successfully... but im not
> >>>>>>> able to run
> >>>>>>> >> the code for 2D png image... i tried to change the dimension to 2
> >>>>>>> and
> >>>>>>> >> build
> >>>>>>> >> it which it did.. but when i run the code using the command
> >>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png putput.png
> >>>>>>> 1... i see
> >>>>>>> >> this output
> >>>>>>> >>
> >>>>>>> >> offset: [-1, -1] [0, -1]
> >>>>>>> >> offset: [0, -1] [1, -1]
> >>>>>>> >> offset: [-1, 0] [0, 0]
> >>>>>>> >> offset: [0, 0] [1, 0]
> >>>>>>> >> offset: [-1, 1] [0, 1]
> >>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the program... if pls
> >>>>>>> tel me
> >>>>>>> >> how can i modify this code to work wid 2d image... forgive me if
> >>>>>>> my ques
> >>>>>>> >> are really silly im trying to learn something..
> >>>>>>> >> regards
> >>>>>>> >> Vis
> >>>>>>> >>
> >>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via ITK
> >>>>>>> Insight Users]
> >>>>>>> >> <
> >>>>>>> >> [hidden email] <
> >>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
> >>>>>>> >> wrote:
> >>>>>>> >>
> >>>>>>> >> > Hi,
> >>>>>>> >> >
> >>>>>>> >> > The function:
> >>>>>>> >> >
> >>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char *argv[])
> >>>>>>> >> >
> >>>>>>> >> > must be renamed to
> >>>>>>> >> >
> >>>>>>> >> >   main(int argc, char* argv[])
> >>>>>>> >> >
> >>>>>>> >> > HTH,
> >>>>>>> >> > Matt
> >>>>>>> >> >
> >>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
> >>>>>>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>> wrote:
> >>>>>>> >> >
> >>>>>>> >> > > hi all,
> >>>>>>> >> > > im trying to build the itkTextureFeatureImageFilterTest.cxx
> >>>>>>> code but
> >>>>>>> >> im
> >>>>>>> >> > not
> >>>>>>> >> > > able to it is showing the following error
> >>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
> >>>>>>> Configuration:
> >>>>>>> >> Debug
> >>>>>>> >> > x64
> >>>>>>> >> > > ------
> >>>>>>> >> > > 1>  Checking Build System
> >>>>>>> >> > > 1>  CMake does not need to re-run because
> >>>>>>> >> > >
> >>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
> >>>>>>> >> > is
> >>>>>>> >> > > up-to-date.
> >>>>>>> >> > > 2>------ Rebuild All started: Project:
> >>>>>>> >> itkTextureFeatureImageFilterTest,
> >>>>>>> >> > > Configuration: Debug x64 ------
> >>>>>>> >> > > 2>  Building Custom Rule
> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
> >>>>>>> >> > > 2>  CMake does not need to re-run because
> >>>>>>> >> > >
> >>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
> >>>>>>> >> > is
> >>>>>>> >> > > up-to-date.
> >>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
> >>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
> >>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
> >>>>>>> 'std::_Copy_impl':
> >>>>>>> >> > Function
> >>>>>>> >> > > call with parameters that may be unsafe - this call relies on
> >>>>>>> the
> >>>>>>> >> caller
> >>>>>>> >> > to
> >>>>>>> >> > > check that the passed values are correct. To disable this
> >>>>>>> warning, use
> >>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how to use
> >>>>>>> Visual C++
> >>>>>>> >> > > 'Checked Iterators'
> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
> >>>>>>> 'std::_Copy_impl'
> >>>>>>> >> > > 2>
> >>>>>>> >> > >
> >>>>>>> >>
> >>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
> >>>>>>> >> > see
> >>>>>>> >> > > reference to function template instantiation '_OutIt
> >>>>>>> std::copy<const
> >>>>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)' being
> >>>>>>> compiled
> >>>>>>> >> > > 2>          with
> >>>>>>> >> > > 2>          [
> >>>>>>> >> > > 2>              _OutIt=unsigned char *,
> >>>>>>> >> > > 2>              _InIt=const unsigned char *
> >>>>>>> >> > > 2>          ]
> >>>>>>> >> > > 2>
> >>>>>>> >> > >
> >>>>>>> >>
> >>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
> >>>>>>> >> > > while compiling class template member function 'void
> >>>>>>> >> > > itk::ImageFileReader<TOutputImage>::GenerateData(void)'
> >>>>>>> >> > > 2>          with
> >>>>>>> >> > > 2>          [
> >>>>>>> >> > > 2>              TOutputImage=InputImageType
> >>>>>>> >> > > 2>          ]
> >>>>>>> >> > > 2>
> >>>>>>> >> > >
> >>>>>>> >> >
> >>>>>>> >>
> >>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
> >>>>>>> >> >
> >>>>>>> >> > > : see reference to class template instantiation
> >>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
> >>>>>>> >> > > 2>          with
> >>>>>>> >> > > 2>          [
> >>>>>>> >> > > 2>              TOutputImage=InputImageType
> >>>>>>> >> > > 2>          ]
> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
> >>>>>>> 'std::_Copy_impl'
> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
> >>>>>>> 'std::_Copy_impl'
> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
> >>>>>>> 'std::_Copy_impl'
> >>>>>>> >> > > 2>     Creating library
> >>>>>>> >> > >
> >>>>>>> >> >
> >>>>>>> >>
> >>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
> >>>>>>> >> >
> >>>>>>> >> > > and object
> >>>>>>> >> > >
> >>>>>>> >> >
> >>>>>>> >>
> >>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
> >>>>>>> >> >
> >>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved
> >>>>>>> external symbol
> >>>>>>> >> > main
> >>>>>>> >> > > referenced in function __tmainCRTStartup
> >>>>>>> >> > >
> >>>>>>> >> >
> >>>>>>> >>
> >>>>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
> >>>>>>> >> >
> >>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
> >>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
> >>>>>>> Configuration: Debug
> >>>>>>> >> > x64
> >>>>>>> >> > > ------
> >>>>>>> >> > > 3>  Building Custom Rule
> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
> >>>>>>> >> > > 3>  CMake does not need to re-run because
> >>>>>>> >> > >
> >>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
> >>>>>>> >> > is
> >>>>>>> >> > > up-to-date.
> >>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0 skipped
> >>>>>>> ==========
> >>>>>>> >> > > im using the follwing CMakeList.txt
> >>>>>>> >> > > # This is the root ITK CMakeLists file.
> >>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
> >>>>>>> >> > > if(COMMAND CMAKE_POLICY)
> >>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
> >>>>>>> >> > > endif()
> >>>>>>> >> > >
> >>>>>>> >> > >
> >>>>>>> >> > > # This project is designed to be built outside the Insight
> >>>>>>> source
> >>>>>>> >> tree.
> >>>>>>> >> > > project(HelloWorld)
> >>>>>>> >> > >
> >>>>>>> >> > > # Find ITK.
> >>>>>>> >> > > find_package(ITK REQUIRED)
> >>>>>>> >> > > include(${ITK_USE_FILE})
> >>>>>>> >> > >
> >>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
> >>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
> >>>>>>> >> > >
> >>>>>>> >> > > target_link_libraries(itkTextureFeatureImageFilterTest
> >>>>>>> >> ${ITK_LIBRARIES})
> >>>>>>> >> > >
> >>>>>>> >> > > please tel me wat the error is??
> >>>>>>> >> > >
> >>>>>>> >> > >
> >>>>>>> >> > >
> >>>>>>> >> > > --
> >>>>>>> >> > > View this message in context:
> >>>>>>> >> >
> >>>>>>> >>
> >>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html <http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html>
> >>>>>>> >> > > Sent from the ITK Insight Users mailing list archive at
> >>>>>>> Nabble.com.
> >>>>>>> >> > > _____________________________________
> >>>>>>> >> > > Powered by www.kitware.com <http://www.kitware.com/>
> >>>>>>> >> > >
> >>>>>>> >> > > Visit other Kitware open-source projects at
> >>>>>>> >> > > http://www.kitware.com/opensource/opensource.html <http://www.kitware.com/opensource/opensource.html>
> >>>>>>> >> > >
> >>>>>>> >> > > Kitware offers ITK Training Courses, for more information
> >>>>>>> visit:
> >>>>>>> >> > > http://www.kitware.com/products/protraining.php <http://www.kitware.com/products/protraining.php>
> >>>>>>> >> > >
> >>>>>>> >> > > Please keep messages on-topic and check the ITK FAQ at:
> >>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ <http://www.itk.org/Wiki/ITK_FAQ>
> >>>>>>> >> > >
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> >>>>>>> >> > _____________________________________
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> >>>>>>> >> >
> >>>>>>> >> > Visit other Kitware open-source projects at
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> >>>>>>> >> >
> >>>>>>> >> > Kitware offers ITK Training Courses, for more information visit:
> >>>>>>> >> > http://www.kitware.com/products/protraining.php <http://www.kitware.com/products/protraining.php>
> >>>>>>> >> >
> >>>>>>> >> > Please keep messages on-topic and check the ITK FAQ at:
> >>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ <http://www.itk.org/Wiki/ITK_FAQ>
> >>>>>>> >> >
> >>>>>>> >> > Follow this link to subscribe/unsubscribe:
> >>>>>>> >> > http://public.kitware.com/mailman/listinfo/insight-users <http://public.kitware.com/mailman/listinfo/insight-users>
> >>>>>>> >> >
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> >>>>>>> >> >
> >>>>>>> >> >
> >>>>>>> >>
> >>>>>>> >>
> >>>>>>> >>
> >>>>>>> >>
> >>>>>>> >> --
> >>>>>>> >> View this message in context:
> >>>>>>> >>
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> >>>>>>> >> Sent from the ITK Insight Users mailing list archive at
> >>>>>>> Nabble.com.
> >>>>>>> >> _____________________________________
> >>>>>>> >> Powered by www.kitware.com <http://www.kitware.com/>
> >>>>>>> >>
> >>>>>>> >> Visit other Kitware open-source projects at
> >>>>>>> >> http://www.kitware.com/opensource/opensource.html <http://www.kitware.com/opensource/opensource.html>
> >>>>>>> >>
> >>>>>>> >> Kitware offers ITK Training Courses, for more information visit:
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> >>>>>>> >>
> >>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
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> >>>>>>> > _____________________________________
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> >>>>>>> >
> >>>>>>> > Visit other Kitware open-source projects at
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> >>>>>>> >
> >>>>>>> >
> >>>>>>>
> >>>>>>>
> >>>>>>>
> >>>>>>>
> >>>>>>> --
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> >>>>>>> Sent from the ITK Insight Users mailing list archive at Nabble.com.
> >>>>>>> _____________________________________
> >>>>>>> Powered by www.kitware.com <http://www.kitware.com/>
> >>>>>>>
> >>>>>>> Visit other Kitware open-source projects at
> >>>>>>> http://www.kitware.com/opensource/opensource.html <http://www.kitware.com/opensource/opensource.html>
> >>>>>>>
> >>>>>>> Kitware offers ITK Training Courses, for more information visit:
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> >>>>>>>
> >>>>>>> Please keep messages on-topic and check the ITK FAQ at:
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> >>>>>>
> >>>>>> _____________________________________
> >>>>>> Powered by www.kitware.com <http://www.kitware.com/>
> >>>>>>
> >>>>>> Visit other Kitware open-source projects at
> >>>>>> http://www.kitware.com/opensource/opensource.html <http://www.kitware.com/opensource/opensource.html>
> >>>>>>
> >>>>>> Kitware offers ITK Training Courses, for more information visit:
> >>>>>> http://www.kitware.com/products/protraining.php <http://www.kitware.com/products/protraining.php>
> >>>>>>
> >>>>>> Please keep messages on-topic and check the ITK FAQ at:
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> >>>>>> http://public.kitware.com/mailman/listinfo/insight-users <http://public.kitware.com/mailman/listinfo/insight-users>
> >>>>>>
> >>>>>>
> >>>>>>
> >>>>
> >>>
> >>
> >> _____________________________________
> >> Powered by www.kitware.com <http://www.kitware.com/>
> >>
> >> Visit other Kitware open-source projects at
> >> http://www.kitware.com/opensource/opensource.html <http://www.kitware.com/opensource/opensource.html>
> >>
> >> Kitware offers ITK Training Courses, for more information visit:
> >> http://www.kitware.com/products/protraining.php <http://www.kitware.com/products/protraining.php>
> >>
> >> Please keep messages on-topic and check the ITK FAQ at:
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> >>
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> >>
> >>
> >
> > _____________________________________
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> >
> > Visit other Kitware open-source projects at
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> >
> > Kitware offers ITK Training Courses, for more information visit:
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> >
> > Please keep messages on-topic and check the ITK FAQ at:
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> >
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From davis.vigneault at gmail.com  Wed Feb 17 07:37:58 2016
From: davis.vigneault at gmail.com (DVigneault)
Date: Wed, 17 Feb 2016 05:37:58 -0700 (MST)
Subject: [ITK-users] Pulling VNL function into ITK?
Message-ID: <1455712678409-7588506.post@n2.nabble.com>

All--

There is a function called "double angle_minuspi_to_pi(double angle);" in
Insight's vxl branch [1], which hasn't yet made it into the ITK source tree
[2].  It looks like this is the commit where the function was added [3]. 
Would it be possible to pull this into ITK?

Best, and thanks,

--Davis

[1]
https://github.com/InsightSoftwareConsortium/vxl/blob/master/core/vnl/vnl_math.h
[2]
https://github.com/InsightSoftwareConsortium/ITK/blob/master/Modules/ThirdParty/VNL/src/vxl/core/vnl/vnl_math.h
[3]
https://github.com/InsightSoftwareConsortium/vxl/commit/47460747604cb4058b53d831c3e73da6fa0d7835



--
View this message in context: http://itk-insight-users.2283740.n2.nabble.com/Pulling-VNL-function-into-ITK-tp7588506.html
Sent from the ITK Insight Users mailing list archive at Nabble.com.

From matt.mccormick at kitware.com  Wed Feb 17 10:39:23 2016
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Wed, 17 Feb 2016 10:39:23 -0500
Subject: [ITK-users] Pulling VNL function into ITK?
In-Reply-To: <1455712678409-7588506.post@n2.nabble.com>
References: <1455712678409-7588506.post@n2.nabble.com>
Message-ID: <CALzTN-SHYNShnbzmOHLobyh1Guk8uV-gUSUUpbVAhRRYPN2UOA@mail.gmail.com>

Hi Davis,

Hans lead some amazing work at updating VNL recently in preparation of
a major update for ITK recently. This will enable maintenance and
evolution of VNL in ITK.

@Hans, is it a good time to pull the trigger and do the initial subtree merge?

Thanks,
Matt

On Wed, Feb 17, 2016 at 7:37 AM, DVigneault <davis.vigneault at gmail.com> wrote:
> All--
>
> There is a function called "double angle_minuspi_to_pi(double angle);" in
> Insight's vxl branch [1], which hasn't yet made it into the ITK source tree
> [2].  It looks like this is the commit where the function was added [3].
> Would it be possible to pull this into ITK?
>
> Best, and thanks,
>
> --Davis
>
> [1]
> https://github.com/InsightSoftwareConsortium/vxl/blob/master/core/vnl/vnl_math.h
> [2]
> https://github.com/InsightSoftwareConsortium/ITK/blob/master/Modules/ThirdParty/VNL/src/vxl/core/vnl/vnl_math.h
> [3]
> https://github.com/InsightSoftwareConsortium/vxl/commit/47460747604cb4058b53d831c3e73da6fa0d7835
>
>
>
> --
> View this message in context: http://itk-insight-users.2283740.n2.nabble.com/Pulling-VNL-function-into-ITK-tp7588506.html
> Sent from the ITK Insight Users mailing list archive at Nabble.com.
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users

From kolin9105 at gmail.com  Wed Feb 17 10:46:25 2016
From: kolin9105 at gmail.com (meikolin saimara)
Date: Wed, 17 Feb 2016 22:46:25 +0700
Subject: [ITK-users] (no subject)
Message-ID: <CAEiw7u5zdhzLK8arMnSDWUv2qHNhhFyqU8hZLrf04Qsy0mcN_w@mail.gmail.com>

hello guys, anyone can help me??
I need a program in itk how to apply a number of black pixel value on
image  in cmd. when we input this image in cmd(command promt) and then the
output is a number of black pixel value.
pleas help me.
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From hans-johnson at uiowa.edu  Wed Feb 17 10:54:37 2016
From: hans-johnson at uiowa.edu (Johnson, Hans J)
Date: Wed, 17 Feb 2016 15:54:37 +0000
Subject: [ITK-users] Pulling VNL function into ITK?
In-Reply-To: <CALzTN-SHYNShnbzmOHLobyh1Guk8uV-gUSUUpbVAhRRYPN2UOA@mail.gmail.com>
References: <1455712678409-7588506.post@n2.nabble.com>
 <CALzTN-SHYNShnbzmOHLobyh1Guk8uV-gUSUUpbVAhRRYPN2UOA@mail.gmail.com>
Message-ID: <B67AB524-A808-4C95-9D0D-69E90DD0CD32@uiowa.edu>

Matt,

I have been doing sub-tree merges in private branches, identifying custimizations for VXL in the ITK environmnet, and then making changes in the VXL tree so that there is no need for customizations.

I am hoping to make another pass this weekend and then, hopefully, quit working on VXL for a while.

Alexander Leinoff has been working through clang static analysis and valgrind analysis trying to clean up compiler warnings and errors.

I am mostly concerned about library linking, library installation, and library naming through the ITK install directory right now.  It seems that the ITK version of VXL had many customizations to get VXL installed so that external projects could link against them.

This issue is one that really scares me:  https://github.com/vxl/vxl/issues/127
I?m not quite sure how to attack modernizing this in such a way that it is compatible with ITK ask well.

Hans
-- 








On 2/17/16, 9:39 AM, "Matt McCormick" <matt.mccormick at kitware.com> wrote:

>Hi Davis,
>
>Hans lead some amazing work at updating VNL recently in preparation of
>a major update for ITK recently. This will enable maintenance and
>evolution of VNL in ITK.
>
>@Hans, is it a good time to pull the trigger and do the initial subtree merge?
>
>Thanks,
>Matt
>
>On Wed, Feb 17, 2016 at 7:37 AM, DVigneault <davis.vigneault at gmail.com> wrote:
>> All--
>>
>> There is a function called "double angle_minuspi_to_pi(double angle);" in
>> Insight's vxl branch [1], which hasn't yet made it into the ITK source tree
>> [2].  It looks like this is the commit where the function was added [3].
>> Would it be possible to pull this into ITK?
>>
>> Best, and thanks,
>>
>> --Davis
>>
>> [1]
>> https://github.com/InsightSoftwareConsortium/vxl/blob/master/core/vnl/vnl_math.h
>> [2]
>> https://github.com/InsightSoftwareConsortium/ITK/blob/master/Modules/ThirdParty/VNL/src/vxl/core/vnl/vnl_math.h
>> [3]
>> https://github.com/InsightSoftwareConsortium/vxl/commit/47460747604cb4058b53d831c3e73da6fa0d7835
>>
>>
>>
>> --
>> View this message in context: http://itk-insight-users.2283740.n2.nabble.com/Pulling-VNL-function-into-ITK-tp7588506.html
>> Sent from the ITK Insight Users mailing list archive at Nabble.com.
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://www.kitware.com/products/protraining.php
>>
>> Please keep messages on-topic and check the ITK FAQ at:
>> http://www.itk.org/Wiki/ITK_FAQ
>>
>> Follow this link to subscribe/unsubscribe:
>> http://public.kitware.com/mailman/listinfo/insight-users

From jmatuteflores at gmail.com  Wed Feb 17 11:42:14 2016
From: jmatuteflores at gmail.com (jose alejandro matute flores)
Date: Wed, 17 Feb 2016 17:42:14 +0100
Subject: [ITK-users] (no subject)
In-Reply-To: <CAEiw7u5zdhzLK8arMnSDWUv2qHNhhFyqU8hZLrf04Qsy0mcN_w@mail.gmail.com>
References: <CAEiw7u5zdhzLK8arMnSDWUv2qHNhhFyqU8hZLrf04Qsy0mcN_w@mail.gmail.com>
Message-ID: <CAG55EegxmHgz1erKQSYWAikW7Xd0NY5UGGx+yj+TjnegJCbrng@mail.gmail.com>

Hi,

Take a look at using a histogram  [1] or simply iterate throughout the
image using fx. a const iterator [2] and aggregate whenever you find the
desired pixel value.

[1]
http://itk.org/Wiki/ITK/Examples/Statistics/HistogramToImageFilterGrayscale
[2] http://www.itk.org/Doxygen/html/classitk_1_1ImageConstIterator.html

Best,
Jose

On Wed, Feb 17, 2016 at 4:46 PM, meikolin saimara <kolin9105 at gmail.com>
wrote:

> hello guys, anyone can help me??
> I need a program in itk how to apply a number of black pixel value on
> image  in cmd. when we input this image in cmd(command promt) and then the
> output is a number of black pixel value.
> pleas help me.
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
>
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From franciscolopezdelafranca at gmail.com  Thu Feb 18 06:37:10 2016
From: franciscolopezdelafranca at gmail.com (Francisco Lopez de la Franca)
Date: Thu, 18 Feb 2016 12:37:10 +0100
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <3F877AC4-BCD1-43FF-B8B3-7B30F9B6D30B@mail.nih.gov>
References: <CAJqi3E+eNQxJBbrUt-ReAPNqF+xZOLMFZa_KB_v9tDdbF1SNog@mail.gmail.com>
 <CAJqi3ELNovYUpgJ=cFStA2gq-ix1UiaY-4YvZTJ327OQ8LGn9w@mail.gmail.com>
 <CAJqi3EJMqTscSxNdOn58Yz2NazfdSdcrTgOY6hRYAK3Z=3-Asw@mail.gmail.com>
 <CAPf2UMTwwE=7eLsCjNZpnWHTemQ3Kpi3waGA0p9tDkcWoU2aZQ@mail.gmail.com>
 <CAJqi3EJ6gSjPxVG9tNguYNHf0pCatepBv3w-4sTtKOnRig_4vA@mail.gmail.com>
 <CAPf2UMQdSHRVYWReSZ+i+=E4igTyUD91ysoqA48DB-O8R3EUTw@mail.gmail.com>
 <CAJqi3EJU6L=R=KUyFvHvLg2w0m=MYQpuWTODcP=W4TiKZXE2eA@mail.gmail.com>
 <CAPf2UMSs-q8_s=5k6KcX48zjEsyKWQ-RzJ3O0ik1ihFcHcp+vg@mail.gmail.com>
 <CAJqi3E+ghXk2AaMYF_eb2_6ZsxJPNYWtFqHaQkKxjJXWuGTEOw@mail.gmail.com>
 <CAPf2UMR=TyVatKidw8Z_OcxUQ82JVXQnx8QcK73X3fsC+E2j1A@mail.gmail.com>
 <3F877AC4-BCD1-43FF-B8B3-7B30F9B6D30B@mail.nih.gov>
Message-ID: <CAJqi3EKcF8T1goR3UTHiBS4br3NqAR7Z9HQqGaKYGJs21_XByA@mail.gmail.com>

Hi again,
I've got ITK version 4.5.1 (a little bit old, I know), and after making the
changes suggested by Dzenanz and recompiling ITK, the problem continues,
that is, my code crashes at the same point.

Then, I've downloaded the latest stable ITK version, ITK 4.9.0 and compiled
from scratch and I get the following error:

[ 98%] Building CXX object
Modules/IO/TransformBase/src/CMakeFiles/ITKIOTransformBase.dir/itkTransformFactoryBase.cxx.obj
C:/MINGW/mingw64/bin/../lib/gcc/x86_64-w64-mingw32/4.8.2/../../../../x86_64-w64-mingw32/bin/as.exe:
CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: too many
sections (33106)
C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Assembler messages:
C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Fatal error: can't write
CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: File too
big

After doing some "googling" and follow some of the instructions referred on
the web, I've been unable to solve this.
Has anyone met this problem and solved it?
Thanks.
KR.
/Francisco

2016-02-16 22:13 GMT+01:00 Bradley Lowekamp [via ITK Insight Users] <
ml-node+s2283740n7588505h90 at n2.nabble.com>:

> Hello,
>
> Please take a look at these changes:
>
> https://github.com/blowekamp/itkTextureAnalysis/commit/9654d74ea1d09f0677f1d1b93242cc94340591bf
>
> Brad
>
> On Feb 16, 2016, at 10:35 AM, D?enan Zuki? <[hidden email]
> <http:///user/SendEmail.jtp?type=node&node=7588505&i=0>> wrote:
>
> I have set up a project using one of the tests from Brad's repository
> (attached), and it works in debug mode both with his original code and with
> your modified class, and crashes in release mode both with his original
> code and with your modified class. I will now compile ITK in RelWithDebInfo
> in an attempt to figure out where is the crash occurring.
>
> Regards,
> D?enan
>
> On Tue, Feb 16, 2016 at 1:52 AM, Francisco Lopez de la Franca <[hidden
> email] <http:///user/SendEmail.jtp?type=node&node=7588505&i=1>> wrote:
>
>> Excuse me Dzenanz, but that's not completely true, because I've tested
>> Brad's class and it works right.
>> The problem seems to be that when you add a new neighbor iterator to
>> include just the mask points in the "histogram" then it is when the
>> application crashes, and I donot understand why.
>> If you just comment the 'maskIter' references you'll see that the
>> application works.
>> I've created a single threaded class based on the Brad's code and it
>> works but it is twice slower, that is why I'm interesting on Brad's class
>> (multi-threaded) to make it work.
>>
>>
>> 2016-02-15 17:15 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>> email] <http:///user/SendEmail.jtp?type=node&node=7588505&i=2>>:
>>
>>> Hi Francisco,
>>>
>>> both your code and Brad's code run in debug mode (I did not wait for the
>>> end), and both crash in release mode immediately on startup. Here is a
>>> sample output:
>>>
>>> Progress input: 0000000002868970
>>> input: 0000000002868970
>>> _maskImage: 0000000002868970
>>> _maskImage: 0000000002868970
>>> input: 0000000002868970
>>> _maskImage: 0000000002868970
>>> iter.first: iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>> [-5, -5, -5] iter.second: [-4, -5, -5]
>>> niter index: [5, 5, 210]
>>> niter index: [5, 5, 140]
>>> maskIter index: [5, 5, 140]
>>> maskIter index: [5, 5, 210]
>>> Before p3
>>> input: 0000000002868970
>>> _maskImage: 0000000002868970
>>> After p3:  | 0niter index: [5, 5, 70]
>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>> niter index: [5, 5, 5]
>>> ?
>>> maskIter index: [5, 5, 70]
>>> After p4: ?
>>> Before p3
>>> Before p3
>>> After p3: ?iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>> niter index: [5, 5, 140]
>>> maskIter index: [5, 5, 140]
>>> maskIter index: [5, 5, 5]
>>> Before p3
>>> After p3: ?
>>> After p3: ?
>>> After p4: ?
>>> After p4: ?
>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>> niter index: [5, 5, 5]
>>> maskIter index: [5, 5, 5]
>>>
>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>> Before p3
>>> Before p3
>>> After p4: ?
>>> After p3: ?
>>> After p4: ?
>>>
>>> Regards,
>>> D?enan
>>>
>>> On Mon, Feb 15, 2016 at 1:36 AM, Francisco Lopez de la Franca <[hidden
>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=0>> wrote:
>>>
>>>> Hi,
>>>> Here they are.
>>>> KR.
>>>>
>>>> 2016-02-12 16:22 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=1>>:
>>>>
>>>>> Hi Francisco,
>>>>>
>>>>> do you mind attaching the modified files or pointing to your fork of
>>>>> it on GitHub?
>>>>>
>>>>> Regards
>>>>>
>>>>> On Thu, Feb 11, 2016 at 12:08 PM, Francisco L?pez-Franca <[hidden
>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588490&i=0>> wrote:
>>>>>
>>>>>> Hi Dzenan,
>>>>>> The original class is here:
>>>>>>
>>>>>>
>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h
>>>>>>
>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx
>>>>>>
>>>>>> I've just added setInput and setMaskImage methods and modify some
>>>>>> lines in
>>>>>> the original class as I indicated in the yesterday mail within this
>>>>>> thread.
>>>>>> I'm running it on Windows, and there is no error at all, just a
>>>>>> crash. I
>>>>>> may have to include exceptions management.
>>>>>> The crash occurs just when calling p3 = maskIter.GetPixel(iter->first)
>>>>>>
>>>>>> If you know why it could be or if you need more clarification, please
>>>>>> let
>>>>>> me know.
>>>>>> Many thanks
>>>>>>
>>>>>> 2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
>>>>>> [hidden email] <http://user/SendEmail.jtp?type=node&node=7588490&i=1>
>>>>>> >:
>>>>>>
>>>>>> > Hi Francisco,
>>>>>> >
>>>>>> > "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the error
>>>>>> message
>>>>>> > that goes along with the crash? In which file and line does it
>>>>>> crash?
>>>>>> >
>>>>>> > Regards
>>>>>> >
>>>>>> > On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca
>>>>>> <[hidden
>>>>>> > email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0>>
>>>>>> wrote:
>>>>>> >
>>>>>> >> Hi,
>>>>>> >> Please, someone that could help me. I'm working in a pre-doctorate
>>>>>> >> project and I need this class to work.
>>>>>> >> I've read the chapter 13 in the ITK Software Guide on how to write
>>>>>> a
>>>>>> >> filter and now I see the fact of the threads due to inheritance of
>>>>>> >> ImageToImageFilter.
>>>>>> >> But, I keep on without understanding why the code crashes just when
>>>>>> >> calling
>>>>>> >> *const PixelType p3 = maskIter.GetPixel(iter->first);*
>>>>>> >> It is just a call to read data, not to write.
>>>>>> >>
>>>>>> >> I guess somebody that had worked with creation of filters might see
>>>>>> >> "easily" the problem, but not me.
>>>>>> >>
>>>>>> >> So, again, please, I need someone to help me with this because I'm
>>>>>> stuck
>>>>>> >> on this point.
>>>>>> >>
>>>>>> >> Thank you very much.
>>>>>> >> KR.
>>>>>> >> /Francisco
>>>>>> >>
>>>>>> >> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca <[hidden
>>>>>> email]
>>>>>> >> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1>>:
>>>>>> >>
>>>>>> >>> Hi Bradley again.
>>>>>> >>> I'm modifying your class in order to be able to set a mask image
>>>>>> (a
>>>>>> >>> binary image) to be used as a limit in the histogram
>>>>>> calculations, I mean,
>>>>>> >>> I set an input, a mask and the class should take into account to
>>>>>> calculate
>>>>>> >>> the histograms only the voxels that belong to the input and to
>>>>>> the mask
>>>>>> >>> image and having the value 1 in the mask image.
>>>>>> >>> The changes seem to be easy but I don?t know why my tests are not
>>>>>> >>> working. It seems that 2 threads are working at the same time and
>>>>>> when I
>>>>>> >>> added my mask iterator, the code crashes.
>>>>>> >>>
>>>>>> >>> *** Consider that the input and mask images are the same origin,
>>>>>> spacing
>>>>>> >>> and size.
>>>>>> >>>
>>>>>> >>> I attach the main changes I've done, and I would thank you a lot
>>>>>> if you
>>>>>> >>> don't mind having a look and help me to find what I'm doing wrong:
>>>>>> >>>
>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>> >>> void
>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>> >::*SetInput*(InputImageType
>>>>>> >>> *image)
>>>>>> >>> {
>>>>>> >>>   // Process object is not const-correct so the const_cast is
>>>>>> required
>>>>>> >>> here
>>>>>> >>>   this->ProcessObject::SetNthInput( 0,
>>>>>> >>>                                     const_cast< InputImageType *
>>>>>> >(
>>>>>> >>> image ) );
>>>>>> >>> }
>>>>>> >>>
>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>> >>> void
>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>> >::*SetMaskImage*(InputImageType
>>>>>> >>> *image)
>>>>>> >>> {
>>>>>> >>>   // Process object is not const-correct so the const_cast is
>>>>>> required
>>>>>> >>> here
>>>>>> >>>   this->ProcessObject::SetNthInput( 1, const_cast< InputImageType
>>>>>> * >(
>>>>>> >>> image ) );
>>>>>> >>>
>>>>>> >>>   _maskImage = image; // _maskImage is a private member
>>>>>> >>> }
>>>>>> >>>
>>>>>> >>> In the *ThreadedGenerateData*(const RegionType&
>>>>>> outputRegionForThread,
>>>>>> >>> ThreadIdType threadId ) method:
>>>>>> >>> {
>>>>>> >>>
>>>>>> >>> ...
>>>>>> >>>
>>>>>> >>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
>>>>>> >>>     {
>>>>>> >>>     NeighborhoodIteratorType nIter( radius, input, *fit );
>>>>>> >>>     *NeighborhoodIteratorType maskIter( radius, _maskImage,
>>>>>> *fit);*
>>>>>> >>>     OutputIterator           outIter(output, *fit);
>>>>>> >>>
>>>>>> >>>     OutputPixelType out;
>>>>>> >>>     NumericTraits<OutputPixelType>::SetLength( out,
>>>>>> >>> this->GetNumberOfOutputComponents() );
>>>>>> >>>
>>>>>> >>>     while( !nIter.IsAtEnd() )
>>>>>> >>>       {
>>>>>> >>>       this->FillHistogram( *histogram, nIter, *maskIter *);
>>>>>> >>>
>>>>>> >>>       ...
>>>>>> >>>
>>>>>> >>>       ++nIter;
>>>>>> >>>       ++outIter;
>>>>>> >>>      * ++maskIter;*
>>>>>> >>>     ...
>>>>>> >>>
>>>>>> >>> In the *FillHistogram *method:
>>>>>> >>> {
>>>>>> >>>
>>>>>> >>> ...
>>>>>> >>>
>>>>>> >>>   while( iter != m_CooccurenceOffsetVector.end() )
>>>>>> >>>     {
>>>>>> >>>
>>>>>> >>>     const PixelType p1 = niter.GetPixel(iter->first);
>>>>>> >>>     const PixelType p2 = niter.GetPixel(iter->second);
>>>>>> >>>     std::cout << "Before p3" << std::endl;
>>>>>> >>>
>>>>>> >>> *    const PixelType p3 = maskIter.GetPixel(iter->first);
>>>>>> *std::cout
>>>>>> >>> << "After p3: " << p3 << std::endl;
>>>>>> >>>
>>>>>> >>> *    const PixelType p4 = maskIter.GetPixel(iter->second);   *
>>>>>> >>> std::cout << "After p4: " << p4 << std::endl;
>>>>>> >>>
>>>>>> >>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <=
>>>>>> m_Max
>>>>>> >>>             *&& p3 == _insidePixelValue && p4 ==
>>>>>> _insidePixelValue* )
>>>>>> >>> // The point
>>>>>> >>>       {
>>>>>> >>>
>>>>>> >>> ...
>>>>>> >>>
>>>>>> >>>
>>>>>> >>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>>>>>> >>>
>>>>>> >>> Thank you so much.
>>>>>> >>> My kind regards.
>>>>>> >>> /Paco
>>>>>> >>>
>>>>>> >>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca <[hidden
>>>>>> email]
>>>>>> >>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2>>:
>>>>>> >>>
>>>>>> >>>> Hello Bradley again.
>>>>>> >>>> Sorry but I'd like to re-open this issue because I need your
>>>>>> class but
>>>>>> >>>> with some modification.
>>>>>> >>>> I pass to tell you.
>>>>>> >>>>
>>>>>> >>>> As my tests with your external class were not good taking into
>>>>>> account
>>>>>> >>>> the performance, I wonder if you could create a variant of it,
>>>>>> but in which
>>>>>> >>>> I can set a mask image and your class just return the
>>>>>> VectorImage with all
>>>>>> >>>> the features for that region (the masked locations) as
>>>>>> >>>> itk::ScalarImageToTextureFeaturesFilter class does.
>>>>>> >>>> I mean, to get the vector image with all the features but just
>>>>>> >>>> calculate it for the regions belonging to the mask image.
>>>>>> Positions not
>>>>>> >>>> belonging to the mask region could have a pixel value of 0, for
>>>>>> instance.
>>>>>> >>>>
>>>>>> >>>> I don?t know if it is very costly for you,  but I would thank
>>>>>> you so
>>>>>> >>>> much. Otherwise, I could try it but I'd need your suggestions on
>>>>>> how to do
>>>>>> >>>> it.
>>>>>> >>>>
>>>>>> >>>> Thanks a lot.
>>>>>> >>>> Best regards.
>>>>>> >>>>
>>>>>> >>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca <[hidden
>>>>>> email]
>>>>>> >>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3>>:
>>>>>> >>>>
>>>>>> >>>>> Hello Bradley again,
>>>>>> >>>>> I would like to ask you for a couple of favours. In the one
>>>>>> hand,
>>>>>> >>>>> could you please send me your 3D image so that I can test on
>>>>>> it? And on the
>>>>>> >>>>> other hand, could you test the example I have referenced in the
>>>>>> previous
>>>>>> >>>>> email with your image, not changing anything in the code, such
>>>>>> as it is,
>>>>>> >>>>> and tell me if the execution time is normal?
>>>>>> >>>>> Thank you very much.
>>>>>> >>>>> Regards,
>>>>>> >>>>> /Francisco
>>>>>> >>>>>
>>>>>> >>>>> PS: All my application trace is printed via standard 'cout'
>>>>>> command,
>>>>>> >>>>> not due to a debugging compilation mode.
>>>>>> >>>>>
>>>>>> >>>>>
>>>>>> >>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp
>>>>>> <[hidden
>>>>>> >>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=4>>
>>>>>> >>>>> escribi?:
>>>>>> >>>>>
>>>>>> >>>>>> Hello,
>>>>>> >>>>>>
>>>>>> >>>>>> Did you compile TextureFeatureImage in Release mode?
>>>>>> >>>>>>
>>>>>> >>>>>> 1) The filter does not scale well with a large radius. And
>>>>>> given by
>>>>>> >>>>>> your initial report of print a very large number of offset
>>>>>> you, it sounds
>>>>>> >>>>>> like you are using a large radius with many offsets. I created
>>>>>> a
>>>>>> >>>>>> 224x224x300 unsigned short image and ran with the default
>>>>>> offset and a
>>>>>> >>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this
>>>>>> filter is was ~10x
>>>>>> >>>>>> faster than this example... things change though...
>>>>>> >>>>>>
>>>>>> >>>>>>
>>>>>> >>>>>> 2) I sounds like the boundaries/limits of the histogram may be
>>>>>> >>>>>> clipping you values. I would inspect the co-occurance matrix.
>>>>>> >>>>>>
>>>>>> >>>>>>
>>>>>> >>>>>> HTH,
>>>>>> >>>>>> Brad
>>>>>> >>>>>>
>>>>>> >>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca
>>>>>> <[hidden
>>>>>> >>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=5
>>>>>> >>
>>>>>> >>>>>> wrote:
>>>>>> >>>>>>
>>>>>> >>>>>> I've tested with itkTextureFeatureImageFilter, with
>>>>>> >>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>>>>>> >>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures
>>>>>> example,
>>>>>> >>>>>> for a 3D image and here are my comments:
>>>>>> >>>>>>
>>>>>> >>>>>>
>>>>>> >>>>>> 1. I had to interrupt the test after several hours and it kept
>>>>>> on
>>>>>> >>>>>> calculating. And this is for only a 3D image (224x224x300). I
>>>>>> need to
>>>>>> >>>>>> process around 35 images.
>>>>>> >>>>>> 2. The result (texture features: entropy, energy, correlation,
>>>>>> LH,
>>>>>> >>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0,
>>>>>> 7.83083e+247].
>>>>>> >>>>>> These values were not what I expected based on my experience
>>>>>> on another
>>>>>> >>>>>> application I developed, but in that case, I calculated the
>>>>>> texture
>>>>>> >>>>>> features for an image as a whole, not voxel by voxel.
>>>>>> >>>>>>
>>>>>> >>>>>> Regards.
>>>>>> >>>>>>
>>>>>> >>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
>>>>>> >>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6>>:
>>>>>> >>>>>>
>>>>>> >>>>>>> i yes i have tried radius = 3;
>>>>>> >>>>>>> still no luck
>>>>>> >>>>>>>
>>>>>> >>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca [via
>>>>>> ITK
>>>>>> >>>>>>> Insight
>>>>>> >>>>>>> Users] <[hidden email]
>>>>>> >>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7>>
>>>>>> wrote:
>>>>>> >>>>>>>
>>>>>> >>>>>>> > Have you tried with a radius of 3 instead of 1?
>>>>>> >>>>>>> >
>>>>>> >>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>>>>>> >>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
>>>>>> >>>>>>> >
>>>>>> >>>>>>> >> hey Matt,
>>>>>> >>>>>>> >> thanks for ur advice.. it did build successfully... but im
>>>>>> not
>>>>>> >>>>>>> able to run
>>>>>> >>>>>>> >> the code for 2D png image... i tried to change the
>>>>>> dimension to 2
>>>>>> >>>>>>> and
>>>>>> >>>>>>> >> build
>>>>>> >>>>>>> >> it which it did.. but when i run the code using the command
>>>>>> >>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png
>>>>>> putput.png
>>>>>> >>>>>>> 1... i see
>>>>>> >>>>>>> >> this output
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >> offset: [-1, -1] [0, -1]
>>>>>> >>>>>>> >> offset: [0, -1] [1, -1]
>>>>>> >>>>>>> >> offset: [-1, 0] [0, 0]
>>>>>> >>>>>>> >> offset: [0, 0] [1, 0]
>>>>>> >>>>>>> >> offset: [-1, 1] [0, 1]
>>>>>> >>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the program...
>>>>>> if pls
>>>>>> >>>>>>> tel me
>>>>>> >>>>>>> >> how can i modify this code to work wid 2d image... forgive
>>>>>> me if
>>>>>> >>>>>>> my ques
>>>>>> >>>>>>> >> are really silly im trying to learn something..
>>>>>> >>>>>>> >> regards
>>>>>> >>>>>>> >> Vis
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via ITK
>>>>>> >>>>>>> Insight Users]
>>>>>> >>>>>>> >> <
>>>>>> >>>>>>> >> [hidden email] <
>>>>>> >>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
>>>>>> >>>>>>> >> wrote:
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >> > Hi,
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > The function:
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char
>>>>>> *argv[])
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > must be renamed to
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> >   main(int argc, char* argv[])
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > HTH,
>>>>>> >>>>>>> >> > Matt
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>>>>>> >>>>>>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>>
>>>>>> wrote:
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > > hi all,
>>>>>> >>>>>>> >> > > im trying to build the
>>>>>> itkTextureFeatureImageFilterTest.cxx
>>>>>> >>>>>>> code but
>>>>>> >>>>>>> >> im
>>>>>> >>>>>>> >> > not
>>>>>> >>>>>>> >> > > able to it is showing the following error
>>>>>> >>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>>>>>> >>>>>>> Configuration:
>>>>>> >>>>>>> >> Debug
>>>>>> >>>>>>> >> > x64
>>>>>> >>>>>>> >> > > ------
>>>>>> >>>>>>> >> > > 1>  Checking Build System
>>>>>> >>>>>>> >> > > 1>  CMake does not need to re-run because
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>>
>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>>>>>> >>>>>>> >> > is
>>>>>> >>>>>>> >> > > up-to-date.
>>>>>> >>>>>>> >> > > 2>------ Rebuild All started: Project:
>>>>>> >>>>>>> >> itkTextureFeatureImageFilterTest,
>>>>>> >>>>>>> >> > > Configuration: Debug x64 ------
>>>>>> >>>>>>> >> > > 2>  Building Custom Rule
>>>>>> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>> >>>>>>> >> > > 2>  CMake does not need to re-run because
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>>
>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>> >>>>>>> >> > is
>>>>>> >>>>>>> >> > > up-to-date.
>>>>>> >>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>>>>>> >>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>>>>>> >>>>>>> 'std::_Copy_impl':
>>>>>> >>>>>>> >> > Function
>>>>>> >>>>>>> >> > > call with parameters that may be unsafe - this call
>>>>>> relies on
>>>>>> >>>>>>> the
>>>>>> >>>>>>> >> caller
>>>>>> >>>>>>> >> > to
>>>>>> >>>>>>> >> > > check that the passed values are correct. To disable
>>>>>> this
>>>>>> >>>>>>> warning, use
>>>>>> >>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how to
>>>>>> use
>>>>>> >>>>>>> Visual C++
>>>>>> >>>>>>> >> > > 'Checked Iterators'
>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>> Studio
>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>> >>>>>>> >> > > 2>
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>>>>>> >>>>>>> >> > see
>>>>>> >>>>>>> >> > > reference to function template instantiation '_OutIt
>>>>>> >>>>>>> std::copy<const
>>>>>> >>>>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)'
>>>>>> being
>>>>>> >>>>>>> compiled
>>>>>> >>>>>>> >> > > 2>          with
>>>>>> >>>>>>> >> > > 2>          [
>>>>>> >>>>>>> >> > > 2>              _OutIt=unsigned char *,
>>>>>> >>>>>>> >> > > 2>              _InIt=const unsigned char *
>>>>>> >>>>>>> >> > > 2>          ]
>>>>>> >>>>>>> >> > > 2>
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>>>>>> >>>>>>> >> > > while compiling class template member function 'void
>>>>>> >>>>>>> >> > > itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>>>>>> >>>>>>> >> > > 2>          with
>>>>>> >>>>>>> >> > > 2>          [
>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>> >>>>>>> >> > > 2>          ]
>>>>>> >>>>>>> >> > > 2>
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > > : see reference to class template instantiation
>>>>>> >>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>>>>>> >>>>>>> >> > > 2>          with
>>>>>> >>>>>>> >> > > 2>          [
>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>> >>>>>>> >> > > 2>          ]
>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>> Studio
>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>> Studio
>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>> Studio
>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>> >>>>>>> >> > > 2>     Creating library
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > > and object
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved
>>>>>> >>>>>>> external symbol
>>>>>> >>>>>>> >> > main
>>>>>> >>>>>>> >> > > referenced in function __tmainCRTStartup
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>>>>>> >>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>>>>>> >>>>>>> Configuration: Debug
>>>>>> >>>>>>> >> > x64
>>>>>> >>>>>>> >> > > ------
>>>>>> >>>>>>> >> > > 3>  Building Custom Rule
>>>>>> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>> >>>>>>> >> > > 3>  CMake does not need to re-run because
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>>
>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>> >>>>>>> >> > is
>>>>>> >>>>>>> >> > > up-to-date.
>>>>>> >>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0
>>>>>> skipped
>>>>>> >>>>>>> ==========
>>>>>> >>>>>>> >> > > im using the follwing CMakeList.txt
>>>>>> >>>>>>> >> > > # This is the root ITK CMakeLists file.
>>>>>> >>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>>>>>> >>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>>>>>> >>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>>>>>> >>>>>>> >> > > endif()
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > # This project is designed to be built outside the
>>>>>> Insight
>>>>>> >>>>>>> source
>>>>>> >>>>>>> >> tree.
>>>>>> >>>>>>> >> > > project(HelloWorld)
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > # Find ITK.
>>>>>> >>>>>>> >> > > find_package(ITK REQUIRED)
>>>>>> >>>>>>> >> > > include(${ITK_USE_FILE})
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>>>>>> >>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > target_link_libraries(itkTextureFeatureImageFilterTest
>>>>>> >>>>>>> >> ${ITK_LIBRARIES})
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > please tel me wat the error is??
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > --
>>>>>> >>>>>>> >> > > View this message in context:
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>>>>>> >>>>>>> >> > > Sent from the ITK Insight Users mailing list archive at
>>>>>> >>>>>>> Nabble.com <http://nabble.com>.
>>>>>> >>>>>>> >> > > _____________________________________
>>>>>> >>>>>>> >> > > Powered by www.kitware.com
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > Visit other Kitware open-source projects at
>>>>>> >>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > Kitware offers ITK Training Courses, for more
>>>>>> information
>>>>>> >>>>>>> visit:
>>>>>> >>>>>>> >> > > http://www.kitware.com/products/protraining.php
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > Please keep messages on-topic and check the ITK FAQ at:
>>>>>> >>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > Follow this link to subscribe/unsubscribe:
>>>>>> >>>>>>> >> > >
>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >>>>>>> >> > _____________________________________
>>>>>> >>>>>>> >> > Powered by www.kitware.com
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > Visit other Kitware open-source projects at
>>>>>> >>>>>>> >> > http://www.kitware.com/opensource/opensource.html
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > Kitware offers ITK Training Courses, for more
>>>>>> information visit:
>>>>>> >>>>>>> >> > http://www.kitware.com/products/protraining.php
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>> >>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > Follow this link to subscribe/unsubscribe:
>>>>>> >>>>>>> >> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > ------------------------------
>>>>>> >>>>>>> >> > If you reply to this email, your message will be added
>>>>>> to the
>>>>>> >>>>>>> discussion
>>>>>> >>>>>>> >> > below:
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587952.html
>>>>>> >>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by pixel,
>>>>>> click
>>>>>> >>>>>>> here
>>>>>> >>>>>>> >> > < > .
>>>>>> >>>>>>> >> > NAML
>>>>>> >>>>>>> >> > <
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >> --
>>>>>> >>>>>>> >> View this message in context:
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>>>>>> >>>>>>> >> Sent from the ITK Insight Users mailing list archive at
>>>>>> >>>>>>> Nabble.com <http://nabble.com>.
>>>>>> >>>>>>> >> _____________________________________
>>>>>> >>>>>>> >> Powered by www.kitware.com
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >> Visit other Kitware open-source projects at
>>>>>> >>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >> Kitware offers ITK Training Courses, for more information
>>>>>> visit:
>>>>>> >>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> >>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>> >>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >
>>>>>> >>>>>>> >
>>>>>> >>>>>>> > _____________________________________
>>>>>> >>>>>>> > Powered by www.kitware.com
>>>>>> >>>>>>> >
>>>>>> >>>>>>> > Visit other Kitware open-source projects at
>>>>>> >>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>> >>>>>>> >
>>>>>> >>>>>>> > Kitware offers ITK Training Courses, for more information
>>>>>> visit:
>>>>>> >>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>> >>>>>>> >
>>>>>> >>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>> >>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >>>>>>> >
>>>>>> >>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>> >>>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >>>>>>> >
>>>>>> >>>>>>> >
>>>>>> >>>>>>> > ------------------------------
>>>>>> >>>>>>> > If you reply to this email, your message will be added to
>>>>>> the
>>>>>> >>>>>>> discussion
>>>>>> >>>>>>> > below:
>>>>>> >>>>>>> >
>>>>>> >>>>>>> >
>>>>>> >>>>>>>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587961.html
>>>>>> >>>>>>> > To unsubscribe from [ITK-users] Texture pixel by pixel,
>>>>>> click here
>>>>>> >>>>>>> > < > .
>>>>>> >>>>>>> > NAML
>>>>>> >>>>>>> > <
>>>>>> >>>>>>>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>> >>>>>>> >
>>>>>> >>>>>>> >
>>>>>> >>>>>>>
>>>>>> >>>>>>>
>>>>>> >>>>>>>
>>>>>> >>>>>>>
>>>>>> >>>>>>> --
>>>>>> >>>>>>> View this message in context:
>>>>>> >>>>>>>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
>>>>>> >>>>>>> Sent from the ITK Insight Users mailing list archive at
>>>>>> Nabble.com <http://nabble.com>.
>>>>>> >>>>>>> _____________________________________
>>>>>> >>>>>>> Powered by www.kitware.com
>>>>>> >>>>>>>
>>>>>> >>>>>>> Visit other Kitware open-source projects at
>>>>>> >>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>> >>>>>>>
>>>>>> >>>>>>> Kitware offers ITK Training Courses, for more information
>>>>>> visit:
>>>>>> >>>>>>> http://www.kitware.com/products/protraining.php
>>>>>> >>>>>>>
>>>>>> >>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> >>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >>>>>>>
>>>>>> >>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> >>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >>>>>>>
>>>>>> >>>>>>
>>>>>> >>>>>> _____________________________________
>>>>>> >>>>>> Powered by www.kitware.com
>>>>>> >>>>>>
>>>>>> >>>>>> Visit other Kitware open-source projects at
>>>>>> >>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>> >>>>>>
>>>>>> >>>>>> Kitware offers ITK Training Courses, for more information
>>>>>> visit:
>>>>>> >>>>>> http://www.kitware.com/products/protraining.php
>>>>>> >>>>>>
>>>>>> >>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> >>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >>>>>>
>>>>>> >>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> >>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >>>>>>
>>>>>> >>>>>>
>>>>>> >>>>>>
>>>>>> >>>>
>>>>>> >>>
>>>>>> >>
>>>>>> >> _____________________________________
>>>>>> >> Powered by www.kitware.com
>>>>>> >>
>>>>>> >> Visit other Kitware open-source projects at
>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>> >>
>>>>>> >> Kitware offers ITK Training Courses, for more information visit:
>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>> >>
>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >>
>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >>
>>>>>> >>
>>>>>> >
>>>>>> > _____________________________________
>>>>>> > Powered by www.kitware.com
>>>>>> >
>>>>>> > Visit other Kitware open-source projects at
>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>> >
>>>>>> > Kitware offers ITK Training Courses, for more information visit:
>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>> >
>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >
>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >
>>>>>> >
>>>>>> > ------------------------------
>>>>>> > If you reply to this email, your message will be added to the
>>>>>> discussion
>>>>>> > below:
>>>>>> >
>>>>>> >
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588477.html
>>>>>> > To start a new topic under ITK Insight Users, email
>>>>>> > [hidden email]
>>>>>> <http://user/SendEmail.jtp?type=node&node=7588490&i=2>
>>>>>> > To unsubscribe from ITK Insight Users, click here
>>>>>> > < > .
>>>>>> > NAML
>>>>>> > <
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>> >
>>>>>> >
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>> --
>>>>>> View this message in context:
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588483.html
>>>>>> Sent from the ITK Insight Users mailing list archive at Nabble.com
>>>>>> <http://nabble.com>.
>>>>>> _____________________________________
>>>>>> Powered by www.kitware.com
>>>>>>
>>>>>> Visit other Kitware open-source projects at
>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>
>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>
>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>
>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>
>>>>>
>>>>>
>>>>> _____________________________________
>>>>> Powered by www.kitware.com
>>>>>
>>>>> Visit other Kitware open-source projects at
>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>
>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>> http://www.kitware.com/products/protraining.php
>>>>>
>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>
>>>>> Follow this link to subscribe/unsubscribe:
>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>
>>>>>
>>>>> ------------------------------
>>>>> If you reply to this email, your message will be added to the
>>>>> discussion below:
>>>>>
>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588490.html
>>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>>> <http://user/SendEmail.jtp?type=node&node=7588495&i=2>
>>>>> To unsubscribe from ITK Insight Users, click here.
>>>>> NAML
>>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>>
>>>>
>>>>
>>>> _____________________________________
>>>> Powered by www.kitware.com
>>>>
>>>> Visit other Kitware open-source projects at
>>>> http://www.kitware.com/opensource/opensource.html
>>>>
>>>> Kitware offers ITK Training Courses, for more information visit:
>>>> http://www.kitware.com/products/protraining.php
>>>>
>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>
>>>> Follow this link to subscribe/unsubscribe:
>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>
>>>>
>>>
>>> _____________________________________
>>> Powered by www.kitware.com
>>>
>>> Visit other Kitware open-source projects at
>>> http://www.kitware.com/opensource/opensource.html
>>>
>>> Kitware offers ITK Training Courses, for more information visit:
>>> http://www.kitware.com/products/protraining.php
>>>
>>> Please keep messages on-topic and check the ITK FAQ at:
>>> http://www.itk.org/Wiki/ITK_FAQ
>>>
>>> Follow this link to subscribe/unsubscribe:
>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>
>>>
>>> ------------------------------
>>> If you reply to this email, your message will be added to the discussion
>>> below:
>>>
>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588495.html
>>> To start a new topic under ITK Insight Users, email [hidden email]
>>> <http:///user/SendEmail.jtp?type=node&node=7588505&i=3>
>>> To unsubscribe from ITK Insight Users, click here.
>>> NAML
>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>
>>
>>
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://www.kitware.com/products/protraining.php
>>
>> Please keep messages on-topic and check the ITK FAQ at:
>> http://www.itk.org/Wiki/ITK_FAQ
>>
>> Follow this link to subscribe/unsubscribe:
>> http://public.kitware.com/mailman/listinfo/insight-users
>>
>>
> <tester.cpp>_____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
>
> ------------------------------
> If you reply to this email, your message will be added to the discussion
> below:
>
> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588505.html
> To start a new topic under ITK Insight Users, email
> ml-node+s2283740n2283740h75 at n2.nabble.com
> To unsubscribe from ITK Insight Users, click here
> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=unsubscribe_by_code&node=2283740&code=ZnJhbmNpc2NvbG9wZXpkZWxhZnJhbmNhQGdtYWlsLmNvbXwyMjgzNzQwfC05OTI2MzcxNg==>
> .
> NAML
> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>
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From franciscolopezdelafranca at gmail.com  Thu Feb 18 06:37:23 2016
From: franciscolopezdelafranca at gmail.com (=?UTF-8?Q?Francisco_L=C3=B3pez-Franca?=)
Date: Thu, 18 Feb 2016 04:37:23 -0700 (MST)
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <3F877AC4-BCD1-43FF-B8B3-7B30F9B6D30B@mail.nih.gov>
References: <CAJqi3ELNovYUpgJ=cFStA2gq-ix1UiaY-4YvZTJ327OQ8LGn9w@mail.gmail.com>
 <CAJqi3EJMqTscSxNdOn58Yz2NazfdSdcrTgOY6hRYAK3Z=3-Asw@mail.gmail.com>
 <CAPf2UMTwwE=7eLsCjNZpnWHTemQ3Kpi3waGA0p9tDkcWoU2aZQ@mail.gmail.com>
 <CAJqi3EJ6gSjPxVG9tNguYNHf0pCatepBv3w-4sTtKOnRig_4vA@mail.gmail.com>
 <CAPf2UMQdSHRVYWReSZ+i+=E4igTyUD91ysoqA48DB-O8R3EUTw@mail.gmail.com>
 <CAJqi3EJU6L=R=KUyFvHvLg2w0m=MYQpuWTODcP=W4TiKZXE2eA@mail.gmail.com>
 <CAPf2UMSs-q8_s=5k6KcX48zjEsyKWQ-RzJ3O0ik1ihFcHcp+vg@mail.gmail.com>
 <CAJqi3E+ghXk2AaMYF_eb2_6ZsxJPNYWtFqHaQkKxjJXWuGTEOw@mail.gmail.com>
 <CAPf2UMR=TyVatKidw8Z_OcxUQ82JVXQnx8QcK73X3fsC+E2j1A@mail.gmail.com>
 <3F877AC4-BCD1-43FF-B8B3-7B30F9B6D30B@mail.nih.gov>
Message-ID: <CAJqi3EKcF8T1goR3UTHiBS4br3NqAR7Z9HQqGaKYGJs21_XByA@mail.gmail.com>

Hi again,
I've got ITK version 4.5.1 (a little bit old, I know), and after making the
changes suggested by Dzenanz and recompiling ITK, the problem continues,
that is, my code crashes at the same point.

Then, I've downloaded the latest stable ITK version, ITK 4.9.0 and compiled
from scratch and I get the following error:

[ 98%] Building CXX object
Modules/IO/TransformBase/src/CMakeFiles/ITKIOTransformBase.dir/itkTransformFactoryBase.cxx.obj
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big

After doing some "googling" and follow some of the instructions referred on
the web, I've been unable to solve this.
Has anyone met this problem and solved it?
Thanks.
KR.
/Francisco

2016-02-16 22:13 GMT+01:00 Bradley Lowekamp [via ITK Insight Users] <
ml-node+s2283740n7588505h90 at n2.nabble.com>:

> Hello,
>
> Please take a look at these changes:
>
> https://github.com/blowekamp/itkTextureAnalysis/commit/9654d74ea1d09f0677f1d1b93242cc94340591bf
>
> Brad
>
> On Feb 16, 2016, at 10:35 AM, D?enan Zuki? <[hidden email]
> <http:///user/SendEmail.jtp?type=node&node=7588505&i=0>> wrote:
>
> I have set up a project using one of the tests from Brad's repository
> (attached), and it works in debug mode both with his original code and with
> your modified class, and crashes in release mode both with his original
> code and with your modified class. I will now compile ITK in RelWithDebInfo
> in an attempt to figure out where is the crash occurring.
>
> Regards,
> D?enan
>
> On Tue, Feb 16, 2016 at 1:52 AM, Francisco Lopez de la Franca <[hidden
> email] <http:///user/SendEmail.jtp?type=node&node=7588505&i=1>> wrote:
>
>> Excuse me Dzenanz, but that's not completely true, because I've tested
>> Brad's class and it works right.
>> The problem seems to be that when you add a new neighbor iterator to
>> include just the mask points in the "histogram" then it is when the
>> application crashes, and I donot understand why.
>> If you just comment the 'maskIter' references you'll see that the
>> application works.
>> I've created a single threaded class based on the Brad's code and it
>> works but it is twice slower, that is why I'm interesting on Brad's class
>> (multi-threaded) to make it work.
>>
>>
>> 2016-02-15 17:15 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>> email] <http:///user/SendEmail.jtp?type=node&node=7588505&i=2>>:
>>
>>> Hi Francisco,
>>>
>>> both your code and Brad's code run in debug mode (I did not wait for the
>>> end), and both crash in release mode immediately on startup. Here is a
>>> sample output:
>>>
>>> Progress input: 0000000002868970
>>> input: 0000000002868970
>>> _maskImage: 0000000002868970
>>> _maskImage: 0000000002868970
>>> input: 0000000002868970
>>> _maskImage: 0000000002868970
>>> iter.first: iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>> [-5, -5, -5] iter.second: [-4, -5, -5]
>>> niter index: [5, 5, 210]
>>> niter index: [5, 5, 140]
>>> maskIter index: [5, 5, 140]
>>> maskIter index: [5, 5, 210]
>>> Before p3
>>> input: 0000000002868970
>>> _maskImage: 0000000002868970
>>> After p3:  | 0niter index: [5, 5, 70]
>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>> niter index: [5, 5, 5]
>>> ?
>>> maskIter index: [5, 5, 70]
>>> After p4: ?
>>> Before p3
>>> Before p3
>>> After p3: ?iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>> niter index: [5, 5, 140]
>>> maskIter index: [5, 5, 140]
>>> maskIter index: [5, 5, 5]
>>> Before p3
>>> After p3: ?
>>> After p3: ?
>>> After p4: ?
>>> After p4: ?
>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>> niter index: [5, 5, 5]
>>> maskIter index: [5, 5, 5]
>>>
>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>> Before p3
>>> Before p3
>>> After p4: ?
>>> After p3: ?
>>> After p4: ?
>>>
>>> Regards,
>>> D?enan
>>>
>>> On Mon, Feb 15, 2016 at 1:36 AM, Francisco Lopez de la Franca <[hidden
>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=0>> wrote:
>>>
>>>> Hi,
>>>> Here they are.
>>>> KR.
>>>>
>>>> 2016-02-12 16:22 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=1>>:
>>>>
>>>>> Hi Francisco,
>>>>>
>>>>> do you mind attaching the modified files or pointing to your fork of
>>>>> it on GitHub?
>>>>>
>>>>> Regards
>>>>>
>>>>> On Thu, Feb 11, 2016 at 12:08 PM, Francisco L?pez-Franca <[hidden
>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588490&i=0>> wrote:
>>>>>
>>>>>> Hi Dzenan,
>>>>>> The original class is here:
>>>>>>
>>>>>>
>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h
>>>>>>
>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx
>>>>>>
>>>>>> I've just added setInput and setMaskImage methods and modify some
>>>>>> lines in
>>>>>> the original class as I indicated in the yesterday mail within this
>>>>>> thread.
>>>>>> I'm running it on Windows, and there is no error at all, just a
>>>>>> crash. I
>>>>>> may have to include exceptions management.
>>>>>> The crash occurs just when calling p3 = maskIter.GetPixel(iter->first)
>>>>>>
>>>>>> If you know why it could be or if you need more clarification, please
>>>>>> let
>>>>>> me know.
>>>>>> Many thanks
>>>>>>
>>>>>> 2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
>>>>>> [hidden email] <http://user/SendEmail.jtp?type=node&node=7588490&i=1>
>>>>>> >:
>>>>>>
>>>>>> > Hi Francisco,
>>>>>> >
>>>>>> > "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the error
>>>>>> message
>>>>>> > that goes along with the crash? In which file and line does it
>>>>>> crash?
>>>>>> >
>>>>>> > Regards
>>>>>> >
>>>>>> > On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca
>>>>>> <[hidden
>>>>>> > email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0>>
>>>>>> wrote:
>>>>>> >
>>>>>> >> Hi,
>>>>>> >> Please, someone that could help me. I'm working in a pre-doctorate
>>>>>> >> project and I need this class to work.
>>>>>> >> I've read the chapter 13 in the ITK Software Guide on how to write
>>>>>> a
>>>>>> >> filter and now I see the fact of the threads due to inheritance of
>>>>>> >> ImageToImageFilter.
>>>>>> >> But, I keep on without understanding why the code crashes just when
>>>>>> >> calling
>>>>>> >> *const PixelType p3 = maskIter.GetPixel(iter->first);*
>>>>>> >> It is just a call to read data, not to write.
>>>>>> >>
>>>>>> >> I guess somebody that had worked with creation of filters might see
>>>>>> >> "easily" the problem, but not me.
>>>>>> >>
>>>>>> >> So, again, please, I need someone to help me with this because I'm
>>>>>> stuck
>>>>>> >> on this point.
>>>>>> >>
>>>>>> >> Thank you very much.
>>>>>> >> KR.
>>>>>> >> /Francisco
>>>>>> >>
>>>>>> >> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca <[hidden
>>>>>> email]
>>>>>> >> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1>>:
>>>>>> >>
>>>>>> >>> Hi Bradley again.
>>>>>> >>> I'm modifying your class in order to be able to set a mask image
>>>>>> (a
>>>>>> >>> binary image) to be used as a limit in the histogram
>>>>>> calculations, I mean,
>>>>>> >>> I set an input, a mask and the class should take into account to
>>>>>> calculate
>>>>>> >>> the histograms only the voxels that belong to the input and to
>>>>>> the mask
>>>>>> >>> image and having the value 1 in the mask image.
>>>>>> >>> The changes seem to be easy but I don?t know why my tests are not
>>>>>> >>> working. It seems that 2 threads are working at the same time and
>>>>>> when I
>>>>>> >>> added my mask iterator, the code crashes.
>>>>>> >>>
>>>>>> >>> *** Consider that the input and mask images are the same origin,
>>>>>> spacing
>>>>>> >>> and size.
>>>>>> >>>
>>>>>> >>> I attach the main changes I've done, and I would thank you a lot
>>>>>> if you
>>>>>> >>> don't mind having a look and help me to find what I'm doing wrong:
>>>>>> >>>
>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>> >>> void
>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>> >::*SetInput*(InputImageType
>>>>>> >>> *image)
>>>>>> >>> {
>>>>>> >>>   // Process object is not const-correct so the const_cast is
>>>>>> required
>>>>>> >>> here
>>>>>> >>>   this->ProcessObject::SetNthInput( 0,
>>>>>> >>>                                     const_cast< InputImageType *
>>>>>> >(
>>>>>> >>> image ) );
>>>>>> >>> }
>>>>>> >>>
>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>> >>> void
>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>> >::*SetMaskImage*(InputImageType
>>>>>> >>> *image)
>>>>>> >>> {
>>>>>> >>>   // Process object is not const-correct so the const_cast is
>>>>>> required
>>>>>> >>> here
>>>>>> >>>   this->ProcessObject::SetNthInput( 1, const_cast< InputImageType
>>>>>> * >(
>>>>>> >>> image ) );
>>>>>> >>>
>>>>>> >>>   _maskImage = image; // _maskImage is a private member
>>>>>> >>> }
>>>>>> >>>
>>>>>> >>> In the *ThreadedGenerateData*(const RegionType&
>>>>>> outputRegionForThread,
>>>>>> >>> ThreadIdType threadId ) method:
>>>>>> >>> {
>>>>>> >>>
>>>>>> >>> ...
>>>>>> >>>
>>>>>> >>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
>>>>>> >>>     {
>>>>>> >>>     NeighborhoodIteratorType nIter( radius, input, *fit );
>>>>>> >>>     *NeighborhoodIteratorType maskIter( radius, _maskImage,
>>>>>> *fit);*
>>>>>> >>>     OutputIterator           outIter(output, *fit);
>>>>>> >>>
>>>>>> >>>     OutputPixelType out;
>>>>>> >>>     NumericTraits<OutputPixelType>::SetLength( out,
>>>>>> >>> this->GetNumberOfOutputComponents() );
>>>>>> >>>
>>>>>> >>>     while( !nIter.IsAtEnd() )
>>>>>> >>>       {
>>>>>> >>>       this->FillHistogram( *histogram, nIter, *maskIter *);
>>>>>> >>>
>>>>>> >>>       ...
>>>>>> >>>
>>>>>> >>>       ++nIter;
>>>>>> >>>       ++outIter;
>>>>>> >>>      * ++maskIter;*
>>>>>> >>>     ...
>>>>>> >>>
>>>>>> >>> In the *FillHistogram *method:
>>>>>> >>> {
>>>>>> >>>
>>>>>> >>> ...
>>>>>> >>>
>>>>>> >>>   while( iter != m_CooccurenceOffsetVector.end() )
>>>>>> >>>     {
>>>>>> >>>
>>>>>> >>>     const PixelType p1 = niter.GetPixel(iter->first);
>>>>>> >>>     const PixelType p2 = niter.GetPixel(iter->second);
>>>>>> >>>     std::cout << "Before p3" << std::endl;
>>>>>> >>>
>>>>>> >>> *    const PixelType p3 = maskIter.GetPixel(iter->first);
>>>>>> *std::cout
>>>>>> >>> << "After p3: " << p3 << std::endl;
>>>>>> >>>
>>>>>> >>> *    const PixelType p4 = maskIter.GetPixel(iter->second);   *
>>>>>> >>> std::cout << "After p4: " << p4 << std::endl;
>>>>>> >>>
>>>>>> >>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <=
>>>>>> m_Max
>>>>>> >>>             *&& p3 == _insidePixelValue && p4 ==
>>>>>> _insidePixelValue* )
>>>>>> >>> // The point
>>>>>> >>>       {
>>>>>> >>>
>>>>>> >>> ...
>>>>>> >>>
>>>>>> >>>
>>>>>> >>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>>>>>> >>>
>>>>>> >>> Thank you so much.
>>>>>> >>> My kind regards.
>>>>>> >>> /Paco
>>>>>> >>>
>>>>>> >>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca <[hidden
>>>>>> email]
>>>>>> >>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2>>:
>>>>>> >>>
>>>>>> >>>> Hello Bradley again.
>>>>>> >>>> Sorry but I'd like to re-open this issue because I need your
>>>>>> class but
>>>>>> >>>> with some modification.
>>>>>> >>>> I pass to tell you.
>>>>>> >>>>
>>>>>> >>>> As my tests with your external class were not good taking into
>>>>>> account
>>>>>> >>>> the performance, I wonder if you could create a variant of it,
>>>>>> but in which
>>>>>> >>>> I can set a mask image and your class just return the
>>>>>> VectorImage with all
>>>>>> >>>> the features for that region (the masked locations) as
>>>>>> >>>> itk::ScalarImageToTextureFeaturesFilter class does.
>>>>>> >>>> I mean, to get the vector image with all the features but just
>>>>>> >>>> calculate it for the regions belonging to the mask image.
>>>>>> Positions not
>>>>>> >>>> belonging to the mask region could have a pixel value of 0, for
>>>>>> instance.
>>>>>> >>>>
>>>>>> >>>> I don?t know if it is very costly for you,  but I would thank
>>>>>> you so
>>>>>> >>>> much. Otherwise, I could try it but I'd need your suggestions on
>>>>>> how to do
>>>>>> >>>> it.
>>>>>> >>>>
>>>>>> >>>> Thanks a lot.
>>>>>> >>>> Best regards.
>>>>>> >>>>
>>>>>> >>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca <[hidden
>>>>>> email]
>>>>>> >>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3>>:
>>>>>> >>>>
>>>>>> >>>>> Hello Bradley again,
>>>>>> >>>>> I would like to ask you for a couple of favours. In the one
>>>>>> hand,
>>>>>> >>>>> could you please send me your 3D image so that I can test on
>>>>>> it? And on the
>>>>>> >>>>> other hand, could you test the example I have referenced in the
>>>>>> previous
>>>>>> >>>>> email with your image, not changing anything in the code, such
>>>>>> as it is,
>>>>>> >>>>> and tell me if the execution time is normal?
>>>>>> >>>>> Thank you very much.
>>>>>> >>>>> Regards,
>>>>>> >>>>> /Francisco
>>>>>> >>>>>
>>>>>> >>>>> PS: All my application trace is printed via standard 'cout'
>>>>>> command,
>>>>>> >>>>> not due to a debugging compilation mode.
>>>>>> >>>>>
>>>>>> >>>>>
>>>>>> >>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp
>>>>>> <[hidden
>>>>>> >>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=4>>
>>>>>> >>>>> escribi?:
>>>>>> >>>>>
>>>>>> >>>>>> Hello,
>>>>>> >>>>>>
>>>>>> >>>>>> Did you compile TextureFeatureImage in Release mode?
>>>>>> >>>>>>
>>>>>> >>>>>> 1) The filter does not scale well with a large radius. And
>>>>>> given by
>>>>>> >>>>>> your initial report of print a very large number of offset
>>>>>> you, it sounds
>>>>>> >>>>>> like you are using a large radius with many offsets. I created
>>>>>> a
>>>>>> >>>>>> 224x224x300 unsigned short image and ran with the default
>>>>>> offset and a
>>>>>> >>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this
>>>>>> filter is was ~10x
>>>>>> >>>>>> faster than this example... things change though...
>>>>>> >>>>>>
>>>>>> >>>>>>
>>>>>> >>>>>> 2) I sounds like the boundaries/limits of the histogram may be
>>>>>> >>>>>> clipping you values. I would inspect the co-occurance matrix.
>>>>>> >>>>>>
>>>>>> >>>>>>
>>>>>> >>>>>> HTH,
>>>>>> >>>>>> Brad
>>>>>> >>>>>>
>>>>>> >>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca
>>>>>> <[hidden
>>>>>> >>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=5
>>>>>> >>
>>>>>> >>>>>> wrote:
>>>>>> >>>>>>
>>>>>> >>>>>> I've tested with itkTextureFeatureImageFilter, with
>>>>>> >>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>>>>>> >>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures
>>>>>> example,
>>>>>> >>>>>> for a 3D image and here are my comments:
>>>>>> >>>>>>
>>>>>> >>>>>>
>>>>>> >>>>>> 1. I had to interrupt the test after several hours and it kept
>>>>>> on
>>>>>> >>>>>> calculating. And this is for only a 3D image (224x224x300). I
>>>>>> need to
>>>>>> >>>>>> process around 35 images.
>>>>>> >>>>>> 2. The result (texture features: entropy, energy, correlation,
>>>>>> LH,
>>>>>> >>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0,
>>>>>> 7.83083e+247].
>>>>>> >>>>>> These values were not what I expected based on my experience
>>>>>> on another
>>>>>> >>>>>> application I developed, but in that case, I calculated the
>>>>>> texture
>>>>>> >>>>>> features for an image as a whole, not voxel by voxel.
>>>>>> >>>>>>
>>>>>> >>>>>> Regards.
>>>>>> >>>>>>
>>>>>> >>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
>>>>>> >>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6>>:
>>>>>> >>>>>>
>>>>>> >>>>>>> i yes i have tried radius = 3;
>>>>>> >>>>>>> still no luck
>>>>>> >>>>>>>
>>>>>> >>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca [via
>>>>>> ITK
>>>>>> >>>>>>> Insight
>>>>>> >>>>>>> Users] <[hidden email]
>>>>>> >>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7>>
>>>>>> wrote:
>>>>>> >>>>>>>
>>>>>> >>>>>>> > Have you tried with a radius of 3 instead of 1?
>>>>>> >>>>>>> >
>>>>>> >>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>>>>>> >>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
>>>>>> >>>>>>> >
>>>>>> >>>>>>> >> hey Matt,
>>>>>> >>>>>>> >> thanks for ur advice.. it did build successfully... but im
>>>>>> not
>>>>>> >>>>>>> able to run
>>>>>> >>>>>>> >> the code for 2D png image... i tried to change the
>>>>>> dimension to 2
>>>>>> >>>>>>> and
>>>>>> >>>>>>> >> build
>>>>>> >>>>>>> >> it which it did.. but when i run the code using the command
>>>>>> >>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png
>>>>>> putput.png
>>>>>> >>>>>>> 1... i see
>>>>>> >>>>>>> >> this output
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >> offset: [-1, -1] [0, -1]
>>>>>> >>>>>>> >> offset: [0, -1] [1, -1]
>>>>>> >>>>>>> >> offset: [-1, 0] [0, 0]
>>>>>> >>>>>>> >> offset: [0, 0] [1, 0]
>>>>>> >>>>>>> >> offset: [-1, 1] [0, 1]
>>>>>> >>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the program...
>>>>>> if pls
>>>>>> >>>>>>> tel me
>>>>>> >>>>>>> >> how can i modify this code to work wid 2d image... forgive
>>>>>> me if
>>>>>> >>>>>>> my ques
>>>>>> >>>>>>> >> are really silly im trying to learn something..
>>>>>> >>>>>>> >> regards
>>>>>> >>>>>>> >> Vis
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via ITK
>>>>>> >>>>>>> Insight Users]
>>>>>> >>>>>>> >> <
>>>>>> >>>>>>> >> [hidden email] <
>>>>>> >>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
>>>>>> >>>>>>> >> wrote:
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >> > Hi,
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > The function:
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char
>>>>>> *argv[])
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > must be renamed to
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> >   main(int argc, char* argv[])
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > HTH,
>>>>>> >>>>>>> >> > Matt
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>>>>>> >>>>>>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>>
>>>>>> wrote:
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > > hi all,
>>>>>> >>>>>>> >> > > im trying to build the
>>>>>> itkTextureFeatureImageFilterTest.cxx
>>>>>> >>>>>>> code but
>>>>>> >>>>>>> >> im
>>>>>> >>>>>>> >> > not
>>>>>> >>>>>>> >> > > able to it is showing the following error
>>>>>> >>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>>>>>> >>>>>>> Configuration:
>>>>>> >>>>>>> >> Debug
>>>>>> >>>>>>> >> > x64
>>>>>> >>>>>>> >> > > ------
>>>>>> >>>>>>> >> > > 1>  Checking Build System
>>>>>> >>>>>>> >> > > 1>  CMake does not need to re-run because
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>>
>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>>>>>> >>>>>>> >> > is
>>>>>> >>>>>>> >> > > up-to-date.
>>>>>> >>>>>>> >> > > 2>------ Rebuild All started: Project:
>>>>>> >>>>>>> >> itkTextureFeatureImageFilterTest,
>>>>>> >>>>>>> >> > > Configuration: Debug x64 ------
>>>>>> >>>>>>> >> > > 2>  Building Custom Rule
>>>>>> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>> >>>>>>> >> > > 2>  CMake does not need to re-run because
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>>
>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>> >>>>>>> >> > is
>>>>>> >>>>>>> >> > > up-to-date.
>>>>>> >>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>>>>>> >>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>>>>>> >>>>>>> 'std::_Copy_impl':
>>>>>> >>>>>>> >> > Function
>>>>>> >>>>>>> >> > > call with parameters that may be unsafe - this call
>>>>>> relies on
>>>>>> >>>>>>> the
>>>>>> >>>>>>> >> caller
>>>>>> >>>>>>> >> > to
>>>>>> >>>>>>> >> > > check that the passed values are correct. To disable
>>>>>> this
>>>>>> >>>>>>> warning, use
>>>>>> >>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how to
>>>>>> use
>>>>>> >>>>>>> Visual C++
>>>>>> >>>>>>> >> > > 'Checked Iterators'
>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>> Studio
>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>> >>>>>>> >> > > 2>
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>>>>>> >>>>>>> >> > see
>>>>>> >>>>>>> >> > > reference to function template instantiation '_OutIt
>>>>>> >>>>>>> std::copy<const
>>>>>> >>>>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)'
>>>>>> being
>>>>>> >>>>>>> compiled
>>>>>> >>>>>>> >> > > 2>          with
>>>>>> >>>>>>> >> > > 2>          [
>>>>>> >>>>>>> >> > > 2>              _OutIt=unsigned char *,
>>>>>> >>>>>>> >> > > 2>              _InIt=const unsigned char *
>>>>>> >>>>>>> >> > > 2>          ]
>>>>>> >>>>>>> >> > > 2>
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>>>>>> >>>>>>> >> > > while compiling class template member function 'void
>>>>>> >>>>>>> >> > > itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>>>>>> >>>>>>> >> > > 2>          with
>>>>>> >>>>>>> >> > > 2>          [
>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>> >>>>>>> >> > > 2>          ]
>>>>>> >>>>>>> >> > > 2>
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > > : see reference to class template instantiation
>>>>>> >>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>>>>>> >>>>>>> >> > > 2>          with
>>>>>> >>>>>>> >> > > 2>          [
>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>> >>>>>>> >> > > 2>          ]
>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>> Studio
>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>> Studio
>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>> Studio
>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>> >>>>>>> >> > > 2>     Creating library
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > > and object
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved
>>>>>> >>>>>>> external symbol
>>>>>> >>>>>>> >> > main
>>>>>> >>>>>>> >> > > referenced in function __tmainCRTStartup
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>>>>>> >>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>>>>>> >>>>>>> Configuration: Debug
>>>>>> >>>>>>> >> > x64
>>>>>> >>>>>>> >> > > ------
>>>>>> >>>>>>> >> > > 3>  Building Custom Rule
>>>>>> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>> >>>>>>> >> > > 3>  CMake does not need to re-run because
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>>
>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>> >>>>>>> >> > is
>>>>>> >>>>>>> >> > > up-to-date.
>>>>>> >>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0
>>>>>> skipped
>>>>>> >>>>>>> ==========
>>>>>> >>>>>>> >> > > im using the follwing CMakeList.txt
>>>>>> >>>>>>> >> > > # This is the root ITK CMakeLists file.
>>>>>> >>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>>>>>> >>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>>>>>> >>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>>>>>> >>>>>>> >> > > endif()
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > # This project is designed to be built outside the
>>>>>> Insight
>>>>>> >>>>>>> source
>>>>>> >>>>>>> >> tree.
>>>>>> >>>>>>> >> > > project(HelloWorld)
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > # Find ITK.
>>>>>> >>>>>>> >> > > find_package(ITK REQUIRED)
>>>>>> >>>>>>> >> > > include(${ITK_USE_FILE})
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>>>>>> >>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > target_link_libraries(itkTextureFeatureImageFilterTest
>>>>>> >>>>>>> >> ${ITK_LIBRARIES})
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > please tel me wat the error is??
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > --
>>>>>> >>>>>>> >> > > View this message in context:
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>>>>>> >>>>>>> >> > > Sent from the ITK Insight Users mailing list archive at
>>>>>> >>>>>>> Nabble.com <http://nabble.com>.
>>>>>> >>>>>>> >> > > _____________________________________
>>>>>> >>>>>>> >> > > Powered by www.kitware.com
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > Visit other Kitware open-source projects at
>>>>>> >>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > Kitware offers ITK Training Courses, for more
>>>>>> information
>>>>>> >>>>>>> visit:
>>>>>> >>>>>>> >> > > http://www.kitware.com/products/protraining.php
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > Please keep messages on-topic and check the ITK FAQ at:
>>>>>> >>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >>>>>>> >> > >
>>>>>> >>>>>>> >> > > Follow this link to subscribe/unsubscribe:
>>>>>> >>>>>>> >> > >
>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >>>>>>> >> > _____________________________________
>>>>>> >>>>>>> >> > Powered by www.kitware.com
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > Visit other Kitware open-source projects at
>>>>>> >>>>>>> >> > http://www.kitware.com/opensource/opensource.html
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > Kitware offers ITK Training Courses, for more
>>>>>> information visit:
>>>>>> >>>>>>> >> > http://www.kitware.com/products/protraining.php
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>> >>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > Follow this link to subscribe/unsubscribe:
>>>>>> >>>>>>> >> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> > ------------------------------
>>>>>> >>>>>>> >> > If you reply to this email, your message will be added
>>>>>> to the
>>>>>> >>>>>>> discussion
>>>>>> >>>>>>> >> > below:
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587952.html
>>>>>> >>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by pixel,
>>>>>> click
>>>>>> >>>>>>> here
>>>>>> >>>>>>> >> > < > .
>>>>>> >>>>>>> >> > NAML
>>>>>> >>>>>>> >> > <
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >> >
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >> --
>>>>>> >>>>>>> >> View this message in context:
>>>>>> >>>>>>> >>
>>>>>> >>>>>>>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>>>>>> >>>>>>> >> Sent from the ITK Insight Users mailing list archive at
>>>>>> >>>>>>> Nabble.com <http://nabble.com>.
>>>>>> >>>>>>> >> _____________________________________
>>>>>> >>>>>>> >> Powered by www.kitware.com
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >> Visit other Kitware open-source projects at
>>>>>> >>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >> Kitware offers ITK Training Courses, for more information
>>>>>> visit:
>>>>>> >>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> >>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>> >>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >>>>>>> >>
>>>>>> >>>>>>> >
>>>>>> >>>>>>> >
>>>>>> >>>>>>> > _____________________________________
>>>>>> >>>>>>> > Powered by www.kitware.com
>>>>>> >>>>>>> >
>>>>>> >>>>>>> > Visit other Kitware open-source projects at
>>>>>> >>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>> >>>>>>> >
>>>>>> >>>>>>> > Kitware offers ITK Training Courses, for more information
>>>>>> visit:
>>>>>> >>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>> >>>>>>> >
>>>>>> >>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>> >>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >>>>>>> >
>>>>>> >>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>> >>>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >>>>>>> >
>>>>>> >>>>>>> >
>>>>>> >>>>>>> > ------------------------------
>>>>>> >>>>>>> > If you reply to this email, your message will be added to
>>>>>> the
>>>>>> >>>>>>> discussion
>>>>>> >>>>>>> > below:
>>>>>> >>>>>>> >
>>>>>> >>>>>>> >
>>>>>> >>>>>>>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587961.html
>>>>>> >>>>>>> > To unsubscribe from [ITK-users] Texture pixel by pixel,
>>>>>> click here
>>>>>> >>>>>>> > < > .
>>>>>> >>>>>>> > NAML
>>>>>> >>>>>>> > <
>>>>>> >>>>>>>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>> >>>>>>> >
>>>>>> >>>>>>> >
>>>>>> >>>>>>>
>>>>>> >>>>>>>
>>>>>> >>>>>>>
>>>>>> >>>>>>>
>>>>>> >>>>>>> --
>>>>>> >>>>>>> View this message in context:
>>>>>> >>>>>>>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
>>>>>> >>>>>>> Sent from the ITK Insight Users mailing list archive at
>>>>>> Nabble.com <http://nabble.com>.
>>>>>> >>>>>>> _____________________________________
>>>>>> >>>>>>> Powered by www.kitware.com
>>>>>> >>>>>>>
>>>>>> >>>>>>> Visit other Kitware open-source projects at
>>>>>> >>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>> >>>>>>>
>>>>>> >>>>>>> Kitware offers ITK Training Courses, for more information
>>>>>> visit:
>>>>>> >>>>>>> http://www.kitware.com/products/protraining.php
>>>>>> >>>>>>>
>>>>>> >>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> >>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >>>>>>>
>>>>>> >>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> >>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >>>>>>>
>>>>>> >>>>>>
>>>>>> >>>>>> _____________________________________
>>>>>> >>>>>> Powered by www.kitware.com
>>>>>> >>>>>>
>>>>>> >>>>>> Visit other Kitware open-source projects at
>>>>>> >>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>> >>>>>>
>>>>>> >>>>>> Kitware offers ITK Training Courses, for more information
>>>>>> visit:
>>>>>> >>>>>> http://www.kitware.com/products/protraining.php
>>>>>> >>>>>>
>>>>>> >>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> >>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >>>>>>
>>>>>> >>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> >>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >>>>>>
>>>>>> >>>>>>
>>>>>> >>>>>>
>>>>>> >>>>
>>>>>> >>>
>>>>>> >>
>>>>>> >> _____________________________________
>>>>>> >> Powered by www.kitware.com
>>>>>> >>
>>>>>> >> Visit other Kitware open-source projects at
>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>> >>
>>>>>> >> Kitware offers ITK Training Courses, for more information visit:
>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>> >>
>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >>
>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >>
>>>>>> >>
>>>>>> >
>>>>>> > _____________________________________
>>>>>> > Powered by www.kitware.com
>>>>>> >
>>>>>> > Visit other Kitware open-source projects at
>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>> >
>>>>>> > Kitware offers ITK Training Courses, for more information visit:
>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>> >
>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>> >
>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>> >
>>>>>> >
>>>>>> > ------------------------------
>>>>>> > If you reply to this email, your message will be added to the
>>>>>> discussion
>>>>>> > below:
>>>>>> >
>>>>>> >
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588477.html
>>>>>> > To start a new topic under ITK Insight Users, email
>>>>>> > [hidden email]
>>>>>> <http://user/SendEmail.jtp?type=node&node=7588490&i=2>
>>>>>> > To unsubscribe from ITK Insight Users, click here
>>>>>> > < > .
>>>>>> > NAML
>>>>>> > <
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>> >
>>>>>> >
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>> --
>>>>>> View this message in context:
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588483.html
>>>>>> Sent from the ITK Insight Users mailing list archive at Nabble.com
>>>>>> <http://nabble.com>.
>>>>>> _____________________________________
>>>>>> Powered by www.kitware.com
>>>>>>
>>>>>> Visit other Kitware open-source projects at
>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>
>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>
>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>
>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>
>>>>>
>>>>>
>>>>> _____________________________________
>>>>> Powered by www.kitware.com
>>>>>
>>>>> Visit other Kitware open-source projects at
>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>
>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>> http://www.kitware.com/products/protraining.php
>>>>>
>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>
>>>>> Follow this link to subscribe/unsubscribe:
>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>
>>>>>
>>>>> ------------------------------
>>>>> If you reply to this email, your message will be added to the
>>>>> discussion below:
>>>>>
>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588490.html
>>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>>> <http://user/SendEmail.jtp?type=node&node=7588495&i=2>
>>>>> To unsubscribe from ITK Insight Users, click here.
>>>>> NAML
>>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>>
>>>>
>>>>
>>>> _____________________________________
>>>> Powered by www.kitware.com
>>>>
>>>> Visit other Kitware open-source projects at
>>>> http://www.kitware.com/opensource/opensource.html
>>>>
>>>> Kitware offers ITK Training Courses, for more information visit:
>>>> http://www.kitware.com/products/protraining.php
>>>>
>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>
>>>> Follow this link to subscribe/unsubscribe:
>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>
>>>>
>>>
>>> _____________________________________
>>> Powered by www.kitware.com
>>>
>>> Visit other Kitware open-source projects at
>>> http://www.kitware.com/opensource/opensource.html
>>>
>>> Kitware offers ITK Training Courses, for more information visit:
>>> http://www.kitware.com/products/protraining.php
>>>
>>> Please keep messages on-topic and check the ITK FAQ at:
>>> http://www.itk.org/Wiki/ITK_FAQ
>>>
>>> Follow this link to subscribe/unsubscribe:
>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>
>>>
>>> ------------------------------
>>> If you reply to this email, your message will be added to the discussion
>>> below:
>>>
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>>> To start a new topic under ITK Insight Users, email [hidden email]
>>> <http:///user/SendEmail.jtp?type=node&node=7588505&i=3>
>>> To unsubscribe from ITK Insight Users, click here.
>>> NAML
>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>
>>
>>
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://www.kitware.com/products/protraining.php
>>
>> Please keep messages on-topic and check the ITK FAQ at:
>> http://www.itk.org/Wiki/ITK_FAQ
>>
>> Follow this link to subscribe/unsubscribe:
>> http://public.kitware.com/mailman/listinfo/insight-users
>>
>>
> <tester.cpp>_____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
>
> ------------------------------
> If you reply to this email, your message will be added to the discussion
> below:
>
> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588505.html
> To start a new topic under ITK Insight Users, email
> ml-node+s2283740n2283740h75 at n2.nabble.com
> To unsubscribe from ITK Insight Users, click here
> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=unsubscribe_by_code&node=2283740&code=ZnJhbmNpc2NvbG9wZXpkZWxhZnJhbmNhQGdtYWlsLmNvbXwyMjgzNzQwfC05OTI2MzcxNg==>
> .
> NAML
> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>




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View this message in context: http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588512.html
Sent from the ITK Insight Users mailing list archive at Nabble.com.

From dzenanz at gmail.com  Thu Feb 18 09:25:09 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Thu, 18 Feb 2016 09:25:09 -0500
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <CAJqi3EKcF8T1goR3UTHiBS4br3NqAR7Z9HQqGaKYGJs21_XByA@mail.gmail.com>
References: <CAJqi3E+eNQxJBbrUt-ReAPNqF+xZOLMFZa_KB_v9tDdbF1SNog@mail.gmail.com>
 <CAJqi3ELNovYUpgJ=cFStA2gq-ix1UiaY-4YvZTJ327OQ8LGn9w@mail.gmail.com>
 <CAJqi3EJMqTscSxNdOn58Yz2NazfdSdcrTgOY6hRYAK3Z=3-Asw@mail.gmail.com>
 <CAPf2UMTwwE=7eLsCjNZpnWHTemQ3Kpi3waGA0p9tDkcWoU2aZQ@mail.gmail.com>
 <CAJqi3EJ6gSjPxVG9tNguYNHf0pCatepBv3w-4sTtKOnRig_4vA@mail.gmail.com>
 <CAPf2UMQdSHRVYWReSZ+i+=E4igTyUD91ysoqA48DB-O8R3EUTw@mail.gmail.com>
 <CAJqi3EJU6L=R=KUyFvHvLg2w0m=MYQpuWTODcP=W4TiKZXE2eA@mail.gmail.com>
 <CAPf2UMSs-q8_s=5k6KcX48zjEsyKWQ-RzJ3O0ik1ihFcHcp+vg@mail.gmail.com>
 <CAJqi3E+ghXk2AaMYF_eb2_6ZsxJPNYWtFqHaQkKxjJXWuGTEOw@mail.gmail.com>
 <CAPf2UMR=TyVatKidw8Z_OcxUQ82JVXQnx8QcK73X3fsC+E2j1A@mail.gmail.com>
 <3F877AC4-BCD1-43FF-B8B3-7B30F9B6D30B@mail.nih.gov>
 <CAJqi3EKcF8T1goR3UTHiBS4br3NqAR7Z9HQqGaKYGJs21_XByA@mail.gmail.com>
Message-ID: <CAPf2UMRx5mQuqC7+GohHeXUgo44osWTk2U4Kr0kY+SeXOkjuaA@mail.gmail.com>

Have you tried /bigobj
<https://msdn.microsoft.com/en-us/library/ms173499.aspx?f=255&MSPPError=-2147217396>?
Are you using MinGW? Visual Studio is now free
<https://www.visualstudio.com/en-us/news/vs2013-community-vs.aspx>.

HTH

On Thu, Feb 18, 2016 at 6:37 AM, Francisco Lopez de la Franca <
franciscolopezdelafranca at gmail.com> wrote:

> Hi again,
> I've got ITK version 4.5.1 (a little bit old, I know), and after making
> the changes suggested by Dzenanz and recompiling ITK, the problem
> continues, that is, my code crashes at the same point.
>
> Then, I've downloaded the latest stable ITK version, ITK 4.9.0 and
> compiled from scratch and I get the following error:
>
> [ 98%] Building CXX object
> Modules/IO/TransformBase/src/CMakeFiles/ITKIOTransformBase.dir/itkTransformFactoryBase.cxx.obj
> C:/MINGW/mingw64/bin/../lib/gcc/x86_64-w64-mingw32/4.8.2/../../../../x86_64-w64-mingw32/bin/as.exe:
> CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: too many
> sections (33106)
> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Assembler messages:
> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Fatal error: can't write
> CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: File too
> big
>
> After doing some "googling" and follow some of the instructions referred
> on the web, I've been unable to solve this.
> Has anyone met this problem and solved it?
> Thanks.
> KR.
> /Francisco
>
> 2016-02-16 22:13 GMT+01:00 Bradley Lowekamp [via ITK Insight Users] <
> ml-node+s2283740n7588505h90 at n2.nabble.com>:
>
>> Hello,
>>
>> Please take a look at these changes:
>>
>> https://github.com/blowekamp/itkTextureAnalysis/commit/9654d74ea1d09f0677f1d1b93242cc94340591bf
>>
>> Brad
>>
>> On Feb 16, 2016, at 10:35 AM, D?enan Zuki? <[hidden email]
>> <http:///user/SendEmail.jtp?type=node&node=7588505&i=0>> wrote:
>>
>> I have set up a project using one of the tests from Brad's repository
>> (attached), and it works in debug mode both with his original code and with
>> your modified class, and crashes in release mode both with his original
>> code and with your modified class. I will now compile ITK in RelWithDebInfo
>> in an attempt to figure out where is the crash occurring.
>>
>> Regards,
>> D?enan
>>
>> On Tue, Feb 16, 2016 at 1:52 AM, Francisco Lopez de la Franca <[hidden
>> email] <http:///user/SendEmail.jtp?type=node&node=7588505&i=1>> wrote:
>>
>>> Excuse me Dzenanz, but that's not completely true, because I've tested
>>> Brad's class and it works right.
>>> The problem seems to be that when you add a new neighbor iterator to
>>> include just the mask points in the "histogram" then it is when the
>>> application crashes, and I donot understand why.
>>> If you just comment the 'maskIter' references you'll see that the
>>> application works.
>>> I've created a single threaded class based on the Brad's code and it
>>> works but it is twice slower, that is why I'm interesting on Brad's class
>>> (multi-threaded) to make it work.
>>>
>>>
>>> 2016-02-15 17:15 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>> email] <http:///user/SendEmail.jtp?type=node&node=7588505&i=2>>:
>>>
>>>> Hi Francisco,
>>>>
>>>> both your code and Brad's code run in debug mode (I did not wait for
>>>> the end), and both crash in release mode immediately on startup. Here is a
>>>> sample output:
>>>>
>>>> Progress input: 0000000002868970
>>>> input: 0000000002868970
>>>> _maskImage: 0000000002868970
>>>> _maskImage: 0000000002868970
>>>> input: 0000000002868970
>>>> _maskImage: 0000000002868970
>>>> iter.first: iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>> [-5, -5, -5] iter.second: [-4, -5, -5]
>>>> niter index: [5, 5, 210]
>>>> niter index: [5, 5, 140]
>>>> maskIter index: [5, 5, 140]
>>>> maskIter index: [5, 5, 210]
>>>> Before p3
>>>> input: 0000000002868970
>>>> _maskImage: 0000000002868970
>>>> After p3:  | 0niter index: [5, 5, 70]
>>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>> niter index: [5, 5, 5]
>>>> ?
>>>> maskIter index: [5, 5, 70]
>>>> After p4: ?
>>>> Before p3
>>>> Before p3
>>>> After p3: ?iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>> niter index: [5, 5, 140]
>>>> maskIter index: [5, 5, 140]
>>>> maskIter index: [5, 5, 5]
>>>> Before p3
>>>> After p3: ?
>>>> After p3: ?
>>>> After p4: ?
>>>> After p4: ?
>>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>> niter index: [5, 5, 5]
>>>> maskIter index: [5, 5, 5]
>>>>
>>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>> Before p3
>>>> Before p3
>>>> After p4: ?
>>>> After p3: ?
>>>> After p4: ?
>>>>
>>>> Regards,
>>>> D?enan
>>>>
>>>> On Mon, Feb 15, 2016 at 1:36 AM, Francisco Lopez de la Franca <[hidden
>>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=0>> wrote:
>>>>
>>>>> Hi,
>>>>> Here they are.
>>>>> KR.
>>>>>
>>>>> 2016-02-12 16:22 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=1>>:
>>>>>
>>>>>> Hi Francisco,
>>>>>>
>>>>>> do you mind attaching the modified files or pointing to your fork of
>>>>>> it on GitHub?
>>>>>>
>>>>>> Regards
>>>>>>
>>>>>> On Thu, Feb 11, 2016 at 12:08 PM, Francisco L?pez-Franca <[hidden
>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588490&i=0>> wrote:
>>>>>>
>>>>>>> Hi Dzenan,
>>>>>>> The original class is here:
>>>>>>>
>>>>>>>
>>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h
>>>>>>>
>>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx
>>>>>>>
>>>>>>> I've just added setInput and setMaskImage methods and modify some
>>>>>>> lines in
>>>>>>> the original class as I indicated in the yesterday mail within this
>>>>>>> thread.
>>>>>>> I'm running it on Windows, and there is no error at all, just a
>>>>>>> crash. I
>>>>>>> may have to include exceptions management.
>>>>>>> The crash occurs just when calling p3 =
>>>>>>> maskIter.GetPixel(iter->first)
>>>>>>>
>>>>>>> If you know why it could be or if you need more clarification,
>>>>>>> please let
>>>>>>> me know.
>>>>>>> Many thanks
>>>>>>>
>>>>>>> 2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
>>>>>>> [hidden email]
>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588490&i=1>>:
>>>>>>>
>>>>>>> > Hi Francisco,
>>>>>>> >
>>>>>>> > "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the error
>>>>>>> message
>>>>>>> > that goes along with the crash? In which file and line does it
>>>>>>> crash?
>>>>>>> >
>>>>>>> > Regards
>>>>>>> >
>>>>>>> > On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca
>>>>>>> <[hidden
>>>>>>> > email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0>>
>>>>>>> wrote:
>>>>>>> >
>>>>>>> >> Hi,
>>>>>>> >> Please, someone that could help me. I'm working in a pre-doctorate
>>>>>>> >> project and I need this class to work.
>>>>>>> >> I've read the chapter 13 in the ITK Software Guide on how to
>>>>>>> write a
>>>>>>> >> filter and now I see the fact of the threads due to inheritance of
>>>>>>> >> ImageToImageFilter.
>>>>>>> >> But, I keep on without understanding why the code crashes just
>>>>>>> when
>>>>>>> >> calling
>>>>>>> >> *const PixelType p3 = maskIter.GetPixel(iter->first);*
>>>>>>> >> It is just a call to read data, not to write.
>>>>>>> >>
>>>>>>> >> I guess somebody that had worked with creation of filters might
>>>>>>> see
>>>>>>> >> "easily" the problem, but not me.
>>>>>>> >>
>>>>>>> >> So, again, please, I need someone to help me with this because
>>>>>>> I'm stuck
>>>>>>> >> on this point.
>>>>>>> >>
>>>>>>> >> Thank you very much.
>>>>>>> >> KR.
>>>>>>> >> /Francisco
>>>>>>> >>
>>>>>>> >> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca <[hidden
>>>>>>> email]
>>>>>>> >> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1>>:
>>>>>>> >>
>>>>>>> >>> Hi Bradley again.
>>>>>>> >>> I'm modifying your class in order to be able to set a mask image
>>>>>>> (a
>>>>>>> >>> binary image) to be used as a limit in the histogram
>>>>>>> calculations, I mean,
>>>>>>> >>> I set an input, a mask and the class should take into account to
>>>>>>> calculate
>>>>>>> >>> the histograms only the voxels that belong to the input and to
>>>>>>> the mask
>>>>>>> >>> image and having the value 1 in the mask image.
>>>>>>> >>> The changes seem to be easy but I don?t know why my tests are not
>>>>>>> >>> working. It seems that 2 threads are working at the same time
>>>>>>> and when I
>>>>>>> >>> added my mask iterator, the code crashes.
>>>>>>> >>>
>>>>>>> >>> *** Consider that the input and mask images are the same origin,
>>>>>>> spacing
>>>>>>> >>> and size.
>>>>>>> >>>
>>>>>>> >>> I attach the main changes I've done, and I would thank you a lot
>>>>>>> if you
>>>>>>> >>> don't mind having a look and help me to find what I'm doing
>>>>>>> wrong:
>>>>>>> >>>
>>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>>> >>> void
>>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>>> >::*SetInput*(InputImageType
>>>>>>> >>> *image)
>>>>>>> >>> {
>>>>>>> >>>   // Process object is not const-correct so the const_cast is
>>>>>>> required
>>>>>>> >>> here
>>>>>>> >>>   this->ProcessObject::SetNthInput( 0,
>>>>>>> >>>                                     const_cast< InputImageType *
>>>>>>> >(
>>>>>>> >>> image ) );
>>>>>>> >>> }
>>>>>>> >>>
>>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>>> >>> void
>>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>>> >::*SetMaskImage*(InputImageType
>>>>>>> >>> *image)
>>>>>>> >>> {
>>>>>>> >>>   // Process object is not const-correct so the const_cast is
>>>>>>> required
>>>>>>> >>> here
>>>>>>> >>>   this->ProcessObject::SetNthInput( 1, const_cast<
>>>>>>> InputImageType * >(
>>>>>>> >>> image ) );
>>>>>>> >>>
>>>>>>> >>>   _maskImage = image; // _maskImage is a private member
>>>>>>> >>> }
>>>>>>> >>>
>>>>>>> >>> In the *ThreadedGenerateData*(const RegionType&
>>>>>>> outputRegionForThread,
>>>>>>> >>> ThreadIdType threadId ) method:
>>>>>>> >>> {
>>>>>>> >>>
>>>>>>> >>> ...
>>>>>>> >>>
>>>>>>> >>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
>>>>>>> >>>     {
>>>>>>> >>>     NeighborhoodIteratorType nIter( radius, input, *fit );
>>>>>>> >>>     *NeighborhoodIteratorType maskIter( radius, _maskImage,
>>>>>>> *fit);*
>>>>>>> >>>     OutputIterator           outIter(output, *fit);
>>>>>>> >>>
>>>>>>> >>>     OutputPixelType out;
>>>>>>> >>>     NumericTraits<OutputPixelType>::SetLength( out,
>>>>>>> >>> this->GetNumberOfOutputComponents() );
>>>>>>> >>>
>>>>>>> >>>     while( !nIter.IsAtEnd() )
>>>>>>> >>>       {
>>>>>>> >>>       this->FillHistogram( *histogram, nIter, *maskIter *);
>>>>>>> >>>
>>>>>>> >>>       ...
>>>>>>> >>>
>>>>>>> >>>       ++nIter;
>>>>>>> >>>       ++outIter;
>>>>>>> >>>      * ++maskIter;*
>>>>>>> >>>     ...
>>>>>>> >>>
>>>>>>> >>> In the *FillHistogram *method:
>>>>>>> >>> {
>>>>>>> >>>
>>>>>>> >>> ...
>>>>>>> >>>
>>>>>>> >>>   while( iter != m_CooccurenceOffsetVector.end() )
>>>>>>> >>>     {
>>>>>>> >>>
>>>>>>> >>>     const PixelType p1 = niter.GetPixel(iter->first);
>>>>>>> >>>     const PixelType p2 = niter.GetPixel(iter->second);
>>>>>>> >>>     std::cout << "Before p3" << std::endl;
>>>>>>> >>>
>>>>>>> >>> *    const PixelType p3 = maskIter.GetPixel(iter->first);
>>>>>>> *std::cout
>>>>>>> >>> << "After p3: " << p3 << std::endl;
>>>>>>> >>>
>>>>>>> >>> *    const PixelType p4 = maskIter.GetPixel(iter->second);   *
>>>>>>> >>> std::cout << "After p4: " << p4 << std::endl;
>>>>>>> >>>
>>>>>>> >>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <=
>>>>>>> m_Max
>>>>>>> >>>             *&& p3 == _insidePixelValue && p4 ==
>>>>>>> _insidePixelValue* )
>>>>>>> >>> // The point
>>>>>>> >>>       {
>>>>>>> >>>
>>>>>>> >>> ...
>>>>>>> >>>
>>>>>>> >>>
>>>>>>> >>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>>>>>>> >>>
>>>>>>> >>> Thank you so much.
>>>>>>> >>> My kind regards.
>>>>>>> >>> /Paco
>>>>>>> >>>
>>>>>>> >>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca <[hidden
>>>>>>> email]
>>>>>>> >>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2>>:
>>>>>>> >>>
>>>>>>> >>>> Hello Bradley again.
>>>>>>> >>>> Sorry but I'd like to re-open this issue because I need your
>>>>>>> class but
>>>>>>> >>>> with some modification.
>>>>>>> >>>> I pass to tell you.
>>>>>>> >>>>
>>>>>>> >>>> As my tests with your external class were not good taking into
>>>>>>> account
>>>>>>> >>>> the performance, I wonder if you could create a variant of it,
>>>>>>> but in which
>>>>>>> >>>> I can set a mask image and your class just return the
>>>>>>> VectorImage with all
>>>>>>> >>>> the features for that region (the masked locations) as
>>>>>>> >>>> itk::ScalarImageToTextureFeaturesFilter class does.
>>>>>>> >>>> I mean, to get the vector image with all the features but just
>>>>>>> >>>> calculate it for the regions belonging to the mask image.
>>>>>>> Positions not
>>>>>>> >>>> belonging to the mask region could have a pixel value of 0, for
>>>>>>> instance.
>>>>>>> >>>>
>>>>>>> >>>> I don?t know if it is very costly for you,  but I would thank
>>>>>>> you so
>>>>>>> >>>> much. Otherwise, I could try it but I'd need your suggestions
>>>>>>> on how to do
>>>>>>> >>>> it.
>>>>>>> >>>>
>>>>>>> >>>> Thanks a lot.
>>>>>>> >>>> Best regards.
>>>>>>> >>>>
>>>>>>> >>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca
>>>>>>> <[hidden email]
>>>>>>> >>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3>>:
>>>>>>> >>>>
>>>>>>> >>>>> Hello Bradley again,
>>>>>>> >>>>> I would like to ask you for a couple of favours. In the one
>>>>>>> hand,
>>>>>>> >>>>> could you please send me your 3D image so that I can test on
>>>>>>> it? And on the
>>>>>>> >>>>> other hand, could you test the example I have referenced in
>>>>>>> the previous
>>>>>>> >>>>> email with your image, not changing anything in the code, such
>>>>>>> as it is,
>>>>>>> >>>>> and tell me if the execution time is normal?
>>>>>>> >>>>> Thank you very much.
>>>>>>> >>>>> Regards,
>>>>>>> >>>>> /Francisco
>>>>>>> >>>>>
>>>>>>> >>>>> PS: All my application trace is printed via standard 'cout'
>>>>>>> command,
>>>>>>> >>>>> not due to a debugging compilation mode.
>>>>>>> >>>>>
>>>>>>> >>>>>
>>>>>>> >>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp
>>>>>>> <[hidden
>>>>>>> >>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=4
>>>>>>> >>
>>>>>>> >>>>> escribi?:
>>>>>>> >>>>>
>>>>>>> >>>>>> Hello,
>>>>>>> >>>>>>
>>>>>>> >>>>>> Did you compile TextureFeatureImage in Release mode?
>>>>>>> >>>>>>
>>>>>>> >>>>>> 1) The filter does not scale well with a large radius. And
>>>>>>> given by
>>>>>>> >>>>>> your initial report of print a very large number of offset
>>>>>>> you, it sounds
>>>>>>> >>>>>> like you are using a large radius with many offsets. I
>>>>>>> created a
>>>>>>> >>>>>> 224x224x300 unsigned short image and ran with the default
>>>>>>> offset and a
>>>>>>> >>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this
>>>>>>> filter is was ~10x
>>>>>>> >>>>>> faster than this example... things change though...
>>>>>>> >>>>>>
>>>>>>> >>>>>>
>>>>>>> >>>>>> 2) I sounds like the boundaries/limits of the histogram may be
>>>>>>> >>>>>> clipping you values. I would inspect the co-occurance matrix.
>>>>>>> >>>>>>
>>>>>>> >>>>>>
>>>>>>> >>>>>> HTH,
>>>>>>> >>>>>> Brad
>>>>>>> >>>>>>
>>>>>>> >>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca
>>>>>>> <[hidden
>>>>>>> >>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=5
>>>>>>> >>
>>>>>>> >>>>>> wrote:
>>>>>>> >>>>>>
>>>>>>> >>>>>> I've tested with itkTextureFeatureImageFilter, with
>>>>>>> >>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>>>>>>> >>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures
>>>>>>> example,
>>>>>>> >>>>>> for a 3D image and here are my comments:
>>>>>>> >>>>>>
>>>>>>> >>>>>>
>>>>>>> >>>>>> 1. I had to interrupt the test after several hours and it
>>>>>>> kept on
>>>>>>> >>>>>> calculating. And this is for only a 3D image (224x224x300). I
>>>>>>> need to
>>>>>>> >>>>>> process around 35 images.
>>>>>>> >>>>>> 2. The result (texture features: entropy, energy,
>>>>>>> correlation, LH,
>>>>>>> >>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0,
>>>>>>> 7.83083e+247].
>>>>>>> >>>>>> These values were not what I expected based on my experience
>>>>>>> on another
>>>>>>> >>>>>> application I developed, but in that case, I calculated the
>>>>>>> texture
>>>>>>> >>>>>> features for an image as a whole, not voxel by voxel.
>>>>>>> >>>>>>
>>>>>>> >>>>>> Regards.
>>>>>>> >>>>>>
>>>>>>> >>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
>>>>>>> >>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6>>:
>>>>>>> >>>>>>
>>>>>>> >>>>>>> i yes i have tried radius = 3;
>>>>>>> >>>>>>> still no luck
>>>>>>> >>>>>>>
>>>>>>> >>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca
>>>>>>> [via ITK
>>>>>>> >>>>>>> Insight
>>>>>>> >>>>>>> Users] <[hidden email]
>>>>>>> >>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7>>
>>>>>>> wrote:
>>>>>>> >>>>>>>
>>>>>>> >>>>>>> > Have you tried with a radius of 3 instead of 1?
>>>>>>> >>>>>>> >
>>>>>>> >>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>>>>>>> >>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
>>>>>>> >>>>>>> >
>>>>>>> >>>>>>> >> hey Matt,
>>>>>>> >>>>>>> >> thanks for ur advice.. it did build successfully... but
>>>>>>> im not
>>>>>>> >>>>>>> able to run
>>>>>>> >>>>>>> >> the code for 2D png image... i tried to change the
>>>>>>> dimension to 2
>>>>>>> >>>>>>> and
>>>>>>> >>>>>>> >> build
>>>>>>> >>>>>>> >> it which it did.. but when i run the code using the
>>>>>>> command
>>>>>>> >>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png
>>>>>>> putput.png
>>>>>>> >>>>>>> 1... i see
>>>>>>> >>>>>>> >> this output
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>> >> offset: [-1, -1] [0, -1]
>>>>>>> >>>>>>> >> offset: [0, -1] [1, -1]
>>>>>>> >>>>>>> >> offset: [-1, 0] [0, 0]
>>>>>>> >>>>>>> >> offset: [0, 0] [1, 0]
>>>>>>> >>>>>>> >> offset: [-1, 1] [0, 1]
>>>>>>> >>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the
>>>>>>> program... if pls
>>>>>>> >>>>>>> tel me
>>>>>>> >>>>>>> >> how can i modify this code to work wid 2d image...
>>>>>>> forgive me if
>>>>>>> >>>>>>> my ques
>>>>>>> >>>>>>> >> are really silly im trying to learn something..
>>>>>>> >>>>>>> >> regards
>>>>>>> >>>>>>> >> Vis
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via ITK
>>>>>>> >>>>>>> Insight Users]
>>>>>>> >>>>>>> >> <
>>>>>>> >>>>>>> >> [hidden email] <
>>>>>>> >>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
>>>>>>> >>>>>>> >> wrote:
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>> >> > Hi,
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >> > The function:
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char
>>>>>>> *argv[])
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >> > must be renamed to
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >> >   main(int argc, char* argv[])
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >> > HTH,
>>>>>>> >>>>>>> >> > Matt
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>>>>>>> >>>>>>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>>
>>>>>>> wrote:
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >> > > hi all,
>>>>>>> >>>>>>> >> > > im trying to build the
>>>>>>> itkTextureFeatureImageFilterTest.cxx
>>>>>>> >>>>>>> code but
>>>>>>> >>>>>>> >> im
>>>>>>> >>>>>>> >> > not
>>>>>>> >>>>>>> >> > > able to it is showing the following error
>>>>>>> >>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>>>>>>> >>>>>>> Configuration:
>>>>>>> >>>>>>> >> Debug
>>>>>>> >>>>>>> >> > x64
>>>>>>> >>>>>>> >> > > ------
>>>>>>> >>>>>>> >> > > 1>  Checking Build System
>>>>>>> >>>>>>> >> > > 1>  CMake does not need to re-run because
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>>
>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>>>>>>> >>>>>>> >> > is
>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>> >>>>>>> >> > > 2>------ Rebuild All started: Project:
>>>>>>> >>>>>>> >> itkTextureFeatureImageFilterTest,
>>>>>>> >>>>>>> >> > > Configuration: Debug x64 ------
>>>>>>> >>>>>>> >> > > 2>  Building Custom Rule
>>>>>>> >>>>>>> >> > >
>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>> >>>>>>> >> > > 2>  CMake does not need to re-run because
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>>
>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>> >>>>>>> >> > is
>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>> >>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>>>>>>> >>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>>>>>>> >>>>>>> 'std::_Copy_impl':
>>>>>>> >>>>>>> >> > Function
>>>>>>> >>>>>>> >> > > call with parameters that may be unsafe - this call
>>>>>>> relies on
>>>>>>> >>>>>>> the
>>>>>>> >>>>>>> >> caller
>>>>>>> >>>>>>> >> > to
>>>>>>> >>>>>>> >> > > check that the passed values are correct. To disable
>>>>>>> this
>>>>>>> >>>>>>> warning, use
>>>>>>> >>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how
>>>>>>> to use
>>>>>>> >>>>>>> Visual C++
>>>>>>> >>>>>>> >> > > 'Checked Iterators'
>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>>> Studio
>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>> >>>>>>> >> > > 2>
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>>
>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>>>>>>> >>>>>>> >> > see
>>>>>>> >>>>>>> >> > > reference to function template instantiation '_OutIt
>>>>>>> >>>>>>> std::copy<const
>>>>>>> >>>>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)'
>>>>>>> being
>>>>>>> >>>>>>> compiled
>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>> >>>>>>> >> > > 2>              _OutIt=unsigned char *,
>>>>>>> >>>>>>> >> > > 2>              _InIt=const unsigned char *
>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>> >>>>>>> >> > > 2>
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>>
>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>>>>>>> >>>>>>> >> > > while compiling class template member function 'void
>>>>>>> >>>>>>> >> > >
>>>>>>> itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>> >>>>>>> >> > > 2>
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>>
>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >> > > : see reference to class template instantiation
>>>>>>> >>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>>> Studio
>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>>> Studio
>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>>> Studio
>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>> >>>>>>> >> > > 2>     Creating library
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>>
>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >> > > and object
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>>
>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved
>>>>>>> >>>>>>> external symbol
>>>>>>> >>>>>>> >> > main
>>>>>>> >>>>>>> >> > > referenced in function __tmainCRTStartup
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>>
>>>>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>>>>>>> >>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>>>>>>> >>>>>>> Configuration: Debug
>>>>>>> >>>>>>> >> > x64
>>>>>>> >>>>>>> >> > > ------
>>>>>>> >>>>>>> >> > > 3>  Building Custom Rule
>>>>>>> >>>>>>> >> > >
>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>> >>>>>>> >> > > 3>  CMake does not need to re-run because
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>>
>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>> >>>>>>> >> > is
>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>> >>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0
>>>>>>> skipped
>>>>>>> >>>>>>> ==========
>>>>>>> >>>>>>> >> > > im using the follwing CMakeList.txt
>>>>>>> >>>>>>> >> > > # This is the root ITK CMakeLists file.
>>>>>>> >>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>>>>>>> >>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>>>>>>> >>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>>>>>>> >>>>>>> >> > > endif()
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>> >> > > # This project is designed to be built outside the
>>>>>>> Insight
>>>>>>> >>>>>>> source
>>>>>>> >>>>>>> >> tree.
>>>>>>> >>>>>>> >> > > project(HelloWorld)
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>> >> > > # Find ITK.
>>>>>>> >>>>>>> >> > > find_package(ITK REQUIRED)
>>>>>>> >>>>>>> >> > > include(${ITK_USE_FILE})
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>>>>>>> >>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>> >> > > target_link_libraries(itkTextureFeatureImageFilterTest
>>>>>>> >>>>>>> >> ${ITK_LIBRARIES})
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>> >> > > please tel me wat the error is??
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>> >> > > --
>>>>>>> >>>>>>> >> > > View this message in context:
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>>
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>>>>>>> >>>>>>> >> > > Sent from the ITK Insight Users mailing list archive
>>>>>>> at
>>>>>>> >>>>>>> Nabble.com <http://nabble.com>.
>>>>>>> >>>>>>> >> > > _____________________________________
>>>>>>> >>>>>>> >> > > Powered by www.kitware.com
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>> >> > > Visit other Kitware open-source projects at
>>>>>>> >>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>> >> > > Kitware offers ITK Training Courses, for more
>>>>>>> information
>>>>>>> >>>>>>> visit:
>>>>>>> >>>>>>> >> > > http://www.kitware.com/products/protraining.php
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>> >> > > Please keep messages on-topic and check the ITK FAQ
>>>>>>> at:
>>>>>>> >>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>> >>>>>>> >> > >
>>>>>>> >>>>>>> >> > > Follow this link to subscribe/unsubscribe:
>>>>>>> >>>>>>> >> > >
>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>> >>>>>>> >> > _____________________________________
>>>>>>> >>>>>>> >> > Powered by www.kitware.com
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >> > Visit other Kitware open-source projects at
>>>>>>> >>>>>>> >> > http://www.kitware.com/opensource/opensource.html
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >> > Kitware offers ITK Training Courses, for more
>>>>>>> information visit:
>>>>>>> >>>>>>> >> > http://www.kitware.com/products/protraining.php
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> >>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >> > Follow this link to subscribe/unsubscribe:
>>>>>>> >>>>>>> >> >
>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >> > ------------------------------
>>>>>>> >>>>>>> >> > If you reply to this email, your message will be added
>>>>>>> to the
>>>>>>> >>>>>>> discussion
>>>>>>> >>>>>>> >> > below:
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>>
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587952.html
>>>>>>> >>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by pixel,
>>>>>>> click
>>>>>>> >>>>>>> here
>>>>>>> >>>>>>> >> > < > .
>>>>>>> >>>>>>> >> > NAML
>>>>>>> >>>>>>> >> > <
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>>
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >> >
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>> >> --
>>>>>>> >>>>>>> >> View this message in context:
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>>
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>>>>>>> >>>>>>> >> Sent from the ITK Insight Users mailing list archive at
>>>>>>> >>>>>>> Nabble.com <http://nabble.com>.
>>>>>>> >>>>>>> >> _____________________________________
>>>>>>> >>>>>>> >> Powered by www.kitware.com
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>> >> Visit other Kitware open-source projects at
>>>>>>> >>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>> >> Kitware offers ITK Training Courses, for more information
>>>>>>> visit:
>>>>>>> >>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> >>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>>> >>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>> >>>>>>> >>
>>>>>>> >>>>>>> >
>>>>>>> >>>>>>> >
>>>>>>> >>>>>>> > _____________________________________
>>>>>>> >>>>>>> > Powered by www.kitware.com
>>>>>>> >>>>>>> >
>>>>>>> >>>>>>> > Visit other Kitware open-source projects at
>>>>>>> >>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>>> >>>>>>> >
>>>>>>> >>>>>>> > Kitware offers ITK Training Courses, for more information
>>>>>>> visit:
>>>>>>> >>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>>> >>>>>>> >
>>>>>>> >>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> >>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>> >>>>>>> >
>>>>>>> >>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>>> >>>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>> >>>>>>> >
>>>>>>> >>>>>>> >
>>>>>>> >>>>>>> > ------------------------------
>>>>>>> >>>>>>> > If you reply to this email, your message will be added to
>>>>>>> the
>>>>>>> >>>>>>> discussion
>>>>>>> >>>>>>> > below:
>>>>>>> >>>>>>> >
>>>>>>> >>>>>>> >
>>>>>>> >>>>>>>
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587961.html
>>>>>>> >>>>>>> > To unsubscribe from [ITK-users] Texture pixel by pixel,
>>>>>>> click here
>>>>>>> >>>>>>> > < > .
>>>>>>> >>>>>>> > NAML
>>>>>>> >>>>>>> > <
>>>>>>> >>>>>>>
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>> >>>>>>> >
>>>>>>> >>>>>>> >
>>>>>>> >>>>>>>
>>>>>>> >>>>>>>
>>>>>>> >>>>>>>
>>>>>>> >>>>>>>
>>>>>>> >>>>>>> --
>>>>>>> >>>>>>> View this message in context:
>>>>>>> >>>>>>>
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
>>>>>>> >>>>>>> Sent from the ITK Insight Users mailing list archive at
>>>>>>> Nabble.com <http://nabble.com>.
>>>>>>> >>>>>>> _____________________________________
>>>>>>> >>>>>>> Powered by www.kitware.com
>>>>>>> >>>>>>>
>>>>>>> >>>>>>> Visit other Kitware open-source projects at
>>>>>>> >>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>> >>>>>>>
>>>>>>> >>>>>>> Kitware offers ITK Training Courses, for more information
>>>>>>> visit:
>>>>>>> >>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>> >>>>>>>
>>>>>>> >>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> >>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>> >>>>>>>
>>>>>>> >>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>> >>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>> >>>>>>>
>>>>>>> >>>>>>
>>>>>>> >>>>>> _____________________________________
>>>>>>> >>>>>> Powered by www.kitware.com
>>>>>>> >>>>>>
>>>>>>> >>>>>> Visit other Kitware open-source projects at
>>>>>>> >>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>> >>>>>>
>>>>>>> >>>>>> Kitware offers ITK Training Courses, for more information
>>>>>>> visit:
>>>>>>> >>>>>> http://www.kitware.com/products/protraining.php
>>>>>>> >>>>>>
>>>>>>> >>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> >>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>> >>>>>>
>>>>>>> >>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>> >>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>> >>>>>>
>>>>>>> >>>>>>
>>>>>>> >>>>>>
>>>>>>> >>>>
>>>>>>> >>>
>>>>>>> >>
>>>>>>> >> _____________________________________
>>>>>>> >> Powered by www.kitware.com
>>>>>>> >>
>>>>>>> >> Visit other Kitware open-source projects at
>>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>>> >>
>>>>>>> >> Kitware offers ITK Training Courses, for more information visit:
>>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>>> >>
>>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>> >>
>>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>> >>
>>>>>>> >>
>>>>>>> >
>>>>>>> > _____________________________________
>>>>>>> > Powered by www.kitware.com
>>>>>>> >
>>>>>>> > Visit other Kitware open-source projects at
>>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>>> >
>>>>>>> > Kitware offers ITK Training Courses, for more information visit:
>>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>>> >
>>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>> >
>>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>> >
>>>>>>> >
>>>>>>> > ------------------------------
>>>>>>> > If you reply to this email, your message will be added to the
>>>>>>> discussion
>>>>>>> > below:
>>>>>>> >
>>>>>>> >
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588477.html
>>>>>>> > To start a new topic under ITK Insight Users, email
>>>>>>> > [hidden email]
>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588490&i=2>
>>>>>>> > To unsubscribe from ITK Insight Users, click here
>>>>>>> > < > .
>>>>>>> > NAML
>>>>>>> > <
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>> >
>>>>>>> >
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> --
>>>>>>> View this message in context:
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588483.html
>>>>>>> Sent from the ITK Insight Users mailing list archive at Nabble.com
>>>>>>> <http://nabble.com>.
>>>>>>> _____________________________________
>>>>>>> Powered by www.kitware.com
>>>>>>>
>>>>>>> Visit other Kitware open-source projects at
>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>
>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>
>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>
>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>
>>>>>>
>>>>>>
>>>>>> _____________________________________
>>>>>> Powered by www.kitware.com
>>>>>>
>>>>>> Visit other Kitware open-source projects at
>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>
>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>
>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>
>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>
>>>>>>
>>>>>> ------------------------------
>>>>>> If you reply to this email, your message will be added to the
>>>>>> discussion below:
>>>>>>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588490.html
>>>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>>>> <http://user/SendEmail.jtp?type=node&node=7588495&i=2>
>>>>>> To unsubscribe from ITK Insight Users, click here.
>>>>>> NAML
>>>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>>>
>>>>>
>>>>>
>>>>> _____________________________________
>>>>> Powered by www.kitware.com
>>>>>
>>>>> Visit other Kitware open-source projects at
>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>
>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>> http://www.kitware.com/products/protraining.php
>>>>>
>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>
>>>>> Follow this link to subscribe/unsubscribe:
>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>
>>>>>
>>>>
>>>> _____________________________________
>>>> Powered by www.kitware.com
>>>>
>>>> Visit other Kitware open-source projects at
>>>> http://www.kitware.com/opensource/opensource.html
>>>>
>>>> Kitware offers ITK Training Courses, for more information visit:
>>>> http://www.kitware.com/products/protraining.php
>>>>
>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>
>>>> Follow this link to subscribe/unsubscribe:
>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>
>>>>
>>>> ------------------------------
>>>> If you reply to this email, your message will be added to the
>>>> discussion below:
>>>>
>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588495.html
>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>> <http:///user/SendEmail.jtp?type=node&node=7588505&i=3>
>>>> To unsubscribe from ITK Insight Users, click here.
>>>> NAML
>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>
>>>
>>>
>>> _____________________________________
>>> Powered by www.kitware.com
>>>
>>> Visit other Kitware open-source projects at
>>> http://www.kitware.com/opensource/opensource.html
>>>
>>> Kitware offers ITK Training Courses, for more information visit:
>>> http://www.kitware.com/products/protraining.php
>>>
>>> Please keep messages on-topic and check the ITK FAQ at:
>>> http://www.itk.org/Wiki/ITK_FAQ
>>>
>>> Follow this link to subscribe/unsubscribe:
>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>
>>>
>> <tester.cpp>_____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://www.kitware.com/products/protraining.php
>>
>> Please keep messages on-topic and check the ITK FAQ at:
>> http://www.itk.org/Wiki/ITK_FAQ
>>
>> Follow this link to subscribe/unsubscribe:
>> http://public.kitware.com/mailman/listinfo/insight-users
>>
>>
>>
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://www.kitware.com/products/protraining.php
>>
>> Please keep messages on-topic and check the ITK FAQ at:
>> http://www.itk.org/Wiki/ITK_FAQ
>>
>> Follow this link to subscribe/unsubscribe:
>> http://public.kitware.com/mailman/listinfo/insight-users
>>
>>
>> ------------------------------
>> If you reply to this email, your message will be added to the discussion
>> below:
>>
>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588505.html
>> To start a new topic under ITK Insight Users, email
>> ml-node+s2283740n2283740h75 at n2.nabble.com
>> To unsubscribe from ITK Insight Users, click here
>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=unsubscribe_by_code&node=2283740&code=ZnJhbmNpc2NvbG9wZXpkZWxhZnJhbmNhQGdtYWlsLmNvbXwyMjgzNzQwfC05OTI2MzcxNg==>
>> .
>> NAML
>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
>
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From matt.mccormick at kitware.com  Thu Feb 18 09:38:22 2016
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Thu, 18 Feb 2016 09:38:22 -0500
Subject: [ITK-users] [New Example] Convert an itk::Image to vtkImageData
Message-ID: <CALzTN-RrSXvf+FvWZPk9uNsK4UZF5hTDhNra3R_BQw_F=L_ErA@mail.gmail.com>

Hi folks,

We have a new example, Convert an itk::Image to vtkImageData:

  http://itk.org/ITKExamples/src/Bridge/VtkGlue/ConvertAnitkImageTovtkImageData/Documentation.html

There is also the inverse, Convert vtkImageData to an itk::Image:

  http://itk.org/ITKExamples/src/Bridge/VtkGlue/ConvertvtkImageDataToAnitkImage/Documentation.html

Matt

From franciscolopezdelafranca at gmail.com  Thu Feb 18 12:30:28 2016
From: franciscolopezdelafranca at gmail.com (Francisco Lopez de la Franca)
Date: Thu, 18 Feb 2016 18:30:28 +0100
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <CAPf2UMRx5mQuqC7+GohHeXUgo44osWTk2U4Kr0kY+SeXOkjuaA@mail.gmail.com>
References: <CAJqi3EJMqTscSxNdOn58Yz2NazfdSdcrTgOY6hRYAK3Z=3-Asw@mail.gmail.com>
 <CAPf2UMTwwE=7eLsCjNZpnWHTemQ3Kpi3waGA0p9tDkcWoU2aZQ@mail.gmail.com>
 <CAJqi3EJ6gSjPxVG9tNguYNHf0pCatepBv3w-4sTtKOnRig_4vA@mail.gmail.com>
 <CAPf2UMQdSHRVYWReSZ+i+=E4igTyUD91ysoqA48DB-O8R3EUTw@mail.gmail.com>
 <CAJqi3EJU6L=R=KUyFvHvLg2w0m=MYQpuWTODcP=W4TiKZXE2eA@mail.gmail.com>
 <CAPf2UMSs-q8_s=5k6KcX48zjEsyKWQ-RzJ3O0ik1ihFcHcp+vg@mail.gmail.com>
 <CAJqi3E+ghXk2AaMYF_eb2_6ZsxJPNYWtFqHaQkKxjJXWuGTEOw@mail.gmail.com>
 <CAPf2UMR=TyVatKidw8Z_OcxUQ82JVXQnx8QcK73X3fsC+E2j1A@mail.gmail.com>
 <3F877AC4-BCD1-43FF-B8B3-7B30F9B6D30B@mail.nih.gov>
 <CAJqi3EKcF8T1goR3UTHiBS4br3NqAR7Z9HQqGaKYGJs21_XByA@mail.gmail.com>
 <CAPf2UMRx5mQuqC7+GohHeXUgo44osWTk2U4Kr0kY+SeXOkjuaA@mail.gmail.com>
Message-ID: <CAJqi3E++Zm9xcfe=D=Hrhd-F4NGnOf99XQwqQ_83RXxF1bE1GA@mail.gmail.com>

Yes. I use mingw (x86_64-w64-mingw32-g++.exe) and I set in CMAKE GUI the
entry CMAKE_CXX_FLAGS to -bigobj and the result is "unrecognized option".


2016-02-18 15:25 GMT+01:00 dzenanz [via ITK Insight Users] <
ml-node+s2283740n7588513h38 at n2.nabble.com>:

> Have you tried /bigobj
> <https://msdn.microsoft.com/en-us/library/ms173499.aspx?f=255&MSPPError=-2147217396>?
> Are you using MinGW? Visual Studio is now free
> <https://www.visualstudio.com/en-us/news/vs2013-community-vs.aspx>.
>
> HTH
>
> On Thu, Feb 18, 2016 at 6:37 AM, Francisco Lopez de la Franca <[hidden
> email] <http:///user/SendEmail.jtp?type=node&node=7588513&i=0>> wrote:
>
>> Hi again,
>> I've got ITK version 4.5.1 (a little bit old, I know), and after making
>> the changes suggested by Dzenanz and recompiling ITK, the problem
>> continues, that is, my code crashes at the same point.
>>
>> Then, I've downloaded the latest stable ITK version, ITK 4.9.0 and
>> compiled from scratch and I get the following error:
>>
>> [ 98%] Building CXX object
>> Modules/IO/TransformBase/src/CMakeFiles/ITKIOTransformBase.dir/itkTransformFactoryBase.cxx.obj
>> C:/MINGW/mingw64/bin/../lib/gcc/x86_64-w64-mingw32/4.8.2/../../../../x86_64-w64-mingw32/bin/as.exe:
>> CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: too many
>> sections (33106)
>> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Assembler messages:
>> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Fatal error: can't write
>> CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: File too
>> big
>>
>> After doing some "googling" and follow some of the instructions referred
>> on the web, I've been unable to solve this.
>> Has anyone met this problem and solved it?
>> Thanks.
>> KR.
>> /Francisco
>>
>> 2016-02-16 22:13 GMT+01:00 Bradley Lowekamp [via ITK Insight Users] <[hidden
>> email] <http:///user/SendEmail.jtp?type=node&node=7588513&i=1>>:
>>
>>> Hello,
>>>
>>> Please take a look at these changes:
>>>
>>> https://github.com/blowekamp/itkTextureAnalysis/commit/9654d74ea1d09f0677f1d1b93242cc94340591bf
>>>
>>> Brad
>>>
>>> On Feb 16, 2016, at 10:35 AM, D?enan Zuki? <[hidden email]
>>> <http:///user/SendEmail.jtp?type=node&node=7588505&i=0>> wrote:
>>>
>>> I have set up a project using one of the tests from Brad's repository
>>> (attached), and it works in debug mode both with his original code and with
>>> your modified class, and crashes in release mode both with his original
>>> code and with your modified class. I will now compile ITK in RelWithDebInfo
>>> in an attempt to figure out where is the crash occurring.
>>>
>>> Regards,
>>> D?enan
>>>
>>> On Tue, Feb 16, 2016 at 1:52 AM, Francisco Lopez de la Franca <[hidden
>>> email] <http:///user/SendEmail.jtp?type=node&node=7588505&i=1>> wrote:
>>>
>>>> Excuse me Dzenanz, but that's not completely true, because I've tested
>>>> Brad's class and it works right.
>>>> The problem seems to be that when you add a new neighbor iterator to
>>>> include just the mask points in the "histogram" then it is when the
>>>> application crashes, and I donot understand why.
>>>> If you just comment the 'maskIter' references you'll see that the
>>>> application works.
>>>> I've created a single threaded class based on the Brad's code and it
>>>> works but it is twice slower, that is why I'm interesting on Brad's class
>>>> (multi-threaded) to make it work.
>>>>
>>>>
>>>> 2016-02-15 17:15 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588505&i=2>>:
>>>>
>>>>> Hi Francisco,
>>>>>
>>>>> both your code and Brad's code run in debug mode (I did not wait for
>>>>> the end), and both crash in release mode immediately on startup. Here is a
>>>>> sample output:
>>>>>
>>>>> Progress input: 0000000002868970
>>>>> input: 0000000002868970
>>>>> _maskImage: 0000000002868970
>>>>> _maskImage: 0000000002868970
>>>>> input: 0000000002868970
>>>>> _maskImage: 0000000002868970
>>>>> iter.first: iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>> [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>> niter index: [5, 5, 210]
>>>>> niter index: [5, 5, 140]
>>>>> maskIter index: [5, 5, 140]
>>>>> maskIter index: [5, 5, 210]
>>>>> Before p3
>>>>> input: 0000000002868970
>>>>> _maskImage: 0000000002868970
>>>>> After p3:  | 0niter index: [5, 5, 70]
>>>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>> niter index: [5, 5, 5]
>>>>> ?
>>>>> maskIter index: [5, 5, 70]
>>>>> After p4: ?
>>>>> Before p3
>>>>> Before p3
>>>>> After p3: ?iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>> niter index: [5, 5, 140]
>>>>> maskIter index: [5, 5, 140]
>>>>> maskIter index: [5, 5, 5]
>>>>> Before p3
>>>>> After p3: ?
>>>>> After p3: ?
>>>>> After p4: ?
>>>>> After p4: ?
>>>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>> niter index: [5, 5, 5]
>>>>> maskIter index: [5, 5, 5]
>>>>>
>>>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>> Before p3
>>>>> Before p3
>>>>> After p4: ?
>>>>> After p3: ?
>>>>> After p4: ?
>>>>>
>>>>> Regards,
>>>>> D?enan
>>>>>
>>>>> On Mon, Feb 15, 2016 at 1:36 AM, Francisco Lopez de la Franca <[hidden
>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=0>> wrote:
>>>>>
>>>>>> Hi,
>>>>>> Here they are.
>>>>>> KR.
>>>>>>
>>>>>> 2016-02-12 16:22 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=1>>:
>>>>>>
>>>>>>> Hi Francisco,
>>>>>>>
>>>>>>> do you mind attaching the modified files or pointing to your fork of
>>>>>>> it on GitHub?
>>>>>>>
>>>>>>> Regards
>>>>>>>
>>>>>>> On Thu, Feb 11, 2016 at 12:08 PM, Francisco L?pez-Franca <[hidden
>>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588490&i=0>>
>>>>>>> wrote:
>>>>>>>
>>>>>>>> Hi Dzenan,
>>>>>>>> The original class is here:
>>>>>>>>
>>>>>>>>
>>>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h
>>>>>>>>
>>>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx
>>>>>>>>
>>>>>>>> I've just added setInput and setMaskImage methods and modify some
>>>>>>>> lines in
>>>>>>>> the original class as I indicated in the yesterday mail within this
>>>>>>>> thread.
>>>>>>>> I'm running it on Windows, and there is no error at all, just a
>>>>>>>> crash. I
>>>>>>>> may have to include exceptions management.
>>>>>>>> The crash occurs just when calling p3 =
>>>>>>>> maskIter.GetPixel(iter->first)
>>>>>>>>
>>>>>>>> If you know why it could be or if you need more clarification,
>>>>>>>> please let
>>>>>>>> me know.
>>>>>>>> Many thanks
>>>>>>>>
>>>>>>>> 2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
>>>>>>>> [hidden email]
>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588490&i=1>>:
>>>>>>>>
>>>>>>>> > Hi Francisco,
>>>>>>>> >
>>>>>>>> > "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the
>>>>>>>> error message
>>>>>>>> > that goes along with the crash? In which file and line does it
>>>>>>>> crash?
>>>>>>>> >
>>>>>>>> > Regards
>>>>>>>> >
>>>>>>>> > On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca
>>>>>>>> <[hidden
>>>>>>>> > email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0>>
>>>>>>>> wrote:
>>>>>>>> >
>>>>>>>> >> Hi,
>>>>>>>> >> Please, someone that could help me. I'm working in a
>>>>>>>> pre-doctorate
>>>>>>>> >> project and I need this class to work.
>>>>>>>> >> I've read the chapter 13 in the ITK Software Guide on how to
>>>>>>>> write a
>>>>>>>> >> filter and now I see the fact of the threads due to inheritance
>>>>>>>> of
>>>>>>>> >> ImageToImageFilter.
>>>>>>>> >> But, I keep on without understanding why the code crashes just
>>>>>>>> when
>>>>>>>> >> calling
>>>>>>>> >> *const PixelType p3 = maskIter.GetPixel(iter->first);*
>>>>>>>> >> It is just a call to read data, not to write.
>>>>>>>> >>
>>>>>>>> >> I guess somebody that had worked with creation of filters might
>>>>>>>> see
>>>>>>>> >> "easily" the problem, but not me.
>>>>>>>> >>
>>>>>>>> >> So, again, please, I need someone to help me with this because
>>>>>>>> I'm stuck
>>>>>>>> >> on this point.
>>>>>>>> >>
>>>>>>>> >> Thank you very much.
>>>>>>>> >> KR.
>>>>>>>> >> /Francisco
>>>>>>>> >>
>>>>>>>> >> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca <[hidden
>>>>>>>> email]
>>>>>>>> >> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1>>:
>>>>>>>> >>
>>>>>>>> >>> Hi Bradley again.
>>>>>>>> >>> I'm modifying your class in order to be able to set a mask
>>>>>>>> image (a
>>>>>>>> >>> binary image) to be used as a limit in the histogram
>>>>>>>> calculations, I mean,
>>>>>>>> >>> I set an input, a mask and the class should take into account
>>>>>>>> to calculate
>>>>>>>> >>> the histograms only the voxels that belong to the input and to
>>>>>>>> the mask
>>>>>>>> >>> image and having the value 1 in the mask image.
>>>>>>>> >>> The changes seem to be easy but I don?t know why my tests are
>>>>>>>> not
>>>>>>>> >>> working. It seems that 2 threads are working at the same time
>>>>>>>> and when I
>>>>>>>> >>> added my mask iterator, the code crashes.
>>>>>>>> >>>
>>>>>>>> >>> *** Consider that the input and mask images are the same
>>>>>>>> origin, spacing
>>>>>>>> >>> and size.
>>>>>>>> >>>
>>>>>>>> >>> I attach the main changes I've done, and I would thank you a
>>>>>>>> lot if you
>>>>>>>> >>> don't mind having a look and help me to find what I'm doing
>>>>>>>> wrong:
>>>>>>>> >>>
>>>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>>>> >>> void
>>>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>>>> >::*SetInput*(InputImageType
>>>>>>>> >>> *image)
>>>>>>>> >>> {
>>>>>>>> >>>   // Process object is not const-correct so the const_cast is
>>>>>>>> required
>>>>>>>> >>> here
>>>>>>>> >>>   this->ProcessObject::SetNthInput( 0,
>>>>>>>> >>>                                     const_cast< InputImageType
>>>>>>>> * >(
>>>>>>>> >>> image ) );
>>>>>>>> >>> }
>>>>>>>> >>>
>>>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>>>> >>> void
>>>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>>>> >::*SetMaskImage*(InputImageType
>>>>>>>> >>> *image)
>>>>>>>> >>> {
>>>>>>>> >>>   // Process object is not const-correct so the const_cast is
>>>>>>>> required
>>>>>>>> >>> here
>>>>>>>> >>>   this->ProcessObject::SetNthInput( 1, const_cast<
>>>>>>>> InputImageType * >(
>>>>>>>> >>> image ) );
>>>>>>>> >>>
>>>>>>>> >>>   _maskImage = image; // _maskImage is a private member
>>>>>>>> >>> }
>>>>>>>> >>>
>>>>>>>> >>> In the *ThreadedGenerateData*(const RegionType&
>>>>>>>> outputRegionForThread,
>>>>>>>> >>> ThreadIdType threadId ) method:
>>>>>>>> >>> {
>>>>>>>> >>>
>>>>>>>> >>> ...
>>>>>>>> >>>
>>>>>>>> >>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
>>>>>>>> >>>     {
>>>>>>>> >>>     NeighborhoodIteratorType nIter( radius, input, *fit );
>>>>>>>> >>>     *NeighborhoodIteratorType maskIter( radius, _maskImage,
>>>>>>>> *fit);*
>>>>>>>> >>>     OutputIterator           outIter(output, *fit);
>>>>>>>> >>>
>>>>>>>> >>>     OutputPixelType out;
>>>>>>>> >>>     NumericTraits<OutputPixelType>::SetLength( out,
>>>>>>>> >>> this->GetNumberOfOutputComponents() );
>>>>>>>> >>>
>>>>>>>> >>>     while( !nIter.IsAtEnd() )
>>>>>>>> >>>       {
>>>>>>>> >>>       this->FillHistogram( *histogram, nIter, *maskIter *);
>>>>>>>> >>>
>>>>>>>> >>>       ...
>>>>>>>> >>>
>>>>>>>> >>>       ++nIter;
>>>>>>>> >>>       ++outIter;
>>>>>>>> >>>      * ++maskIter;*
>>>>>>>> >>>     ...
>>>>>>>> >>>
>>>>>>>> >>> In the *FillHistogram *method:
>>>>>>>> >>> {
>>>>>>>> >>>
>>>>>>>> >>> ...
>>>>>>>> >>>
>>>>>>>> >>>   while( iter != m_CooccurenceOffsetVector.end() )
>>>>>>>> >>>     {
>>>>>>>> >>>
>>>>>>>> >>>     const PixelType p1 = niter.GetPixel(iter->first);
>>>>>>>> >>>     const PixelType p2 = niter.GetPixel(iter->second);
>>>>>>>> >>>     std::cout << "Before p3" << std::endl;
>>>>>>>> >>>
>>>>>>>> >>> *    const PixelType p3 = maskIter.GetPixel(iter->first);
>>>>>>>> *std::cout
>>>>>>>> >>> << "After p3: " << p3 << std::endl;
>>>>>>>> >>>
>>>>>>>> >>> *    const PixelType p4 = maskIter.GetPixel(iter->second);   *
>>>>>>>> >>> std::cout << "After p4: " << p4 << std::endl;
>>>>>>>> >>>
>>>>>>>> >>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <=
>>>>>>>> m_Max
>>>>>>>> >>>             *&& p3 == _insidePixelValue && p4 ==
>>>>>>>> _insidePixelValue* )
>>>>>>>> >>> // The point
>>>>>>>> >>>       {
>>>>>>>> >>>
>>>>>>>> >>> ...
>>>>>>>> >>>
>>>>>>>> >>>
>>>>>>>> >>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>>>>>>>> >>>
>>>>>>>> >>> Thank you so much.
>>>>>>>> >>> My kind regards.
>>>>>>>> >>> /Paco
>>>>>>>> >>>
>>>>>>>> >>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca
>>>>>>>> <[hidden email]
>>>>>>>> >>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2>>:
>>>>>>>> >>>
>>>>>>>> >>>> Hello Bradley again.
>>>>>>>> >>>> Sorry but I'd like to re-open this issue because I need your
>>>>>>>> class but
>>>>>>>> >>>> with some modification.
>>>>>>>> >>>> I pass to tell you.
>>>>>>>> >>>>
>>>>>>>> >>>> As my tests with your external class were not good taking into
>>>>>>>> account
>>>>>>>> >>>> the performance, I wonder if you could create a variant of it,
>>>>>>>> but in which
>>>>>>>> >>>> I can set a mask image and your class just return the
>>>>>>>> VectorImage with all
>>>>>>>> >>>> the features for that region (the masked locations) as
>>>>>>>> >>>> itk::ScalarImageToTextureFeaturesFilter class does.
>>>>>>>> >>>> I mean, to get the vector image with all the features but just
>>>>>>>> >>>> calculate it for the regions belonging to the mask image.
>>>>>>>> Positions not
>>>>>>>> >>>> belonging to the mask region could have a pixel value of 0,
>>>>>>>> for instance.
>>>>>>>> >>>>
>>>>>>>> >>>> I don?t know if it is very costly for you,  but I would thank
>>>>>>>> you so
>>>>>>>> >>>> much. Otherwise, I could try it but I'd need your suggestions
>>>>>>>> on how to do
>>>>>>>> >>>> it.
>>>>>>>> >>>>
>>>>>>>> >>>> Thanks a lot.
>>>>>>>> >>>> Best regards.
>>>>>>>> >>>>
>>>>>>>> >>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca
>>>>>>>> <[hidden email]
>>>>>>>> >>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3>>:
>>>>>>>> >>>>
>>>>>>>> >>>>> Hello Bradley again,
>>>>>>>> >>>>> I would like to ask you for a couple of favours. In the one
>>>>>>>> hand,
>>>>>>>> >>>>> could you please send me your 3D image so that I can test on
>>>>>>>> it? And on the
>>>>>>>> >>>>> other hand, could you test the example I have referenced in
>>>>>>>> the previous
>>>>>>>> >>>>> email with your image, not changing anything in the code,
>>>>>>>> such as it is,
>>>>>>>> >>>>> and tell me if the execution time is normal?
>>>>>>>> >>>>> Thank you very much.
>>>>>>>> >>>>> Regards,
>>>>>>>> >>>>> /Francisco
>>>>>>>> >>>>>
>>>>>>>> >>>>> PS: All my application trace is printed via standard 'cout'
>>>>>>>> command,
>>>>>>>> >>>>> not due to a debugging compilation mode.
>>>>>>>> >>>>>
>>>>>>>> >>>>>
>>>>>>>> >>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp
>>>>>>>> <[hidden
>>>>>>>> >>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=4
>>>>>>>> >>
>>>>>>>> >>>>> escribi?:
>>>>>>>> >>>>>
>>>>>>>> >>>>>> Hello,
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> Did you compile TextureFeatureImage in Release mode?
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> 1) The filter does not scale well with a large radius. And
>>>>>>>> given by
>>>>>>>> >>>>>> your initial report of print a very large number of offset
>>>>>>>> you, it sounds
>>>>>>>> >>>>>> like you are using a large radius with many offsets. I
>>>>>>>> created a
>>>>>>>> >>>>>> 224x224x300 unsigned short image and ran with the default
>>>>>>>> offset and a
>>>>>>>> >>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this
>>>>>>>> filter is was ~10x
>>>>>>>> >>>>>> faster than this example... things change though...
>>>>>>>> >>>>>>
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> 2) I sounds like the boundaries/limits of the histogram may
>>>>>>>> be
>>>>>>>> >>>>>> clipping you values. I would inspect the co-occurance matrix.
>>>>>>>> >>>>>>
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> HTH,
>>>>>>>> >>>>>> Brad
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca
>>>>>>>> <[hidden
>>>>>>>> >>>>>> email] <
>>>>>>>> http:///user/SendEmail.jtp?type=node&node=7588477&i=5>>
>>>>>>>> >>>>>> wrote:
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> I've tested with itkTextureFeatureImageFilter, with
>>>>>>>> >>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>>>>>>>> >>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures
>>>>>>>> example,
>>>>>>>> >>>>>> for a 3D image and here are my comments:
>>>>>>>> >>>>>>
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> 1. I had to interrupt the test after several hours and it
>>>>>>>> kept on
>>>>>>>> >>>>>> calculating. And this is for only a 3D image (224x224x300).
>>>>>>>> I need to
>>>>>>>> >>>>>> process around 35 images.
>>>>>>>> >>>>>> 2. The result (texture features: entropy, energy,
>>>>>>>> correlation, LH,
>>>>>>>> >>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0,
>>>>>>>> 7.83083e+247].
>>>>>>>> >>>>>> These values were not what I expected based on my experience
>>>>>>>> on another
>>>>>>>> >>>>>> application I developed, but in that case, I calculated the
>>>>>>>> texture
>>>>>>>> >>>>>> features for an image as a whole, not voxel by voxel.
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> Regards.
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
>>>>>>>> >>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6>>:
>>>>>>>> >>>>>>
>>>>>>>> >>>>>>> i yes i have tried radius = 3;
>>>>>>>> >>>>>>> still no luck
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca
>>>>>>>> [via ITK
>>>>>>>> >>>>>>> Insight
>>>>>>>> >>>>>>> Users] <[hidden email]
>>>>>>>> >>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7>>
>>>>>>>> wrote:
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>> > Have you tried with a radius of 3 instead of 1?
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>>>>>>>> >>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> >> hey Matt,
>>>>>>>> >>>>>>> >> thanks for ur advice.. it did build successfully... but
>>>>>>>> im not
>>>>>>>> >>>>>>> able to run
>>>>>>>> >>>>>>> >> the code for 2D png image... i tried to change the
>>>>>>>> dimension to 2
>>>>>>>> >>>>>>> and
>>>>>>>> >>>>>>> >> build
>>>>>>>> >>>>>>> >> it which it did.. but when i run the code using the
>>>>>>>> command
>>>>>>>> >>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png
>>>>>>>> putput.png
>>>>>>>> >>>>>>> 1... i see
>>>>>>>> >>>>>>> >> this output
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >> offset: [-1, -1] [0, -1]
>>>>>>>> >>>>>>> >> offset: [0, -1] [1, -1]
>>>>>>>> >>>>>>> >> offset: [-1, 0] [0, 0]
>>>>>>>> >>>>>>> >> offset: [0, 0] [1, 0]
>>>>>>>> >>>>>>> >> offset: [-1, 1] [0, 1]
>>>>>>>> >>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the
>>>>>>>> program... if pls
>>>>>>>> >>>>>>> tel me
>>>>>>>> >>>>>>> >> how can i modify this code to work wid 2d image...
>>>>>>>> forgive me if
>>>>>>>> >>>>>>> my ques
>>>>>>>> >>>>>>> >> are really silly im trying to learn something..
>>>>>>>> >>>>>>> >> regards
>>>>>>>> >>>>>>> >> Vis
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via
>>>>>>>> ITK
>>>>>>>> >>>>>>> Insight Users]
>>>>>>>> >>>>>>> >> <
>>>>>>>> >>>>>>> >> [hidden email] <
>>>>>>>> >>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
>>>>>>>> >>>>>>> >> wrote:
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >> > Hi,
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > The function:
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char
>>>>>>>> *argv[])
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > must be renamed to
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> >   main(int argc, char* argv[])
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > HTH,
>>>>>>>> >>>>>>> >> > Matt
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>>>>>>>> >>>>>>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>>
>>>>>>>> wrote:
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > > hi all,
>>>>>>>> >>>>>>> >> > > im trying to build the
>>>>>>>> itkTextureFeatureImageFilterTest.cxx
>>>>>>>> >>>>>>> code but
>>>>>>>> >>>>>>> >> im
>>>>>>>> >>>>>>> >> > not
>>>>>>>> >>>>>>> >> > > able to it is showing the following error
>>>>>>>> >>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>>>>>>>> >>>>>>> Configuration:
>>>>>>>> >>>>>>> >> Debug
>>>>>>>> >>>>>>> >> > x64
>>>>>>>> >>>>>>> >> > > ------
>>>>>>>> >>>>>>> >> > > 1>  Checking Build System
>>>>>>>> >>>>>>> >> > > 1>  CMake does not need to re-run because
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>>
>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>>>>>>>> >>>>>>> >> > is
>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>> >>>>>>> >> > > 2>------ Rebuild All started: Project:
>>>>>>>> >>>>>>> >> itkTextureFeatureImageFilterTest,
>>>>>>>> >>>>>>> >> > > Configuration: Debug x64 ------
>>>>>>>> >>>>>>> >> > > 2>  Building Custom Rule
>>>>>>>> >>>>>>> >> > >
>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>>> >>>>>>> >> > > 2>  CMake does not need to re-run because
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>>
>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>>> >>>>>>> >> > is
>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>> >>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>>>>>>>> >>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>>>>>>>> >>>>>>> 'std::_Copy_impl':
>>>>>>>> >>>>>>> >> > Function
>>>>>>>> >>>>>>> >> > > call with parameters that may be unsafe - this call
>>>>>>>> relies on
>>>>>>>> >>>>>>> the
>>>>>>>> >>>>>>> >> caller
>>>>>>>> >>>>>>> >> > to
>>>>>>>> >>>>>>> >> > > check that the passed values are correct. To disable
>>>>>>>> this
>>>>>>>> >>>>>>> warning, use
>>>>>>>> >>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how
>>>>>>>> to use
>>>>>>>> >>>>>>> Visual C++
>>>>>>>> >>>>>>> >> > > 'Checked Iterators'
>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>>>> Studio
>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>>>>>>>> >>>>>>> >> > see
>>>>>>>> >>>>>>> >> > > reference to function template instantiation '_OutIt
>>>>>>>> >>>>>>> std::copy<const
>>>>>>>> >>>>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)'
>>>>>>>> being
>>>>>>>> >>>>>>> compiled
>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>> >>>>>>> >> > > 2>              _OutIt=unsigned char *,
>>>>>>>> >>>>>>> >> > > 2>              _InIt=const unsigned char *
>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>>>>>>>> >>>>>>> >> > > while compiling class template member function 'void
>>>>>>>> >>>>>>> >> > >
>>>>>>>> itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > > : see reference to class template instantiation
>>>>>>>> >>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>>>> Studio
>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>>>> Studio
>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>>>> Studio
>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>> >>>>>>> >> > > 2>     Creating library
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > > and object
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved
>>>>>>>> >>>>>>> external symbol
>>>>>>>> >>>>>>> >> > main
>>>>>>>> >>>>>>> >> > > referenced in function __tmainCRTStartup
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>>>>>>>> >>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>>>>>>>> >>>>>>> Configuration: Debug
>>>>>>>> >>>>>>> >> > x64
>>>>>>>> >>>>>>> >> > > ------
>>>>>>>> >>>>>>> >> > > 3>  Building Custom Rule
>>>>>>>> >>>>>>> >> > >
>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>>> >>>>>>> >> > > 3>  CMake does not need to re-run because
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>>
>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>>> >>>>>>> >> > is
>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>> >>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0
>>>>>>>> skipped
>>>>>>>> >>>>>>> ==========
>>>>>>>> >>>>>>> >> > > im using the follwing CMakeList.txt
>>>>>>>> >>>>>>> >> > > # This is the root ITK CMakeLists file.
>>>>>>>> >>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>>>>>>>> >>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>>>>>>>> >>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>>>>>>>> >>>>>>> >> > > endif()
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > > # This project is designed to be built outside the
>>>>>>>> Insight
>>>>>>>> >>>>>>> source
>>>>>>>> >>>>>>> >> tree.
>>>>>>>> >>>>>>> >> > > project(HelloWorld)
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > > # Find ITK.
>>>>>>>> >>>>>>> >> > > find_package(ITK REQUIRED)
>>>>>>>> >>>>>>> >> > > include(${ITK_USE_FILE})
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>>>>>>>> >>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > >
>>>>>>>> target_link_libraries(itkTextureFeatureImageFilterTest
>>>>>>>> >>>>>>> >> ${ITK_LIBRARIES})
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > > please tel me wat the error is??
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > > --
>>>>>>>> >>>>>>> >> > > View this message in context:
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>>>>>>>> >>>>>>> >> > > Sent from the ITK Insight Users mailing list archive
>>>>>>>> at
>>>>>>>> >>>>>>> Nabble.com <http://nabble.com>.
>>>>>>>> >>>>>>> >> > > _____________________________________
>>>>>>>> >>>>>>> >> > > Powered by www.kitware.com
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > > Visit other Kitware open-source projects at
>>>>>>>> >>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > > Kitware offers ITK Training Courses, for more
>>>>>>>> information
>>>>>>>> >>>>>>> visit:
>>>>>>>> >>>>>>> >> > > http://www.kitware.com/products/protraining.php
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > > Please keep messages on-topic and check the ITK FAQ
>>>>>>>> at:
>>>>>>>> >>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > > Follow this link to subscribe/unsubscribe:
>>>>>>>> >>>>>>> >> > >
>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>> >>>>>>> >> > _____________________________________
>>>>>>>> >>>>>>> >> > Powered by www.kitware.com
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > Visit other Kitware open-source projects at
>>>>>>>> >>>>>>> >> > http://www.kitware.com/opensource/opensource.html
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > Kitware offers ITK Training Courses, for more
>>>>>>>> information visit:
>>>>>>>> >>>>>>> >> > http://www.kitware.com/products/protraining.php
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> >>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > Follow this link to subscribe/unsubscribe:
>>>>>>>> >>>>>>> >> >
>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > ------------------------------
>>>>>>>> >>>>>>> >> > If you reply to this email, your message will be added
>>>>>>>> to the
>>>>>>>> >>>>>>> discussion
>>>>>>>> >>>>>>> >> > below:
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587952.html
>>>>>>>> >>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by
>>>>>>>> pixel, click
>>>>>>>> >>>>>>> here
>>>>>>>> >>>>>>> >> > < > .
>>>>>>>> >>>>>>> >> > NAML
>>>>>>>> >>>>>>> >> > <
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >> --
>>>>>>>> >>>>>>> >> View this message in context:
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>>>>>>>> >>>>>>> >> Sent from the ITK Insight Users mailing list archive at
>>>>>>>> >>>>>>> Nabble.com <http://nabble.com>.
>>>>>>>> >>>>>>> >> _____________________________________
>>>>>>>> >>>>>>> >> Powered by www.kitware.com
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >> Visit other Kitware open-source projects at
>>>>>>>> >>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >> Kitware offers ITK Training Courses, for more
>>>>>>>> information visit:
>>>>>>>> >>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> >>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>>>> >>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> > _____________________________________
>>>>>>>> >>>>>>> > Powered by www.kitware.com
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> > Visit other Kitware open-source projects at
>>>>>>>> >>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> > Kitware offers ITK Training Courses, for more information
>>>>>>>> visit:
>>>>>>>> >>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> >>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>>>> >>>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> > ------------------------------
>>>>>>>> >>>>>>> > If you reply to this email, your message will be added to
>>>>>>>> the
>>>>>>>> >>>>>>> discussion
>>>>>>>> >>>>>>> > below:
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>>
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587961.html
>>>>>>>> >>>>>>> > To unsubscribe from [ITK-users] Texture pixel by pixel,
>>>>>>>> click here
>>>>>>>> >>>>>>> > < > .
>>>>>>>> >>>>>>> > NAML
>>>>>>>> >>>>>>> > <
>>>>>>>> >>>>>>>
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>> --
>>>>>>>> >>>>>>> View this message in context:
>>>>>>>> >>>>>>>
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
>>>>>>>> >>>>>>> Sent from the ITK Insight Users mailing list archive at
>>>>>>>> Nabble.com <http://nabble.com>.
>>>>>>>> >>>>>>> _____________________________________
>>>>>>>> >>>>>>> Powered by www.kitware.com
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>> Visit other Kitware open-source projects at
>>>>>>>> >>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>> Kitware offers ITK Training Courses, for more information
>>>>>>>> visit:
>>>>>>>> >>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> >>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>> >>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> _____________________________________
>>>>>>>> >>>>>> Powered by www.kitware.com
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> Visit other Kitware open-source projects at
>>>>>>>> >>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> Kitware offers ITK Training Courses, for more information
>>>>>>>> visit:
>>>>>>>> >>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> >>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>> >>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>> >>>>>>
>>>>>>>> >>>>>>
>>>>>>>> >>>>>>
>>>>>>>> >>>>
>>>>>>>> >>>
>>>>>>>> >>
>>>>>>>> >> _____________________________________
>>>>>>>> >> Powered by www.kitware.com
>>>>>>>> >>
>>>>>>>> >> Visit other Kitware open-source projects at
>>>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>>>> >>
>>>>>>>> >> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>>>> >>
>>>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>> >>
>>>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>> >>
>>>>>>>> >>
>>>>>>>> >
>>>>>>>> > _____________________________________
>>>>>>>> > Powered by www.kitware.com
>>>>>>>> >
>>>>>>>> > Visit other Kitware open-source projects at
>>>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>>>> >
>>>>>>>> > Kitware offers ITK Training Courses, for more information visit:
>>>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>>>> >
>>>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>> >
>>>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>> >
>>>>>>>> >
>>>>>>>> > ------------------------------
>>>>>>>> > If you reply to this email, your message will be added to the
>>>>>>>> discussion
>>>>>>>> > below:
>>>>>>>> >
>>>>>>>> >
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588477.html
>>>>>>>> > To start a new topic under ITK Insight Users, email
>>>>>>>> > [hidden email]
>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588490&i=2>
>>>>>>>> > To unsubscribe from ITK Insight Users, click here
>>>>>>>> > < > .
>>>>>>>> > NAML
>>>>>>>> > <
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>> >
>>>>>>>> >
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> --
>>>>>>>> View this message in context:
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588483.html
>>>>>>>> Sent from the ITK Insight Users mailing list archive at Nabble.com
>>>>>>>> <http://nabble.com>.
>>>>>>>> _____________________________________
>>>>>>>> Powered by www.kitware.com
>>>>>>>>
>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>
>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>
>>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>
>>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> _____________________________________
>>>>>>> Powered by www.kitware.com
>>>>>>>
>>>>>>> Visit other Kitware open-source projects at
>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>
>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>
>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>
>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>
>>>>>>>
>>>>>>> ------------------------------
>>>>>>> If you reply to this email, your message will be added to the
>>>>>>> discussion below:
>>>>>>>
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588490.html
>>>>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588495&i=2>
>>>>>>> To unsubscribe from ITK Insight Users, click here.
>>>>>>> NAML
>>>>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>>>>
>>>>>>
>>>>>>
>>>>>> _____________________________________
>>>>>> Powered by www.kitware.com
>>>>>>
>>>>>> Visit other Kitware open-source projects at
>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>
>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>
>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>
>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>
>>>>>>
>>>>>
>>>>> _____________________________________
>>>>> Powered by www.kitware.com
>>>>>
>>>>> Visit other Kitware open-source projects at
>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>
>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>> http://www.kitware.com/products/protraining.php
>>>>>
>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>
>>>>> Follow this link to subscribe/unsubscribe:
>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>
>>>>>
>>>>> ------------------------------
>>>>> If you reply to this email, your message will be added to the
>>>>> discussion below:
>>>>>
>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588495.html
>>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>>> <http:///user/SendEmail.jtp?type=node&node=7588505&i=3>
>>>>> To unsubscribe from ITK Insight Users, click here.
>>>>> NAML
>>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>>
>>>>
>>>>
>>>> _____________________________________
>>>> Powered by www.kitware.com
>>>>
>>>> Visit other Kitware open-source projects at
>>>> http://www.kitware.com/opensource/opensource.html
>>>>
>>>> Kitware offers ITK Training Courses, for more information visit:
>>>> http://www.kitware.com/products/protraining.php
>>>>
>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>
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From franciscolopezdelafranca at gmail.com  Thu Feb 18 12:30:40 2016
From: franciscolopezdelafranca at gmail.com (=?UTF-8?Q?Francisco_L=C3=B3pez-Franca?=)
Date: Thu, 18 Feb 2016 10:30:40 -0700 (MST)
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <CAPf2UMRx5mQuqC7+GohHeXUgo44osWTk2U4Kr0kY+SeXOkjuaA@mail.gmail.com>
References: <CAPf2UMTwwE=7eLsCjNZpnWHTemQ3Kpi3waGA0p9tDkcWoU2aZQ@mail.gmail.com>
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 <CAJqi3EJU6L=R=KUyFvHvLg2w0m=MYQpuWTODcP=W4TiKZXE2eA@mail.gmail.com>
 <CAPf2UMSs-q8_s=5k6KcX48zjEsyKWQ-RzJ3O0ik1ihFcHcp+vg@mail.gmail.com>
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 <3F877AC4-BCD1-43FF-B8B3-7B30F9B6D30B@mail.nih.gov>
 <CAJqi3EKcF8T1goR3UTHiBS4br3NqAR7Z9HQqGaKYGJs21_XByA@mail.gmail.com>
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Message-ID: <CAJqi3E++Zm9xcfe=D=Hrhd-F4NGnOf99XQwqQ_83RXxF1bE1GA@mail.gmail.com>

Yes. I use mingw (x86_64-w64-mingw32-g++.exe) and I set in CMAKE GUI the
entry CMAKE_CXX_FLAGS to -bigobj and the result is "unrecognized option".


2016-02-18 15:25 GMT+01:00 dzenanz [via ITK Insight Users] <
ml-node+s2283740n7588513h38 at n2.nabble.com>:

> Have you tried /bigobj
> <https://msdn.microsoft.com/en-us/library/ms173499.aspx?f=255&MSPPError=-2147217396>?
> Are you using MinGW? Visual Studio is now free
> <https://www.visualstudio.com/en-us/news/vs2013-community-vs.aspx>.
>
> HTH
>
> On Thu, Feb 18, 2016 at 6:37 AM, Francisco Lopez de la Franca <[hidden
> email] <http:///user/SendEmail.jtp?type=node&node=7588513&i=0>> wrote:
>
>> Hi again,
>> I've got ITK version 4.5.1 (a little bit old, I know), and after making
>> the changes suggested by Dzenanz and recompiling ITK, the problem
>> continues, that is, my code crashes at the same point.
>>
>> Then, I've downloaded the latest stable ITK version, ITK 4.9.0 and
>> compiled from scratch and I get the following error:
>>
>> [ 98%] Building CXX object
>> Modules/IO/TransformBase/src/CMakeFiles/ITKIOTransformBase.dir/itkTransformFactoryBase.cxx.obj
>> C:/MINGW/mingw64/bin/../lib/gcc/x86_64-w64-mingw32/4.8.2/../../../../x86_64-w64-mingw32/bin/as.exe:
>> CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: too many
>> sections (33106)
>> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Assembler messages:
>> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Fatal error: can't write
>> CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: File too
>> big
>>
>> After doing some "googling" and follow some of the instructions referred
>> on the web, I've been unable to solve this.
>> Has anyone met this problem and solved it?
>> Thanks.
>> KR.
>> /Francisco
>>
>> 2016-02-16 22:13 GMT+01:00 Bradley Lowekamp [via ITK Insight Users] <[hidden
>> email] <http:///user/SendEmail.jtp?type=node&node=7588513&i=1>>:
>>
>>> Hello,
>>>
>>> Please take a look at these changes:
>>>
>>> https://github.com/blowekamp/itkTextureAnalysis/commit/9654d74ea1d09f0677f1d1b93242cc94340591bf
>>>
>>> Brad
>>>
>>> On Feb 16, 2016, at 10:35 AM, D?enan Zuki? <[hidden email]
>>> <http:///user/SendEmail.jtp?type=node&node=7588505&i=0>> wrote:
>>>
>>> I have set up a project using one of the tests from Brad's repository
>>> (attached), and it works in debug mode both with his original code and with
>>> your modified class, and crashes in release mode both with his original
>>> code and with your modified class. I will now compile ITK in RelWithDebInfo
>>> in an attempt to figure out where is the crash occurring.
>>>
>>> Regards,
>>> D?enan
>>>
>>> On Tue, Feb 16, 2016 at 1:52 AM, Francisco Lopez de la Franca <[hidden
>>> email] <http:///user/SendEmail.jtp?type=node&node=7588505&i=1>> wrote:
>>>
>>>> Excuse me Dzenanz, but that's not completely true, because I've tested
>>>> Brad's class and it works right.
>>>> The problem seems to be that when you add a new neighbor iterator to
>>>> include just the mask points in the "histogram" then it is when the
>>>> application crashes, and I donot understand why.
>>>> If you just comment the 'maskIter' references you'll see that the
>>>> application works.
>>>> I've created a single threaded class based on the Brad's code and it
>>>> works but it is twice slower, that is why I'm interesting on Brad's class
>>>> (multi-threaded) to make it work.
>>>>
>>>>
>>>> 2016-02-15 17:15 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588505&i=2>>:
>>>>
>>>>> Hi Francisco,
>>>>>
>>>>> both your code and Brad's code run in debug mode (I did not wait for
>>>>> the end), and both crash in release mode immediately on startup. Here is a
>>>>> sample output:
>>>>>
>>>>> Progress input: 0000000002868970
>>>>> input: 0000000002868970
>>>>> _maskImage: 0000000002868970
>>>>> _maskImage: 0000000002868970
>>>>> input: 0000000002868970
>>>>> _maskImage: 0000000002868970
>>>>> iter.first: iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>> [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>> niter index: [5, 5, 210]
>>>>> niter index: [5, 5, 140]
>>>>> maskIter index: [5, 5, 140]
>>>>> maskIter index: [5, 5, 210]
>>>>> Before p3
>>>>> input: 0000000002868970
>>>>> _maskImage: 0000000002868970
>>>>> After p3:  | 0niter index: [5, 5, 70]
>>>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>> niter index: [5, 5, 5]
>>>>> ?
>>>>> maskIter index: [5, 5, 70]
>>>>> After p4: ?
>>>>> Before p3
>>>>> Before p3
>>>>> After p3: ?iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>> niter index: [5, 5, 140]
>>>>> maskIter index: [5, 5, 140]
>>>>> maskIter index: [5, 5, 5]
>>>>> Before p3
>>>>> After p3: ?
>>>>> After p3: ?
>>>>> After p4: ?
>>>>> After p4: ?
>>>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>> niter index: [5, 5, 5]
>>>>> maskIter index: [5, 5, 5]
>>>>>
>>>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>> Before p3
>>>>> Before p3
>>>>> After p4: ?
>>>>> After p3: ?
>>>>> After p4: ?
>>>>>
>>>>> Regards,
>>>>> D?enan
>>>>>
>>>>> On Mon, Feb 15, 2016 at 1:36 AM, Francisco Lopez de la Franca <[hidden
>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=0>> wrote:
>>>>>
>>>>>> Hi,
>>>>>> Here they are.
>>>>>> KR.
>>>>>>
>>>>>> 2016-02-12 16:22 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=1>>:
>>>>>>
>>>>>>> Hi Francisco,
>>>>>>>
>>>>>>> do you mind attaching the modified files or pointing to your fork of
>>>>>>> it on GitHub?
>>>>>>>
>>>>>>> Regards
>>>>>>>
>>>>>>> On Thu, Feb 11, 2016 at 12:08 PM, Francisco L?pez-Franca <[hidden
>>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588490&i=0>>
>>>>>>> wrote:
>>>>>>>
>>>>>>>> Hi Dzenan,
>>>>>>>> The original class is here:
>>>>>>>>
>>>>>>>>
>>>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h
>>>>>>>>
>>>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx
>>>>>>>>
>>>>>>>> I've just added setInput and setMaskImage methods and modify some
>>>>>>>> lines in
>>>>>>>> the original class as I indicated in the yesterday mail within this
>>>>>>>> thread.
>>>>>>>> I'm running it on Windows, and there is no error at all, just a
>>>>>>>> crash. I
>>>>>>>> may have to include exceptions management.
>>>>>>>> The crash occurs just when calling p3 =
>>>>>>>> maskIter.GetPixel(iter->first)
>>>>>>>>
>>>>>>>> If you know why it could be or if you need more clarification,
>>>>>>>> please let
>>>>>>>> me know.
>>>>>>>> Many thanks
>>>>>>>>
>>>>>>>> 2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
>>>>>>>> [hidden email]
>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588490&i=1>>:
>>>>>>>>
>>>>>>>> > Hi Francisco,
>>>>>>>> >
>>>>>>>> > "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the
>>>>>>>> error message
>>>>>>>> > that goes along with the crash? In which file and line does it
>>>>>>>> crash?
>>>>>>>> >
>>>>>>>> > Regards
>>>>>>>> >
>>>>>>>> > On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca
>>>>>>>> <[hidden
>>>>>>>> > email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0>>
>>>>>>>> wrote:
>>>>>>>> >
>>>>>>>> >> Hi,
>>>>>>>> >> Please, someone that could help me. I'm working in a
>>>>>>>> pre-doctorate
>>>>>>>> >> project and I need this class to work.
>>>>>>>> >> I've read the chapter 13 in the ITK Software Guide on how to
>>>>>>>> write a
>>>>>>>> >> filter and now I see the fact of the threads due to inheritance
>>>>>>>> of
>>>>>>>> >> ImageToImageFilter.
>>>>>>>> >> But, I keep on without understanding why the code crashes just
>>>>>>>> when
>>>>>>>> >> calling
>>>>>>>> >> *const PixelType p3 = maskIter.GetPixel(iter->first);*
>>>>>>>> >> It is just a call to read data, not to write.
>>>>>>>> >>
>>>>>>>> >> I guess somebody that had worked with creation of filters might
>>>>>>>> see
>>>>>>>> >> "easily" the problem, but not me.
>>>>>>>> >>
>>>>>>>> >> So, again, please, I need someone to help me with this because
>>>>>>>> I'm stuck
>>>>>>>> >> on this point.
>>>>>>>> >>
>>>>>>>> >> Thank you very much.
>>>>>>>> >> KR.
>>>>>>>> >> /Francisco
>>>>>>>> >>
>>>>>>>> >> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca <[hidden
>>>>>>>> email]
>>>>>>>> >> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1>>:
>>>>>>>> >>
>>>>>>>> >>> Hi Bradley again.
>>>>>>>> >>> I'm modifying your class in order to be able to set a mask
>>>>>>>> image (a
>>>>>>>> >>> binary image) to be used as a limit in the histogram
>>>>>>>> calculations, I mean,
>>>>>>>> >>> I set an input, a mask and the class should take into account
>>>>>>>> to calculate
>>>>>>>> >>> the histograms only the voxels that belong to the input and to
>>>>>>>> the mask
>>>>>>>> >>> image and having the value 1 in the mask image.
>>>>>>>> >>> The changes seem to be easy but I don?t know why my tests are
>>>>>>>> not
>>>>>>>> >>> working. It seems that 2 threads are working at the same time
>>>>>>>> and when I
>>>>>>>> >>> added my mask iterator, the code crashes.
>>>>>>>> >>>
>>>>>>>> >>> *** Consider that the input and mask images are the same
>>>>>>>> origin, spacing
>>>>>>>> >>> and size.
>>>>>>>> >>>
>>>>>>>> >>> I attach the main changes I've done, and I would thank you a
>>>>>>>> lot if you
>>>>>>>> >>> don't mind having a look and help me to find what I'm doing
>>>>>>>> wrong:
>>>>>>>> >>>
>>>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>>>> >>> void
>>>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>>>> >::*SetInput*(InputImageType
>>>>>>>> >>> *image)
>>>>>>>> >>> {
>>>>>>>> >>>   // Process object is not const-correct so the const_cast is
>>>>>>>> required
>>>>>>>> >>> here
>>>>>>>> >>>   this->ProcessObject::SetNthInput( 0,
>>>>>>>> >>>                                     const_cast< InputImageType
>>>>>>>> * >(
>>>>>>>> >>> image ) );
>>>>>>>> >>> }
>>>>>>>> >>>
>>>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>>>> >>> void
>>>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>>>> >::*SetMaskImage*(InputImageType
>>>>>>>> >>> *image)
>>>>>>>> >>> {
>>>>>>>> >>>   // Process object is not const-correct so the const_cast is
>>>>>>>> required
>>>>>>>> >>> here
>>>>>>>> >>>   this->ProcessObject::SetNthInput( 1, const_cast<
>>>>>>>> InputImageType * >(
>>>>>>>> >>> image ) );
>>>>>>>> >>>
>>>>>>>> >>>   _maskImage = image; // _maskImage is a private member
>>>>>>>> >>> }
>>>>>>>> >>>
>>>>>>>> >>> In the *ThreadedGenerateData*(const RegionType&
>>>>>>>> outputRegionForThread,
>>>>>>>> >>> ThreadIdType threadId ) method:
>>>>>>>> >>> {
>>>>>>>> >>>
>>>>>>>> >>> ...
>>>>>>>> >>>
>>>>>>>> >>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
>>>>>>>> >>>     {
>>>>>>>> >>>     NeighborhoodIteratorType nIter( radius, input, *fit );
>>>>>>>> >>>     *NeighborhoodIteratorType maskIter( radius, _maskImage,
>>>>>>>> *fit);*
>>>>>>>> >>>     OutputIterator           outIter(output, *fit);
>>>>>>>> >>>
>>>>>>>> >>>     OutputPixelType out;
>>>>>>>> >>>     NumericTraits<OutputPixelType>::SetLength( out,
>>>>>>>> >>> this->GetNumberOfOutputComponents() );
>>>>>>>> >>>
>>>>>>>> >>>     while( !nIter.IsAtEnd() )
>>>>>>>> >>>       {
>>>>>>>> >>>       this->FillHistogram( *histogram, nIter, *maskIter *);
>>>>>>>> >>>
>>>>>>>> >>>       ...
>>>>>>>> >>>
>>>>>>>> >>>       ++nIter;
>>>>>>>> >>>       ++outIter;
>>>>>>>> >>>      * ++maskIter;*
>>>>>>>> >>>     ...
>>>>>>>> >>>
>>>>>>>> >>> In the *FillHistogram *method:
>>>>>>>> >>> {
>>>>>>>> >>>
>>>>>>>> >>> ...
>>>>>>>> >>>
>>>>>>>> >>>   while( iter != m_CooccurenceOffsetVector.end() )
>>>>>>>> >>>     {
>>>>>>>> >>>
>>>>>>>> >>>     const PixelType p1 = niter.GetPixel(iter->first);
>>>>>>>> >>>     const PixelType p2 = niter.GetPixel(iter->second);
>>>>>>>> >>>     std::cout << "Before p3" << std::endl;
>>>>>>>> >>>
>>>>>>>> >>> *    const PixelType p3 = maskIter.GetPixel(iter->first);
>>>>>>>> *std::cout
>>>>>>>> >>> << "After p3: " << p3 << std::endl;
>>>>>>>> >>>
>>>>>>>> >>> *    const PixelType p4 = maskIter.GetPixel(iter->second);   *
>>>>>>>> >>> std::cout << "After p4: " << p4 << std::endl;
>>>>>>>> >>>
>>>>>>>> >>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <=
>>>>>>>> m_Max
>>>>>>>> >>>             *&& p3 == _insidePixelValue && p4 ==
>>>>>>>> _insidePixelValue* )
>>>>>>>> >>> // The point
>>>>>>>> >>>       {
>>>>>>>> >>>
>>>>>>>> >>> ...
>>>>>>>> >>>
>>>>>>>> >>>
>>>>>>>> >>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>>>>>>>> >>>
>>>>>>>> >>> Thank you so much.
>>>>>>>> >>> My kind regards.
>>>>>>>> >>> /Paco
>>>>>>>> >>>
>>>>>>>> >>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca
>>>>>>>> <[hidden email]
>>>>>>>> >>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2>>:
>>>>>>>> >>>
>>>>>>>> >>>> Hello Bradley again.
>>>>>>>> >>>> Sorry but I'd like to re-open this issue because I need your
>>>>>>>> class but
>>>>>>>> >>>> with some modification.
>>>>>>>> >>>> I pass to tell you.
>>>>>>>> >>>>
>>>>>>>> >>>> As my tests with your external class were not good taking into
>>>>>>>> account
>>>>>>>> >>>> the performance, I wonder if you could create a variant of it,
>>>>>>>> but in which
>>>>>>>> >>>> I can set a mask image and your class just return the
>>>>>>>> VectorImage with all
>>>>>>>> >>>> the features for that region (the masked locations) as
>>>>>>>> >>>> itk::ScalarImageToTextureFeaturesFilter class does.
>>>>>>>> >>>> I mean, to get the vector image with all the features but just
>>>>>>>> >>>> calculate it for the regions belonging to the mask image.
>>>>>>>> Positions not
>>>>>>>> >>>> belonging to the mask region could have a pixel value of 0,
>>>>>>>> for instance.
>>>>>>>> >>>>
>>>>>>>> >>>> I don?t know if it is very costly for you,  but I would thank
>>>>>>>> you so
>>>>>>>> >>>> much. Otherwise, I could try it but I'd need your suggestions
>>>>>>>> on how to do
>>>>>>>> >>>> it.
>>>>>>>> >>>>
>>>>>>>> >>>> Thanks a lot.
>>>>>>>> >>>> Best regards.
>>>>>>>> >>>>
>>>>>>>> >>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca
>>>>>>>> <[hidden email]
>>>>>>>> >>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3>>:
>>>>>>>> >>>>
>>>>>>>> >>>>> Hello Bradley again,
>>>>>>>> >>>>> I would like to ask you for a couple of favours. In the one
>>>>>>>> hand,
>>>>>>>> >>>>> could you please send me your 3D image so that I can test on
>>>>>>>> it? And on the
>>>>>>>> >>>>> other hand, could you test the example I have referenced in
>>>>>>>> the previous
>>>>>>>> >>>>> email with your image, not changing anything in the code,
>>>>>>>> such as it is,
>>>>>>>> >>>>> and tell me if the execution time is normal?
>>>>>>>> >>>>> Thank you very much.
>>>>>>>> >>>>> Regards,
>>>>>>>> >>>>> /Francisco
>>>>>>>> >>>>>
>>>>>>>> >>>>> PS: All my application trace is printed via standard 'cout'
>>>>>>>> command,
>>>>>>>> >>>>> not due to a debugging compilation mode.
>>>>>>>> >>>>>
>>>>>>>> >>>>>
>>>>>>>> >>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp
>>>>>>>> <[hidden
>>>>>>>> >>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=4
>>>>>>>> >>
>>>>>>>> >>>>> escribi?:
>>>>>>>> >>>>>
>>>>>>>> >>>>>> Hello,
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> Did you compile TextureFeatureImage in Release mode?
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> 1) The filter does not scale well with a large radius. And
>>>>>>>> given by
>>>>>>>> >>>>>> your initial report of print a very large number of offset
>>>>>>>> you, it sounds
>>>>>>>> >>>>>> like you are using a large radius with many offsets. I
>>>>>>>> created a
>>>>>>>> >>>>>> 224x224x300 unsigned short image and ran with the default
>>>>>>>> offset and a
>>>>>>>> >>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this
>>>>>>>> filter is was ~10x
>>>>>>>> >>>>>> faster than this example... things change though...
>>>>>>>> >>>>>>
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> 2) I sounds like the boundaries/limits of the histogram may
>>>>>>>> be
>>>>>>>> >>>>>> clipping you values. I would inspect the co-occurance matrix.
>>>>>>>> >>>>>>
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> HTH,
>>>>>>>> >>>>>> Brad
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca
>>>>>>>> <[hidden
>>>>>>>> >>>>>> email] <
>>>>>>>> http:///user/SendEmail.jtp?type=node&node=7588477&i=5>>
>>>>>>>> >>>>>> wrote:
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> I've tested with itkTextureFeatureImageFilter, with
>>>>>>>> >>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>>>>>>>> >>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures
>>>>>>>> example,
>>>>>>>> >>>>>> for a 3D image and here are my comments:
>>>>>>>> >>>>>>
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> 1. I had to interrupt the test after several hours and it
>>>>>>>> kept on
>>>>>>>> >>>>>> calculating. And this is for only a 3D image (224x224x300).
>>>>>>>> I need to
>>>>>>>> >>>>>> process around 35 images.
>>>>>>>> >>>>>> 2. The result (texture features: entropy, energy,
>>>>>>>> correlation, LH,
>>>>>>>> >>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0,
>>>>>>>> 7.83083e+247].
>>>>>>>> >>>>>> These values were not what I expected based on my experience
>>>>>>>> on another
>>>>>>>> >>>>>> application I developed, but in that case, I calculated the
>>>>>>>> texture
>>>>>>>> >>>>>> features for an image as a whole, not voxel by voxel.
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> Regards.
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
>>>>>>>> >>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6>>:
>>>>>>>> >>>>>>
>>>>>>>> >>>>>>> i yes i have tried radius = 3;
>>>>>>>> >>>>>>> still no luck
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca
>>>>>>>> [via ITK
>>>>>>>> >>>>>>> Insight
>>>>>>>> >>>>>>> Users] <[hidden email]
>>>>>>>> >>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7>>
>>>>>>>> wrote:
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>> > Have you tried with a radius of 3 instead of 1?
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>>>>>>>> >>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> >> hey Matt,
>>>>>>>> >>>>>>> >> thanks for ur advice.. it did build successfully... but
>>>>>>>> im not
>>>>>>>> >>>>>>> able to run
>>>>>>>> >>>>>>> >> the code for 2D png image... i tried to change the
>>>>>>>> dimension to 2
>>>>>>>> >>>>>>> and
>>>>>>>> >>>>>>> >> build
>>>>>>>> >>>>>>> >> it which it did.. but when i run the code using the
>>>>>>>> command
>>>>>>>> >>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png
>>>>>>>> putput.png
>>>>>>>> >>>>>>> 1... i see
>>>>>>>> >>>>>>> >> this output
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >> offset: [-1, -1] [0, -1]
>>>>>>>> >>>>>>> >> offset: [0, -1] [1, -1]
>>>>>>>> >>>>>>> >> offset: [-1, 0] [0, 0]
>>>>>>>> >>>>>>> >> offset: [0, 0] [1, 0]
>>>>>>>> >>>>>>> >> offset: [-1, 1] [0, 1]
>>>>>>>> >>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the
>>>>>>>> program... if pls
>>>>>>>> >>>>>>> tel me
>>>>>>>> >>>>>>> >> how can i modify this code to work wid 2d image...
>>>>>>>> forgive me if
>>>>>>>> >>>>>>> my ques
>>>>>>>> >>>>>>> >> are really silly im trying to learn something..
>>>>>>>> >>>>>>> >> regards
>>>>>>>> >>>>>>> >> Vis
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via
>>>>>>>> ITK
>>>>>>>> >>>>>>> Insight Users]
>>>>>>>> >>>>>>> >> <
>>>>>>>> >>>>>>> >> [hidden email] <
>>>>>>>> >>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
>>>>>>>> >>>>>>> >> wrote:
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >> > Hi,
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > The function:
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char
>>>>>>>> *argv[])
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > must be renamed to
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> >   main(int argc, char* argv[])
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > HTH,
>>>>>>>> >>>>>>> >> > Matt
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>>>>>>>> >>>>>>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>>
>>>>>>>> wrote:
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > > hi all,
>>>>>>>> >>>>>>> >> > > im trying to build the
>>>>>>>> itkTextureFeatureImageFilterTest.cxx
>>>>>>>> >>>>>>> code but
>>>>>>>> >>>>>>> >> im
>>>>>>>> >>>>>>> >> > not
>>>>>>>> >>>>>>> >> > > able to it is showing the following error
>>>>>>>> >>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>>>>>>>> >>>>>>> Configuration:
>>>>>>>> >>>>>>> >> Debug
>>>>>>>> >>>>>>> >> > x64
>>>>>>>> >>>>>>> >> > > ------
>>>>>>>> >>>>>>> >> > > 1>  Checking Build System
>>>>>>>> >>>>>>> >> > > 1>  CMake does not need to re-run because
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>>
>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>>>>>>>> >>>>>>> >> > is
>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>> >>>>>>> >> > > 2>------ Rebuild All started: Project:
>>>>>>>> >>>>>>> >> itkTextureFeatureImageFilterTest,
>>>>>>>> >>>>>>> >> > > Configuration: Debug x64 ------
>>>>>>>> >>>>>>> >> > > 2>  Building Custom Rule
>>>>>>>> >>>>>>> >> > >
>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>>> >>>>>>> >> > > 2>  CMake does not need to re-run because
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>>
>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>>> >>>>>>> >> > is
>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>> >>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>>>>>>>> >>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>>>>>>>> >>>>>>> 'std::_Copy_impl':
>>>>>>>> >>>>>>> >> > Function
>>>>>>>> >>>>>>> >> > > call with parameters that may be unsafe - this call
>>>>>>>> relies on
>>>>>>>> >>>>>>> the
>>>>>>>> >>>>>>> >> caller
>>>>>>>> >>>>>>> >> > to
>>>>>>>> >>>>>>> >> > > check that the passed values are correct. To disable
>>>>>>>> this
>>>>>>>> >>>>>>> warning, use
>>>>>>>> >>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how
>>>>>>>> to use
>>>>>>>> >>>>>>> Visual C++
>>>>>>>> >>>>>>> >> > > 'Checked Iterators'
>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>>>> Studio
>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>>>>>>>> >>>>>>> >> > see
>>>>>>>> >>>>>>> >> > > reference to function template instantiation '_OutIt
>>>>>>>> >>>>>>> std::copy<const
>>>>>>>> >>>>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)'
>>>>>>>> being
>>>>>>>> >>>>>>> compiled
>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>> >>>>>>> >> > > 2>              _OutIt=unsigned char *,
>>>>>>>> >>>>>>> >> > > 2>              _InIt=const unsigned char *
>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>>>>>>>> >>>>>>> >> > > while compiling class template member function 'void
>>>>>>>> >>>>>>> >> > >
>>>>>>>> itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > > : see reference to class template instantiation
>>>>>>>> >>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>>>> Studio
>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>>>> Studio
>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>>>> Studio
>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>> >>>>>>> >> > > 2>     Creating library
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > > and object
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved
>>>>>>>> >>>>>>> external symbol
>>>>>>>> >>>>>>> >> > main
>>>>>>>> >>>>>>> >> > > referenced in function __tmainCRTStartup
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>>>>>>>> >>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>>>>>>>> >>>>>>> Configuration: Debug
>>>>>>>> >>>>>>> >> > x64
>>>>>>>> >>>>>>> >> > > ------
>>>>>>>> >>>>>>> >> > > 3>  Building Custom Rule
>>>>>>>> >>>>>>> >> > >
>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>>> >>>>>>> >> > > 3>  CMake does not need to re-run because
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>>
>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>>> >>>>>>> >> > is
>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>> >>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0
>>>>>>>> skipped
>>>>>>>> >>>>>>> ==========
>>>>>>>> >>>>>>> >> > > im using the follwing CMakeList.txt
>>>>>>>> >>>>>>> >> > > # This is the root ITK CMakeLists file.
>>>>>>>> >>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>>>>>>>> >>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>>>>>>>> >>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>>>>>>>> >>>>>>> >> > > endif()
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > > # This project is designed to be built outside the
>>>>>>>> Insight
>>>>>>>> >>>>>>> source
>>>>>>>> >>>>>>> >> tree.
>>>>>>>> >>>>>>> >> > > project(HelloWorld)
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > > # Find ITK.
>>>>>>>> >>>>>>> >> > > find_package(ITK REQUIRED)
>>>>>>>> >>>>>>> >> > > include(${ITK_USE_FILE})
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>>>>>>>> >>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > >
>>>>>>>> target_link_libraries(itkTextureFeatureImageFilterTest
>>>>>>>> >>>>>>> >> ${ITK_LIBRARIES})
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > > please tel me wat the error is??
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > > --
>>>>>>>> >>>>>>> >> > > View this message in context:
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>>>>>>>> >>>>>>> >> > > Sent from the ITK Insight Users mailing list archive
>>>>>>>> at
>>>>>>>> >>>>>>> Nabble.com <http://nabble.com>.
>>>>>>>> >>>>>>> >> > > _____________________________________
>>>>>>>> >>>>>>> >> > > Powered by www.kitware.com
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > > Visit other Kitware open-source projects at
>>>>>>>> >>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > > Kitware offers ITK Training Courses, for more
>>>>>>>> information
>>>>>>>> >>>>>>> visit:
>>>>>>>> >>>>>>> >> > > http://www.kitware.com/products/protraining.php
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > > Please keep messages on-topic and check the ITK FAQ
>>>>>>>> at:
>>>>>>>> >>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>> >>>>>>> >> > >
>>>>>>>> >>>>>>> >> > > Follow this link to subscribe/unsubscribe:
>>>>>>>> >>>>>>> >> > >
>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>> >>>>>>> >> > _____________________________________
>>>>>>>> >>>>>>> >> > Powered by www.kitware.com
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > Visit other Kitware open-source projects at
>>>>>>>> >>>>>>> >> > http://www.kitware.com/opensource/opensource.html
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > Kitware offers ITK Training Courses, for more
>>>>>>>> information visit:
>>>>>>>> >>>>>>> >> > http://www.kitware.com/products/protraining.php
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> >>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > Follow this link to subscribe/unsubscribe:
>>>>>>>> >>>>>>> >> >
>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> > ------------------------------
>>>>>>>> >>>>>>> >> > If you reply to this email, your message will be added
>>>>>>>> to the
>>>>>>>> >>>>>>> discussion
>>>>>>>> >>>>>>> >> > below:
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587952.html
>>>>>>>> >>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by
>>>>>>>> pixel, click
>>>>>>>> >>>>>>> here
>>>>>>>> >>>>>>> >> > < > .
>>>>>>>> >>>>>>> >> > NAML
>>>>>>>> >>>>>>> >> > <
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >> >
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >> --
>>>>>>>> >>>>>>> >> View this message in context:
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>>
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>>>>>>>> >>>>>>> >> Sent from the ITK Insight Users mailing list archive at
>>>>>>>> >>>>>>> Nabble.com <http://nabble.com>.
>>>>>>>> >>>>>>> >> _____________________________________
>>>>>>>> >>>>>>> >> Powered by www.kitware.com
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >> Visit other Kitware open-source projects at
>>>>>>>> >>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >> Kitware offers ITK Training Courses, for more
>>>>>>>> information visit:
>>>>>>>> >>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> >>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>>>> >>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>> >>>>>>> >>
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> > _____________________________________
>>>>>>>> >>>>>>> > Powered by www.kitware.com
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> > Visit other Kitware open-source projects at
>>>>>>>> >>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> > Kitware offers ITK Training Courses, for more information
>>>>>>>> visit:
>>>>>>>> >>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> >>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>>>> >>>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> > ------------------------------
>>>>>>>> >>>>>>> > If you reply to this email, your message will be added to
>>>>>>>> the
>>>>>>>> >>>>>>> discussion
>>>>>>>> >>>>>>> > below:
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>>
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587961.html
>>>>>>>> >>>>>>> > To unsubscribe from [ITK-users] Texture pixel by pixel,
>>>>>>>> click here
>>>>>>>> >>>>>>> > < > .
>>>>>>>> >>>>>>> > NAML
>>>>>>>> >>>>>>> > <
>>>>>>>> >>>>>>>
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>> >
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>> --
>>>>>>>> >>>>>>> View this message in context:
>>>>>>>> >>>>>>>
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
>>>>>>>> >>>>>>> Sent from the ITK Insight Users mailing list archive at
>>>>>>>> Nabble.com <http://nabble.com>.
>>>>>>>> >>>>>>> _____________________________________
>>>>>>>> >>>>>>> Powered by www.kitware.com
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>> Visit other Kitware open-source projects at
>>>>>>>> >>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>> Kitware offers ITK Training Courses, for more information
>>>>>>>> visit:
>>>>>>>> >>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> >>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>> >>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>> >>>>>>>
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> _____________________________________
>>>>>>>> >>>>>> Powered by www.kitware.com
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> Visit other Kitware open-source projects at
>>>>>>>> >>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> Kitware offers ITK Training Courses, for more information
>>>>>>>> visit:
>>>>>>>> >>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> >>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>> >>>>>>
>>>>>>>> >>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>> >>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>> >>>>>>
>>>>>>>> >>>>>>
>>>>>>>> >>>>>>
>>>>>>>> >>>>
>>>>>>>> >>>
>>>>>>>> >>
>>>>>>>> >> _____________________________________
>>>>>>>> >> Powered by www.kitware.com
>>>>>>>> >>
>>>>>>>> >> Visit other Kitware open-source projects at
>>>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>>>> >>
>>>>>>>> >> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>>>> >>
>>>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>> >>
>>>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>> >>
>>>>>>>> >>
>>>>>>>> >
>>>>>>>> > _____________________________________
>>>>>>>> > Powered by www.kitware.com
>>>>>>>> >
>>>>>>>> > Visit other Kitware open-source projects at
>>>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>>>> >
>>>>>>>> > Kitware offers ITK Training Courses, for more information visit:
>>>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>>>> >
>>>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>> >
>>>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>> >
>>>>>>>> >
>>>>>>>> > ------------------------------
>>>>>>>> > If you reply to this email, your message will be added to the
>>>>>>>> discussion
>>>>>>>> > below:
>>>>>>>> >
>>>>>>>> >
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588477.html
>>>>>>>> > To start a new topic under ITK Insight Users, email
>>>>>>>> > [hidden email]
>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588490&i=2>
>>>>>>>> > To unsubscribe from ITK Insight Users, click here
>>>>>>>> > < > .
>>>>>>>> > NAML
>>>>>>>> > <
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>> >
>>>>>>>> >
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> --
>>>>>>>> View this message in context:
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588483.html
>>>>>>>> Sent from the ITK Insight Users mailing list archive at Nabble.com
>>>>>>>> <http://nabble.com>.
>>>>>>>> _____________________________________
>>>>>>>> Powered by www.kitware.com
>>>>>>>>
>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>
>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>
>>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>
>>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> _____________________________________
>>>>>>> Powered by www.kitware.com
>>>>>>>
>>>>>>> Visit other Kitware open-source projects at
>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>
>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>
>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>
>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>
>>>>>>>
>>>>>>> ------------------------------
>>>>>>> If you reply to this email, your message will be added to the
>>>>>>> discussion below:
>>>>>>>
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588490.html
>>>>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588495&i=2>
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From dzenanz at gmail.com  Thu Feb 18 13:00:13 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Thu, 18 Feb 2016 13:00:13 -0500
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <CAJqi3E++Zm9xcfe=D=Hrhd-F4NGnOf99XQwqQ_83RXxF1bE1GA@mail.gmail.com>
References: <CAJqi3EJMqTscSxNdOn58Yz2NazfdSdcrTgOY6hRYAK3Z=3-Asw@mail.gmail.com>
 <CAPf2UMTwwE=7eLsCjNZpnWHTemQ3Kpi3waGA0p9tDkcWoU2aZQ@mail.gmail.com>
 <CAJqi3EJ6gSjPxVG9tNguYNHf0pCatepBv3w-4sTtKOnRig_4vA@mail.gmail.com>
 <CAPf2UMQdSHRVYWReSZ+i+=E4igTyUD91ysoqA48DB-O8R3EUTw@mail.gmail.com>
 <CAJqi3EJU6L=R=KUyFvHvLg2w0m=MYQpuWTODcP=W4TiKZXE2eA@mail.gmail.com>
 <CAPf2UMSs-q8_s=5k6KcX48zjEsyKWQ-RzJ3O0ik1ihFcHcp+vg@mail.gmail.com>
 <CAJqi3E+ghXk2AaMYF_eb2_6ZsxJPNYWtFqHaQkKxjJXWuGTEOw@mail.gmail.com>
 <CAPf2UMR=TyVatKidw8Z_OcxUQ82JVXQnx8QcK73X3fsC+E2j1A@mail.gmail.com>
 <3F877AC4-BCD1-43FF-B8B3-7B30F9B6D30B@mail.nih.gov>
 <CAJqi3EKcF8T1goR3UTHiBS4br3NqAR7Z9HQqGaKYGJs21_XByA@mail.gmail.com>
 <CAPf2UMRx5mQuqC7+GohHeXUgo44osWTk2U4Kr0kY+SeXOkjuaA@mail.gmail.com>
 <CAJqi3E++Zm9xcfe=D=Hrhd-F4NGnOf99XQwqQ_83RXxF1bE1GA@mail.gmail.com>
Message-ID: <CAPf2UMSf_Yk1Va2=g7CzdR8Pcy1j4n+H7pXBeeq5sCYzOYz-OA@mail.gmail.com>

/bigobj is an option for msvc, not mingw.

But that is a different problem from crashing code. If you start a new
thread, somebody with MinGW experience might help you.

On Thu, Feb 18, 2016 at 12:30 PM, Francisco Lopez de la Franca <
franciscolopezdelafranca at gmail.com> wrote:

> Yes. I use mingw (x86_64-w64-mingw32-g++.exe) and I set in CMAKE GUI the
> entry CMAKE_CXX_FLAGS to -bigobj and the result is "unrecognized option".
>
>
> 2016-02-18 15:25 GMT+01:00 dzenanz [via ITK Insight Users] <
> ml-node+s2283740n7588513h38 at n2.nabble.com>:
>
>> Have you tried /bigobj
>> <https://msdn.microsoft.com/en-us/library/ms173499.aspx?f=255&MSPPError=-2147217396>?
>> Are you using MinGW? Visual Studio is now free
>> <https://www.visualstudio.com/en-us/news/vs2013-community-vs.aspx>.
>>
>> HTH
>>
>> On Thu, Feb 18, 2016 at 6:37 AM, Francisco Lopez de la Franca <[hidden
>> email] <http:///user/SendEmail.jtp?type=node&node=7588513&i=0>> wrote:
>>
>>> Hi again,
>>> I've got ITK version 4.5.1 (a little bit old, I know), and after making
>>> the changes suggested by Dzenanz and recompiling ITK, the problem
>>> continues, that is, my code crashes at the same point.
>>>
>>> Then, I've downloaded the latest stable ITK version, ITK 4.9.0 and
>>> compiled from scratch and I get the following error:
>>>
>>> [ 98%] Building CXX object
>>> Modules/IO/TransformBase/src/CMakeFiles/ITKIOTransformBase.dir/itkTransformFactoryBase.cxx.obj
>>> C:/MINGW/mingw64/bin/../lib/gcc/x86_64-w64-mingw32/4.8.2/../../../../x86_64-w64-mingw32/bin/as.exe:
>>> CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: too many
>>> sections (33106)
>>> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Assembler messages:
>>> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Fatal error: can't write
>>> CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: File too
>>> big
>>>
>>> After doing some "googling" and follow some of the instructions referred
>>> on the web, I've been unable to solve this.
>>> Has anyone met this problem and solved it?
>>> Thanks.
>>> KR.
>>> /Francisco
>>>
>>> 2016-02-16 22:13 GMT+01:00 Bradley Lowekamp [via ITK Insight Users] <[hidden
>>> email] <http:///user/SendEmail.jtp?type=node&node=7588513&i=1>>:
>>>
>>>> Hello,
>>>>
>>>> Please take a look at these changes:
>>>>
>>>> https://github.com/blowekamp/itkTextureAnalysis/commit/9654d74ea1d09f0677f1d1b93242cc94340591bf
>>>>
>>>> Brad
>>>>
>>>> On Feb 16, 2016, at 10:35 AM, D?enan Zuki? <[hidden email]
>>>> <http:///user/SendEmail.jtp?type=node&node=7588505&i=0>> wrote:
>>>>
>>>> I have set up a project using one of the tests from Brad's repository
>>>> (attached), and it works in debug mode both with his original code and with
>>>> your modified class, and crashes in release mode both with his original
>>>> code and with your modified class. I will now compile ITK in RelWithDebInfo
>>>> in an attempt to figure out where is the crash occurring.
>>>>
>>>> Regards,
>>>> D?enan
>>>>
>>>> On Tue, Feb 16, 2016 at 1:52 AM, Francisco Lopez de la Franca <[hidden
>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588505&i=1>> wrote:
>>>>
>>>>> Excuse me Dzenanz, but that's not completely true, because I've tested
>>>>> Brad's class and it works right.
>>>>> The problem seems to be that when you add a new neighbor iterator to
>>>>> include just the mask points in the "histogram" then it is when the
>>>>> application crashes, and I donot understand why.
>>>>> If you just comment the 'maskIter' references you'll see that the
>>>>> application works.
>>>>> I've created a single threaded class based on the Brad's code and it
>>>>> works but it is twice slower, that is why I'm interesting on Brad's class
>>>>> (multi-threaded) to make it work.
>>>>>
>>>>>
>>>>> 2016-02-15 17:15 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588505&i=2>>:
>>>>>
>>>>>> Hi Francisco,
>>>>>>
>>>>>> both your code and Brad's code run in debug mode (I did not wait for
>>>>>> the end), and both crash in release mode immediately on startup. Here is a
>>>>>> sample output:
>>>>>>
>>>>>> Progress input: 0000000002868970
>>>>>> input: 0000000002868970
>>>>>> _maskImage: 0000000002868970
>>>>>> _maskImage: 0000000002868970
>>>>>> input: 0000000002868970
>>>>>> _maskImage: 0000000002868970
>>>>>> iter.first: iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>> [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>> niter index: [5, 5, 210]
>>>>>> niter index: [5, 5, 140]
>>>>>> maskIter index: [5, 5, 140]
>>>>>> maskIter index: [5, 5, 210]
>>>>>> Before p3
>>>>>> input: 0000000002868970
>>>>>> _maskImage: 0000000002868970
>>>>>> After p3:  | 0niter index: [5, 5, 70]
>>>>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>> niter index: [5, 5, 5]
>>>>>> ?
>>>>>> maskIter index: [5, 5, 70]
>>>>>> After p4: ?
>>>>>> Before p3
>>>>>> Before p3
>>>>>> After p3: ?iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>>> niter index: [5, 5, 140]
>>>>>> maskIter index: [5, 5, 140]
>>>>>> maskIter index: [5, 5, 5]
>>>>>> Before p3
>>>>>> After p3: ?
>>>>>> After p3: ?
>>>>>> After p4: ?
>>>>>> After p4: ?
>>>>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>>> niter index: [5, 5, 5]
>>>>>> maskIter index: [5, 5, 5]
>>>>>>
>>>>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>>> Before p3
>>>>>> Before p3
>>>>>> After p4: ?
>>>>>> After p3: ?
>>>>>> After p4: ?
>>>>>>
>>>>>> Regards,
>>>>>> D?enan
>>>>>>
>>>>>> On Mon, Feb 15, 2016 at 1:36 AM, Francisco Lopez de la Franca <[hidden
>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=0>> wrote:
>>>>>>
>>>>>>> Hi,
>>>>>>> Here they are.
>>>>>>> KR.
>>>>>>>
>>>>>>> 2016-02-12 16:22 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=1>>:
>>>>>>>
>>>>>>>> Hi Francisco,
>>>>>>>>
>>>>>>>> do you mind attaching the modified files or pointing to your fork
>>>>>>>> of it on GitHub?
>>>>>>>>
>>>>>>>> Regards
>>>>>>>>
>>>>>>>> On Thu, Feb 11, 2016 at 12:08 PM, Francisco L?pez-Franca <[hidden
>>>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588490&i=0>>
>>>>>>>> wrote:
>>>>>>>>
>>>>>>>>> Hi Dzenan,
>>>>>>>>> The original class is here:
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h
>>>>>>>>>
>>>>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx
>>>>>>>>>
>>>>>>>>> I've just added setInput and setMaskImage methods and modify some
>>>>>>>>> lines in
>>>>>>>>> the original class as I indicated in the yesterday mail within
>>>>>>>>> this thread.
>>>>>>>>> I'm running it on Windows, and there is no error at all, just a
>>>>>>>>> crash. I
>>>>>>>>> may have to include exceptions management.
>>>>>>>>> The crash occurs just when calling p3 =
>>>>>>>>> maskIter.GetPixel(iter->first)
>>>>>>>>>
>>>>>>>>> If you know why it could be or if you need more clarification,
>>>>>>>>> please let
>>>>>>>>> me know.
>>>>>>>>> Many thanks
>>>>>>>>>
>>>>>>>>> 2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
>>>>>>>>> [hidden email]
>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588490&i=1>>:
>>>>>>>>>
>>>>>>>>> > Hi Francisco,
>>>>>>>>> >
>>>>>>>>> > "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the
>>>>>>>>> error message
>>>>>>>>> > that goes along with the crash? In which file and line does it
>>>>>>>>> crash?
>>>>>>>>> >
>>>>>>>>> > Regards
>>>>>>>>> >
>>>>>>>>> > On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca
>>>>>>>>> <[hidden
>>>>>>>>> > email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0>>
>>>>>>>>> wrote:
>>>>>>>>> >
>>>>>>>>> >> Hi,
>>>>>>>>> >> Please, someone that could help me. I'm working in a
>>>>>>>>> pre-doctorate
>>>>>>>>> >> project and I need this class to work.
>>>>>>>>> >> I've read the chapter 13 in the ITK Software Guide on how to
>>>>>>>>> write a
>>>>>>>>> >> filter and now I see the fact of the threads due to inheritance
>>>>>>>>> of
>>>>>>>>> >> ImageToImageFilter.
>>>>>>>>> >> But, I keep on without understanding why the code crashes just
>>>>>>>>> when
>>>>>>>>> >> calling
>>>>>>>>> >> *const PixelType p3 = maskIter.GetPixel(iter->first);*
>>>>>>>>> >> It is just a call to read data, not to write.
>>>>>>>>> >>
>>>>>>>>> >> I guess somebody that had worked with creation of filters might
>>>>>>>>> see
>>>>>>>>> >> "easily" the problem, but not me.
>>>>>>>>> >>
>>>>>>>>> >> So, again, please, I need someone to help me with this because
>>>>>>>>> I'm stuck
>>>>>>>>> >> on this point.
>>>>>>>>> >>
>>>>>>>>> >> Thank you very much.
>>>>>>>>> >> KR.
>>>>>>>>> >> /Francisco
>>>>>>>>> >>
>>>>>>>>> >> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca
>>>>>>>>> <[hidden email]
>>>>>>>>> >> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1>>:
>>>>>>>>> >>
>>>>>>>>> >>> Hi Bradley again.
>>>>>>>>> >>> I'm modifying your class in order to be able to set a mask
>>>>>>>>> image (a
>>>>>>>>> >>> binary image) to be used as a limit in the histogram
>>>>>>>>> calculations, I mean,
>>>>>>>>> >>> I set an input, a mask and the class should take into account
>>>>>>>>> to calculate
>>>>>>>>> >>> the histograms only the voxels that belong to the input and to
>>>>>>>>> the mask
>>>>>>>>> >>> image and having the value 1 in the mask image.
>>>>>>>>> >>> The changes seem to be easy but I don?t know why my tests are
>>>>>>>>> not
>>>>>>>>> >>> working. It seems that 2 threads are working at the same time
>>>>>>>>> and when I
>>>>>>>>> >>> added my mask iterator, the code crashes.
>>>>>>>>> >>>
>>>>>>>>> >>> *** Consider that the input and mask images are the same
>>>>>>>>> origin, spacing
>>>>>>>>> >>> and size.
>>>>>>>>> >>>
>>>>>>>>> >>> I attach the main changes I've done, and I would thank you a
>>>>>>>>> lot if you
>>>>>>>>> >>> don't mind having a look and help me to find what I'm doing
>>>>>>>>> wrong:
>>>>>>>>> >>>
>>>>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>>>>> >>> void
>>>>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>>>>> >::*SetInput*(InputImageType
>>>>>>>>> >>> *image)
>>>>>>>>> >>> {
>>>>>>>>> >>>   // Process object is not const-correct so the const_cast is
>>>>>>>>> required
>>>>>>>>> >>> here
>>>>>>>>> >>>   this->ProcessObject::SetNthInput( 0,
>>>>>>>>> >>>                                     const_cast< InputImageType
>>>>>>>>> * >(
>>>>>>>>> >>> image ) );
>>>>>>>>> >>> }
>>>>>>>>> >>>
>>>>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>>>>> >>> void
>>>>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>>>>> >::*SetMaskImage*(InputImageType
>>>>>>>>> >>> *image)
>>>>>>>>> >>> {
>>>>>>>>> >>>   // Process object is not const-correct so the const_cast is
>>>>>>>>> required
>>>>>>>>> >>> here
>>>>>>>>> >>>   this->ProcessObject::SetNthInput( 1, const_cast<
>>>>>>>>> InputImageType * >(
>>>>>>>>> >>> image ) );
>>>>>>>>> >>>
>>>>>>>>> >>>   _maskImage = image; // _maskImage is a private member
>>>>>>>>> >>> }
>>>>>>>>> >>>
>>>>>>>>> >>> In the *ThreadedGenerateData*(const RegionType&
>>>>>>>>> outputRegionForThread,
>>>>>>>>> >>> ThreadIdType threadId ) method:
>>>>>>>>> >>> {
>>>>>>>>> >>>
>>>>>>>>> >>> ...
>>>>>>>>> >>>
>>>>>>>>> >>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
>>>>>>>>> >>>     {
>>>>>>>>> >>>     NeighborhoodIteratorType nIter( radius, input, *fit );
>>>>>>>>> >>>     *NeighborhoodIteratorType maskIter( radius, _maskImage,
>>>>>>>>> *fit);*
>>>>>>>>> >>>     OutputIterator           outIter(output, *fit);
>>>>>>>>> >>>
>>>>>>>>> >>>     OutputPixelType out;
>>>>>>>>> >>>     NumericTraits<OutputPixelType>::SetLength( out,
>>>>>>>>> >>> this->GetNumberOfOutputComponents() );
>>>>>>>>> >>>
>>>>>>>>> >>>     while( !nIter.IsAtEnd() )
>>>>>>>>> >>>       {
>>>>>>>>> >>>       this->FillHistogram( *histogram, nIter, *maskIter *);
>>>>>>>>> >>>
>>>>>>>>> >>>       ...
>>>>>>>>> >>>
>>>>>>>>> >>>       ++nIter;
>>>>>>>>> >>>       ++outIter;
>>>>>>>>> >>>      * ++maskIter;*
>>>>>>>>> >>>     ...
>>>>>>>>> >>>
>>>>>>>>> >>> In the *FillHistogram *method:
>>>>>>>>> >>> {
>>>>>>>>> >>>
>>>>>>>>> >>> ...
>>>>>>>>> >>>
>>>>>>>>> >>>   while( iter != m_CooccurenceOffsetVector.end() )
>>>>>>>>> >>>     {
>>>>>>>>> >>>
>>>>>>>>> >>>     const PixelType p1 = niter.GetPixel(iter->first);
>>>>>>>>> >>>     const PixelType p2 = niter.GetPixel(iter->second);
>>>>>>>>> >>>     std::cout << "Before p3" << std::endl;
>>>>>>>>> >>>
>>>>>>>>> >>> *    const PixelType p3 = maskIter.GetPixel(iter->first);
>>>>>>>>> *std::cout
>>>>>>>>> >>> << "After p3: " << p3 << std::endl;
>>>>>>>>> >>>
>>>>>>>>> >>> *    const PixelType p4 = maskIter.GetPixel(iter->second);   *
>>>>>>>>> >>> std::cout << "After p4: " << p4 << std::endl;
>>>>>>>>> >>>
>>>>>>>>> >>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <=
>>>>>>>>> m_Max
>>>>>>>>> >>>             *&& p3 == _insidePixelValue && p4 ==
>>>>>>>>> _insidePixelValue* )
>>>>>>>>> >>> // The point
>>>>>>>>> >>>       {
>>>>>>>>> >>>
>>>>>>>>> >>> ...
>>>>>>>>> >>>
>>>>>>>>> >>>
>>>>>>>>> >>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>>>>>>>>> >>>
>>>>>>>>> >>> Thank you so much.
>>>>>>>>> >>> My kind regards.
>>>>>>>>> >>> /Paco
>>>>>>>>> >>>
>>>>>>>>> >>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca
>>>>>>>>> <[hidden email]
>>>>>>>>> >>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2>>:
>>>>>>>>> >>>
>>>>>>>>> >>>> Hello Bradley again.
>>>>>>>>> >>>> Sorry but I'd like to re-open this issue because I need your
>>>>>>>>> class but
>>>>>>>>> >>>> with some modification.
>>>>>>>>> >>>> I pass to tell you.
>>>>>>>>> >>>>
>>>>>>>>> >>>> As my tests with your external class were not good taking
>>>>>>>>> into account
>>>>>>>>> >>>> the performance, I wonder if you could create a variant of
>>>>>>>>> it, but in which
>>>>>>>>> >>>> I can set a mask image and your class just return the
>>>>>>>>> VectorImage with all
>>>>>>>>> >>>> the features for that region (the masked locations) as
>>>>>>>>> >>>> itk::ScalarImageToTextureFeaturesFilter class does.
>>>>>>>>> >>>> I mean, to get the vector image with all the features but just
>>>>>>>>> >>>> calculate it for the regions belonging to the mask image.
>>>>>>>>> Positions not
>>>>>>>>> >>>> belonging to the mask region could have a pixel value of 0,
>>>>>>>>> for instance.
>>>>>>>>> >>>>
>>>>>>>>> >>>> I don?t know if it is very costly for you,  but I would thank
>>>>>>>>> you so
>>>>>>>>> >>>> much. Otherwise, I could try it but I'd need your suggestions
>>>>>>>>> on how to do
>>>>>>>>> >>>> it.
>>>>>>>>> >>>>
>>>>>>>>> >>>> Thanks a lot.
>>>>>>>>> >>>> Best regards.
>>>>>>>>> >>>>
>>>>>>>>> >>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca
>>>>>>>>> <[hidden email]
>>>>>>>>> >>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3>>:
>>>>>>>>> >>>>
>>>>>>>>> >>>>> Hello Bradley again,
>>>>>>>>> >>>>> I would like to ask you for a couple of favours. In the one
>>>>>>>>> hand,
>>>>>>>>> >>>>> could you please send me your 3D image so that I can test on
>>>>>>>>> it? And on the
>>>>>>>>> >>>>> other hand, could you test the example I have referenced in
>>>>>>>>> the previous
>>>>>>>>> >>>>> email with your image, not changing anything in the code,
>>>>>>>>> such as it is,
>>>>>>>>> >>>>> and tell me if the execution time is normal?
>>>>>>>>> >>>>> Thank you very much.
>>>>>>>>> >>>>> Regards,
>>>>>>>>> >>>>> /Francisco
>>>>>>>>> >>>>>
>>>>>>>>> >>>>> PS: All my application trace is printed via standard 'cout'
>>>>>>>>> command,
>>>>>>>>> >>>>> not due to a debugging compilation mode.
>>>>>>>>> >>>>>
>>>>>>>>> >>>>>
>>>>>>>>> >>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp
>>>>>>>>> <[hidden
>>>>>>>>> >>>>> email] <
>>>>>>>>> http:///user/SendEmail.jtp?type=node&node=7588477&i=4>>
>>>>>>>>> >>>>> escribi?:
>>>>>>>>> >>>>>
>>>>>>>>> >>>>>> Hello,
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>> Did you compile TextureFeatureImage in Release mode?
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>> 1) The filter does not scale well with a large radius. And
>>>>>>>>> given by
>>>>>>>>> >>>>>> your initial report of print a very large number of offset
>>>>>>>>> you, it sounds
>>>>>>>>> >>>>>> like you are using a large radius with many offsets. I
>>>>>>>>> created a
>>>>>>>>> >>>>>> 224x224x300 unsigned short image and ran with the default
>>>>>>>>> offset and a
>>>>>>>>> >>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this
>>>>>>>>> filter is was ~10x
>>>>>>>>> >>>>>> faster than this example... things change though...
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>> 2) I sounds like the boundaries/limits of the histogram may
>>>>>>>>> be
>>>>>>>>> >>>>>> clipping you values. I would inspect the co-occurance
>>>>>>>>> matrix.
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>> HTH,
>>>>>>>>> >>>>>> Brad
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca
>>>>>>>>> <[hidden
>>>>>>>>> >>>>>> email] <
>>>>>>>>> http:///user/SendEmail.jtp?type=node&node=7588477&i=5>>
>>>>>>>>> >>>>>> wrote:
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>> I've tested with itkTextureFeatureImageFilter, with
>>>>>>>>> >>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>>>>>>>>> >>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures
>>>>>>>>> example,
>>>>>>>>> >>>>>> for a 3D image and here are my comments:
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>> 1. I had to interrupt the test after several hours and it
>>>>>>>>> kept on
>>>>>>>>> >>>>>> calculating. And this is for only a 3D image (224x224x300).
>>>>>>>>> I need to
>>>>>>>>> >>>>>> process around 35 images.
>>>>>>>>> >>>>>> 2. The result (texture features: entropy, energy,
>>>>>>>>> correlation, LH,
>>>>>>>>> >>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0,
>>>>>>>>> 7.83083e+247].
>>>>>>>>> >>>>>> These values were not what I expected based on my
>>>>>>>>> experience on another
>>>>>>>>> >>>>>> application I developed, but in that case, I calculated the
>>>>>>>>> texture
>>>>>>>>> >>>>>> features for an image as a whole, not voxel by voxel.
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>> Regards.
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
>>>>>>>>> >>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6>>:
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>>> i yes i have tried radius = 3;
>>>>>>>>> >>>>>>> still no luck
>>>>>>>>> >>>>>>>
>>>>>>>>> >>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca
>>>>>>>>> [via ITK
>>>>>>>>> >>>>>>> Insight
>>>>>>>>> >>>>>>> Users] <[hidden email]
>>>>>>>>> >>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7>>
>>>>>>>>> wrote:
>>>>>>>>> >>>>>>>
>>>>>>>>> >>>>>>> > Have you tried with a radius of 3 instead of 1?
>>>>>>>>> >>>>>>> >
>>>>>>>>> >>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>>>>>>>>> >>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0
>>>>>>>>> >>:
>>>>>>>>> >>>>>>> >
>>>>>>>>> >>>>>>> >> hey Matt,
>>>>>>>>> >>>>>>> >> thanks for ur advice.. it did build successfully... but
>>>>>>>>> im not
>>>>>>>>> >>>>>>> able to run
>>>>>>>>> >>>>>>> >> the code for 2D png image... i tried to change the
>>>>>>>>> dimension to 2
>>>>>>>>> >>>>>>> and
>>>>>>>>> >>>>>>> >> build
>>>>>>>>> >>>>>>> >> it which it did.. but when i run the code using the
>>>>>>>>> command
>>>>>>>>> >>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png
>>>>>>>>> putput.png
>>>>>>>>> >>>>>>> 1... i see
>>>>>>>>> >>>>>>> >> this output
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>> >> offset: [-1, -1] [0, -1]
>>>>>>>>> >>>>>>> >> offset: [0, -1] [1, -1]
>>>>>>>>> >>>>>>> >> offset: [-1, 0] [0, 0]
>>>>>>>>> >>>>>>> >> offset: [0, 0] [1, 0]
>>>>>>>>> >>>>>>> >> offset: [-1, 1] [0, 1]
>>>>>>>>> >>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the
>>>>>>>>> program... if pls
>>>>>>>>> >>>>>>> tel me
>>>>>>>>> >>>>>>> >> how can i modify this code to work wid 2d image...
>>>>>>>>> forgive me if
>>>>>>>>> >>>>>>> my ques
>>>>>>>>> >>>>>>> >> are really silly im trying to learn something..
>>>>>>>>> >>>>>>> >> regards
>>>>>>>>> >>>>>>> >> Vis
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via
>>>>>>>>> ITK
>>>>>>>>> >>>>>>> Insight Users]
>>>>>>>>> >>>>>>> >> <
>>>>>>>>> >>>>>>> >> [hidden email] <
>>>>>>>>> >>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
>>>>>>>>> >>>>>>> >> wrote:
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>> >> > Hi,
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >> > The function:
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char
>>>>>>>>> *argv[])
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >> > must be renamed to
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >> >   main(int argc, char* argv[])
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >> > HTH,
>>>>>>>>> >>>>>>> >> > Matt
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>>>>>>>>> >>>>>>> >> > <
>>>>>>>>> http:///user/SendEmail.jtp?type=node&node=7587952&i=0>> wrote:
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >> > > hi all,
>>>>>>>>> >>>>>>> >> > > im trying to build the
>>>>>>>>> itkTextureFeatureImageFilterTest.cxx
>>>>>>>>> >>>>>>> code but
>>>>>>>>> >>>>>>> >> im
>>>>>>>>> >>>>>>> >> > not
>>>>>>>>> >>>>>>> >> > > able to it is showing the following error
>>>>>>>>> >>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>>>>>>>>> >>>>>>> Configuration:
>>>>>>>>> >>>>>>> >> Debug
>>>>>>>>> >>>>>>> >> > x64
>>>>>>>>> >>>>>>> >> > > ------
>>>>>>>>> >>>>>>> >> > > 1>  Checking Build System
>>>>>>>>> >>>>>>> >> > > 1>  CMake does not need to re-run because
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>>
>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>>>>>>>>> >>>>>>> >> > is
>>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>>> >>>>>>> >> > > 2>------ Rebuild All started: Project:
>>>>>>>>> >>>>>>> >> itkTextureFeatureImageFilterTest,
>>>>>>>>> >>>>>>> >> > > Configuration: Debug x64 ------
>>>>>>>>> >>>>>>> >> > > 2>  Building Custom Rule
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>>>> >>>>>>> >> > > 2>  CMake does not need to re-run because
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>>
>>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>>>> >>>>>>> >> > is
>>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>>> >>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>>>>>>>>> >>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>>>>>>>>> >>>>>>> 'std::_Copy_impl':
>>>>>>>>> >>>>>>> >> > Function
>>>>>>>>> >>>>>>> >> > > call with parameters that may be unsafe - this call
>>>>>>>>> relies on
>>>>>>>>> >>>>>>> the
>>>>>>>>> >>>>>>> >> caller
>>>>>>>>> >>>>>>> >> > to
>>>>>>>>> >>>>>>> >> > > check that the passed values are correct. To
>>>>>>>>> disable this
>>>>>>>>> >>>>>>> warning, use
>>>>>>>>> >>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how
>>>>>>>>> to use
>>>>>>>>> >>>>>>> Visual C++
>>>>>>>>> >>>>>>> >> > > 'Checked Iterators'
>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>>>>> Studio
>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>>
>>>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>>>>>>>>> >>>>>>> >> > see
>>>>>>>>> >>>>>>> >> > > reference to function template instantiation '_OutIt
>>>>>>>>> >>>>>>> std::copy<const
>>>>>>>>> >>>>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)'
>>>>>>>>> being
>>>>>>>>> >>>>>>> compiled
>>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>>> >>>>>>> >> > > 2>              _OutIt=unsigned char *,
>>>>>>>>> >>>>>>> >> > > 2>              _InIt=const unsigned char *
>>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>>
>>>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>>>>>>>>> >>>>>>> >> > > while compiling class template member function 'void
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>>
>>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >> > > : see reference to class template instantiation
>>>>>>>>> >>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>>>>> Studio
>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>>>>> Studio
>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual
>>>>>>>>> Studio
>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>> >>>>>>> >> > > 2>     Creating library
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>>
>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >> > > and object
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>>
>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019:
>>>>>>>>> unresolved
>>>>>>>>> >>>>>>> external symbol
>>>>>>>>> >>>>>>> >> > main
>>>>>>>>> >>>>>>> >> > > referenced in function __tmainCRTStartup
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>>
>>>>>>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>>>>>>>>> >>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>>>>>>>>> >>>>>>> Configuration: Debug
>>>>>>>>> >>>>>>> >> > x64
>>>>>>>>> >>>>>>> >> > > ------
>>>>>>>>> >>>>>>> >> > > 3>  Building Custom Rule
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>>>> >>>>>>> >> > > 3>  CMake does not need to re-run because
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>>
>>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>>>> >>>>>>> >> > is
>>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>>> >>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0
>>>>>>>>> skipped
>>>>>>>>> >>>>>>> ==========
>>>>>>>>> >>>>>>> >> > > im using the follwing CMakeList.txt
>>>>>>>>> >>>>>>> >> > > # This is the root ITK CMakeLists file.
>>>>>>>>> >>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>>>>>>>>> >>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>>>>>>>>> >>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>>>>>>>>> >>>>>>> >> > > endif()
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>> >> > > # This project is designed to be built outside the
>>>>>>>>> Insight
>>>>>>>>> >>>>>>> source
>>>>>>>>> >>>>>>> >> tree.
>>>>>>>>> >>>>>>> >> > > project(HelloWorld)
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>> >> > > # Find ITK.
>>>>>>>>> >>>>>>> >> > > find_package(ITK REQUIRED)
>>>>>>>>> >>>>>>> >> > > include(${ITK_USE_FILE})
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>>>>>>>>> >>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> target_link_libraries(itkTextureFeatureImageFilterTest
>>>>>>>>> >>>>>>> >> ${ITK_LIBRARIES})
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>> >> > > please tel me wat the error is??
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>> >> > > --
>>>>>>>>> >>>>>>> >> > > View this message in context:
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>>
>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>>>>>>>>> >>>>>>> >> > > Sent from the ITK Insight Users mailing list
>>>>>>>>> archive at
>>>>>>>>> >>>>>>> Nabble.com <http://nabble.com>.
>>>>>>>>> >>>>>>> >> > > _____________________________________
>>>>>>>>> >>>>>>> >> > > Powered by www.kitware.com
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>> >> > > Visit other Kitware open-source projects at
>>>>>>>>> >>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>> >> > > Kitware offers ITK Training Courses, for more
>>>>>>>>> information
>>>>>>>>> >>>>>>> visit:
>>>>>>>>> >>>>>>> >> > > http://www.kitware.com/products/protraining.php
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>> >> > > Please keep messages on-topic and check the ITK FAQ
>>>>>>>>> at:
>>>>>>>>> >>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> >>>>>>> >> > > Follow this link to subscribe/unsubscribe:
>>>>>>>>> >>>>>>> >> > >
>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>> >>>>>>> >> > _____________________________________
>>>>>>>>> >>>>>>> >> > Powered by www.kitware.com
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >> > Visit other Kitware open-source projects at
>>>>>>>>> >>>>>>> >> > http://www.kitware.com/opensource/opensource.html
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >> > Kitware offers ITK Training Courses, for more
>>>>>>>>> information visit:
>>>>>>>>> >>>>>>> >> > http://www.kitware.com/products/protraining.php
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >> > Please keep messages on-topic and check the ITK FAQ
>>>>>>>>> at:
>>>>>>>>> >>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >> > Follow this link to subscribe/unsubscribe:
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >> > ------------------------------
>>>>>>>>> >>>>>>> >> > If you reply to this email, your message will be
>>>>>>>>> added to the
>>>>>>>>> >>>>>>> discussion
>>>>>>>>> >>>>>>> >> > below:
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>>
>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587952.html
>>>>>>>>> >>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by
>>>>>>>>> pixel, click
>>>>>>>>> >>>>>>> here
>>>>>>>>> >>>>>>> >> > < > .
>>>>>>>>> >>>>>>> >> > NAML
>>>>>>>>> >>>>>>> >> > <
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>>
>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >> >
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>> >> --
>>>>>>>>> >>>>>>> >> View this message in context:
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>>
>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>>>>>>>>> >>>>>>> >> Sent from the ITK Insight Users mailing list archive at
>>>>>>>>> >>>>>>> Nabble.com <http://nabble.com>.
>>>>>>>>> >>>>>>> >> _____________________________________
>>>>>>>>> >>>>>>> >> Powered by www.kitware.com
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>> >> Visit other Kitware open-source projects at
>>>>>>>>> >>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>> >> Kitware offers ITK Training Courses, for more
>>>>>>>>> information visit:
>>>>>>>>> >>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>> >>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>>>>> >>>>>>> >>
>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>> >>>>>>> >>
>>>>>>>>> >>>>>>> >
>>>>>>>>> >>>>>>> >
>>>>>>>>> >>>>>>> > _____________________________________
>>>>>>>>> >>>>>>> > Powered by www.kitware.com
>>>>>>>>> >>>>>>> >
>>>>>>>>> >>>>>>> > Visit other Kitware open-source projects at
>>>>>>>>> >>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>>>>> >>>>>>> >
>>>>>>>>> >>>>>>> > Kitware offers ITK Training Courses, for more
>>>>>>>>> information visit:
>>>>>>>>> >>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>>>>> >>>>>>> >
>>>>>>>>> >>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>> >>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>> >>>>>>> >
>>>>>>>>> >>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>>>>> >>>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>> >>>>>>> >
>>>>>>>>> >>>>>>> >
>>>>>>>>> >>>>>>> > ------------------------------
>>>>>>>>> >>>>>>> > If you reply to this email, your message will be added
>>>>>>>>> to the
>>>>>>>>> >>>>>>> discussion
>>>>>>>>> >>>>>>> > below:
>>>>>>>>> >>>>>>> >
>>>>>>>>> >>>>>>> >
>>>>>>>>> >>>>>>>
>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587961.html
>>>>>>>>> >>>>>>> > To unsubscribe from [ITK-users] Texture pixel by pixel,
>>>>>>>>> click here
>>>>>>>>> >>>>>>> > < > .
>>>>>>>>> >>>>>>> > NAML
>>>>>>>>> >>>>>>> > <
>>>>>>>>> >>>>>>>
>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>>> >>>>>>> >
>>>>>>>>> >>>>>>> >
>>>>>>>>> >>>>>>>
>>>>>>>>> >>>>>>>
>>>>>>>>> >>>>>>>
>>>>>>>>> >>>>>>>
>>>>>>>>> >>>>>>> --
>>>>>>>>> >>>>>>> View this message in context:
>>>>>>>>> >>>>>>>
>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
>>>>>>>>> >>>>>>> Sent from the ITK Insight Users mailing list archive at
>>>>>>>>> Nabble.com <http://nabble.com>.
>>>>>>>>> >>>>>>> _____________________________________
>>>>>>>>> >>>>>>> Powered by www.kitware.com
>>>>>>>>> >>>>>>>
>>>>>>>>> >>>>>>> Visit other Kitware open-source projects at
>>>>>>>>> >>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>> >>>>>>>
>>>>>>>>> >>>>>>> Kitware offers ITK Training Courses, for more information
>>>>>>>>> visit:
>>>>>>>>> >>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>> >>>>>>>
>>>>>>>>> >>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>> >>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>> >>>>>>>
>>>>>>>>> >>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>>> >>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>> >>>>>>>
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>> _____________________________________
>>>>>>>>> >>>>>> Powered by www.kitware.com
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>> Visit other Kitware open-source projects at
>>>>>>>>> >>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>> Kitware offers ITK Training Courses, for more information
>>>>>>>>> visit:
>>>>>>>>> >>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>> >>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>>> >>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>>>
>>>>>>>>> >>>>
>>>>>>>>> >>>
>>>>>>>>> >>
>>>>>>>>> >> _____________________________________
>>>>>>>>> >> Powered by www.kitware.com
>>>>>>>>> >>
>>>>>>>>> >> Visit other Kitware open-source projects at
>>>>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>>>>> >>
>>>>>>>>> >> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>>>>> >>
>>>>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>> >>
>>>>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>> >>
>>>>>>>>> >>
>>>>>>>>> >
>>>>>>>>> > _____________________________________
>>>>>>>>> > Powered by www.kitware.com
>>>>>>>>> >
>>>>>>>>> > Visit other Kitware open-source projects at
>>>>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>>>>> >
>>>>>>>>> > Kitware offers ITK Training Courses, for more information visit:
>>>>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>>>>> >
>>>>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>> >
>>>>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>> >
>>>>>>>>> >
>>>>>>>>> > ------------------------------
>>>>>>>>> > If you reply to this email, your message will be added to the
>>>>>>>>> discussion
>>>>>>>>> > below:
>>>>>>>>> >
>>>>>>>>> >
>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588477.html
>>>>>>>>> > To start a new topic under ITK Insight Users, email
>>>>>>>>> > [hidden email]
>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588490&i=2>
>>>>>>>>> > To unsubscribe from ITK Insight Users, click here
>>>>>>>>> > < > .
>>>>>>>>> > NAML
>>>>>>>>> > <
>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>>> >
>>>>>>>>> >
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> --
>>>>>>>>> View this message in context:
>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588483.html
>>>>>>>>> Sent from the ITK Insight Users mailing list archive at Nabble.com
>>>>>>>>> <http://nabble.com>.
>>>>>>>>> _____________________________________
>>>>>>>>> Powered by www.kitware.com
>>>>>>>>>
>>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>
>>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>>
>>>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>
>>>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> _____________________________________
>>>>>>>> Powered by www.kitware.com
>>>>>>>>
>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>
>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>
>>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>
>>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>
>>>>>>>>
>>>>>>>> ------------------------------
>>>>>>>> If you reply to this email, your message will be added to the
>>>>>>>> discussion below:
>>>>>>>>
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588490.html
>>>>>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588495&i=2>
>>>>>>>> To unsubscribe from ITK Insight Users, click here.
>>>>>>>> NAML
>>>>>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> _____________________________________
>>>>>>> Powered by www.kitware.com
>>>>>>>
>>>>>>> Visit other Kitware open-source projects at
>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>
>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>
>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>
>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>
>>>>>>>
>>>>>>
>>>>>> _____________________________________
>>>>>> Powered by www.kitware.com
>>>>>>
>>>>>> Visit other Kitware open-source projects at
>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>
>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>
>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>
>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>
>>>>>>
>>>>>> ------------------------------
>>>>>> If you reply to this email, your message will be added to the
>>>>>> discussion below:
>>>>>>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588495.html
>>>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588505&i=3>
>>>>>> To unsubscribe from ITK Insight Users, click here.
>>>>>> NAML
>>>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>>>
>>>>>
>>>>>
>>>>> _____________________________________
>>>>> Powered by www.kitware.com
>>>>>
>>>>> Visit other Kitware open-source projects at
>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>
>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>> http://www.kitware.com/products/protraining.php
>>>>>
>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>
>>>>> Follow this link to subscribe/unsubscribe:
>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>
>>>>>
>>>> <tester.cpp>_____________________________________
>>>> Powered by www.kitware.com
>>>>
>>>> Visit other Kitware open-source projects at
>>>> http://www.kitware.com/opensource/opensource.html
>>>>
>>>> Kitware offers ITK Training Courses, for more information visit:
>>>> http://www.kitware.com/products/protraining.php
>>>>
>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>
>>>> Follow this link to subscribe/unsubscribe:
>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>
>>>>
>>>>
>>>> _____________________________________
>>>> Powered by www.kitware.com
>>>>
>>>> Visit other Kitware open-source projects at
>>>> http://www.kitware.com/opensource/opensource.html
>>>>
>>>> Kitware offers ITK Training Courses, for more information visit:
>>>> http://www.kitware.com/products/protraining.php
>>>>
>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>
>>>> Follow this link to subscribe/unsubscribe:
>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>
>>>>
>>>> ------------------------------
>>>> If you reply to this email, your message will be added to the
>>>> discussion below:
>>>>
>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588505.html
>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>> <http:///user/SendEmail.jtp?type=node&node=7588513&i=2>
>>>> To unsubscribe from ITK Insight Users, click here.
>>>> NAML
>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>
>>>
>>>
>>> _____________________________________
>>> Powered by www.kitware.com
>>>
>>> Visit other Kitware open-source projects at
>>> http://www.kitware.com/opensource/opensource.html
>>>
>>> Kitware offers ITK Training Courses, for more information visit:
>>> http://www.kitware.com/products/protraining.php
>>>
>>> Please keep messages on-topic and check the ITK FAQ at:
>>> http://www.itk.org/Wiki/ITK_FAQ
>>>
>>> Follow this link to subscribe/unsubscribe:
>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>
>>>
>>
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://www.kitware.com/products/protraining.php
>>
>> Please keep messages on-topic and check the ITK FAQ at:
>> http://www.itk.org/Wiki/ITK_FAQ
>>
>> Follow this link to subscribe/unsubscribe:
>> http://public.kitware.com/mailman/listinfo/insight-users
>>
>>
>> ------------------------------
>> If you reply to this email, your message will be added to the discussion
>> below:
>>
>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588513.html
>> To start a new topic under ITK Insight Users, email
>> ml-node+s2283740n2283740h75 at n2.nabble.com
>> To unsubscribe from ITK Insight Users, click here
>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=unsubscribe_by_code&node=2283740&code=ZnJhbmNpc2NvbG9wZXpkZWxhZnJhbmNhQGdtYWlsLmNvbXwyMjgzNzQwfC05OTI2MzcxNg==>
>> .
>> NAML
>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
>
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From franciscolopezdelafranca at gmail.com  Thu Feb 18 18:22:13 2016
From: franciscolopezdelafranca at gmail.com (Francisco Lopez de la Franca)
Date: Fri, 19 Feb 2016 00:22:13 +0100
Subject: [ITK-users] Compilation error when building ITK 4.9.0 with MinGW
Message-ID: <CAJqi3ELO_-P7GfDksEec03oXiQe_ajhSLfExR5LqdvuYhzUV2g@mail.gmail.com>

Hi,
I've downloaded the last stable ITK version, 4.9.0, for Windows and compile
it by using MinGW-64.
When the compilation reaches almost the 100%, it gives the error:

[ 98%] Building CXX object
Modules/IO/TransformBase/src/CMakeFiles/ITKIOTransformBase.dir/itkTransformFactoryBase.cxx.obj
C:/MINGW/mingw64/bin/../lib/gcc/x86_64-w64-mingw32/4.8.2/../../../../x86_64-w64-mingw32/bin/as.exe:
CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: too many
sections (33106)
C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Assembler messages:
C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Fatal error: can't write
CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: File too
big

I've been searching for a solution on the web for several hours and all the
attempts to solve it have not fix it.

Has anyone ever faced this problem and fix it?

Thanks a lot.
Best regards.
/Francisco
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From matt.mccormick at kitware.com  Fri Feb 19 08:35:17 2016
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Fri, 19 Feb 2016 08:35:17 -0500
Subject: [ITK-users] [New example] Stream a Pipeline
Message-ID: <CALzTN-TNeVEpOQC+=1xNm1phuE7MJg79qMrdsDf9fD9ukartNw@mail.gmail.com>

Hi Folks,

We have a new example: Stream a pipeline

  http://itk.org/ITKExamples/src/Core/Common/StreamAPipeline/Documentation.html

Matt

From kolin9105 at gmail.com  Fri Feb 19 10:05:13 2016
From: kolin9105 at gmail.com (meikolin saimara)
Date: Fri, 19 Feb 2016 22:05:13 +0700
Subject: [ITK-users] (no subject)
Message-ID: <CAEiw7u4eAEPS35QAQTvhWqESwJ2mdXWWLpcN+ZwcsVbN2w7VqA@mail.gmail.com>

hello every one I am beginner in itk..
I have a problem with my program.
I am using E:\ITK\Source\Examples\Segmentation\ConfidenceConnected and then
when I Input file with extension *dcm.
I found message



itk::ImageFileWriterException (0016F120)
Location: "void __thiscall itk::ImageFileWriter<class itk::Image<unsigned
char,2
> >::Write(void)"
File: e:\itk\source\modules\io\imagebase\include\itkImageFileWriter.hxx
Line: 151
Description:  Could not create IO object for writing file d.ccm
  Tried to create one of the following:
    NiftiImageIO
    NrrdImageIO
    GiplImageIO
    HDF5ImageIO
    JPEGImageIO
    GDCMImageIO
    BMPImageIO
    LSMImageIO
    PNGImageIO
    TIFFImageIO
    VTKImageIO
    StimulateImageIO
    BioRadImageIO
    MetaImageIO
    MRCImageIO
    GE4ImageIO
    GE5ImageIO
  You probably failed to set a file suffix, or
    set the suffix to an unsupported type.
what I have to do guys??
help me guys..
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From chinander at gmail.com  Fri Feb 19 10:28:18 2016
From: chinander at gmail.com (Mike Chinander)
Date: Fri, 19 Feb 2016 09:28:18 -0600
Subject: [ITK-users] (no subject)
In-Reply-To: <CAEiw7u4eAEPS35QAQTvhWqESwJ2mdXWWLpcN+ZwcsVbN2w7VqA@mail.gmail.com>
References: <CAEiw7u4eAEPS35QAQTvhWqESwJ2mdXWWLpcN+ZwcsVbN2w7VqA@mail.gmail.com>
Message-ID: <CAEb_q0cAJy7RDBgLvwKeYStSesGALoVN70MTjwkzEvjLZcN8JA@mail.gmail.com>

Looks like you have a typo in your file name; see this line in your output:

"Description:  Could not create IO object for writing file d.ccm"

On Fri, Feb 19, 2016 at 9:05 AM, meikolin saimara <kolin9105 at gmail.com>
wrote:

> hello every one I am beginner in itk..
> I have a problem with my program.
> I am using E:\ITK\Source\Examples\Segmentation\ConfidenceConnected and
> then when I Input file with extension *dcm.
> I found message
>
>
>
> itk::ImageFileWriterException (0016F120)
> Location: "void __thiscall itk::ImageFileWriter<class itk::Image<unsigned
> char,2
> > >::Write(void)"
> File: e:\itk\source\modules\io\imagebase\include\itkImageFileWriter.hxx
> Line: 151
> Description:  Could not create IO object for writing file d.ccm
>   Tried to create one of the following:
>     NiftiImageIO
>     NrrdImageIO
>     GiplImageIO
>     HDF5ImageIO
>     JPEGImageIO
>     GDCMImageIO
>     BMPImageIO
>     LSMImageIO
>     PNGImageIO
>     TIFFImageIO
>     VTKImageIO
>     StimulateImageIO
>     BioRadImageIO
>     MetaImageIO
>     MRCImageIO
>     GE4ImageIO
>     GE5ImageIO
>   You probably failed to set a file suffix, or
>     set the suffix to an unsupported type.
> what I have to do guys??
> help me guys..
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
>
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From matt.mccormick at kitware.com  Fri Feb 19 12:00:42 2016
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Fri, 19 Feb 2016 12:00:42 -0500
Subject: [ITK-users] Compilation error when building ITK 4.9.0 with MinGW
In-Reply-To: <CAJqi3ELO_-P7GfDksEec03oXiQe_ajhSLfExR5LqdvuYhzUV2g@mail.gmail.com>
References: <CAJqi3ELO_-P7GfDksEec03oXiQe_ajhSLfExR5LqdvuYhzUV2g@mail.gmail.com>
Message-ID: <CALzTN-SF11-Me-GmVe=ug=iW5458Pn-=Rqa7x=p7tpzmpXFoxw@mail.gmail.com>

Hi Franscisco,

According to this thread:

 https://cmake.org/pipermail/insight-users/2015-September/052511.html

adding the flags

   -Wa,-mbig-obj

helps at least with the build error.  Does it help in your case?

Thanks,
Matt

On Thu, Feb 18, 2016 at 6:22 PM, Francisco Lopez de la Franca
<franciscolopezdelafranca at gmail.com> wrote:
> Hi,
> I've downloaded the last stable ITK version, 4.9.0, for Windows and compile
> it by using MinGW-64.
> When the compilation reaches almost the 100%, it gives the error:
>
> [ 98%] Building CXX object
> Modules/IO/TransformBase/src/CMakeFiles/ITKIOTransformBase.dir/itkTransformFactoryBase.cxx.obj
> C:/MINGW/mingw64/bin/../lib/gcc/x86_64-w64-mingw32/4.8.2/../../../../x86_64-w64-mingw32/bin/as.exe:
> CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: too many
> sections (33106)
> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Assembler messages:
> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Fatal error: can't write
> CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: File too
> big
>
> I've been searching for a solution on the web for several hours and all the
> attempts to solve it have not fix it.
>
> Has anyone ever faced this problem and fix it?
>
> Thanks a lot.
> Best regards.
> /Francisco
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>

From emily-hammond at uiowa.edu  Fri Feb 19 16:43:31 2016
From: emily-hammond at uiowa.edu (Hammond, Emily M)
Date: Fri, 19 Feb 2016 21:43:31 +0000
Subject: [ITK-users] Apply rigid transform by changing image information
Message-ID: <BN3PR0401MB1395F877B4FED24145D1990AF0A00@BN3PR0401MB1395.namprd04.prod.outlook.com>

Hello,

Context: I am applying a rigid registration process to align two images. The transform allows for anisotropic scaling, a translation, and a versor rotation. I have perform the registration and checked my results by loading the resulting transform into 3D Slicer and applying it to the moving image.

Problem: I am trying to apply the transform to the moving image without resampling, so just changing the image information. Essentially, I want to perform the equivalent of "Harden Transform" in Slicer. I have been following this example (http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv3_2ChangeInformationImageFilter_8cxx-example.html#_a3) to change my image information.

To apply the scaling, I simply multiplied the spacing by the corresponding scale factor. For translation, I added the translation to the origin. For applying the rotation, the example shows to multiply the image direction matrix by the versor rotation matrix. The new spacing, origin, and direction matrix are then input into the new change information image filter.

I have done this, however, when using Slicer to load in the final image, the transform does not show to have been applied correctly. I have been saving my images as MetaImage files (.mhd) so the image information is saved in the header file. Can anyone please give me some advice on how to perform this task appropriately?

Here is my code:

// get image properties
            ImageType::PointType origin = image->GetOrigin();
            ImageType::SpacingType spacing = image->GetSpacing();
            ImageType::DirectionType direction = image->GetDirection();

            // get transform parameters
            TransformType::TranslationType translation = transform->GetTranslation();
            TransformType::ScaleVectorType scale = transform->GetScale();
            TransformType::VersorType versor = transform->GetVersor();

            // apply scaling and translation parameters to image
            for( int i = 0; i < 3; i++ )
            {
                  spacing[i] *= scale[i];
                  origin[i] += translation[i];
            }

            // apply rotation to image
            ImageType::DirectionType newDirection = direction*versor.GetMatrix();

            // allocate hardening filter
            typedef itk::ChangeInformationImageFilter< ImageType > HardenTransformFilter;
            HardenTransformFilter::Pointer harden = HardenTransformFilter::New();
            harden->SetInput( image );

            // set new parameters
            harden->SetOutputSpacing( spacing );
            harden->SetOutputOrigin( origin );
            harden->SetOutputDirection( newDirection );

            // turn change flags on
            harden->ChangeSpacingOn();
            harden->ChangeOriginOn();
            harden->ChangeDirectionOn();

            harden->Update();

Thanks in advance!
Emily Hammond
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From franciscolopezdelafranca at gmail.com  Fri Feb 19 17:56:39 2016
From: franciscolopezdelafranca at gmail.com (Francisco Lopez de la Franca)
Date: Fri, 19 Feb 2016 23:56:39 +0100
Subject: [ITK-users] Compilation error when building ITK 4.9.0 with MinGW
In-Reply-To: <CALzTN-SF11-Me-GmVe=ug=iW5458Pn-=Rqa7x=p7tpzmpXFoxw@mail.gmail.com>
References: <CAJqi3ELO_-P7GfDksEec03oXiQe_ajhSLfExR5LqdvuYhzUV2g@mail.gmail.com>
 <CALzTN-SF11-Me-GmVe=ug=iW5458Pn-=Rqa7x=p7tpzmpXFoxw@mail.gmail.com>
Message-ID: <CAJqi3EJ8fUt_qKBVfB-+fXGPHEoAUvPxsVZttNrH6ZMRRXKSTg@mail.gmail.com>

Hello Matt,
I had already tested the -Wa,-mbig-obj options in CMAKE_CXX_FLAGS and in
CMAKE_C_FLAGS and the answer was:

C:/mingw64/bin/../lib/gcc/x86_64-w64-mingw32/4.8.2/../../../../x86_64-w64-mingw32/bin/as.exe:
unrecognized option `-mbig-obj'

So, I'm stuck at this point, and I'm thinking to change from Mingw to
Visual Studio or another one. But it is very strange that ITK wasn't be
prepared to be compiled via MinGW.

Thanks for answering and if you have any suggestion, it wiil be very well
received.

/Francisco


2016-02-19 18:00 GMT+01:00 Matt McCormick <matt.mccormick at kitware.com>:

> Hi Franscisco,
>
> According to this thread:
>
>  https://cmake.org/pipermail/insight-users/2015-September/052511.html
>
> adding the flags
>
>    -Wa,-mbig-obj
>
> helps at least with the build error.  Does it help in your case?
>
> Thanks,
> Matt
>
> On Thu, Feb 18, 2016 at 6:22 PM, Francisco Lopez de la Franca
> <franciscolopezdelafranca at gmail.com> wrote:
> > Hi,
> > I've downloaded the last stable ITK version, 4.9.0, for Windows and
> compile
> > it by using MinGW-64.
> > When the compilation reaches almost the 100%, it gives the error:
> >
> > [ 98%] Building CXX object
> >
> Modules/IO/TransformBase/src/CMakeFiles/ITKIOTransformBase.dir/itkTransformFactoryBase.cxx.obj
> >
> C:/MINGW/mingw64/bin/../lib/gcc/x86_64-w64-mingw32/4.8.2/../../../../x86_64-w64-mingw32/bin/as.exe:
> > CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: too
> many
> > sections (33106)
> > C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Assembler messages:
> > C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Fatal error: can't write
> > CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: File
> too
> > big
> >
> > I've been searching for a solution on the web for several hours and all
> the
> > attempts to solve it have not fix it.
> >
> > Has anyone ever faced this problem and fix it?
> >
> > Thanks a lot.
> > Best regards.
> > /Francisco
> >
> > _____________________________________
> > Powered by www.kitware.com
> >
> > Visit other Kitware open-source projects at
> > http://www.kitware.com/opensource/opensource.html
> >
> > Kitware offers ITK Training Courses, for more information visit:
> > http://www.kitware.com/products/protraining.php
> >
> > Please keep messages on-topic and check the ITK FAQ at:
> > http://www.itk.org/Wiki/ITK_FAQ
> >
> > Follow this link to subscribe/unsubscribe:
> > http://public.kitware.com/mailman/listinfo/insight-users
> >
>
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From hans-johnson at uiowa.edu  Fri Feb 19 17:26:07 2016
From: hans-johnson at uiowa.edu (Johnson, Hans J)
Date: Fri, 19 Feb 2016 22:26:07 +0000
Subject: [ITK-users] Apply rigid transform by changing image information
Message-ID: <BBD0DA28-195E-47B0-88F2-46E5EFA576E9@uiowa.edu>

Emily,

Please review the following.
https://github.com/BRAINSia/BRAINSTools/blob/master/BRAINSCommonLib/itkResampleInPlaceImageFilter.h

This can do the translation and versor rotation parts of what you want, but currently requires isotropic 1mm scaling.  Hopefully you could modify (and contribute back) an improvement that also incorporates the anisotropic scaleing component.

Let me know if you want to work more closely on this.

Hans

--


From: Insight-users <insight-users-bounces at itk.org<mailto:insight-users-bounces at itk.org>> on behalf of "Hammond, Emily M" <emily-hammond at uiowa.edu<mailto:emily-hammond at uiowa.edu>>
Date: Friday, February 19, 2016 at 3:43 PM
To: Insight Users <insight-users at itk.org<mailto:insight-users at itk.org>>
Subject: [ITK-users] Apply rigid transform by changing image information

Hello,

Context: I am applying a rigid registration process to align two images. The transform allows for anisotropic scaling, a translation, and a versor rotation. I have perform the registration and checked my results by loading the resulting transform into 3D Slicer and applying it to the moving image.

Problem: I am trying to apply the transform to the moving image without resampling, so just changing the image information. Essentially, I want to perform the equivalent of ?Harden Transform? in Slicer. I have been following this example (http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv3_2ChangeInformationImageFilter_8cxx-example.html#_a3) to change my image information.

To apply the scaling, I simply multiplied the spacing by the corresponding scale factor. For translation, I added the translation to the origin. For applying the rotation, the example shows to multiply the image direction matrix by the versor rotation matrix. The new spacing, origin, and direction matrix are then input into the new change information image filter.

I have done this, however, when using Slicer to load in the final image, the transform does not show to have been applied correctly. I have been saving my images as MetaImage files (.mhd) so the image information is saved in the header file. Can anyone please give me some advice on how to perform this task appropriately?

Here is my code:

// get image properties
            ImageType::PointType origin = image->GetOrigin();
            ImageType::SpacingType spacing = image->GetSpacing();
            ImageType::DirectionType direction = image->GetDirection();

            // get transform parameters
            TransformType::TranslationType translation = transform->GetTranslation();
            TransformType::ScaleVectorType scale = transform->GetScale();
            TransformType::VersorType versor = transform->GetVersor();

            // apply scaling and translation parameters to image
            for( int i = 0; i < 3; i++ )
            {
                  spacing[i] *= scale[i];
                  origin[i] += translation[i];
            }

            // apply rotation to image
            ImageType::DirectionType newDirection = direction*versor.GetMatrix();

            // allocate hardening filter
            typedef itk::ChangeInformationImageFilter< ImageType > HardenTransformFilter;
            HardenTransformFilter::Pointer harden = HardenTransformFilter::New();
            harden->SetInput( image );

            // set new parameters
            harden->SetOutputSpacing( spacing );
            harden->SetOutputOrigin( origin );
            harden->SetOutputDirection( newDirection );

            // turn change flags on
            harden->ChangeSpacingOn();
            harden->ChangeOriginOn();
            harden->ChangeDirectionOn();

            harden->Update();

Thanks in advance!
Emily Hammond
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From lasso at queensu.ca  Sat Feb 20 10:52:38 2016
From: lasso at queensu.ca (Andras Lasso)
Date: Sat, 20 Feb 2016 15:52:38 +0000
Subject: [ITK-users] [ITK] Apply rigid transform by changing
	image	information
In-Reply-To: <BBD0DA28-195E-47B0-88F2-46E5EFA576E9@uiowa.edu>
References: <BBD0DA28-195E-47B0-88F2-46E5EFA576E9@uiowa.edu>
Message-ID: <DM2PR07MB35000B73AB9CF643D2616BAD8A10@DM2PR07MB350.namprd07.prod.outlook.com>

Probably the simplest method is the following:
* create a homogeneous transformation matrix that transforms between image coordinate indices and physical coordinates (computed from origin, spacing, and axis directions)
* multiply it with the matrix of the transformation applied to the image
* compute spacing, origin, and directions from the resulting matrix and set it in the image

Example of computing origin, scaling, directions from transformation matrix:
https://github.com/Slicer/Slicer/blob/master/Libs/MRML/Core/vtkMRMLVolumeNode.cxx#L420

How to create homogeneous transformation matrix from various ITK transforms:
https://github.com/Slicer/Slicer/blob/master/Libs/MRML/Core/vtkITKTransformConverter.h#L135

Andras

From: Johnson, Hans J<mailto:hans-johnson at uiowa.edu>
Sent: February 19, 2016 17:59
To: Hammond, Emily M<mailto:emily-hammond at uiowa.edu>; Insight Users<mailto:insight-users at itk.org>
Subject: Re: [ITK] [ITK-users] Apply rigid transform by changing image information

Emily,

Please review the following.
https://github.com/BRAINSia/BRAINSTools/blob/master/BRAINSCommonLib/itkResampleInPlaceImageFilter.h

This can do the translation and versor rotation parts of what you want, but currently requires isotropic 1mm scaling.  Hopefully you could modify (and contribute back) an improvement that also incorporates the anisotropic scaleing component.

Let me know if you want to work more closely on this.

Hans

--


From: Insight-users <insight-users-bounces at itk.org<mailto:insight-users-bounces at itk.org>> on behalf of "Hammond, Emily M" <emily-hammond at uiowa.edu<mailto:emily-hammond at uiowa.edu>>
Date: Friday, February 19, 2016 at 3:43 PM
To: Insight Users <insight-users at itk.org<mailto:insight-users at itk.org>>
Subject: [ITK-users] Apply rigid transform by changing image information

Hello,

Context: I am applying a rigid registration process to align two images. The transform allows for anisotropic scaling, a translation, and a versor rotation. I have perform the registration and checked my results by loading the resulting transform into 3D Slicer and applying it to the moving image.

Problem: I am trying to apply the transform to the moving image without resampling, so just changing the image information. Essentially, I want to perform the equivalent of "Harden Transform" in Slicer. I have been following this example (http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv3_2ChangeInformationImageFilter_8cxx-example.html#_a3) to change my image information.

To apply the scaling, I simply multiplied the spacing by the corresponding scale factor. For translation, I added the translation to the origin. For applying the rotation, the example shows to multiply the image direction matrix by the versor rotation matrix. The new spacing, origin, and direction matrix are then input into the new change information image filter.

I have done this, however, when using Slicer to load in the final image, the transform does not show to have been applied correctly. I have been saving my images as MetaImage files (.mhd) so the image information is saved in the header file. Can anyone please give me some advice on how to perform this task appropriately?

Here is my code:

// get image properties
            ImageType::PointType origin = image->GetOrigin();
            ImageType::SpacingType spacing = image->GetSpacing();
            ImageType::DirectionType direction = image->GetDirection();

            // get transform parameters
            TransformType::TranslationType translation = transform->GetTranslation();
            TransformType::ScaleVectorType scale = transform->GetScale();
            TransformType::VersorType versor = transform->GetVersor();

            // apply scaling and translation parameters to image
            for( int i = 0; i < 3; i++ )
            {
                  spacing[i] *= scale[i];
                  origin[i] += translation[i];
            }

            // apply rotation to image
            ImageType::DirectionType newDirection = direction*versor.GetMatrix();

            // allocate hardening filter
            typedef itk::ChangeInformationImageFilter< ImageType > HardenTransformFilter;
            HardenTransformFilter::Pointer harden = HardenTransformFilter::New();
            harden->SetInput( image );

            // set new parameters
            harden->SetOutputSpacing( spacing );
            harden->SetOutputOrigin( origin );
            harden->SetOutputDirection( newDirection );

            // turn change flags on
            harden->ChangeSpacingOn();
            harden->ChangeOriginOn();
            harden->ChangeDirectionOn();

            harden->Update();

Thanks in advance!
Emily Hammond
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From artioml at post.bgu.ac.il  Sun Feb 21 10:17:31 2016
From: artioml at post.bgu.ac.il (artioml)
Date: Sun, 21 Feb 2016 08:17:31 -0700 (MST)
Subject: [ITK-users] BSpline transformation of Vector image
Message-ID: <1456067851174-36816.post@n7.nabble.com>

Hello,

Is it possible to perform BSpline transformation of vector image? Or RGB
image?

Thank you.



--
View this message in context: http://itk-users.7.n7.nabble.com/BSpline-transformation-of-Vector-image-tp36816.html
Sent from the ITK - Users mailing list archive at Nabble.com.

From matt.mccormick at kitware.com  Sun Feb 21 19:27:33 2016
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Sun, 21 Feb 2016 19:27:33 -0500
Subject: [ITK-users] BSpline transformation of Vector image
In-Reply-To: <1456067851174-36816.post@n7.nabble.com>
References: <1456067851174-36816.post@n7.nabble.com>
Message-ID: <CALzTN-RH5kFpcHMvrLp+mvTUA=4cdP6Yev+taDGpCyhagLUkiQ@mail.gmail.com>

Hello,

Yes, the transformation is not dependent on the pixel type. The
Interpolator and ResampleImageFilter can handle a Vector or RGBPixel type.
See this example as a reference:


http://itk.org/ITKExamples/src/Filtering/ImageGrid/ResampleAVectorImage/Documentation.html

HTH,
Matt

On Sun, Feb 21, 2016 at 10:17 AM, artioml <artioml at post.bgu.ac.il> wrote:

> Hello,
>
> Is it possible to perform BSpline transformation of vector image? Or RGB
> image?
>
> Thank you.
>
>
>
> --
> View this message in context:
> http://itk-users.7.n7.nabble.com/BSpline-transformation-of-Vector-image-tp36816.html
> Sent from the ITK - Users mailing list archive at Nabble.com.
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
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From franciscolopezdelafranca at gmail.com  Mon Feb 22 07:18:06 2016
From: franciscolopezdelafranca at gmail.com (Francisco Lopez de la Franca)
Date: Mon, 22 Feb 2016 13:18:06 +0100
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <CAPf2UMSf_Yk1Va2=g7CzdR8Pcy1j4n+H7pXBeeq5sCYzOYz-OA@mail.gmail.com>
References: <CAJqi3EJ6gSjPxVG9tNguYNHf0pCatepBv3w-4sTtKOnRig_4vA@mail.gmail.com>
 <CAPf2UMQdSHRVYWReSZ+i+=E4igTyUD91ysoqA48DB-O8R3EUTw@mail.gmail.com>
 <CAJqi3EJU6L=R=KUyFvHvLg2w0m=MYQpuWTODcP=W4TiKZXE2eA@mail.gmail.com>
 <CAPf2UMSs-q8_s=5k6KcX48zjEsyKWQ-RzJ3O0ik1ihFcHcp+vg@mail.gmail.com>
 <CAJqi3E+ghXk2AaMYF_eb2_6ZsxJPNYWtFqHaQkKxjJXWuGTEOw@mail.gmail.com>
 <CAPf2UMR=TyVatKidw8Z_OcxUQ82JVXQnx8QcK73X3fsC+E2j1A@mail.gmail.com>
 <3F877AC4-BCD1-43FF-B8B3-7B30F9B6D30B@mail.nih.gov>
 <CAJqi3EKcF8T1goR3UTHiBS4br3NqAR7Z9HQqGaKYGJs21_XByA@mail.gmail.com>
 <CAPf2UMRx5mQuqC7+GohHeXUgo44osWTk2U4Kr0kY+SeXOkjuaA@mail.gmail.com>
 <CAJqi3E++Zm9xcfe=D=Hrhd-F4NGnOf99XQwqQ_83RXxF1bE1GA@mail.gmail.com>
 <CAPf2UMSf_Yk1Va2=g7CzdR8Pcy1j4n+H7pXBeeq5sCYzOYz-OA@mail.gmail.com>
Message-ID: <CAJqi3EKNwP5CyjanQQKg82e=1fnN=BFS-MoDzPveSj2wvbT7Mw@mail.gmail.com>

Hi.
In the end the crash came for my fault. I was creating the mask image in
the wrong way. Sorry for the disturbances, and thank you very much
everybody.
Kind regards.
/Francisco

2016-02-18 19:00 GMT+01:00 dzenanz [via ITK Insight Users] <
ml-node+s2283740n7588516h31 at n2.nabble.com>:

> /bigobj is an option for msvc, not mingw.
>
> But that is a different problem from crashing code. If you start a new
> thread, somebody with MinGW experience might help you.
>
> On Thu, Feb 18, 2016 at 12:30 PM, Francisco Lopez de la Franca <[hidden
> email] <http:///user/SendEmail.jtp?type=node&node=7588516&i=0>> wrote:
>
>> Yes. I use mingw (x86_64-w64-mingw32-g++.exe) and I set in CMAKE GUI the
>> entry CMAKE_CXX_FLAGS to -bigobj and the result is "unrecognized option".
>>
>>
>> 2016-02-18 15:25 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>> email] <http:///user/SendEmail.jtp?type=node&node=7588516&i=1>>:
>>
>>> Have you tried /bigobj
>>> <https://msdn.microsoft.com/en-us/library/ms173499.aspx?f=255&MSPPError=-2147217396>?
>>> Are you using MinGW? Visual Studio is now free
>>> <https://www.visualstudio.com/en-us/news/vs2013-community-vs.aspx>.
>>>
>>> HTH
>>>
>>> On Thu, Feb 18, 2016 at 6:37 AM, Francisco Lopez de la Franca <[hidden
>>> email] <http:///user/SendEmail.jtp?type=node&node=7588513&i=0>> wrote:
>>>
>>>> Hi again,
>>>> I've got ITK version 4.5.1 (a little bit old, I know), and after making
>>>> the changes suggested by Dzenanz and recompiling ITK, the problem
>>>> continues, that is, my code crashes at the same point.
>>>>
>>>> Then, I've downloaded the latest stable ITK version, ITK 4.9.0 and
>>>> compiled from scratch and I get the following error:
>>>>
>>>> [ 98%] Building CXX object
>>>> Modules/IO/TransformBase/src/CMakeFiles/ITKIOTransformBase.dir/itkTransformFactoryBase.cxx.obj
>>>> C:/MINGW/mingw64/bin/../lib/gcc/x86_64-w64-mingw32/4.8.2/../../../../x86_64-w64-mingw32/bin/as.exe:
>>>> CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: too many
>>>> sections (33106)
>>>> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Assembler messages:
>>>> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Fatal error: can't write
>>>> CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: File too
>>>> big
>>>>
>>>> After doing some "googling" and follow some of the instructions
>>>> referred on the web, I've been unable to solve this.
>>>> Has anyone met this problem and solved it?
>>>> Thanks.
>>>> KR.
>>>> /Francisco
>>>>
>>>> 2016-02-16 22:13 GMT+01:00 Bradley Lowekamp [via ITK Insight Users] <[hidden
>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588513&i=1>>:
>>>>
>>>>> Hello,
>>>>>
>>>>> Please take a look at these changes:
>>>>>
>>>>> https://github.com/blowekamp/itkTextureAnalysis/commit/9654d74ea1d09f0677f1d1b93242cc94340591bf
>>>>>
>>>>> Brad
>>>>>
>>>>> On Feb 16, 2016, at 10:35 AM, D?enan Zuki? <[hidden email]
>>>>> <http:///user/SendEmail.jtp?type=node&node=7588505&i=0>> wrote:
>>>>>
>>>>> I have set up a project using one of the tests from Brad's repository
>>>>> (attached), and it works in debug mode both with his original code and with
>>>>> your modified class, and crashes in release mode both with his original
>>>>> code and with your modified class. I will now compile ITK in RelWithDebInfo
>>>>> in an attempt to figure out where is the crash occurring.
>>>>>
>>>>> Regards,
>>>>> D?enan
>>>>>
>>>>> On Tue, Feb 16, 2016 at 1:52 AM, Francisco Lopez de la Franca <[hidden
>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588505&i=1>> wrote:
>>>>>
>>>>>> Excuse me Dzenanz, but that's not completely true, because I've
>>>>>> tested Brad's class and it works right.
>>>>>> The problem seems to be that when you add a new neighbor iterator to
>>>>>> include just the mask points in the "histogram" then it is when the
>>>>>> application crashes, and I donot understand why.
>>>>>> If you just comment the 'maskIter' references you'll see that the
>>>>>> application works.
>>>>>> I've created a single threaded class based on the Brad's code and it
>>>>>> works but it is twice slower, that is why I'm interesting on Brad's class
>>>>>> (multi-threaded) to make it work.
>>>>>>
>>>>>>
>>>>>> 2016-02-15 17:15 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588505&i=2>>:
>>>>>>
>>>>>>> Hi Francisco,
>>>>>>>
>>>>>>> both your code and Brad's code run in debug mode (I did not wait for
>>>>>>> the end), and both crash in release mode immediately on startup. Here is a
>>>>>>> sample output:
>>>>>>>
>>>>>>> Progress input: 0000000002868970
>>>>>>> input: 0000000002868970
>>>>>>> _maskImage: 0000000002868970
>>>>>>> _maskImage: 0000000002868970
>>>>>>> input: 0000000002868970
>>>>>>> _maskImage: 0000000002868970
>>>>>>> iter.first: iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>>> [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>>> niter index: [5, 5, 210]
>>>>>>> niter index: [5, 5, 140]
>>>>>>> maskIter index: [5, 5, 140]
>>>>>>> maskIter index: [5, 5, 210]
>>>>>>> Before p3
>>>>>>> input: 0000000002868970
>>>>>>> _maskImage: 0000000002868970
>>>>>>> After p3:  | 0niter index: [5, 5, 70]
>>>>>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>>> niter index: [5, 5, 5]
>>>>>>> ?
>>>>>>> maskIter index: [5, 5, 70]
>>>>>>> After p4: ?
>>>>>>> Before p3
>>>>>>> Before p3
>>>>>>> After p3: ?iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>>>> niter index: [5, 5, 140]
>>>>>>> maskIter index: [5, 5, 140]
>>>>>>> maskIter index: [5, 5, 5]
>>>>>>> Before p3
>>>>>>> After p3: ?
>>>>>>> After p3: ?
>>>>>>> After p4: ?
>>>>>>> After p4: ?
>>>>>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>>>> niter index: [5, 5, 5]
>>>>>>> maskIter index: [5, 5, 5]
>>>>>>>
>>>>>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>>>> Before p3
>>>>>>> Before p3
>>>>>>> After p4: ?
>>>>>>> After p3: ?
>>>>>>> After p4: ?
>>>>>>>
>>>>>>> Regards,
>>>>>>> D?enan
>>>>>>>
>>>>>>> On Mon, Feb 15, 2016 at 1:36 AM, Francisco Lopez de la Franca <[hidden
>>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=0>>
>>>>>>> wrote:
>>>>>>>
>>>>>>>> Hi,
>>>>>>>> Here they are.
>>>>>>>> KR.
>>>>>>>>
>>>>>>>> 2016-02-12 16:22 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=1>>:
>>>>>>>>
>>>>>>>>> Hi Francisco,
>>>>>>>>>
>>>>>>>>> do you mind attaching the modified files or pointing to your fork
>>>>>>>>> of it on GitHub?
>>>>>>>>>
>>>>>>>>> Regards
>>>>>>>>>
>>>>>>>>> On Thu, Feb 11, 2016 at 12:08 PM, Francisco L?pez-Franca <[hidden
>>>>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588490&i=0>>
>>>>>>>>> wrote:
>>>>>>>>>
>>>>>>>>>> Hi Dzenan,
>>>>>>>>>> The original class is here:
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h
>>>>>>>>>>
>>>>>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx
>>>>>>>>>>
>>>>>>>>>> I've just added setInput and setMaskImage methods and modify some
>>>>>>>>>> lines in
>>>>>>>>>> the original class as I indicated in the yesterday mail within
>>>>>>>>>> this thread.
>>>>>>>>>> I'm running it on Windows, and there is no error at all, just a
>>>>>>>>>> crash. I
>>>>>>>>>> may have to include exceptions management.
>>>>>>>>>> The crash occurs just when calling p3 =
>>>>>>>>>> maskIter.GetPixel(iter->first)
>>>>>>>>>>
>>>>>>>>>> If you know why it could be or if you need more clarification,
>>>>>>>>>> please let
>>>>>>>>>> me know.
>>>>>>>>>> Many thanks
>>>>>>>>>>
>>>>>>>>>> 2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
>>>>>>>>>> [hidden email]
>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588490&i=1>>:
>>>>>>>>>>
>>>>>>>>>> > Hi Francisco,
>>>>>>>>>> >
>>>>>>>>>> > "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the
>>>>>>>>>> error message
>>>>>>>>>> > that goes along with the crash? In which file and line does it
>>>>>>>>>> crash?
>>>>>>>>>> >
>>>>>>>>>> > Regards
>>>>>>>>>> >
>>>>>>>>>> > On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca
>>>>>>>>>> <[hidden
>>>>>>>>>> > email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0>>
>>>>>>>>>> wrote:
>>>>>>>>>> >
>>>>>>>>>> >> Hi,
>>>>>>>>>> >> Please, someone that could help me. I'm working in a
>>>>>>>>>> pre-doctorate
>>>>>>>>>> >> project and I need this class to work.
>>>>>>>>>> >> I've read the chapter 13 in the ITK Software Guide on how to
>>>>>>>>>> write a
>>>>>>>>>> >> filter and now I see the fact of the threads due to
>>>>>>>>>> inheritance of
>>>>>>>>>> >> ImageToImageFilter.
>>>>>>>>>> >> But, I keep on without understanding why the code crashes just
>>>>>>>>>> when
>>>>>>>>>> >> calling
>>>>>>>>>> >> *const PixelType p3 = maskIter.GetPixel(iter->first);*
>>>>>>>>>> >> It is just a call to read data, not to write.
>>>>>>>>>> >>
>>>>>>>>>> >> I guess somebody that had worked with creation of filters
>>>>>>>>>> might see
>>>>>>>>>> >> "easily" the problem, but not me.
>>>>>>>>>> >>
>>>>>>>>>> >> So, again, please, I need someone to help me with this because
>>>>>>>>>> I'm stuck
>>>>>>>>>> >> on this point.
>>>>>>>>>> >>
>>>>>>>>>> >> Thank you very much.
>>>>>>>>>> >> KR.
>>>>>>>>>> >> /Francisco
>>>>>>>>>> >>
>>>>>>>>>> >> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca
>>>>>>>>>> <[hidden email]
>>>>>>>>>> >> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1>>:
>>>>>>>>>> >>
>>>>>>>>>> >>> Hi Bradley again.
>>>>>>>>>> >>> I'm modifying your class in order to be able to set a mask
>>>>>>>>>> image (a
>>>>>>>>>> >>> binary image) to be used as a limit in the histogram
>>>>>>>>>> calculations, I mean,
>>>>>>>>>> >>> I set an input, a mask and the class should take into account
>>>>>>>>>> to calculate
>>>>>>>>>> >>> the histograms only the voxels that belong to the input and
>>>>>>>>>> to the mask
>>>>>>>>>> >>> image and having the value 1 in the mask image.
>>>>>>>>>> >>> The changes seem to be easy but I don?t know why my tests are
>>>>>>>>>> not
>>>>>>>>>> >>> working. It seems that 2 threads are working at the same time
>>>>>>>>>> and when I
>>>>>>>>>> >>> added my mask iterator, the code crashes.
>>>>>>>>>> >>>
>>>>>>>>>> >>> *** Consider that the input and mask images are the same
>>>>>>>>>> origin, spacing
>>>>>>>>>> >>> and size.
>>>>>>>>>> >>>
>>>>>>>>>> >>> I attach the main changes I've done, and I would thank you a
>>>>>>>>>> lot if you
>>>>>>>>>> >>> don't mind having a look and help me to find what I'm doing
>>>>>>>>>> wrong:
>>>>>>>>>> >>>
>>>>>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>>>>>> >>> void
>>>>>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>>>>>> >::*SetInput*(InputImageType
>>>>>>>>>> >>> *image)
>>>>>>>>>> >>> {
>>>>>>>>>> >>>   // Process object is not const-correct so the const_cast is
>>>>>>>>>> required
>>>>>>>>>> >>> here
>>>>>>>>>> >>>   this->ProcessObject::SetNthInput( 0,
>>>>>>>>>> >>>                                     const_cast<
>>>>>>>>>> InputImageType * >(
>>>>>>>>>> >>> image ) );
>>>>>>>>>> >>> }
>>>>>>>>>> >>>
>>>>>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>>>>>> >>> void
>>>>>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>>>>>> >::*SetMaskImage*(InputImageType
>>>>>>>>>> >>> *image)
>>>>>>>>>> >>> {
>>>>>>>>>> >>>   // Process object is not const-correct so the const_cast is
>>>>>>>>>> required
>>>>>>>>>> >>> here
>>>>>>>>>> >>>   this->ProcessObject::SetNthInput( 1, const_cast<
>>>>>>>>>> InputImageType * >(
>>>>>>>>>> >>> image ) );
>>>>>>>>>> >>>
>>>>>>>>>> >>>   _maskImage = image; // _maskImage is a private member
>>>>>>>>>> >>> }
>>>>>>>>>> >>>
>>>>>>>>>> >>> In the *ThreadedGenerateData*(const RegionType&
>>>>>>>>>> outputRegionForThread,
>>>>>>>>>> >>> ThreadIdType threadId ) method:
>>>>>>>>>> >>> {
>>>>>>>>>> >>>
>>>>>>>>>> >>> ...
>>>>>>>>>> >>>
>>>>>>>>>> >>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
>>>>>>>>>> >>>     {
>>>>>>>>>> >>>     NeighborhoodIteratorType nIter( radius, input, *fit );
>>>>>>>>>> >>>     *NeighborhoodIteratorType maskIter( radius, _maskImage,
>>>>>>>>>> *fit);*
>>>>>>>>>> >>>     OutputIterator           outIter(output, *fit);
>>>>>>>>>> >>>
>>>>>>>>>> >>>     OutputPixelType out;
>>>>>>>>>> >>>     NumericTraits<OutputPixelType>::SetLength( out,
>>>>>>>>>> >>> this->GetNumberOfOutputComponents() );
>>>>>>>>>> >>>
>>>>>>>>>> >>>     while( !nIter.IsAtEnd() )
>>>>>>>>>> >>>       {
>>>>>>>>>> >>>       this->FillHistogram( *histogram, nIter, *maskIter *);
>>>>>>>>>> >>>
>>>>>>>>>> >>>       ...
>>>>>>>>>> >>>
>>>>>>>>>> >>>       ++nIter;
>>>>>>>>>> >>>       ++outIter;
>>>>>>>>>> >>>      * ++maskIter;*
>>>>>>>>>> >>>     ...
>>>>>>>>>> >>>
>>>>>>>>>> >>> In the *FillHistogram *method:
>>>>>>>>>> >>> {
>>>>>>>>>> >>>
>>>>>>>>>> >>> ...
>>>>>>>>>> >>>
>>>>>>>>>> >>>   while( iter != m_CooccurenceOffsetVector.end() )
>>>>>>>>>> >>>     {
>>>>>>>>>> >>>
>>>>>>>>>> >>>     const PixelType p1 = niter.GetPixel(iter->first);
>>>>>>>>>> >>>     const PixelType p2 = niter.GetPixel(iter->second);
>>>>>>>>>> >>>     std::cout << "Before p3" << std::endl;
>>>>>>>>>> >>>
>>>>>>>>>> >>> *    const PixelType p3 = maskIter.GetPixel(iter->first);
>>>>>>>>>> *std::cout
>>>>>>>>>> >>> << "After p3: " << p3 << std::endl;
>>>>>>>>>> >>>
>>>>>>>>>> >>> *    const PixelType p4 = maskIter.GetPixel(iter->second);   *
>>>>>>>>>> >>> std::cout << "After p4: " << p4 << std::endl;
>>>>>>>>>> >>>
>>>>>>>>>> >>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2
>>>>>>>>>> <= m_Max
>>>>>>>>>> >>>             *&& p3 == _insidePixelValue && p4 ==
>>>>>>>>>> _insidePixelValue* )
>>>>>>>>>> >>> // The point
>>>>>>>>>> >>>       {
>>>>>>>>>> >>>
>>>>>>>>>> >>> ...
>>>>>>>>>> >>>
>>>>>>>>>> >>>
>>>>>>>>>> >>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>>>>>>>>>> >>>
>>>>>>>>>> >>> Thank you so much.
>>>>>>>>>> >>> My kind regards.
>>>>>>>>>> >>> /Paco
>>>>>>>>>> >>>
>>>>>>>>>> >>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca
>>>>>>>>>> <[hidden email]
>>>>>>>>>> >>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2>>:
>>>>>>>>>> >>>
>>>>>>>>>> >>>> Hello Bradley again.
>>>>>>>>>> >>>> Sorry but I'd like to re-open this issue because I need your
>>>>>>>>>> class but
>>>>>>>>>> >>>> with some modification.
>>>>>>>>>> >>>> I pass to tell you.
>>>>>>>>>> >>>>
>>>>>>>>>> >>>> As my tests with your external class were not good taking
>>>>>>>>>> into account
>>>>>>>>>> >>>> the performance, I wonder if you could create a variant of
>>>>>>>>>> it, but in which
>>>>>>>>>> >>>> I can set a mask image and your class just return the
>>>>>>>>>> VectorImage with all
>>>>>>>>>> >>>> the features for that region (the masked locations) as
>>>>>>>>>> >>>> itk::ScalarImageToTextureFeaturesFilter class does.
>>>>>>>>>> >>>> I mean, to get the vector image with all the features but
>>>>>>>>>> just
>>>>>>>>>> >>>> calculate it for the regions belonging to the mask image.
>>>>>>>>>> Positions not
>>>>>>>>>> >>>> belonging to the mask region could have a pixel value of 0,
>>>>>>>>>> for instance.
>>>>>>>>>> >>>>
>>>>>>>>>> >>>> I don?t know if it is very costly for you,  but I would
>>>>>>>>>> thank you so
>>>>>>>>>> >>>> much. Otherwise, I could try it but I'd need your
>>>>>>>>>> suggestions on how to do
>>>>>>>>>> >>>> it.
>>>>>>>>>> >>>>
>>>>>>>>>> >>>> Thanks a lot.
>>>>>>>>>> >>>> Best regards.
>>>>>>>>>> >>>>
>>>>>>>>>> >>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca
>>>>>>>>>> <[hidden email]
>>>>>>>>>> >>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3>>:
>>>>>>>>>> >>>>
>>>>>>>>>> >>>>> Hello Bradley again,
>>>>>>>>>> >>>>> I would like to ask you for a couple of favours. In the one
>>>>>>>>>> hand,
>>>>>>>>>> >>>>> could you please send me your 3D image so that I can test
>>>>>>>>>> on it? And on the
>>>>>>>>>> >>>>> other hand, could you test the example I have referenced in
>>>>>>>>>> the previous
>>>>>>>>>> >>>>> email with your image, not changing anything in the code,
>>>>>>>>>> such as it is,
>>>>>>>>>> >>>>> and tell me if the execution time is normal?
>>>>>>>>>> >>>>> Thank you very much.
>>>>>>>>>> >>>>> Regards,
>>>>>>>>>> >>>>> /Francisco
>>>>>>>>>> >>>>>
>>>>>>>>>> >>>>> PS: All my application trace is printed via standard 'cout'
>>>>>>>>>> command,
>>>>>>>>>> >>>>> not due to a debugging compilation mode.
>>>>>>>>>> >>>>>
>>>>>>>>>> >>>>>
>>>>>>>>>> >>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp
>>>>>>>>>> <[hidden
>>>>>>>>>> >>>>> email] <
>>>>>>>>>> http:///user/SendEmail.jtp?type=node&node=7588477&i=4>>
>>>>>>>>>> >>>>> escribi?:
>>>>>>>>>> >>>>>
>>>>>>>>>> >>>>>> Hello,
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> Did you compile TextureFeatureImage in Release mode?
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> 1) The filter does not scale well with a large radius. And
>>>>>>>>>> given by
>>>>>>>>>> >>>>>> your initial report of print a very large number of offset
>>>>>>>>>> you, it sounds
>>>>>>>>>> >>>>>> like you are using a large radius with many offsets. I
>>>>>>>>>> created a
>>>>>>>>>> >>>>>> 224x224x300 unsigned short image and ran with the default
>>>>>>>>>> offset and a
>>>>>>>>>> >>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this
>>>>>>>>>> filter is was ~10x
>>>>>>>>>> >>>>>> faster than this example... things change though...
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> 2) I sounds like the boundaries/limits of the histogram
>>>>>>>>>> may be
>>>>>>>>>> >>>>>> clipping you values. I would inspect the co-occurance
>>>>>>>>>> matrix.
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> HTH,
>>>>>>>>>> >>>>>> Brad
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca
>>>>>>>>>> <[hidden
>>>>>>>>>> >>>>>> email] <
>>>>>>>>>> http:///user/SendEmail.jtp?type=node&node=7588477&i=5>>
>>>>>>>>>> >>>>>> wrote:
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> I've tested with itkTextureFeatureImageFilter, with
>>>>>>>>>> >>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>>>>>>>>>> >>>>>>
>>>>>>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures
>>>>>>>>>> example,
>>>>>>>>>> >>>>>> for a 3D image and here are my comments:
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> 1. I had to interrupt the test after several hours and it
>>>>>>>>>> kept on
>>>>>>>>>> >>>>>> calculating. And this is for only a 3D image
>>>>>>>>>> (224x224x300). I need to
>>>>>>>>>> >>>>>> process around 35 images.
>>>>>>>>>> >>>>>> 2. The result (texture features: entropy, energy,
>>>>>>>>>> correlation, LH,
>>>>>>>>>> >>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0,
>>>>>>>>>> 0, 7.83083e+247].
>>>>>>>>>> >>>>>> These values were not what I expected based on my
>>>>>>>>>> experience on another
>>>>>>>>>> >>>>>> application I developed, but in that case, I calculated
>>>>>>>>>> the texture
>>>>>>>>>> >>>>>> features for an image as a whole, not voxel by voxel.
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> Regards.
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
>>>>>>>>>> >>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6>>:
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>>> i yes i have tried radius = 3;
>>>>>>>>>> >>>>>>> still no luck
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca
>>>>>>>>>> [via ITK
>>>>>>>>>> >>>>>>> Insight
>>>>>>>>>> >>>>>>> Users] <[hidden email]
>>>>>>>>>> >>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7>>
>>>>>>>>>> wrote:
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>> > Have you tried with a radius of 3 instead of 1?
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>>>>>>>>>> >>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0
>>>>>>>>>> >>:
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> >> hey Matt,
>>>>>>>>>> >>>>>>> >> thanks for ur advice.. it did build successfully...
>>>>>>>>>> but im not
>>>>>>>>>> >>>>>>> able to run
>>>>>>>>>> >>>>>>> >> the code for 2D png image... i tried to change the
>>>>>>>>>> dimension to 2
>>>>>>>>>> >>>>>>> and
>>>>>>>>>> >>>>>>> >> build
>>>>>>>>>> >>>>>>> >> it which it did.. but when i run the code using the
>>>>>>>>>> command
>>>>>>>>>> >>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png
>>>>>>>>>> putput.png
>>>>>>>>>> >>>>>>> 1... i see
>>>>>>>>>> >>>>>>> >> this output
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >> offset: [-1, -1] [0, -1]
>>>>>>>>>> >>>>>>> >> offset: [0, -1] [1, -1]
>>>>>>>>>> >>>>>>> >> offset: [-1, 0] [0, 0]
>>>>>>>>>> >>>>>>> >> offset: [0, 0] [1, 0]
>>>>>>>>>> >>>>>>> >> offset: [-1, 1] [0, 1]
>>>>>>>>>> >>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the
>>>>>>>>>> program... if pls
>>>>>>>>>> >>>>>>> tel me
>>>>>>>>>> >>>>>>> >> how can i modify this code to work wid 2d image...
>>>>>>>>>> forgive me if
>>>>>>>>>> >>>>>>> my ques
>>>>>>>>>> >>>>>>> >> are really silly im trying to learn something..
>>>>>>>>>> >>>>>>> >> regards
>>>>>>>>>> >>>>>>> >> Vis
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via
>>>>>>>>>> ITK
>>>>>>>>>> >>>>>>> Insight Users]
>>>>>>>>>> >>>>>>> >> <
>>>>>>>>>> >>>>>>> >> [hidden email] <
>>>>>>>>>> >>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
>>>>>>>>>> >>>>>>> >> wrote:
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >> > Hi,
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > The function:
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char
>>>>>>>>>> *argv[])
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > must be renamed to
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> >   main(int argc, char* argv[])
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > HTH,
>>>>>>>>>> >>>>>>> >> > Matt
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>>>>>>>>>> >>>>>>> >> > <
>>>>>>>>>> http:///user/SendEmail.jtp?type=node&node=7587952&i=0>> wrote:
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > > hi all,
>>>>>>>>>> >>>>>>> >> > > im trying to build the
>>>>>>>>>> itkTextureFeatureImageFilterTest.cxx
>>>>>>>>>> >>>>>>> code but
>>>>>>>>>> >>>>>>> >> im
>>>>>>>>>> >>>>>>> >> > not
>>>>>>>>>> >>>>>>> >> > > able to it is showing the following error
>>>>>>>>>> >>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>>>>>>>>>> >>>>>>> Configuration:
>>>>>>>>>> >>>>>>> >> Debug
>>>>>>>>>> >>>>>>> >> > x64
>>>>>>>>>> >>>>>>> >> > > ------
>>>>>>>>>> >>>>>>> >> > > 1>  Checking Build System
>>>>>>>>>> >>>>>>> >> > > 1>  CMake does not need to re-run because
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>>
>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>>>>>>>>>> >>>>>>> >> > is
>>>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>>>> >>>>>>> >> > > 2>------ Rebuild All started: Project:
>>>>>>>>>> >>>>>>> >> itkTextureFeatureImageFilterTest,
>>>>>>>>>> >>>>>>> >> > > Configuration: Debug x64 ------
>>>>>>>>>> >>>>>>> >> > > 2>  Building Custom Rule
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>>>>> >>>>>>> >> > > 2>  CMake does not need to re-run because
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>>
>>>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>>>>> >>>>>>> >> > is
>>>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>>>> >>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>>>>>>>>>> >>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>>>>>>>>>> >>>>>>> 'std::_Copy_impl':
>>>>>>>>>> >>>>>>> >> > Function
>>>>>>>>>> >>>>>>> >> > > call with parameters that may be unsafe - this
>>>>>>>>>> call relies on
>>>>>>>>>> >>>>>>> the
>>>>>>>>>> >>>>>>> >> caller
>>>>>>>>>> >>>>>>> >> > to
>>>>>>>>>> >>>>>>> >> > > check that the passed values are correct. To
>>>>>>>>>> disable this
>>>>>>>>>> >>>>>>> warning, use
>>>>>>>>>> >>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on
>>>>>>>>>> how to use
>>>>>>>>>> >>>>>>> Visual C++
>>>>>>>>>> >>>>>>> >> > > 'Checked Iterators'
>>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft
>>>>>>>>>> Visual Studio
>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>>>>>>>>>> >>>>>>> >> > see
>>>>>>>>>> >>>>>>> >> > > reference to function template instantiation
>>>>>>>>>> '_OutIt
>>>>>>>>>> >>>>>>> std::copy<const
>>>>>>>>>> >>>>>>> >> > > unsigned char*,unsigned
>>>>>>>>>> char*>(_InIt,_InIt,_OutIt)' being
>>>>>>>>>> >>>>>>> compiled
>>>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>>>> >>>>>>> >> > > 2>              _OutIt=unsigned char *,
>>>>>>>>>> >>>>>>> >> > > 2>              _InIt=const unsigned char *
>>>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>>>>>>>>>> >>>>>>> >> > > while compiling class template member function
>>>>>>>>>> 'void
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>>>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > > : see reference to class template instantiation
>>>>>>>>>> >>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>>>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft
>>>>>>>>>> Visual Studio
>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft
>>>>>>>>>> Visual Studio
>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft
>>>>>>>>>> Visual Studio
>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>>> >>>>>>> >> > > 2>     Creating library
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > > and object
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019:
>>>>>>>>>> unresolved
>>>>>>>>>> >>>>>>> external symbol
>>>>>>>>>> >>>>>>> >> > main
>>>>>>>>>> >>>>>>> >> > > referenced in function __tmainCRTStartup
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>>>>>>>>>> >>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>>>>>>>>>> >>>>>>> Configuration: Debug
>>>>>>>>>> >>>>>>> >> > x64
>>>>>>>>>> >>>>>>> >> > > ------
>>>>>>>>>> >>>>>>> >> > > 3>  Building Custom Rule
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>>>>> >>>>>>> >> > > 3>  CMake does not need to re-run because
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>>
>>>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>>>>> >>>>>>> >> > is
>>>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>>>> >>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0
>>>>>>>>>> skipped
>>>>>>>>>> >>>>>>> ==========
>>>>>>>>>> >>>>>>> >> > > im using the follwing CMakeList.txt
>>>>>>>>>> >>>>>>> >> > > # This is the root ITK CMakeLists file.
>>>>>>>>>> >>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>>>>>>>>>> >>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>>>>>>>>>> >>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>>>>>>>>>> >>>>>>> >> > > endif()
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > > # This project is designed to be built outside the
>>>>>>>>>> Insight
>>>>>>>>>> >>>>>>> source
>>>>>>>>>> >>>>>>> >> tree.
>>>>>>>>>> >>>>>>> >> > > project(HelloWorld)
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > > # Find ITK.
>>>>>>>>>> >>>>>>> >> > > find_package(ITK REQUIRED)
>>>>>>>>>> >>>>>>> >> > > include(${ITK_USE_FILE})
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>>>>>>>>>> >>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> target_link_libraries(itkTextureFeatureImageFilterTest
>>>>>>>>>> >>>>>>> >> ${ITK_LIBRARIES})
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > > please tel me wat the error is??
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > > --
>>>>>>>>>> >>>>>>> >> > > View this message in context:
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>>>>>>>>>> >>>>>>> >> > > Sent from the ITK Insight Users mailing list
>>>>>>>>>> archive at
>>>>>>>>>> >>>>>>> Nabble.com <http://nabble.com>.
>>>>>>>>>> >>>>>>> >> > > _____________________________________
>>>>>>>>>> >>>>>>> >> > > Powered by www.kitware.com
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > > Visit other Kitware open-source projects at
>>>>>>>>>> >>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > > Kitware offers ITK Training Courses, for more
>>>>>>>>>> information
>>>>>>>>>> >>>>>>> visit:
>>>>>>>>>> >>>>>>> >> > > http://www.kitware.com/products/protraining.php
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > > Please keep messages on-topic and check the ITK
>>>>>>>>>> FAQ at:
>>>>>>>>>> >>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > > Follow this link to subscribe/unsubscribe:
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>> >>>>>>> >> > _____________________________________
>>>>>>>>>> >>>>>>> >> > Powered by www.kitware.com
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > Visit other Kitware open-source projects at
>>>>>>>>>> >>>>>>> >> > http://www.kitware.com/opensource/opensource.html
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > Kitware offers ITK Training Courses, for more
>>>>>>>>>> information visit:
>>>>>>>>>> >>>>>>> >> > http://www.kitware.com/products/protraining.php
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > Please keep messages on-topic and check the ITK FAQ
>>>>>>>>>> at:
>>>>>>>>>> >>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > Follow this link to subscribe/unsubscribe:
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > ------------------------------
>>>>>>>>>> >>>>>>> >> > If you reply to this email, your message will be
>>>>>>>>>> added to the
>>>>>>>>>> >>>>>>> discussion
>>>>>>>>>> >>>>>>> >> > below:
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587952.html
>>>>>>>>>> >>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by
>>>>>>>>>> pixel, click
>>>>>>>>>> >>>>>>> here
>>>>>>>>>> >>>>>>> >> > < > .
>>>>>>>>>> >>>>>>> >> > NAML
>>>>>>>>>> >>>>>>> >> > <
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >> --
>>>>>>>>>> >>>>>>> >> View this message in context:
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>>>>>>>>>> >>>>>>> >> Sent from the ITK Insight Users mailing list archive at
>>>>>>>>>> >>>>>>> Nabble.com <http://nabble.com>.
>>>>>>>>>> >>>>>>> >> _____________________________________
>>>>>>>>>> >>>>>>> >> Powered by www.kitware.com
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >> Visit other Kitware open-source projects at
>>>>>>>>>> >>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >> Kitware offers ITK Training Courses, for more
>>>>>>>>>> information visit:
>>>>>>>>>> >>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>> >>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> > _____________________________________
>>>>>>>>>> >>>>>>> > Powered by www.kitware.com
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> > Visit other Kitware open-source projects at
>>>>>>>>>> >>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> > Kitware offers ITK Training Courses, for more
>>>>>>>>>> information visit:
>>>>>>>>>> >>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>> >>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> > ------------------------------
>>>>>>>>>> >>>>>>> > If you reply to this email, your message will be added
>>>>>>>>>> to the
>>>>>>>>>> >>>>>>> discussion
>>>>>>>>>> >>>>>>> > below:
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>>
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587961.html
>>>>>>>>>> >>>>>>> > To unsubscribe from [ITK-users] Texture pixel by pixel,
>>>>>>>>>> click here
>>>>>>>>>> >>>>>>> > < > .
>>>>>>>>>> >>>>>>> > NAML
>>>>>>>>>> >>>>>>> > <
>>>>>>>>>> >>>>>>>
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>> --
>>>>>>>>>> >>>>>>> View this message in context:
>>>>>>>>>> >>>>>>>
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
>>>>>>>>>> >>>>>>> Sent from the ITK Insight Users mailing list archive at
>>>>>>>>>> Nabble.com <http://nabble.com>.
>>>>>>>>>> >>>>>>> _____________________________________
>>>>>>>>>> >>>>>>> Powered by www.kitware.com
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>> Visit other Kitware open-source projects at
>>>>>>>>>> >>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>> Kitware offers ITK Training Courses, for more information
>>>>>>>>>> visit:
>>>>>>>>>> >>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>> >>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>>>> >>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> _____________________________________
>>>>>>>>>> >>>>>> Powered by www.kitware.com
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> Visit other Kitware open-source projects at
>>>>>>>>>> >>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> Kitware offers ITK Training Courses, for more information
>>>>>>>>>> visit:
>>>>>>>>>> >>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>> >>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>>>> >>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>
>>>>>>>>>> >>>
>>>>>>>>>> >>
>>>>>>>>>> >> _____________________________________
>>>>>>>>>> >> Powered by www.kitware.com
>>>>>>>>>> >>
>>>>>>>>>> >> Visit other Kitware open-source projects at
>>>>>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>> >>
>>>>>>>>>> >> Kitware offers ITK Training Courses, for more information
>>>>>>>>>> visit:
>>>>>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>>>>>> >>
>>>>>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>> >>
>>>>>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>> >>
>>>>>>>>>> >>
>>>>>>>>>> >
>>>>>>>>>> > _____________________________________
>>>>>>>>>> > Powered by www.kitware.com
>>>>>>>>>> >
>>>>>>>>>> > Visit other Kitware open-source projects at
>>>>>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>>>>>> >
>>>>>>>>>> > Kitware offers ITK Training Courses, for more information visit:
>>>>>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>>>>>> >
>>>>>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>> >
>>>>>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>> >
>>>>>>>>>> >
>>>>>>>>>> > ------------------------------
>>>>>>>>>> > If you reply to this email, your message will be added to the
>>>>>>>>>> discussion
>>>>>>>>>> > below:
>>>>>>>>>> >
>>>>>>>>>> >
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588477.html
>>>>>>>>>> > To start a new topic under ITK Insight Users, email
>>>>>>>>>> > [hidden email]
>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588490&i=2>
>>>>>>>>>> > To unsubscribe from ITK Insight Users, click here
>>>>>>>>>> > < > .
>>>>>>>>>> > NAML
>>>>>>>>>> > <
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>>>> >
>>>>>>>>>> >
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> --
>>>>>>>>>> View this message in context:
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588483.html
>>>>>>>>>> Sent from the ITK Insight Users mailing list archive at
>>>>>>>>>> Nabble.com <http://nabble.com>.
>>>>>>>>>> _____________________________________
>>>>>>>>>> Powered by www.kitware.com
>>>>>>>>>>
>>>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>
>>>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>>>
>>>>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>
>>>>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> _____________________________________
>>>>>>>>> Powered by www.kitware.com
>>>>>>>>>
>>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>
>>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>>
>>>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>
>>>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> ------------------------------
>>>>>>>>> If you reply to this email, your message will be added to the
>>>>>>>>> discussion below:
>>>>>>>>>
>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588490.html
>>>>>>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588495&i=2>
>>>>>>>>> To unsubscribe from ITK Insight Users, click here.
>>>>>>>>> NAML
>>>>>>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> _____________________________________
>>>>>>>> Powered by www.kitware.com
>>>>>>>>
>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>
>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>
>>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>
>>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>
>>>>>>>>
>>>>>>>
>>>>>>> _____________________________________
>>>>>>> Powered by www.kitware.com
>>>>>>>
>>>>>>> Visit other Kitware open-source projects at
>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>
>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>
>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>
>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>
>>>>>>>
>>>>>>> ------------------------------
>>>>>>> If you reply to this email, your message will be added to the
>>>>>>> discussion below:
>>>>>>>
>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588495.html
>>>>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588505&i=3>
>>>>>>> To unsubscribe from ITK Insight Users, click here.
>>>>>>> NAML
>>>>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>>>>
>>>>>>
>>>>>>
>>>>>> _____________________________________
>>>>>> Powered by www.kitware.com
>>>>>>
>>>>>> Visit other Kitware open-source projects at
>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>
>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>
>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>
>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>
>>>>>>
>>>>> <tester.cpp>_____________________________________
>>>>> Powered by www.kitware.com
>>>>>
>>>>> Visit other Kitware open-source projects at
>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>
>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>> http://www.kitware.com/products/protraining.php
>>>>>
>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>
>>>>> Follow this link to subscribe/unsubscribe:
>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>
>>>>>
>>>>>
>>>>> _____________________________________
>>>>> Powered by www.kitware.com
>>>>>
>>>>> Visit other Kitware open-source projects at
>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>
>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>> http://www.kitware.com/products/protraining.php
>>>>>
>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>
>>>>> Follow this link to subscribe/unsubscribe:
>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>
>>>>>
>>>>> ------------------------------
>>>>> If you reply to this email, your message will be added to the
>>>>> discussion below:
>>>>>
>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588505.html
>>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>>> <http:///user/SendEmail.jtp?type=node&node=7588513&i=2>
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From franciscolopezdelafranca at gmail.com  Mon Feb 22 07:18:33 2016
From: franciscolopezdelafranca at gmail.com (=?UTF-8?Q?Francisco_L=C3=B3pez-Franca?=)
Date: Mon, 22 Feb 2016 05:18:33 -0700 (MST)
Subject: [ITK-users] Texture pixel by pixel
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Message-ID: <CAJqi3EKNwP5CyjanQQKg82e=1fnN=BFS-MoDzPveSj2wvbT7Mw@mail.gmail.com>

Hi.
In the end the crash came for my fault. I was creating the mask image in
the wrong way. Sorry for the disturbances, and thank you very much
everybody.
Kind regards.
/Francisco

2016-02-18 19:00 GMT+01:00 dzenanz [via ITK Insight Users] <
ml-node+s2283740n7588516h31 at n2.nabble.com>:

> /bigobj is an option for msvc, not mingw.
>
> But that is a different problem from crashing code. If you start a new
> thread, somebody with MinGW experience might help you.
>
> On Thu, Feb 18, 2016 at 12:30 PM, Francisco Lopez de la Franca <[hidden
> email] <http:///user/SendEmail.jtp?type=node&node=7588516&i=0>> wrote:
>
>> Yes. I use mingw (x86_64-w64-mingw32-g++.exe) and I set in CMAKE GUI the
>> entry CMAKE_CXX_FLAGS to -bigobj and the result is "unrecognized option".
>>
>>
>> 2016-02-18 15:25 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>> email] <http:///user/SendEmail.jtp?type=node&node=7588516&i=1>>:
>>
>>> Have you tried /bigobj
>>> <https://msdn.microsoft.com/en-us/library/ms173499.aspx?f=255&MSPPError=-2147217396>?
>>> Are you using MinGW? Visual Studio is now free
>>> <https://www.visualstudio.com/en-us/news/vs2013-community-vs.aspx>.
>>>
>>> HTH
>>>
>>> On Thu, Feb 18, 2016 at 6:37 AM, Francisco Lopez de la Franca <[hidden
>>> email] <http:///user/SendEmail.jtp?type=node&node=7588513&i=0>> wrote:
>>>
>>>> Hi again,
>>>> I've got ITK version 4.5.1 (a little bit old, I know), and after making
>>>> the changes suggested by Dzenanz and recompiling ITK, the problem
>>>> continues, that is, my code crashes at the same point.
>>>>
>>>> Then, I've downloaded the latest stable ITK version, ITK 4.9.0 and
>>>> compiled from scratch and I get the following error:
>>>>
>>>> [ 98%] Building CXX object
>>>> Modules/IO/TransformBase/src/CMakeFiles/ITKIOTransformBase.dir/itkTransformFactoryBase.cxx.obj
>>>> C:/MINGW/mingw64/bin/../lib/gcc/x86_64-w64-mingw32/4.8.2/../../../../x86_64-w64-mingw32/bin/as.exe:
>>>> CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: too many
>>>> sections (33106)
>>>> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Assembler messages:
>>>> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Fatal error: can't write
>>>> CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: File too
>>>> big
>>>>
>>>> After doing some "googling" and follow some of the instructions
>>>> referred on the web, I've been unable to solve this.
>>>> Has anyone met this problem and solved it?
>>>> Thanks.
>>>> KR.
>>>> /Francisco
>>>>
>>>> 2016-02-16 22:13 GMT+01:00 Bradley Lowekamp [via ITK Insight Users] <[hidden
>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588513&i=1>>:
>>>>
>>>>> Hello,
>>>>>
>>>>> Please take a look at these changes:
>>>>>
>>>>> https://github.com/blowekamp/itkTextureAnalysis/commit/9654d74ea1d09f0677f1d1b93242cc94340591bf
>>>>>
>>>>> Brad
>>>>>
>>>>> On Feb 16, 2016, at 10:35 AM, D?enan Zuki? <[hidden email]
>>>>> <http:///user/SendEmail.jtp?type=node&node=7588505&i=0>> wrote:
>>>>>
>>>>> I have set up a project using one of the tests from Brad's repository
>>>>> (attached), and it works in debug mode both with his original code and with
>>>>> your modified class, and crashes in release mode both with his original
>>>>> code and with your modified class. I will now compile ITK in RelWithDebInfo
>>>>> in an attempt to figure out where is the crash occurring.
>>>>>
>>>>> Regards,
>>>>> D?enan
>>>>>
>>>>> On Tue, Feb 16, 2016 at 1:52 AM, Francisco Lopez de la Franca <[hidden
>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588505&i=1>> wrote:
>>>>>
>>>>>> Excuse me Dzenanz, but that's not completely true, because I've
>>>>>> tested Brad's class and it works right.
>>>>>> The problem seems to be that when you add a new neighbor iterator to
>>>>>> include just the mask points in the "histogram" then it is when the
>>>>>> application crashes, and I donot understand why.
>>>>>> If you just comment the 'maskIter' references you'll see that the
>>>>>> application works.
>>>>>> I've created a single threaded class based on the Brad's code and it
>>>>>> works but it is twice slower, that is why I'm interesting on Brad's class
>>>>>> (multi-threaded) to make it work.
>>>>>>
>>>>>>
>>>>>> 2016-02-15 17:15 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588505&i=2>>:
>>>>>>
>>>>>>> Hi Francisco,
>>>>>>>
>>>>>>> both your code and Brad's code run in debug mode (I did not wait for
>>>>>>> the end), and both crash in release mode immediately on startup. Here is a
>>>>>>> sample output:
>>>>>>>
>>>>>>> Progress input: 0000000002868970
>>>>>>> input: 0000000002868970
>>>>>>> _maskImage: 0000000002868970
>>>>>>> _maskImage: 0000000002868970
>>>>>>> input: 0000000002868970
>>>>>>> _maskImage: 0000000002868970
>>>>>>> iter.first: iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>>> [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>>> niter index: [5, 5, 210]
>>>>>>> niter index: [5, 5, 140]
>>>>>>> maskIter index: [5, 5, 140]
>>>>>>> maskIter index: [5, 5, 210]
>>>>>>> Before p3
>>>>>>> input: 0000000002868970
>>>>>>> _maskImage: 0000000002868970
>>>>>>> After p3:  | 0niter index: [5, 5, 70]
>>>>>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>>> niter index: [5, 5, 5]
>>>>>>> ?
>>>>>>> maskIter index: [5, 5, 70]
>>>>>>> After p4: ?
>>>>>>> Before p3
>>>>>>> Before p3
>>>>>>> After p3: ?iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>>>> niter index: [5, 5, 140]
>>>>>>> maskIter index: [5, 5, 140]
>>>>>>> maskIter index: [5, 5, 5]
>>>>>>> Before p3
>>>>>>> After p3: ?
>>>>>>> After p3: ?
>>>>>>> After p4: ?
>>>>>>> After p4: ?
>>>>>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>>>> niter index: [5, 5, 5]
>>>>>>> maskIter index: [5, 5, 5]
>>>>>>>
>>>>>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>>>> Before p3
>>>>>>> Before p3
>>>>>>> After p4: ?
>>>>>>> After p3: ?
>>>>>>> After p4: ?
>>>>>>>
>>>>>>> Regards,
>>>>>>> D?enan
>>>>>>>
>>>>>>> On Mon, Feb 15, 2016 at 1:36 AM, Francisco Lopez de la Franca <[hidden
>>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=0>>
>>>>>>> wrote:
>>>>>>>
>>>>>>>> Hi,
>>>>>>>> Here they are.
>>>>>>>> KR.
>>>>>>>>
>>>>>>>> 2016-02-12 16:22 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=1>>:
>>>>>>>>
>>>>>>>>> Hi Francisco,
>>>>>>>>>
>>>>>>>>> do you mind attaching the modified files or pointing to your fork
>>>>>>>>> of it on GitHub?
>>>>>>>>>
>>>>>>>>> Regards
>>>>>>>>>
>>>>>>>>> On Thu, Feb 11, 2016 at 12:08 PM, Francisco L?pez-Franca <[hidden
>>>>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588490&i=0>>
>>>>>>>>> wrote:
>>>>>>>>>
>>>>>>>>>> Hi Dzenan,
>>>>>>>>>> The original class is here:
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h
>>>>>>>>>>
>>>>>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx
>>>>>>>>>>
>>>>>>>>>> I've just added setInput and setMaskImage methods and modify some
>>>>>>>>>> lines in
>>>>>>>>>> the original class as I indicated in the yesterday mail within
>>>>>>>>>> this thread.
>>>>>>>>>> I'm running it on Windows, and there is no error at all, just a
>>>>>>>>>> crash. I
>>>>>>>>>> may have to include exceptions management.
>>>>>>>>>> The crash occurs just when calling p3 =
>>>>>>>>>> maskIter.GetPixel(iter->first)
>>>>>>>>>>
>>>>>>>>>> If you know why it could be or if you need more clarification,
>>>>>>>>>> please let
>>>>>>>>>> me know.
>>>>>>>>>> Many thanks
>>>>>>>>>>
>>>>>>>>>> 2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
>>>>>>>>>> [hidden email]
>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588490&i=1>>:
>>>>>>>>>>
>>>>>>>>>> > Hi Francisco,
>>>>>>>>>> >
>>>>>>>>>> > "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the
>>>>>>>>>> error message
>>>>>>>>>> > that goes along with the crash? In which file and line does it
>>>>>>>>>> crash?
>>>>>>>>>> >
>>>>>>>>>> > Regards
>>>>>>>>>> >
>>>>>>>>>> > On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca
>>>>>>>>>> <[hidden
>>>>>>>>>> > email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0>>
>>>>>>>>>> wrote:
>>>>>>>>>> >
>>>>>>>>>> >> Hi,
>>>>>>>>>> >> Please, someone that could help me. I'm working in a
>>>>>>>>>> pre-doctorate
>>>>>>>>>> >> project and I need this class to work.
>>>>>>>>>> >> I've read the chapter 13 in the ITK Software Guide on how to
>>>>>>>>>> write a
>>>>>>>>>> >> filter and now I see the fact of the threads due to
>>>>>>>>>> inheritance of
>>>>>>>>>> >> ImageToImageFilter.
>>>>>>>>>> >> But, I keep on without understanding why the code crashes just
>>>>>>>>>> when
>>>>>>>>>> >> calling
>>>>>>>>>> >> *const PixelType p3 = maskIter.GetPixel(iter->first);*
>>>>>>>>>> >> It is just a call to read data, not to write.
>>>>>>>>>> >>
>>>>>>>>>> >> I guess somebody that had worked with creation of filters
>>>>>>>>>> might see
>>>>>>>>>> >> "easily" the problem, but not me.
>>>>>>>>>> >>
>>>>>>>>>> >> So, again, please, I need someone to help me with this because
>>>>>>>>>> I'm stuck
>>>>>>>>>> >> on this point.
>>>>>>>>>> >>
>>>>>>>>>> >> Thank you very much.
>>>>>>>>>> >> KR.
>>>>>>>>>> >> /Francisco
>>>>>>>>>> >>
>>>>>>>>>> >> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca
>>>>>>>>>> <[hidden email]
>>>>>>>>>> >> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1>>:
>>>>>>>>>> >>
>>>>>>>>>> >>> Hi Bradley again.
>>>>>>>>>> >>> I'm modifying your class in order to be able to set a mask
>>>>>>>>>> image (a
>>>>>>>>>> >>> binary image) to be used as a limit in the histogram
>>>>>>>>>> calculations, I mean,
>>>>>>>>>> >>> I set an input, a mask and the class should take into account
>>>>>>>>>> to calculate
>>>>>>>>>> >>> the histograms only the voxels that belong to the input and
>>>>>>>>>> to the mask
>>>>>>>>>> >>> image and having the value 1 in the mask image.
>>>>>>>>>> >>> The changes seem to be easy but I don?t know why my tests are
>>>>>>>>>> not
>>>>>>>>>> >>> working. It seems that 2 threads are working at the same time
>>>>>>>>>> and when I
>>>>>>>>>> >>> added my mask iterator, the code crashes.
>>>>>>>>>> >>>
>>>>>>>>>> >>> *** Consider that the input and mask images are the same
>>>>>>>>>> origin, spacing
>>>>>>>>>> >>> and size.
>>>>>>>>>> >>>
>>>>>>>>>> >>> I attach the main changes I've done, and I would thank you a
>>>>>>>>>> lot if you
>>>>>>>>>> >>> don't mind having a look and help me to find what I'm doing
>>>>>>>>>> wrong:
>>>>>>>>>> >>>
>>>>>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>>>>>> >>> void
>>>>>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>>>>>> >::*SetInput*(InputImageType
>>>>>>>>>> >>> *image)
>>>>>>>>>> >>> {
>>>>>>>>>> >>>   // Process object is not const-correct so the const_cast is
>>>>>>>>>> required
>>>>>>>>>> >>> here
>>>>>>>>>> >>>   this->ProcessObject::SetNthInput( 0,
>>>>>>>>>> >>>                                     const_cast<
>>>>>>>>>> InputImageType * >(
>>>>>>>>>> >>> image ) );
>>>>>>>>>> >>> }
>>>>>>>>>> >>>
>>>>>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>>>>>> >>> void
>>>>>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>>>>>> >::*SetMaskImage*(InputImageType
>>>>>>>>>> >>> *image)
>>>>>>>>>> >>> {
>>>>>>>>>> >>>   // Process object is not const-correct so the const_cast is
>>>>>>>>>> required
>>>>>>>>>> >>> here
>>>>>>>>>> >>>   this->ProcessObject::SetNthInput( 1, const_cast<
>>>>>>>>>> InputImageType * >(
>>>>>>>>>> >>> image ) );
>>>>>>>>>> >>>
>>>>>>>>>> >>>   _maskImage = image; // _maskImage is a private member
>>>>>>>>>> >>> }
>>>>>>>>>> >>>
>>>>>>>>>> >>> In the *ThreadedGenerateData*(const RegionType&
>>>>>>>>>> outputRegionForThread,
>>>>>>>>>> >>> ThreadIdType threadId ) method:
>>>>>>>>>> >>> {
>>>>>>>>>> >>>
>>>>>>>>>> >>> ...
>>>>>>>>>> >>>
>>>>>>>>>> >>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
>>>>>>>>>> >>>     {
>>>>>>>>>> >>>     NeighborhoodIteratorType nIter( radius, input, *fit );
>>>>>>>>>> >>>     *NeighborhoodIteratorType maskIter( radius, _maskImage,
>>>>>>>>>> *fit);*
>>>>>>>>>> >>>     OutputIterator           outIter(output, *fit);
>>>>>>>>>> >>>
>>>>>>>>>> >>>     OutputPixelType out;
>>>>>>>>>> >>>     NumericTraits<OutputPixelType>::SetLength( out,
>>>>>>>>>> >>> this->GetNumberOfOutputComponents() );
>>>>>>>>>> >>>
>>>>>>>>>> >>>     while( !nIter.IsAtEnd() )
>>>>>>>>>> >>>       {
>>>>>>>>>> >>>       this->FillHistogram( *histogram, nIter, *maskIter *);
>>>>>>>>>> >>>
>>>>>>>>>> >>>       ...
>>>>>>>>>> >>>
>>>>>>>>>> >>>       ++nIter;
>>>>>>>>>> >>>       ++outIter;
>>>>>>>>>> >>>      * ++maskIter;*
>>>>>>>>>> >>>     ...
>>>>>>>>>> >>>
>>>>>>>>>> >>> In the *FillHistogram *method:
>>>>>>>>>> >>> {
>>>>>>>>>> >>>
>>>>>>>>>> >>> ...
>>>>>>>>>> >>>
>>>>>>>>>> >>>   while( iter != m_CooccurenceOffsetVector.end() )
>>>>>>>>>> >>>     {
>>>>>>>>>> >>>
>>>>>>>>>> >>>     const PixelType p1 = niter.GetPixel(iter->first);
>>>>>>>>>> >>>     const PixelType p2 = niter.GetPixel(iter->second);
>>>>>>>>>> >>>     std::cout << "Before p3" << std::endl;
>>>>>>>>>> >>>
>>>>>>>>>> >>> *    const PixelType p3 = maskIter.GetPixel(iter->first);
>>>>>>>>>> *std::cout
>>>>>>>>>> >>> << "After p3: " << p3 << std::endl;
>>>>>>>>>> >>>
>>>>>>>>>> >>> *    const PixelType p4 = maskIter.GetPixel(iter->second);   *
>>>>>>>>>> >>> std::cout << "After p4: " << p4 << std::endl;
>>>>>>>>>> >>>
>>>>>>>>>> >>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2
>>>>>>>>>> <= m_Max
>>>>>>>>>> >>>             *&& p3 == _insidePixelValue && p4 ==
>>>>>>>>>> _insidePixelValue* )
>>>>>>>>>> >>> // The point
>>>>>>>>>> >>>       {
>>>>>>>>>> >>>
>>>>>>>>>> >>> ...
>>>>>>>>>> >>>
>>>>>>>>>> >>>
>>>>>>>>>> >>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>>>>>>>>>> >>>
>>>>>>>>>> >>> Thank you so much.
>>>>>>>>>> >>> My kind regards.
>>>>>>>>>> >>> /Paco
>>>>>>>>>> >>>
>>>>>>>>>> >>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca
>>>>>>>>>> <[hidden email]
>>>>>>>>>> >>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2>>:
>>>>>>>>>> >>>
>>>>>>>>>> >>>> Hello Bradley again.
>>>>>>>>>> >>>> Sorry but I'd like to re-open this issue because I need your
>>>>>>>>>> class but
>>>>>>>>>> >>>> with some modification.
>>>>>>>>>> >>>> I pass to tell you.
>>>>>>>>>> >>>>
>>>>>>>>>> >>>> As my tests with your external class were not good taking
>>>>>>>>>> into account
>>>>>>>>>> >>>> the performance, I wonder if you could create a variant of
>>>>>>>>>> it, but in which
>>>>>>>>>> >>>> I can set a mask image and your class just return the
>>>>>>>>>> VectorImage with all
>>>>>>>>>> >>>> the features for that region (the masked locations) as
>>>>>>>>>> >>>> itk::ScalarImageToTextureFeaturesFilter class does.
>>>>>>>>>> >>>> I mean, to get the vector image with all the features but
>>>>>>>>>> just
>>>>>>>>>> >>>> calculate it for the regions belonging to the mask image.
>>>>>>>>>> Positions not
>>>>>>>>>> >>>> belonging to the mask region could have a pixel value of 0,
>>>>>>>>>> for instance.
>>>>>>>>>> >>>>
>>>>>>>>>> >>>> I don?t know if it is very costly for you,  but I would
>>>>>>>>>> thank you so
>>>>>>>>>> >>>> much. Otherwise, I could try it but I'd need your
>>>>>>>>>> suggestions on how to do
>>>>>>>>>> >>>> it.
>>>>>>>>>> >>>>
>>>>>>>>>> >>>> Thanks a lot.
>>>>>>>>>> >>>> Best regards.
>>>>>>>>>> >>>>
>>>>>>>>>> >>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca
>>>>>>>>>> <[hidden email]
>>>>>>>>>> >>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3>>:
>>>>>>>>>> >>>>
>>>>>>>>>> >>>>> Hello Bradley again,
>>>>>>>>>> >>>>> I would like to ask you for a couple of favours. In the one
>>>>>>>>>> hand,
>>>>>>>>>> >>>>> could you please send me your 3D image so that I can test
>>>>>>>>>> on it? And on the
>>>>>>>>>> >>>>> other hand, could you test the example I have referenced in
>>>>>>>>>> the previous
>>>>>>>>>> >>>>> email with your image, not changing anything in the code,
>>>>>>>>>> such as it is,
>>>>>>>>>> >>>>> and tell me if the execution time is normal?
>>>>>>>>>> >>>>> Thank you very much.
>>>>>>>>>> >>>>> Regards,
>>>>>>>>>> >>>>> /Francisco
>>>>>>>>>> >>>>>
>>>>>>>>>> >>>>> PS: All my application trace is printed via standard 'cout'
>>>>>>>>>> command,
>>>>>>>>>> >>>>> not due to a debugging compilation mode.
>>>>>>>>>> >>>>>
>>>>>>>>>> >>>>>
>>>>>>>>>> >>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp
>>>>>>>>>> <[hidden
>>>>>>>>>> >>>>> email] <
>>>>>>>>>> http:///user/SendEmail.jtp?type=node&node=7588477&i=4>>
>>>>>>>>>> >>>>> escribi?:
>>>>>>>>>> >>>>>
>>>>>>>>>> >>>>>> Hello,
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> Did you compile TextureFeatureImage in Release mode?
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> 1) The filter does not scale well with a large radius. And
>>>>>>>>>> given by
>>>>>>>>>> >>>>>> your initial report of print a very large number of offset
>>>>>>>>>> you, it sounds
>>>>>>>>>> >>>>>> like you are using a large radius with many offsets. I
>>>>>>>>>> created a
>>>>>>>>>> >>>>>> 224x224x300 unsigned short image and ran with the default
>>>>>>>>>> offset and a
>>>>>>>>>> >>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this
>>>>>>>>>> filter is was ~10x
>>>>>>>>>> >>>>>> faster than this example... things change though...
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> 2) I sounds like the boundaries/limits of the histogram
>>>>>>>>>> may be
>>>>>>>>>> >>>>>> clipping you values. I would inspect the co-occurance
>>>>>>>>>> matrix.
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> HTH,
>>>>>>>>>> >>>>>> Brad
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca
>>>>>>>>>> <[hidden
>>>>>>>>>> >>>>>> email] <
>>>>>>>>>> http:///user/SendEmail.jtp?type=node&node=7588477&i=5>>
>>>>>>>>>> >>>>>> wrote:
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> I've tested with itkTextureFeatureImageFilter, with
>>>>>>>>>> >>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>>>>>>>>>> >>>>>>
>>>>>>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures
>>>>>>>>>> example,
>>>>>>>>>> >>>>>> for a 3D image and here are my comments:
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> 1. I had to interrupt the test after several hours and it
>>>>>>>>>> kept on
>>>>>>>>>> >>>>>> calculating. And this is for only a 3D image
>>>>>>>>>> (224x224x300). I need to
>>>>>>>>>> >>>>>> process around 35 images.
>>>>>>>>>> >>>>>> 2. The result (texture features: entropy, energy,
>>>>>>>>>> correlation, LH,
>>>>>>>>>> >>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0,
>>>>>>>>>> 0, 7.83083e+247].
>>>>>>>>>> >>>>>> These values were not what I expected based on my
>>>>>>>>>> experience on another
>>>>>>>>>> >>>>>> application I developed, but in that case, I calculated
>>>>>>>>>> the texture
>>>>>>>>>> >>>>>> features for an image as a whole, not voxel by voxel.
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> Regards.
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
>>>>>>>>>> >>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6>>:
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>>> i yes i have tried radius = 3;
>>>>>>>>>> >>>>>>> still no luck
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca
>>>>>>>>>> [via ITK
>>>>>>>>>> >>>>>>> Insight
>>>>>>>>>> >>>>>>> Users] <[hidden email]
>>>>>>>>>> >>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7>>
>>>>>>>>>> wrote:
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>> > Have you tried with a radius of 3 instead of 1?
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>>>>>>>>>> >>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0
>>>>>>>>>> >>:
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> >> hey Matt,
>>>>>>>>>> >>>>>>> >> thanks for ur advice.. it did build successfully...
>>>>>>>>>> but im not
>>>>>>>>>> >>>>>>> able to run
>>>>>>>>>> >>>>>>> >> the code for 2D png image... i tried to change the
>>>>>>>>>> dimension to 2
>>>>>>>>>> >>>>>>> and
>>>>>>>>>> >>>>>>> >> build
>>>>>>>>>> >>>>>>> >> it which it did.. but when i run the code using the
>>>>>>>>>> command
>>>>>>>>>> >>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png
>>>>>>>>>> putput.png
>>>>>>>>>> >>>>>>> 1... i see
>>>>>>>>>> >>>>>>> >> this output
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >> offset: [-1, -1] [0, -1]
>>>>>>>>>> >>>>>>> >> offset: [0, -1] [1, -1]
>>>>>>>>>> >>>>>>> >> offset: [-1, 0] [0, 0]
>>>>>>>>>> >>>>>>> >> offset: [0, 0] [1, 0]
>>>>>>>>>> >>>>>>> >> offset: [-1, 1] [0, 1]
>>>>>>>>>> >>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the
>>>>>>>>>> program... if pls
>>>>>>>>>> >>>>>>> tel me
>>>>>>>>>> >>>>>>> >> how can i modify this code to work wid 2d image...
>>>>>>>>>> forgive me if
>>>>>>>>>> >>>>>>> my ques
>>>>>>>>>> >>>>>>> >> are really silly im trying to learn something..
>>>>>>>>>> >>>>>>> >> regards
>>>>>>>>>> >>>>>>> >> Vis
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via
>>>>>>>>>> ITK
>>>>>>>>>> >>>>>>> Insight Users]
>>>>>>>>>> >>>>>>> >> <
>>>>>>>>>> >>>>>>> >> [hidden email] <
>>>>>>>>>> >>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
>>>>>>>>>> >>>>>>> >> wrote:
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >> > Hi,
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > The function:
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char
>>>>>>>>>> *argv[])
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > must be renamed to
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> >   main(int argc, char* argv[])
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > HTH,
>>>>>>>>>> >>>>>>> >> > Matt
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>>>>>>>>>> >>>>>>> >> > <
>>>>>>>>>> http:///user/SendEmail.jtp?type=node&node=7587952&i=0>> wrote:
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > > hi all,
>>>>>>>>>> >>>>>>> >> > > im trying to build the
>>>>>>>>>> itkTextureFeatureImageFilterTest.cxx
>>>>>>>>>> >>>>>>> code but
>>>>>>>>>> >>>>>>> >> im
>>>>>>>>>> >>>>>>> >> > not
>>>>>>>>>> >>>>>>> >> > > able to it is showing the following error
>>>>>>>>>> >>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>>>>>>>>>> >>>>>>> Configuration:
>>>>>>>>>> >>>>>>> >> Debug
>>>>>>>>>> >>>>>>> >> > x64
>>>>>>>>>> >>>>>>> >> > > ------
>>>>>>>>>> >>>>>>> >> > > 1>  Checking Build System
>>>>>>>>>> >>>>>>> >> > > 1>  CMake does not need to re-run because
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>>
>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>>>>>>>>>> >>>>>>> >> > is
>>>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>>>> >>>>>>> >> > > 2>------ Rebuild All started: Project:
>>>>>>>>>> >>>>>>> >> itkTextureFeatureImageFilterTest,
>>>>>>>>>> >>>>>>> >> > > Configuration: Debug x64 ------
>>>>>>>>>> >>>>>>> >> > > 2>  Building Custom Rule
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>>>>> >>>>>>> >> > > 2>  CMake does not need to re-run because
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>>
>>>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>>>>> >>>>>>> >> > is
>>>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>>>> >>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>>>>>>>>>> >>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>>>>>>>>>> >>>>>>> 'std::_Copy_impl':
>>>>>>>>>> >>>>>>> >> > Function
>>>>>>>>>> >>>>>>> >> > > call with parameters that may be unsafe - this
>>>>>>>>>> call relies on
>>>>>>>>>> >>>>>>> the
>>>>>>>>>> >>>>>>> >> caller
>>>>>>>>>> >>>>>>> >> > to
>>>>>>>>>> >>>>>>> >> > > check that the passed values are correct. To
>>>>>>>>>> disable this
>>>>>>>>>> >>>>>>> warning, use
>>>>>>>>>> >>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on
>>>>>>>>>> how to use
>>>>>>>>>> >>>>>>> Visual C++
>>>>>>>>>> >>>>>>> >> > > 'Checked Iterators'
>>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft
>>>>>>>>>> Visual Studio
>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>>>>>>>>>> >>>>>>> >> > see
>>>>>>>>>> >>>>>>> >> > > reference to function template instantiation
>>>>>>>>>> '_OutIt
>>>>>>>>>> >>>>>>> std::copy<const
>>>>>>>>>> >>>>>>> >> > > unsigned char*,unsigned
>>>>>>>>>> char*>(_InIt,_InIt,_OutIt)' being
>>>>>>>>>> >>>>>>> compiled
>>>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>>>> >>>>>>> >> > > 2>              _OutIt=unsigned char *,
>>>>>>>>>> >>>>>>> >> > > 2>              _InIt=const unsigned char *
>>>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>>>>>>>>>> >>>>>>> >> > > while compiling class template member function
>>>>>>>>>> 'void
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>>>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > > : see reference to class template instantiation
>>>>>>>>>> >>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>>>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft
>>>>>>>>>> Visual Studio
>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft
>>>>>>>>>> Visual Studio
>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft
>>>>>>>>>> Visual Studio
>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>>> >>>>>>> >> > > 2>     Creating library
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > > and object
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019:
>>>>>>>>>> unresolved
>>>>>>>>>> >>>>>>> external symbol
>>>>>>>>>> >>>>>>> >> > main
>>>>>>>>>> >>>>>>> >> > > referenced in function __tmainCRTStartup
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>>>>>>>>>> >>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>>>>>>>>>> >>>>>>> Configuration: Debug
>>>>>>>>>> >>>>>>> >> > x64
>>>>>>>>>> >>>>>>> >> > > ------
>>>>>>>>>> >>>>>>> >> > > 3>  Building Custom Rule
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>>>>> >>>>>>> >> > > 3>  CMake does not need to re-run because
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>>
>>>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>>>>> >>>>>>> >> > is
>>>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>>>> >>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0
>>>>>>>>>> skipped
>>>>>>>>>> >>>>>>> ==========
>>>>>>>>>> >>>>>>> >> > > im using the follwing CMakeList.txt
>>>>>>>>>> >>>>>>> >> > > # This is the root ITK CMakeLists file.
>>>>>>>>>> >>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>>>>>>>>>> >>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>>>>>>>>>> >>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>>>>>>>>>> >>>>>>> >> > > endif()
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > > # This project is designed to be built outside the
>>>>>>>>>> Insight
>>>>>>>>>> >>>>>>> source
>>>>>>>>>> >>>>>>> >> tree.
>>>>>>>>>> >>>>>>> >> > > project(HelloWorld)
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > > # Find ITK.
>>>>>>>>>> >>>>>>> >> > > find_package(ITK REQUIRED)
>>>>>>>>>> >>>>>>> >> > > include(${ITK_USE_FILE})
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>>>>>>>>>> >>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> target_link_libraries(itkTextureFeatureImageFilterTest
>>>>>>>>>> >>>>>>> >> ${ITK_LIBRARIES})
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > > please tel me wat the error is??
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > > --
>>>>>>>>>> >>>>>>> >> > > View this message in context:
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>>>>>>>>>> >>>>>>> >> > > Sent from the ITK Insight Users mailing list
>>>>>>>>>> archive at
>>>>>>>>>> >>>>>>> Nabble.com <http://nabble.com>.
>>>>>>>>>> >>>>>>> >> > > _____________________________________
>>>>>>>>>> >>>>>>> >> > > Powered by www.kitware.com
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > > Visit other Kitware open-source projects at
>>>>>>>>>> >>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > > Kitware offers ITK Training Courses, for more
>>>>>>>>>> information
>>>>>>>>>> >>>>>>> visit:
>>>>>>>>>> >>>>>>> >> > > http://www.kitware.com/products/protraining.php
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > > Please keep messages on-topic and check the ITK
>>>>>>>>>> FAQ at:
>>>>>>>>>> >>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> >>>>>>> >> > > Follow this link to subscribe/unsubscribe:
>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>> >>>>>>> >> > _____________________________________
>>>>>>>>>> >>>>>>> >> > Powered by www.kitware.com
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > Visit other Kitware open-source projects at
>>>>>>>>>> >>>>>>> >> > http://www.kitware.com/opensource/opensource.html
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > Kitware offers ITK Training Courses, for more
>>>>>>>>>> information visit:
>>>>>>>>>> >>>>>>> >> > http://www.kitware.com/products/protraining.php
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > Please keep messages on-topic and check the ITK FAQ
>>>>>>>>>> at:
>>>>>>>>>> >>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > Follow this link to subscribe/unsubscribe:
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> > ------------------------------
>>>>>>>>>> >>>>>>> >> > If you reply to this email, your message will be
>>>>>>>>>> added to the
>>>>>>>>>> >>>>>>> discussion
>>>>>>>>>> >>>>>>> >> > below:
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587952.html
>>>>>>>>>> >>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by
>>>>>>>>>> pixel, click
>>>>>>>>>> >>>>>>> here
>>>>>>>>>> >>>>>>> >> > < > .
>>>>>>>>>> >>>>>>> >> > NAML
>>>>>>>>>> >>>>>>> >> > <
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >> --
>>>>>>>>>> >>>>>>> >> View this message in context:
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>>>>>>>>>> >>>>>>> >> Sent from the ITK Insight Users mailing list archive at
>>>>>>>>>> >>>>>>> Nabble.com <http://nabble.com>.
>>>>>>>>>> >>>>>>> >> _____________________________________
>>>>>>>>>> >>>>>>> >> Powered by www.kitware.com
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >> Visit other Kitware open-source projects at
>>>>>>>>>> >>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >> Kitware offers ITK Training Courses, for more
>>>>>>>>>> information visit:
>>>>>>>>>> >>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>> >>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>> >>>>>>> >>
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> > _____________________________________
>>>>>>>>>> >>>>>>> > Powered by www.kitware.com
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> > Visit other Kitware open-source projects at
>>>>>>>>>> >>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> > Kitware offers ITK Training Courses, for more
>>>>>>>>>> information visit:
>>>>>>>>>> >>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>> >>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> > ------------------------------
>>>>>>>>>> >>>>>>> > If you reply to this email, your message will be added
>>>>>>>>>> to the
>>>>>>>>>> >>>>>>> discussion
>>>>>>>>>> >>>>>>> > below:
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>>
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587961.html
>>>>>>>>>> >>>>>>> > To unsubscribe from [ITK-users] Texture pixel by pixel,
>>>>>>>>>> click here
>>>>>>>>>> >>>>>>> > < > .
>>>>>>>>>> >>>>>>> > NAML
>>>>>>>>>> >>>>>>> > <
>>>>>>>>>> >>>>>>>
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>> >
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>> --
>>>>>>>>>> >>>>>>> View this message in context:
>>>>>>>>>> >>>>>>>
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
>>>>>>>>>> >>>>>>> Sent from the ITK Insight Users mailing list archive at
>>>>>>>>>> Nabble.com <http://nabble.com>.
>>>>>>>>>> >>>>>>> _____________________________________
>>>>>>>>>> >>>>>>> Powered by www.kitware.com
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>> Visit other Kitware open-source projects at
>>>>>>>>>> >>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>> Kitware offers ITK Training Courses, for more information
>>>>>>>>>> visit:
>>>>>>>>>> >>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>> >>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>>>> >>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>> >>>>>>>
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> _____________________________________
>>>>>>>>>> >>>>>> Powered by www.kitware.com
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> Visit other Kitware open-source projects at
>>>>>>>>>> >>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> Kitware offers ITK Training Courses, for more information
>>>>>>>>>> visit:
>>>>>>>>>> >>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>> >>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>>>> >>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>>>
>>>>>>>>>> >>>>
>>>>>>>>>> >>>
>>>>>>>>>> >>
>>>>>>>>>> >> _____________________________________
>>>>>>>>>> >> Powered by www.kitware.com
>>>>>>>>>> >>
>>>>>>>>>> >> Visit other Kitware open-source projects at
>>>>>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>> >>
>>>>>>>>>> >> Kitware offers ITK Training Courses, for more information
>>>>>>>>>> visit:
>>>>>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>>>>>> >>
>>>>>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>> >>
>>>>>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>> >>
>>>>>>>>>> >>
>>>>>>>>>> >
>>>>>>>>>> > _____________________________________
>>>>>>>>>> > Powered by www.kitware.com
>>>>>>>>>> >
>>>>>>>>>> > Visit other Kitware open-source projects at
>>>>>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>>>>>> >
>>>>>>>>>> > Kitware offers ITK Training Courses, for more information visit:
>>>>>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>>>>>> >
>>>>>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>> >
>>>>>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>> >
>>>>>>>>>> >
>>>>>>>>>> > ------------------------------
>>>>>>>>>> > If you reply to this email, your message will be added to the
>>>>>>>>>> discussion
>>>>>>>>>> > below:
>>>>>>>>>> >
>>>>>>>>>> >
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588477.html
>>>>>>>>>> > To start a new topic under ITK Insight Users, email
>>>>>>>>>> > [hidden email]
>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588490&i=2>
>>>>>>>>>> > To unsubscribe from ITK Insight Users, click here
>>>>>>>>>> > < > .
>>>>>>>>>> > NAML
>>>>>>>>>> > <
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>>>> >
>>>>>>>>>> >
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> --
>>>>>>>>>> View this message in context:
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588483.html
>>>>>>>>>> Sent from the ITK Insight Users mailing list archive at
>>>>>>>>>> Nabble.com <http://nabble.com>.
>>>>>>>>>> _____________________________________
>>>>>>>>>> Powered by www.kitware.com
>>>>>>>>>>
>>>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>
>>>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>>>
>>>>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>
>>>>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> _____________________________________
>>>>>>>>> Powered by www.kitware.com
>>>>>>>>>
>>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>
>>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>>
>>>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>
>>>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
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>>>>>>>>> ------------------------------
>>>>>>>>> If you reply to this email, your message will be added to the
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>>>>>>>>>
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>>>>>>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588495&i=2>
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>>>>>>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> _____________________________________
>>>>>>>> Powered by www.kitware.com
>>>>>>>>
>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>
>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>
>>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>
>>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>
>>>>>>>>
>>>>>>>
>>>>>>> _____________________________________
>>>>>>> Powered by www.kitware.com
>>>>>>>
>>>>>>> Visit other Kitware open-source projects at
>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>
>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>
>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>
>>>>>>> Follow this link to subscribe/unsubscribe:
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>>>>>>>
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>>>>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588505&i=3>
>>>>>>> To unsubscribe from ITK Insight Users, click here.
>>>>>>> NAML
>>>>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>>>>
>>>>>>
>>>>>>
>>>>>> _____________________________________
>>>>>> Powered by www.kitware.com
>>>>>>
>>>>>> Visit other Kitware open-source projects at
>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>
>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>
>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>
>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>
>>>>>>
>>>>> <tester.cpp>_____________________________________
>>>>> Powered by www.kitware.com
>>>>>
>>>>> Visit other Kitware open-source projects at
>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>
>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>> http://www.kitware.com/products/protraining.php
>>>>>
>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>
>>>>> Follow this link to subscribe/unsubscribe:
>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>
>>>>>
>>>>>
>>>>> _____________________________________
>>>>> Powered by www.kitware.com
>>>>>
>>>>> Visit other Kitware open-source projects at
>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>
>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>> http://www.kitware.com/products/protraining.php
>>>>>
>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>
>>>>> Follow this link to subscribe/unsubscribe:
>>>>> http://public.kitware.com/mailman/listinfo/insight-users
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>>>>> If you reply to this email, your message will be added to the
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>>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>>> <http:///user/SendEmail.jtp?type=node&node=7588513&i=2>
>>>>> To unsubscribe from ITK Insight Users, click here.
>>>>> NAML
>>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>>
>>>>
>>>>
>>>> _____________________________________
>>>> Powered by www.kitware.com
>>>>
>>>> Visit other Kitware open-source projects at
>>>> http://www.kitware.com/opensource/opensource.html
>>>>
>>>> Kitware offers ITK Training Courses, for more information visit:
>>>> http://www.kitware.com/products/protraining.php
>>>>
>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>
>>>> Follow this link to subscribe/unsubscribe:
>>>> http://public.kitware.com/mailman/listinfo/insight-users
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>>>>
>>>
>>> _____________________________________
>>> Powered by www.kitware.com
>>>
>>> Visit other Kitware open-source projects at
>>> http://www.kitware.com/opensource/opensource.html
>>>
>>> Kitware offers ITK Training Courses, for more information visit:
>>> http://www.kitware.com/products/protraining.php
>>>
>>> Please keep messages on-topic and check the ITK FAQ at:
>>> http://www.itk.org/Wiki/ITK_FAQ
>>>
>>> Follow this link to subscribe/unsubscribe:
>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>
>>>
>>> ------------------------------
>>> If you reply to this email, your message will be added to the discussion
>>> below:
>>>
>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588513.html
>>> To start a new topic under ITK Insight Users, email [hidden email]
>>> <http:///user/SendEmail.jtp?type=node&node=7588516&i=2>
>>> To unsubscribe from ITK Insight Users, click here.
>>> NAML
>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>
>>
>>
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://www.kitware.com/products/protraining.php
>>
>> Please keep messages on-topic and check the ITK FAQ at:
>> http://www.itk.org/Wiki/ITK_FAQ
>>
>> Follow this link to subscribe/unsubscribe:
>> http://public.kitware.com/mailman/listinfo/insight-users
>>
>>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
>
> ------------------------------
> If you reply to this email, your message will be added to the discussion
> below:
>
> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588516.html
> To start a new topic under ITK Insight Users, email
> ml-node+s2283740n2283740h75 at n2.nabble.com
> To unsubscribe from ITK Insight Users, click here
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> .
> NAML
> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>




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From franciscolopezdelafranca at gmail.com  Mon Feb 22 07:20:20 2016
From: franciscolopezdelafranca at gmail.com (Francisco Lopez de la Franca)
Date: Mon, 22 Feb 2016 13:20:20 +0100
Subject: [ITK-users] Compilation error when building ITK 4.9.0 with MinGW
In-Reply-To: <CAJqi3EJ8fUt_qKBVfB-+fXGPHEoAUvPxsVZttNrH6ZMRRXKSTg@mail.gmail.com>
References: <CAJqi3ELO_-P7GfDksEec03oXiQe_ajhSLfExR5LqdvuYhzUV2g@mail.gmail.com>
 <CALzTN-SF11-Me-GmVe=ug=iW5458Pn-=Rqa7x=p7tpzmpXFoxw@mail.gmail.com>
 <CAJqi3EJ8fUt_qKBVfB-+fXGPHEoAUvPxsVZttNrH6ZMRRXKSTg@mail.gmail.com>
Message-ID: <CAJqi3EKGuyRrTwGaBWiO1x=TFRiYPjKGKcJfx_2j9e9bF6uefg@mail.gmail.com>

I've achieved to compile ITK 4.9.0 through MS Visual Studio 2010, but not
with MinGW.
Thanks everybody.
Kind regards.
/Francisco

2016-02-19 23:56 GMT+01:00 Francisco Lopez de la Franca <
franciscolopezdelafranca at gmail.com>:

> Hello Matt,
> I had already tested the -Wa,-mbig-obj options in CMAKE_CXX_FLAGS and in
> CMAKE_C_FLAGS and the answer was:
>
> C:/mingw64/bin/../lib/gcc/x86_64-w64-mingw32/4.8.2/../../../../x86_64-w64-mingw32/bin/as.exe:
> unrecognized option `-mbig-obj'
>
> So, I'm stuck at this point, and I'm thinking to change from Mingw to
> Visual Studio or another one. But it is very strange that ITK wasn't be
> prepared to be compiled via MinGW.
>
> Thanks for answering and if you have any suggestion, it wiil be very well
> received.
>
> /Francisco
>
>
> 2016-02-19 18:00 GMT+01:00 Matt McCormick <matt.mccormick at kitware.com>:
>
>> Hi Franscisco,
>>
>> According to this thread:
>>
>>  https://cmake.org/pipermail/insight-users/2015-September/052511.html
>>
>> adding the flags
>>
>>    -Wa,-mbig-obj
>>
>> helps at least with the build error.  Does it help in your case?
>>
>> Thanks,
>> Matt
>>
>> On Thu, Feb 18, 2016 at 6:22 PM, Francisco Lopez de la Franca
>> <franciscolopezdelafranca at gmail.com> wrote:
>> > Hi,
>> > I've downloaded the last stable ITK version, 4.9.0, for Windows and
>> compile
>> > it by using MinGW-64.
>> > When the compilation reaches almost the 100%, it gives the error:
>> >
>> > [ 98%] Building CXX object
>> >
>> Modules/IO/TransformBase/src/CMakeFiles/ITKIOTransformBase.dir/itkTransformFactoryBase.cxx.obj
>> >
>> C:/MINGW/mingw64/bin/../lib/gcc/x86_64-w64-mingw32/4.8.2/../../../../x86_64-w64-mingw32/bin/as.exe:
>> > CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: too
>> many
>> > sections (33106)
>> > C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Assembler messages:
>> > C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Fatal error: can't write
>> > CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: File
>> too
>> > big
>> >
>> > I've been searching for a solution on the web for several hours and all
>> the
>> > attempts to solve it have not fix it.
>> >
>> > Has anyone ever faced this problem and fix it?
>> >
>> > Thanks a lot.
>> > Best regards.
>> > /Francisco
>> >
>> > _____________________________________
>> > Powered by www.kitware.com
>> >
>> > Visit other Kitware open-source projects at
>> > http://www.kitware.com/opensource/opensource.html
>> >
>> > Kitware offers ITK Training Courses, for more information visit:
>> > http://www.kitware.com/products/protraining.php
>> >
>> > Please keep messages on-topic and check the ITK FAQ at:
>> > http://www.itk.org/Wiki/ITK_FAQ
>> >
>> > Follow this link to subscribe/unsubscribe:
>> > http://public.kitware.com/mailman/listinfo/insight-users
>> >
>>
>
>
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From blowekamp at mail.nih.gov  Mon Feb 22 08:42:02 2016
From: blowekamp at mail.nih.gov (Bradley Lowekamp)
Date: Mon, 22 Feb 2016 08:42:02 -0500
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <CAJqi3EKNwP5CyjanQQKg82e=1fnN=BFS-MoDzPveSj2wvbT7Mw@mail.gmail.com>
References: <CAJqi3EJ6gSjPxVG9tNguYNHf0pCatepBv3w-4sTtKOnRig_4vA@mail.gmail.com>
 <CAPf2UMQdSHRVYWReSZ+i+=E4igTyUD91ysoqA48DB-O8R3EUTw@mail.gmail.com>
 <CAJqi3EJU6L=R=KUyFvHvLg2w0m=MYQpuWTODcP=W4TiKZXE2eA@mail.gmail.com>
 <CAPf2UMSs-q8_s=5k6KcX48zjEsyKWQ-RzJ3O0ik1ihFcHcp+vg@mail.gmail.com>
 <CAJqi3E+ghXk2AaMYF_eb2_6ZsxJPNYWtFqHaQkKxjJXWuGTEOw@mail.gmail.com>
 <CAPf2UMR=TyVatKidw8Z_OcxUQ82JVXQnx8QcK73X3fsC+E2j1A@mail.gmail.com>
 <3F877AC4-BCD1-43FF-B8B3-7B30F9B6D30B@mail.nih.gov>
 <CAJqi3EKcF8T1goR3UTHiBS4br3NqAR7Z9HQqGaKYGJs21_XByA@mail.gmail.com>
 <CAPf2UMRx5mQuqC7+GohHeXUgo44osWTk2U4Kr0kY+SeXOkjuaA@mail.gmail.com>
 <CAJqi3E++Zm9xcfe=D=Hrhd-F4NGnOf99XQwqQ_83RXxF1bE1GA@mail.gmail.com>
 <CAPf2UMSf_Yk1Va2=g7CzdR8Pcy1j4n+H7pXBeeq5sCYzOYz-OA@mail.gmail.com>
 <CAJqi3EKNwP5CyjanQQKg82e=1fnN=BFS-MoDzPveSj2wvbT7Mw@mail.gmail.com>
Message-ID: <B08CBB97-B663-4235-AAE7-A9F9D2A28222@mail.nih.gov>

Francisco,

Glad to hear that you figured out the problem with your code.

Were you able to try out the change to add Mask support I committed to the github repository? Does this meet you masking needs and improve your performance?

Please consider studying the difference between your change any my change and the performance implications.

Enjoy,
Brad

> On Feb 22, 2016, at 7:18 AM, Francisco Lopez de la Franca <franciscolopezdelafranca at gmail.com> wrote:
> 
> Hi.
> In the end the crash came for my fault. I was creating the mask image in the wrong way. Sorry for the disturbances, and thank you very much everybody.
> Kind regards.
> /Francisco
> 
> 2016-02-18 19:00 GMT+01:00 dzenanz [via ITK Insight Users] <ml-node+s2283740n7588516h31 at n2.nabble.com <mailto:ml-node+s2283740n7588516h31 at n2.nabble.com>>:
> /bigobj is an option for msvc, not mingw.
> 
> But that is a different problem from crashing code. If you start a new thread, somebody with MinGW experience might help you.
> 
> On Thu, Feb 18, 2016 at 12:30 PM, Francisco Lopez de la Franca <[hidden email] <http://user/SendEmail.jtp?type=node&node=7588516&i=0>> wrote:
> Yes. I use mingw (x86_64-w64-mingw32-g++.exe) and I set in CMAKE GUI the entry CMAKE_CXX_FLAGS to -bigobj and the result is "unrecognized option".
> 
> 
> 2016-02-18 15:25 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden email] <http://user/SendEmail.jtp?type=node&node=7588516&i=1>>:
> Have you tried /bigobj <https://msdn.microsoft.com/en-us/library/ms173499.aspx?f=255&MSPPError=-2147217396>? Are you using MinGW? Visual Studio is now free <https://www.visualstudio.com/en-us/news/vs2013-community-vs.aspx>.
> 
> HTH
> 
> On Thu, Feb 18, 2016 at 6:37 AM, Francisco Lopez de la Franca <[hidden email] <http://user/SendEmail.jtp?type=node&node=7588513&i=0>> wrote:
> Hi again,
> I've got ITK version 4.5.1 (a little bit old, I know), and after making the changes suggested by Dzenanz and recompiling ITK, the problem continues, that is, my code crashes at the same point.
> 
> Then, I've downloaded the latest stable ITK version, ITK 4.9.0 and compiled from scratch and I get the following error:
> 
> [ 98%] Building CXX object Modules/IO/TransformBase/src/CMakeFiles/ITKIOTransformBase.dir/itkTransformFactoryBase.cxx.obj
> C:/MINGW/mingw64/bin/../lib/gcc/x86_64-w64-mingw32/4.8.2/../../../../x86_64-w64-mingw32/bin/as.exe: CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: too many sections (33106)
> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Assembler messages:
> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Fatal error: can't write CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: File too big
> 
> After doing some "googling" and follow some of the instructions referred on the web, I've been unable to solve this.
> Has anyone met this problem and solved it?
> Thanks.
> KR.
> /Francisco
> 
> 2016-02-16 22:13 GMT+01:00 Bradley Lowekamp [via ITK Insight Users] <[hidden email] <http://user/SendEmail.jtp?type=node&node=7588513&i=1>>:
> Hello,
> 
> Please take a look at these changes:
> https://github.com/blowekamp/itkTextureAnalysis/commit/9654d74ea1d09f0677f1d1b93242cc94340591bf <https://github.com/blowekamp/itkTextureAnalysis/commit/9654d74ea1d09f0677f1d1b93242cc94340591bf>
> 
> Brad
> 
>> On Feb 16, 2016, at 10:35 AM, D?enan Zuki? <[hidden email] <http://user/SendEmail.jtp?type=node&node=7588505&i=0>> wrote:
>> 
>> I have set up a project using one of the tests from Brad's repository (attached), and it works in debug mode both with his original code and with your modified class, and crashes in release mode both with his original code and with your modified class. I will now compile ITK in RelWithDebInfo in an attempt to figure out where is the crash occurring.
>> 
>> Regards,
>> D?enan
>> 
>> On Tue, Feb 16, 2016 at 1:52 AM, Francisco Lopez de la Franca <[hidden email] <http://user/SendEmail.jtp?type=node&node=7588505&i=1>> wrote:
>> Excuse me Dzenanz, but that's not completely true, because I've tested Brad's class and it works right.
>> The problem seems to be that when you add a new neighbor iterator to include just the mask points in the "histogram" then it is when the application crashes, and I donot understand why.
>> If you just comment the 'maskIter' references you'll see that the application works.
>> I've created a single threaded class based on the Brad's code and it works but it is twice slower, that is why I'm interesting on Brad's class (multi-threaded) to make it work.
>> 
>> 
>> 2016-02-15 17:15 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden email] <http://user/SendEmail.jtp?type=node&node=7588505&i=2>>:
>> Hi Francisco,
>> 
>> both your code and Brad's code run in debug mode (I did not wait for the end), and both crash in release mode immediately on startup. Here is a sample output:
>> 
>> Progress input: 0000000002868970
>> input: 0000000002868970
>> _maskImage: 0000000002868970
>> _maskImage: 0000000002868970
>> input: 0000000002868970
>> _maskImage: 0000000002868970
>> iter.first: iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>> [-5, -5, -5] iter.second: [-4, -5, -5]
>> niter index: [5, 5, 210]
>> niter index: [5, 5, 140]
>> maskIter index: [5, 5, 140]
>> maskIter index: [5, 5, 210]
>> Before p3
>> input: 0000000002868970
>> _maskImage: 0000000002868970
>> After p3:  | 0niter index: [5, 5, 70]
>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>> niter index: [5, 5, 5]
>> ?
>> maskIter index: [5, 5, 70]
>> After p4: ?
>> Before p3
>> Before p3
>> After p3: ?iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>> niter index: [5, 5, 140]
>> maskIter index: [5, 5, 140]
>> maskIter index: [5, 5, 5]
>> Before p3
>> After p3: ?
>> After p3: ?
>> After p4: ?
>> After p4: ?
>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>> niter index: [5, 5, 5]
>> maskIter index: [5, 5, 5]
>> 
>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>> Before p3
>> Before p3
>> After p4: ?
>> After p3: ?
>> After p4: ?
>> 
>> Regards,
>> D?enan
>> 
>> On Mon, Feb 15, 2016 at 1:36 AM, Francisco Lopez de la Franca <[hidden email] <http://user/SendEmail.jtp?type=node&node=7588495&i=0>> wrote:
>> Hi,
>> Here they are.
>> KR.
>> 
>> 2016-02-12 16:22 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden email] <http://user/SendEmail.jtp?type=node&node=7588495&i=1>>:
>> Hi Francisco,
>> 
>> do you mind attaching the modified files or pointing to your fork of it on GitHub?
>> 
>> Regards
>> 
>> On Thu, Feb 11, 2016 at 12:08 PM, Francisco L?pez-Franca <[hidden email] <http://user/SendEmail.jtp?type=node&node=7588490&i=0>> wrote:
>> Hi Dzenan,
>> The original class is here:
>> 
>> https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h <https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h>
>> https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx <https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx>
>> 
>> I've just added setInput and setMaskImage methods and modify some lines in
>> the original class as I indicated in the yesterday mail within this thread.
>> I'm running it on Windows, and there is no error at all, just a crash. I
>> may have to include exceptions management.
>> The crash occurs just when calling p3 = maskIter.GetPixel(iter->first)
>> 
>> If you know why it could be or if you need more clarification, please let
>> me know.
>> Many thanks
>> 
>> 2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
>> [hidden email] <http://user/SendEmail.jtp?type=node&node=7588490&i=1>>:
>> 
>> > Hi Francisco,
>> >
>> > "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the error message
>> > that goes along with the crash? In which file and line does it crash?
>> >
>> > Regards
>> >
>> > On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca <[hidden
>> > email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0 <http://user/SendEmail.jtp?type=node&node=7588477&i=0>>> wrote:
>> >
>> >> Hi,
>> >> Please, someone that could help me. I'm working in a pre-doctorate
>> >> project and I need this class to work.
>> >> I've read the chapter 13 in the ITK Software Guide on how to write a
>> >> filter and now I see the fact of the threads due to inheritance of
>> >> ImageToImageFilter.
>> >> But, I keep on without understanding why the code crashes just when
>> >> calling
>> >> *const PixelType p3 = maskIter.GetPixel(iter->first);*
>> >> It is just a call to read data, not to write.
>> >>
>> >> I guess somebody that had worked with creation of filters might see
>> >> "easily" the problem, but not me.
>> >>
>> >> So, again, please, I need someone to help me with this because I'm stuck
>> >> on this point.
>> >>
>> >> Thank you very much.
>> >> KR.
>> >> /Francisco
>> >>
>> >> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca <[hidden email]
>> >> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1 <http://user/SendEmail.jtp?type=node&node=7588477&i=1>>>:
>> >>
>> >>> Hi Bradley again.
>> >>> I'm modifying your class in order to be able to set a mask image (a
>> >>> binary image) to be used as a limit in the histogram calculations, I mean,
>> >>> I set an input, a mask and the class should take into account to calculate
>> >>> the histograms only the voxels that belong to the input and to the mask
>> >>> image and having the value 1 in the mask image.
>> >>> The changes seem to be easy but I don?t know why my tests are not
>> >>> working. It seems that 2 threads are working at the same time and when I
>> >>> added my mask iterator, the code crashes.
>> >>>
>> >>> *** Consider that the input and mask images are the same origin, spacing
>> >>> and size.
>> >>>
>> >>> I attach the main changes I've done, and I would thank you a lot if you
>> >>> don't mind having a look and help me to find what I'm doing wrong:
>> >>>
>> >>> template< class TImageType, class TOutputImage >
>> >>> void
>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage >::*SetInput*(InputImageType
>> >>> *image)
>> >>> {
>> >>> // Process object is not const-correct so the const_cast is required
>> >>> here
>> >>> this->ProcessObject::SetNthInput( 0,
>> >>> const_cast< InputImageType * >(
>> >>> image ) );
>> >>> }
>> >>>
>> >>> template< class TImageType, class TOutputImage >
>> >>> void
>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage >::*SetMaskImage*(InputImageType
>> >>> *image)
>> >>> {
>> >>> // Process object is not const-correct so the const_cast is required
>> >>> here
>> >>> this->ProcessObject::SetNthInput( 1, const_cast< InputImageType * >(
>> >>> image ) );
>> >>>
>> >>> _maskImage = image; // _maskImage is a private member
>> >>> }
>> >>>
>> >>> In the *ThreadedGenerateData*(const RegionType& outputRegionForThread,
>> >>> ThreadIdType threadId ) method:
>> >>> {
>> >>>
>> >>> ...
>> >>>
>> >>> for ( fit = faceList.begin(); fit != faceList.end(); ++fit )
>> >>> {
>> >>> NeighborhoodIteratorType nIter( radius, input, *fit );
>> >>> *NeighborhoodIteratorType maskIter( radius, _maskImage, *fit);*
>> >>> OutputIterator outIter(output, *fit);
>> >>>
>> >>> OutputPixelType out;
>> >>> NumericTraits<OutputPixelType>::SetLength( out,
>> >>> this->GetNumberOfOutputComponents() );
>> >>>
>> >>> while( !nIter.IsAtEnd() )
>> >>> {
>> >>> this->FillHistogram( *histogram, nIter, *maskIter *);
>> >>>
>> >>> ...
>> >>>
>> >>> ++nIter;
>> >>> ++outIter;
>> >>> * ++maskIter;*
>> >>> ...
>> >>>
>> >>> In the *FillHistogram *method:
>> >>> {
>> >>>
>> >>> ...
>> >>>
>> >>> while( iter != m_CooccurenceOffsetVector.end() )
>> >>> {
>> >>>
>> >>> const PixelType p1 = niter.GetPixel(iter->first);
>> >>> const PixelType p2 = niter.GetPixel(iter->second);
>> >>> std::cout << "Before p3" << std::endl;
>> >>>
>> >>> * const PixelType p3 = maskIter.GetPixel(iter->first); *std::cout
>> >>> << "After p3: " << p3 << std::endl;
>> >>>
>> >>> * const PixelType p4 = maskIter.GetPixel(iter->second); *
>> >>> std::cout << "After p4: " << p4 << std::endl;
>> >>>
>> >>> if ( p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2 <= m_Max
>> >>> *&& p3 == _insidePixelValue && p4 == _insidePixelValue* )
>> >>> // The point
>> >>> {
>> >>>
>> >>> ...
>> >>>
>> >>>
>> >>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>> >>>
>> >>> Thank you so much.
>> >>> My kind regards.
>> >>> /Paco
>> >>>
>> >>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca <[hidden email]
>> >>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2 <http://user/SendEmail.jtp?type=node&node=7588477&i=2>>>:
>> >>>
>> >>>> Hello Bradley again.
>> >>>> Sorry but I'd like to re-open this issue because I need your class but
>> >>>> with some modification.
>> >>>> I pass to tell you.
>> >>>>
>> >>>> As my tests with your external class were not good taking into account
>> >>>> the performance, I wonder if you could create a variant of it, but in which
>> >>>> I can set a mask image and your class just return the VectorImage with all
>> >>>> the features for that region (the masked locations) as
>> >>>> itk::ScalarImageToTextureFeaturesFilter class does.
>> >>>> I mean, to get the vector image with all the features but just
>> >>>> calculate it for the regions belonging to the mask image. Positions not
>> >>>> belonging to the mask region could have a pixel value of 0, for instance.
>> >>>>
>> >>>> I don?t know if it is very costly for you, but I would thank you so
>> >>>> much. Otherwise, I could try it but I'd need your suggestions on how to do
>> >>>> it.
>> >>>>
>> >>>> Thanks a lot.
>> >>>> Best regards.
>> >>>>
>> >>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca <[hidden email]
>> >>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3 <http://user/SendEmail.jtp?type=node&node=7588477&i=3>>>:
>> >>>>
>> >>>>> Hello Bradley again,
>> >>>>> I would like to ask you for a couple of favours. In the one hand,
>> >>>>> could you please send me your 3D image so that I can test on it? And on the
>> >>>>> other hand, could you test the example I have referenced in the previous
>> >>>>> email with your image, not changing anything in the code, such as it is,
>> >>>>> and tell me if the execution time is normal?
>> >>>>> Thank you very much.
>> >>>>> Regards,
>> >>>>> /Francisco
>> >>>>>
>> >>>>> PS: All my application trace is printed via standard 'cout' command,
>> >>>>> not due to a debugging compilation mode.
>> >>>>>
>> >>>>>
>> >>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp <[hidden
>> >>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=4 <http://user/SendEmail.jtp?type=node&node=7588477&i=4>>>
>> >>>>> escribi?:
>> >>>>>
>> >>>>>> Hello,
>> >>>>>>
>> >>>>>> Did you compile TextureFeatureImage in Release mode?
>> >>>>>>
>> >>>>>> 1) The filter does not scale well with a large radius. And given by
>> >>>>>> your initial report of print a very large number of offset you, it sounds
>> >>>>>> like you are using a large radius with many offsets. I created a
>> >>>>>> 224x224x300 unsigned short image and ran with the default offset and a
>> >>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this filter is was ~10x
>> >>>>>> faster than this example... things change though...
>> >>>>>>
>> >>>>>>
>> >>>>>> 2) I sounds like the boundaries/limits of the histogram may be
>> >>>>>> clipping you values. I would inspect the co-occurance matrix.
>> >>>>>>
>> >>>>>>
>> >>>>>> HTH,
>> >>>>>> Brad
>> >>>>>>
>> >>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca <[hidden
>> >>>>>> email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=5 <http://user/SendEmail.jtp?type=node&node=7588477&i=5>>>
>> >>>>>> wrote:
>> >>>>>>
>> >>>>>> I've tested with itkTextureFeatureImageFilter, with
>> >>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>> >>>>>>http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures <http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures>example,
>> >>>>>> for a 3D image and here are my comments:
>> >>>>>>
>> >>>>>>
>> >>>>>> 1. I had to interrupt the test after several hours and it kept on
>> >>>>>> calculating. And this is for only a 3D image (224x224x300). I need to
>> >>>>>> process around 35 images.
>> >>>>>> 2. The result (texture features: entropy, energy, correlation, LH,
>> >>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0, 7.83083e+247].
>> >>>>>> These values were not what I expected based on my experience on another
>> >>>>>> application I developed, but in that case, I calculated the texture
>> >>>>>> features for an image as a whole, not voxel by voxel.
>> >>>>>>
>> >>>>>> Regards.
>> >>>>>>
>> >>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
>> >>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6 <http://user/SendEmail.jtp?type=node&node=7588477&i=6>>>:
>> >>>>>>
>> >>>>>>> i yes i have tried radius = 3;
>> >>>>>>> still no luck
>> >>>>>>>
>> >>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca [via ITK
>> >>>>>>> Insight
>> >>>>>>> Users] <[hidden email]
>> >>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7 <http://user/SendEmail.jtp?type=node&node=7588477&i=7>>> wrote:
>> >>>>>>>
>> >>>>>>> > Have you tried with a radius of 3 instead of 1?
>> >>>>>>> >
>> >>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>> >>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0 <http://user/SendEmail.jtp?type=node&node=7587961&i=0>>>:
>> >>>>>>> >
>> >>>>>>> >> hey Matt,
>> >>>>>>> >> thanks for ur advice.. it did build successfully... but im not
>> >>>>>>> able to run
>> >>>>>>> >> the code for 2D png image... i tried to change the dimension to 2
>> >>>>>>> and
>> >>>>>>> >> build
>> >>>>>>> >> it which it did.. but when i run the code using the command
>> >>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png putput.png
>> >>>>>>> 1... i see
>> >>>>>>> >> this output
>> >>>>>>> >>
>> >>>>>>> >> offset: [-1, -1] [0, -1]
>> >>>>>>> >> offset: [0, -1] [1, -1]
>> >>>>>>> >> offset: [-1, 0] [0, 0]
>> >>>>>>> >> offset: [0, 0] [1, 0]
>> >>>>>>> >> offset: [-1, 1] [0, 1]
>> >>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the program... if pls
>> >>>>>>> tel me
>> >>>>>>> >> how can i modify this code to work wid 2d image... forgive me if
>> >>>>>>> my ques
>> >>>>>>> >> are really silly im trying to learn something..
>> >>>>>>> >> regards
>> >>>>>>> >> Vis
>> >>>>>>> >>
>> >>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via ITK
>> >>>>>>> Insight Users]
>> >>>>>>> >> <
>> >>>>>>> >> [hidden email] <
>> >>>>>>>http:///user/SendEmail.jtp?type=node&node=7587961&i=1 <http://user/SendEmail.jtp?type=node&node=7587961&i=1>>>
>> >>>>>>> >> wrote:
>> >>>>>>> >>
>> >>>>>>> >> > Hi,
>> >>>>>>> >> >
>> >>>>>>> >> > The function:
>> >>>>>>> >> >
>> >>>>>>> >> > itkTextureFeatureImageFilterTest(int argc, char *argv[])
>> >>>>>>> >> >
>> >>>>>>> >> > must be renamed to
>> >>>>>>> >> >
>> >>>>>>> >> > main(int argc, char* argv[])
>> >>>>>>> >> >
>> >>>>>>> >> > HTH,
>> >>>>>>> >> > Matt
>> >>>>>>> >> >
>> >>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>> >>>>>>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0 <http://user/SendEmail.jtp?type=node&node=7587952&i=0>>> wrote:
>> >>>>>>> >> >
>> >>>>>>> >> > > hi all,
>> >>>>>>> >> > > im trying to build the itkTextureFeatureImageFilterTest.cxx
>> >>>>>>> code but
>> >>>>>>> >> im
>> >>>>>>> >> > not
>> >>>>>>> >> > > able to it is showing the following error
>> >>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>> >>>>>>> Configuration:
>> >>>>>>> >> Debug
>> >>>>>>> >> > x64
>> >>>>>>> >> > > ------
>> >>>>>>> >> > > 1> Checking Build System
>> >>>>>>> >> > > 1> CMake does not need to re-run because
>> >>>>>>> >> > >
>> >>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>> >>>>>>> >> > is
>> >>>>>>> >> > > up-to-date.
>> >>>>>>> >> > > 2>------ Rebuild All started: Project:
>> >>>>>>> >> itkTextureFeatureImageFilterTest,
>> >>>>>>> >> > > Configuration: Debug x64 ------
>> >>>>>>> >> > > 2> Building Custom Rule
>> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>> >>>>>>> >> > > 2> CMake does not need to re-run because
>> >>>>>>> >> > >
>> >>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>> >>>>>>> >> > is
>> >>>>>>> >> > > up-to-date.
>> >>>>>>> >> > > 2> itkTextureFeatureImageFilterTest.cxx
>> >>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>> >>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>> >>>>>>> 'std::_Copy_impl':
>> >>>>>>> >> > Function
>> >>>>>>> >> > > call with parameters that may be unsafe - this call relies on
>> >>>>>>> the
>> >>>>>>> >> caller
>> >>>>>>> >> > to
>> >>>>>>> >> > > check that the passed values are correct. To disable this
>> >>>>>>> warning, use
>> >>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how to use
>> >>>>>>> Visual C++
>> >>>>>>> >> > > 'Checked Iterators'
>> >>>>>>> >> > > 2> C:\Program Files (x86)\Microsoft Visual Studio
>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>> >>>>>>> 'std::_Copy_impl'
>> >>>>>>> >> > > 2>
>> >>>>>>> >> > >
>> >>>>>>> >>
>> >>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>> >>>>>>> >> > see
>> >>>>>>> >> > > reference to function template instantiation '_OutIt
>> >>>>>>> std::copy<const
>> >>>>>>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)' being
>> >>>>>>> compiled
>> >>>>>>> >> > > 2> with
>> >>>>>>> >> > > 2> [
>> >>>>>>> >> > > 2> _OutIt=unsigned char *,
>> >>>>>>> >> > > 2> _InIt=const unsigned char *
>> >>>>>>> >> > > 2> ]
>> >>>>>>> >> > > 2>
>> >>>>>>> >> > >
>> >>>>>>> >>
>> >>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>> >>>>>>> >> > > while compiling class template member function 'void
>> >>>>>>> >> > > itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>> >>>>>>> >> > > 2> with
>> >>>>>>> >> > > 2> [
>> >>>>>>> >> > > 2> TOutputImage=InputImageType
>> >>>>>>> >> > > 2> ]
>> >>>>>>> >> > > 2>
>> >>>>>>> >> > >
>> >>>>>>> >> >
>> >>>>>>> >>
>> >>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>> >>>>>>> >> >
>> >>>>>>> >> > > : see reference to class template instantiation
>> >>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>> >>>>>>> >> > > 2> with
>> >>>>>>> >> > > 2> [
>> >>>>>>> >> > > 2> TOutputImage=InputImageType
>> >>>>>>> >> > > 2> ]
>> >>>>>>> >> > > 2> C:\Program Files (x86)\Microsoft Visual Studio
>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>> >>>>>>> 'std::_Copy_impl'
>> >>>>>>> >> > > 2> C:\Program Files (x86)\Microsoft Visual Studio
>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>> >>>>>>> 'std::_Copy_impl'
>> >>>>>>> >> > > 2> C:\Program Files (x86)\Microsoft Visual Studio
>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>> >>>>>>> 'std::_Copy_impl'
>> >>>>>>> >> > > 2> Creating library
>> >>>>>>> >> > >
>> >>>>>>> >> >
>> >>>>>>> >>
>> >>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>> >>>>>>> >> >
>> >>>>>>> >> > > and object
>> >>>>>>> >> > >
>> >>>>>>> >> >
>> >>>>>>> >>
>> >>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>> >>>>>>> >> >
>> >>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved
>> >>>>>>> external symbol
>> >>>>>>> >> > main
>> >>>>>>> >> > > referenced in function __tmainCRTStartup
>> >>>>>>> >> > >
>> >>>>>>> >> >
>> >>>>>>> >>
>> >>>>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>> >>>>>>> >> >
>> >>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>> >>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>> >>>>>>> Configuration: Debug
>> >>>>>>> >> > x64
>> >>>>>>> >> > > ------
>> >>>>>>> >> > > 3> Building Custom Rule
>> >>>>>>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>> >>>>>>> >> > > 3> CMake does not need to re-run because
>> >>>>>>> >> > >
>> >>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>> >>>>>>> >> > is
>> >>>>>>> >> > > up-to-date.
>> >>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0 skipped
>> >>>>>>> ==========
>> >>>>>>> >> > > im using the follwing CMakeList.txt
>> >>>>>>> >> > > # This is the root ITK CMakeLists file.
>> >>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>> >>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>> >>>>>>> >> > > cmake_policy(SET CMP0003 NEW)
>> >>>>>>> >> > > endif()
>> >>>>>>> >> > >
>> >>>>>>> >> > >
>> >>>>>>> >> > > # This project is designed to be built outside the Insight
>> >>>>>>> source
>> >>>>>>> >> tree.
>> >>>>>>> >> > > project(HelloWorld)
>> >>>>>>> >> > >
>> >>>>>>> >> > > # Find ITK.
>> >>>>>>> >> > > find_package(ITK REQUIRED)
>> >>>>>>> >> > > include(${ITK_USE_FILE})
>> >>>>>>> >> > >
>> >>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>> >>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>> >>>>>>> >> > >
>> >>>>>>> >> > > target_link_libraries(itkTextureFeatureImageFilterTest
>> >>>>>>> >> ${ITK_LIBRARIES})
>> >>>>>>> >> > >
>> >>>>>>> >> > > please tel me wat the error is??
>> >>>>>>> >> > >
>> >>>>>>> >> > >
>> >>>>>>> >> > >
>> >>>>>>> >> > > --
>> >>>>>>> >> > > View this message in context:
>> >>>>>>> >> >
>> >>>>>>> >>
>> >>>>>>>http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html <http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html>
>> >>>>>>> >> > > Sent from the ITK Insight Users mailing list archive at
>> >>>>>>>Nabble.com <http://nabble.com/>.
>> >>>>>>> >> > > _____________________________________
>> >>>>>>> >> > > Powered bywww.kitware.com <http://www.kitware.com/>
>> >>>>>>> >> > >
>> >>>>>>> >> > > Visit other Kitware open-source projects at
>> >>>>>>> >> > >http://www.kitware.com/opensource/opensource.html <http://www.kitware.com/opensource/opensource.html>
>> >>>>>>> >> > >
>> >>>>>>> >> > > Kitware offers ITK Training Courses, for more information
>> >>>>>>> visit:
>> >>>>>>> >> > >http://www.kitware.com/products/protraining.php <http://www.kitware.com/products/protraining.php>
>> >>>>>>> >> > >
>> >>>>>>> >> > > Please keep messages on-topic and check the ITK FAQ at:
>> >>>>>>> >> > >http://www.itk.org/Wiki/ITK_FAQ <http://www.itk.org/Wiki/ITK_FAQ>
>> >>>>>>> >> > >
>> >>>>>>> >> > > Follow this link to subscribe/unsubscribe:
>> >>>>>>> >> > >http://public.kitware.com/mailman/listinfo/insight-users <http://public.kitware.com/mailman/listinfo/insight-users>
>> >>>>>>> >> > _____________________________________
>> >>>>>>> >> > Powered bywww.kitware.com <http://www.kitware.com/>
>> >>>>>>> >> >
>> >>>>>>> >> > Visit other Kitware open-source projects at
>> >>>>>>> >> >http://www.kitware.com/opensource/opensource.html <http://www.kitware.com/opensource/opensource.html>
>> >>>>>>> >> >
>> >>>>>>> >> > Kitware offers ITK Training Courses, for more information visit:
>> >>>>>>> >> >http://www.kitware.com/products/protraining.php <http://www.kitware.com/products/protraining.php>
>> >>>>>>> >> >
>> >>>>>>> >> > Please keep messages on-topic and check the ITK FAQ at:
>> >>>>>>> >> >http://www.itk.org/Wiki/ITK_FAQ <http://www.itk.org/Wiki/ITK_FAQ>
>> >>>>>>> >> >
>> >>>>>>> >> > Follow this link to subscribe/unsubscribe:
>> >>>>>>> >> >http://public.kitware.com/mailman/listinfo/insight-users <http://public.kitware.com/mailman/listinfo/insight-users>
>> >>>>>>> >> >
>> >>>>>>> >> >
>> >>>>>>> >> > ------------------------------
>> >>>>>>> >> > If you reply to this email, your message will be added to the
>> >>>>>>> discussion
>> >>>>>>> >> > below:
>> >>>>>>> >> >
>> >>>>>>> >> >
>> >>>>>>> >>
>> >>>>>>>http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587952.html <http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587952.html>
>> >>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by pixel, click
>> >>>>>>> here
>> >>>>>>> >> > < > .
>> >>>>>>> >> > NAML
>> >>>>>>> >> > <
>> >>>>>>> >>
>> >>>>>>>http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>> >>>>>>> >> >
>> >>>>>>> >> >
>> >>>>>>> >>
>> >>>>>>> >>
>> >>>>>>> >>
>> >>>>>>> >>
>> >>>>>>> >> --
>> >>>>>>> >> View this message in context:
>> >>>>>>> >>
>> >>>>>>>http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html <http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html>
>> >>>>>>> >> Sent from the ITK Insight Users mailing list archive at
>> >>>>>>>Nabble.com <http://nabble.com/>.
>> >>>>>>> >> _____________________________________
>> >>>>>>> >> Powered bywww.kitware.com <http://www.kitware.com/>
>> >>>>>>> >>
>> >>>>>>> >> Visit other Kitware open-source projects at
>> >>>>>>> >>http://www.kitware.com/opensource/opensource.html <http://www.kitware.com/opensource/opensource.html>
>> >>>>>>> >>
>> >>>>>>> >> Kitware offers ITK Training Courses, for more information visit:
>> >>>>>>> >>http://www.kitware.com/products/protraining.php <http://www.kitware.com/products/protraining.php>
>> >>>>>>> >>
>> >>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>> >>>>>>> >>http://www.itk.org/Wiki/ITK_FAQ <http://www.itk.org/Wiki/ITK_FAQ>
>> >>>>>>> >>
>> >>>>>>> >> Follow this link to subscribe/unsubscribe:
>> >>>>>>> >>http://public.kitware.com/mailman/listinfo/insight-users <http://public.kitware.com/mailman/listinfo/insight-users>
>> >>>>>>> >>
>> >>>>>>> >
>> >>>>>>> >
>> >>>>>>> > _____________________________________
>> >>>>>>> > Powered bywww.kitware.com <http://www.kitware.com/>
>> >>>>>>> >
>> >>>>>>> > Visit other Kitware open-source projects at
>> >>>>>>> >http://www.kitware.com/opensource/opensource.html <http://www.kitware.com/opensource/opensource.html>
>> >>>>>>> >
>> >>>>>>> > Kitware offers ITK Training Courses, for more information visit:
>> >>>>>>> >http://www.kitware.com/products/protraining.php <http://www.kitware.com/products/protraining.php>
>> >>>>>>> >
>> >>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>> >>>>>>> >http://www.itk.org/Wiki/ITK_FAQ <http://www.itk.org/Wiki/ITK_FAQ>
>> >>>>>>> >
>> >>>>>>> > Follow this link to subscribe/unsubscribe:
>> >>>>>>> >http://public.kitware.com/mailman/listinfo/insight-users <http://public.kitware.com/mailman/listinfo/insight-users>
>> >>>>>>> >
>> >>>>>>> >
>> >>>>>>> > ------------------------------
>> >>>>>>> > If you reply to this email, your message will be added to the
>> >>>>>>> discussion
>> >>>>>>> > below:
>> >>>>>>> >
>> >>>>>>> >
>> >>>>>>>http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587961.html <http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587961.html>
>> >>>>>>> > To unsubscribe from [ITK-users] Texture pixel by pixel, click here
>> >>>>>>> > < > .
>> >>>>>>> > NAML
>> >>>>>>> > <
>> >>>>>>>http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>> >>>>>>> >
>> >>>>>>> >
>> >>>>>>>
>> >>>>>>>
>> >>>>>>>
>> >>>>>>>
>> >>>>>>> --
>> >>>>>>> View this message in context:
>> >>>>>>>http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html <http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html>
>> >>>>>>> Sent from the ITK Insight Users mailing list archive atNabble.com <http://nabble.com/>.
>> >>>>>>> _____________________________________
>> >>>>>>> Powered bywww.kitware.com <http://www.kitware.com/>
>> >>>>>>>
>> >>>>>>> Visit other Kitware open-source projects at
>> >>>>>>>http://www.kitware.com/opensource/opensource.html <http://www.kitware.com/opensource/opensource.html>
>> >>>>>>>
>> >>>>>>> Kitware offers ITK Training Courses, for more information visit:
>> >>>>>>>http://www.kitware.com/products/protraining.php <http://www.kitware.com/products/protraining.php>
>> >>>>>>>
>> >>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>> >>>>>>>http://www.itk.org/Wiki/ITK_FAQ <http://www.itk.org/Wiki/ITK_FAQ>
>> >>>>>>>
>> >>>>>>> Follow this link to subscribe/unsubscribe:
>> >>>>>>>http://public.kitware.com/mailman/listinfo/insight-users <http://public.kitware.com/mailman/listinfo/insight-users>
>> >>>>>>>
>> >>>>>>
>> >>>>>> _____________________________________
>> >>>>>> Powered bywww.kitware.com <http://www.kitware.com/>
>> >>>>>>
>> >>>>>> Visit other Kitware open-source projects at
>> >>>>>>http://www.kitware.com/opensource/opensource.html <http://www.kitware.com/opensource/opensource.html>
>> >>>>>>
>> >>>>>> Kitware offers ITK Training Courses, for more information visit:
>> >>>>>>http://www.kitware.com/products/protraining.php <http://www.kitware.com/products/protraining.php>
>> >>>>>>
>> >>>>>> Please keep messages on-topic and check the ITK FAQ at:
>> >>>>>>http://www.itk.org/Wiki/ITK_FAQ <http://www.itk.org/Wiki/ITK_FAQ>
>> >>>>>>
>> >>>>>> Follow this link to subscribe/unsubscribe:
>> >>>>>>http://public.kitware.com/mailman/listinfo/insight-users <http://public.kitware.com/mailman/listinfo/insight-users>
>> >>>>>>
>> >>>>>>
>> >>>>>>
>> >>>>
>> >>>
>> >>
>> >> _____________________________________
>> >> Powered bywww.kitware.com <http://www.kitware.com/>
>> >>
>> >> Visit other Kitware open-source projects at
>> >>http://www.kitware.com/opensource/opensource.html <http://www.kitware.com/opensource/opensource.html>
>> >>
>> >> Kitware offers ITK Training Courses, for more information visit:
>> >>http://www.kitware.com/products/protraining.php <http://www.kitware.com/products/protraining.php>
>> >>
>> >> Please keep messages on-topic and check the ITK FAQ at:
>> >>http://www.itk.org/Wiki/ITK_FAQ <http://www.itk.org/Wiki/ITK_FAQ>
>> >>
>> >> Follow this link to subscribe/unsubscribe:
>> >>http://public.kitware.com/mailman/listinfo/insight-users <http://public.kitware.com/mailman/listinfo/insight-users>
>> >>
>> >>
>> >
>> > _____________________________________
>> > Powered bywww.kitware.com <http://www.kitware.com/>
>> >
>> > Visit other Kitware open-source projects at
>> >http://www.kitware.com/opensource/opensource.html <http://www.kitware.com/opensource/opensource.html>
>> >
>> > Kitware offers ITK Training Courses, for more information visit:
>> >http://www.kitware.com/products/protraining.php <http://www.kitware.com/products/protraining.php>
>> >
>> > Please keep messages on-topic and check the ITK FAQ at:
>> >http://www.itk.org/Wiki/ITK_FAQ <http://www.itk.org/Wiki/ITK_FAQ>
>> >
>> > Follow this link to subscribe/unsubscribe:
>> >http://public.kitware.com/mailman/listinfo/insight-users <http://public.kitware.com/mailman/listinfo/insight-users>
>> >
>> >
>> > ------------------------------
>> > If you reply to this email, your message will be added to the discussion
>> > below:
>> >
>> >http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588477.html <http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588477.html>
>> > To start a new topic under ITK Insight Users, email
>> >[hidden email] <http://user/SendEmail.jtp?type=node&node=7588490&i=2>
>> > To unsubscribe from ITK Insight Users, click here
>> > <> .
>> > NAML
>> > < <>http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>>
>> >
>> 
>> 
>> 
>> 
>> --
>> View this message in context:http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588483.html <http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588483.html>
>> Sent from the ITK Insight Users mailing list archive atNabble.com <http://nabble.com/>.
>> _____________________________________
>> Powered bywww.kitware.com <http://www.kitware.com/>
>> 
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html <http://www.kitware.com/opensource/opensource.html>
>> 
>> Kitware offers ITK Training Courses, for more information visit:
>> http://www.kitware.com/products/protraining.php <http://www.kitware.com/products/protraining.php>
>> 
>> Please keep messages on-topic and check the ITK FAQ at:
>> http://www.itk.org/Wiki/ITK_FAQ <http://www.itk.org/Wiki/ITK_FAQ>
>> 
>> Follow this link to subscribe/unsubscribe:
>> http://public.kitware.com/mailman/listinfo/insight-users <http://public.kitware.com/mailman/listinfo/insight-users>
>> 
>> 
>> _____________________________________
>> Powered bywww.kitware.com <http://www.kitware.com/>
>> 
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html <http://www.kitware.com/opensource/opensource.html>
>> 
>> Kitware offers ITK Training Courses, for more information visit:
>> http://www.kitware.com/products/protraining.php <http://www.kitware.com/products/protraining.php>
>> 
>> Please keep messages on-topic and check the ITK FAQ at:
>> http://www.itk.org/Wiki/ITK_FAQ <http://www.itk.org/Wiki/ITK_FAQ>
>> 
>> Follow this link to subscribe/unsubscribe:
>> http://public.kitware.com/mailman/listinfo/insight-users <http://public.kitware.com/mailman/listinfo/insight-users>
>> 
>> 
>> If you reply to this email, your message will be added to the discussion below:
>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588490.html <http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588490.html>
>> To start a new topic under ITK Insight Users, email[hidden email] <http://user/SendEmail.jtp?type=node&node=7588495&i=2>
>> To unsubscribe from ITK Insight Users,click here <>.
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>> 
>> _____________________________________
>> Powered bywww.kitware.com <http://www.kitware.com/>
>> 
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html <http://www.kitware.com/opensource/opensource.html>
>> 
>> Kitware offers ITK Training Courses, for more information visit:
>> http://www.kitware.com/products/protraining.php <http://www.kitware.com/products/protraining.php>
>> 
>> Please keep messages on-topic and check the ITK FAQ at:
>> http://www.itk.org/Wiki/ITK_FAQ <http://www.itk.org/Wiki/ITK_FAQ>
>> 
>> Follow this link to subscribe/unsubscribe:
>> http://public.kitware.com/mailman/listinfo/insight-users <http://public.kitware.com/mailman/listinfo/insight-users>
>> 
>> 
>> 
>> _____________________________________ 
>> Powered by www.kitware.com <http://www.kitware.com/> 
>> 
>> Visit other Kitware open-source projects at 
>> http://www.kitware.com/opensource/opensource.html <http://www.kitware.com/opensource/opensource.html>
>> 
>> Kitware offers ITK Training Courses, for more information visit: 
>> http://www.kitware.com/products/protraining.php <http://www.kitware.com/products/protraining.php>
>> 
>> Please keep messages on-topic and check the ITK FAQ at: 
>> http://www.itk.org/Wiki/ITK_FAQ <http://www.itk.org/Wiki/ITK_FAQ>
>> 
>> Follow this link to subscribe/unsubscribe: 
>> http://public.kitware.com/mailman/listinfo/insight-users <http://public.kitware.com/mailman/listinfo/insight-users>
>> 
>> 
>> If you reply to this email, your message will be added to the discussion below:
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>> To start a new topic under ITK Insight Users, email [hidden email] <http://user/SendEmail.jtp?type=node&node=7588505&i=3> 
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>> 
>> _____________________________________
>> Powered by www.kitware.com <http://www.kitware.com/>
>> 
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html <http://www.kitware.com/opensource/opensource.html>
>> 
>> Kitware offers ITK Training Courses, for more information visit:
>> http://www.kitware.com/products/protraining.php <http://www.kitware.com/products/protraining.php>
>> 
>> Please keep messages on-topic and check the ITK FAQ at:
>> http://www.itk.org/Wiki/ITK_FAQ <http://www.itk.org/Wiki/ITK_FAQ>
>> 
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From franciscolopezdelafranca at gmail.com  Mon Feb 22 08:49:44 2016
From: franciscolopezdelafranca at gmail.com (Francisco Lopez de la Franca)
Date: Mon, 22 Feb 2016 14:49:44 +0100
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <B08CBB97-B663-4235-AAE7-A9F9D2A28222@mail.nih.gov>
References: <CAJqi3EJU6L=R=KUyFvHvLg2w0m=MYQpuWTODcP=W4TiKZXE2eA@mail.gmail.com>
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 <CAPf2UMR=TyVatKidw8Z_OcxUQ82JVXQnx8QcK73X3fsC+E2j1A@mail.gmail.com>
 <3F877AC4-BCD1-43FF-B8B3-7B30F9B6D30B@mail.nih.gov>
 <CAJqi3EKcF8T1goR3UTHiBS4br3NqAR7Z9HQqGaKYGJs21_XByA@mail.gmail.com>
 <CAPf2UMRx5mQuqC7+GohHeXUgo44osWTk2U4Kr0kY+SeXOkjuaA@mail.gmail.com>
 <CAJqi3E++Zm9xcfe=D=Hrhd-F4NGnOf99XQwqQ_83RXxF1bE1GA@mail.gmail.com>
 <CAPf2UMSf_Yk1Va2=g7CzdR8Pcy1j4n+H7pXBeeq5sCYzOYz-OA@mail.gmail.com>
 <CAJqi3EKNwP5CyjanQQKg82e=1fnN=BFS-MoDzPveSj2wvbT7Mw@mail.gmail.com>
 <B08CBB97-B663-4235-AAE7-A9F9D2A28222@mail.nih.gov>
Message-ID: <CAJqi3ELbbazonERf4h3xQYMrZ0kBK1m8SVj50ruXoFEBeL6nAw@mail.gmail.com>

Hi Brad,
Of course I tried out the mask support you provide to the github
repository. In fact, if I donot make use of the mask image, the processing
of a 3D image takes 10 minutes aproximately. By using the mask image, it
takes 75 seconds on a Intel Core2.
What I do with the 3D image is to extract all its blobs and within a loop
dealing with each one and calculating their texture features with your
class.
So, I'm very glad that finally I've got what I needed and the performance
is very good.
Thank you so much.
/Francisco

2016-02-22 14:42 GMT+01:00 Bradley Lowekamp [via ITK Insight Users] <
ml-node+s2283740n7588531h96 at n2.nabble.com>:

> Francisco,
>
> Glad to hear that you figured out the problem with your code.
>
> Were you able to try out the change to add Mask support I committed to the
> github repository? Does this meet you masking needs and improve your
> performance?
>
> Please consider studying the difference between your change any my change
> and the performance implications.
>
> Enjoy,
> Brad
>
> On Feb 22, 2016, at 7:18 AM, Francisco Lopez de la Franca <[hidden email]
> <http:///user/SendEmail.jtp?type=node&node=7588531&i=0>> wrote:
>
> Hi.
> In the end the crash came for my fault. I was creating the mask image in
> the wrong way. Sorry for the disturbances, and thank you very much
> everybody.
> Kind regards.
> /Francisco
>
> 2016-02-18 19:00 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden email]
> <http:///user/SendEmail.jtp?type=node&node=7588531&i=1>>:
>
>> /bigobj is an option for msvc, not mingw.
>>
>> But that is a different problem from crashing code. If you start a new
>> thread, somebody with MinGW experience might help you.
>>
>> On Thu, Feb 18, 2016 at 12:30 PM, Francisco Lopez de la Franca <[hidden
>> email] <http://user/SendEmail.jtp?type=node&node=7588516&i=0>> wrote:
>>
>>> Yes. I use mingw (x86_64-w64-mingw32-g++.exe) and I set in CMAKE GUI the
>>> entry CMAKE_CXX_FLAGS to -bigobj and the result is "unrecognized option".
>>>
>>>
>>> 2016-02-18 15:25 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>> email] <http://user/SendEmail.jtp?type=node&node=7588516&i=1>>:
>>>
>>>> Have you tried /bigobj
>>>> <https://msdn.microsoft.com/en-us/library/ms173499.aspx?f=255&MSPPError=-2147217396>?
>>>> Are you using MinGW? Visual Studio is now free
>>>> <https://www.visualstudio.com/en-us/news/vs2013-community-vs.aspx>.
>>>>
>>>> HTH
>>>>
>>>> On Thu, Feb 18, 2016 at 6:37 AM, Francisco Lopez de la Franca <[hidden
>>>> email] <http://user/SendEmail.jtp?type=node&node=7588513&i=0>> wrote:
>>>>
>>>>> Hi again,
>>>>> I've got ITK version 4.5.1 (a little bit old, I know), and after
>>>>> making the changes suggested by Dzenanz and recompiling ITK, the problem
>>>>> continues, that is, my code crashes at the same point.
>>>>>
>>>>> Then, I've downloaded the latest stable ITK version, ITK 4.9.0 and
>>>>> compiled from scratch and I get the following error:
>>>>>
>>>>> [ 98%] Building CXX object
>>>>> Modules/IO/TransformBase/src/CMakeFiles/ITKIOTransformBase.dir/itkTransformFactoryBase.cxx.obj
>>>>> C:/MINGW/mingw64/bin/../lib/gcc/x86_64-w64-mingw32/4.8.2/../../../../x86_64-w64-mingw32/bin/as.exe:
>>>>> CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: too many
>>>>> sections (33106)
>>>>> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Assembler messages:
>>>>> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Fatal error: can't
>>>>> write CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj:
>>>>> File too big
>>>>>
>>>>> After doing some "googling" and follow some of the instructions
>>>>> referred on the web, I've been unable to solve this.
>>>>> Has anyone met this problem and solved it?
>>>>> Thanks.
>>>>> KR.
>>>>> /Francisco
>>>>>
>>>>> 2016-02-16 22:13 GMT+01:00 Bradley Lowekamp [via ITK Insight Users] <[hidden
>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588513&i=1>>:
>>>>>
>>>>>> Hello,
>>>>>>
>>>>>> Please take a look at these changes:
>>>>>>
>>>>>> https://github.com/blowekamp/itkTextureAnalysis/commit/9654d74ea1d09f0677f1d1b93242cc94340591bf
>>>>>>
>>>>>> Brad
>>>>>>
>>>>>> On Feb 16, 2016, at 10:35 AM, D?enan Zuki? <[hidden email]
>>>>>> <http://user/SendEmail.jtp?type=node&node=7588505&i=0>> wrote:
>>>>>>
>>>>>> I have set up a project using one of the tests from Brad's repository
>>>>>> (attached), and it works in debug mode both with his original code and with
>>>>>> your modified class, and crashes in release mode both with his original
>>>>>> code and with your modified class. I will now compile ITK in RelWithDebInfo
>>>>>> in an attempt to figure out where is the crash occurring.
>>>>>>
>>>>>> Regards,
>>>>>> D?enan
>>>>>>
>>>>>> On Tue, Feb 16, 2016 at 1:52 AM, Francisco Lopez de la Franca <[hidden
>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588505&i=1>> wrote:
>>>>>>
>>>>>>> Excuse me Dzenanz, but that's not completely true, because I've
>>>>>>> tested Brad's class and it works right.
>>>>>>> The problem seems to be that when you add a new neighbor iterator to
>>>>>>> include just the mask points in the "histogram" then it is when the
>>>>>>> application crashes, and I donot understand why.
>>>>>>> If you just comment the 'maskIter' references you'll see that the
>>>>>>> application works.
>>>>>>> I've created a single threaded class based on the Brad's code and it
>>>>>>> works but it is twice slower, that is why I'm interesting on Brad's class
>>>>>>> (multi-threaded) to make it work.
>>>>>>>
>>>>>>>
>>>>>>> 2016-02-15 17:15 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588505&i=2>>:
>>>>>>>
>>>>>>>> Hi Francisco,
>>>>>>>>
>>>>>>>> both your code and Brad's code run in debug mode (I did not wait
>>>>>>>> for the end), and both crash in release mode immediately on startup. Here
>>>>>>>> is a sample output:
>>>>>>>>
>>>>>>>> Progress input: 0000000002868970
>>>>>>>> input: 0000000002868970
>>>>>>>> _maskImage: 0000000002868970
>>>>>>>> _maskImage: 0000000002868970
>>>>>>>> input: 0000000002868970
>>>>>>>> _maskImage: 0000000002868970
>>>>>>>> iter.first: iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>>>> [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>>>> niter index: [5, 5, 210]
>>>>>>>> niter index: [5, 5, 140]
>>>>>>>> maskIter index: [5, 5, 140]
>>>>>>>> maskIter index: [5, 5, 210]
>>>>>>>> Before p3
>>>>>>>> input: 0000000002868970
>>>>>>>> _maskImage: 0000000002868970
>>>>>>>> After p3:  | 0niter index: [5, 5, 70]
>>>>>>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>>>> niter index: [5, 5, 5]
>>>>>>>> ?
>>>>>>>> maskIter index: [5, 5, 70]
>>>>>>>> After p4: ?
>>>>>>>> Before p3
>>>>>>>> Before p3
>>>>>>>> After p3: ?iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>>>>> niter index: [5, 5, 140]
>>>>>>>> maskIter index: [5, 5, 140]
>>>>>>>> maskIter index: [5, 5, 5]
>>>>>>>> Before p3
>>>>>>>> After p3: ?
>>>>>>>> After p3: ?
>>>>>>>> After p4: ?
>>>>>>>> After p4: ?
>>>>>>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>>>>> niter index: [5, 5, 5]
>>>>>>>> maskIter index: [5, 5, 5]
>>>>>>>>
>>>>>>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>>>>> Before p3
>>>>>>>> Before p3
>>>>>>>> After p4: ?
>>>>>>>> After p3: ?
>>>>>>>> After p4: ?
>>>>>>>>
>>>>>>>> Regards,
>>>>>>>> D?enan
>>>>>>>>
>>>>>>>> On Mon, Feb 15, 2016 at 1:36 AM, Francisco Lopez de la Franca <[hidden
>>>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=0>>
>>>>>>>> wrote:
>>>>>>>>
>>>>>>>>> Hi,
>>>>>>>>> Here they are.
>>>>>>>>> KR.
>>>>>>>>>
>>>>>>>>> 2016-02-12 16:22 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>>>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=1>>:
>>>>>>>>>
>>>>>>>>>> Hi Francisco,
>>>>>>>>>>
>>>>>>>>>> do you mind attaching the modified files or pointing to your fork
>>>>>>>>>> of it on GitHub?
>>>>>>>>>>
>>>>>>>>>> Regards
>>>>>>>>>>
>>>>>>>>>> On Thu, Feb 11, 2016 at 12:08 PM, Francisco L?pez-Franca <[hidden
>>>>>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588490&i=0>>
>>>>>>>>>> wrote:
>>>>>>>>>>
>>>>>>>>>>> Hi Dzenan,
>>>>>>>>>>> The original class is here:
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h
>>>>>>>>>>>
>>>>>>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx
>>>>>>>>>>>
>>>>>>>>>>> I've just added setInput and setMaskImage methods and modify
>>>>>>>>>>> some lines in
>>>>>>>>>>> the original class as I indicated in the yesterday mail within
>>>>>>>>>>> this thread.
>>>>>>>>>>> I'm running it on Windows, and there is no error at all, just a
>>>>>>>>>>> crash. I
>>>>>>>>>>> may have to include exceptions management.
>>>>>>>>>>> The crash occurs just when calling p3 =
>>>>>>>>>>> maskIter.GetPixel(iter->first)
>>>>>>>>>>>
>>>>>>>>>>> If you know why it could be or if you need more clarification,
>>>>>>>>>>> please let
>>>>>>>>>>> me know.
>>>>>>>>>>> Many thanks
>>>>>>>>>>>
>>>>>>>>>>> 2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
>>>>>>>>>>> [hidden email]
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588490&i=1>>:
>>>>>>>>>>>
>>>>>>>>>>> > Hi Francisco,
>>>>>>>>>>> >
>>>>>>>>>>> > "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the
>>>>>>>>>>> error message
>>>>>>>>>>> > that goes along with the crash? In which file and line does it
>>>>>>>>>>> crash?
>>>>>>>>>>> >
>>>>>>>>>>> > Regards
>>>>>>>>>>> >
>>>>>>>>>>> > On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca
>>>>>>>>>>> <[hidden
>>>>>>>>>>> > email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588477&i=0>>> wrote:
>>>>>>>>>>> >
>>>>>>>>>>> >> Hi,
>>>>>>>>>>> >> Please, someone that could help me. I'm working in a
>>>>>>>>>>> pre-doctorate
>>>>>>>>>>> >> project and I need this class to work.
>>>>>>>>>>> >> I've read the chapter 13 in the ITK Software Guide on how to
>>>>>>>>>>> write a
>>>>>>>>>>> >> filter and now I see the fact of the threads due to
>>>>>>>>>>> inheritance of
>>>>>>>>>>> >> ImageToImageFilter.
>>>>>>>>>>> >> But, I keep on without understanding why the code crashes
>>>>>>>>>>> just when
>>>>>>>>>>> >> calling
>>>>>>>>>>> >> *const PixelType p3 = maskIter.GetPixel(iter->first);*
>>>>>>>>>>> >> It is just a call to read data, not to write.
>>>>>>>>>>> >>
>>>>>>>>>>> >> I guess somebody that had worked with creation of filters
>>>>>>>>>>> might see
>>>>>>>>>>> >> "easily" the problem, but not me.
>>>>>>>>>>> >>
>>>>>>>>>>> >> So, again, please, I need someone to help me with this
>>>>>>>>>>> because I'm stuck
>>>>>>>>>>> >> on this point.
>>>>>>>>>>> >>
>>>>>>>>>>> >> Thank you very much.
>>>>>>>>>>> >> KR.
>>>>>>>>>>> >> /Francisco
>>>>>>>>>>> >>
>>>>>>>>>>> >> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca
>>>>>>>>>>> <[hidden email]
>>>>>>>>>>> >> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588477&i=1>>>:
>>>>>>>>>>> >>
>>>>>>>>>>> >>> Hi Bradley again.
>>>>>>>>>>> >>> I'm modifying your class in order to be able to set a mask
>>>>>>>>>>> image (a
>>>>>>>>>>> >>> binary image) to be used as a limit in the histogram
>>>>>>>>>>> calculations, I mean,
>>>>>>>>>>> >>> I set an input, a mask and the class should take into
>>>>>>>>>>> account to calculate
>>>>>>>>>>> >>> the histograms only the voxels that belong to the input and
>>>>>>>>>>> to the mask
>>>>>>>>>>> >>> image and having the value 1 in the mask image.
>>>>>>>>>>> >>> The changes seem to be easy but I don?t know why my tests
>>>>>>>>>>> are not
>>>>>>>>>>> >>> working. It seems that 2 threads are working at the same
>>>>>>>>>>> time and when I
>>>>>>>>>>> >>> added my mask iterator, the code crashes.
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> *** Consider that the input and mask images are the same
>>>>>>>>>>> origin, spacing
>>>>>>>>>>> >>> and size.
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> I attach the main changes I've done, and I would thank you a
>>>>>>>>>>> lot if you
>>>>>>>>>>> >>> don't mind having a look and help me to find what I'm doing
>>>>>>>>>>> wrong:
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>>>>>>> >>> void
>>>>>>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>>>>>>> >::*SetInput*(InputImageType
>>>>>>>>>>> >>> *image)
>>>>>>>>>>> >>> {
>>>>>>>>>>> >>>   // Process object is not const-correct so the const_cast
>>>>>>>>>>> is required
>>>>>>>>>>> >>> here
>>>>>>>>>>> >>>   this->ProcessObject::SetNthInput( 0,
>>>>>>>>>>> >>>                                     const_cast<
>>>>>>>>>>> InputImageType * >(
>>>>>>>>>>> >>> image ) );
>>>>>>>>>>> >>> }
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>>>>>>> >>> void
>>>>>>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>>>>>>> >::*SetMaskImage*(InputImageType
>>>>>>>>>>> >>> *image)
>>>>>>>>>>> >>> {
>>>>>>>>>>> >>>   // Process object is not const-correct so the const_cast
>>>>>>>>>>> is required
>>>>>>>>>>> >>> here
>>>>>>>>>>> >>>   this->ProcessObject::SetNthInput( 1, const_cast<
>>>>>>>>>>> InputImageType * >(
>>>>>>>>>>> >>> image ) );
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>   _maskImage = image; // _maskImage is a private member
>>>>>>>>>>> >>> }
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> In the *ThreadedGenerateData*(const RegionType&
>>>>>>>>>>> outputRegionForThread,
>>>>>>>>>>> >>> ThreadIdType threadId ) method:
>>>>>>>>>>> >>> {
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> ...
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit
>>>>>>>>>>> )
>>>>>>>>>>> >>>     {
>>>>>>>>>>> >>>     NeighborhoodIteratorType nIter( radius, input, *fit );
>>>>>>>>>>> >>>     *NeighborhoodIteratorType maskIter( radius, _maskImage,
>>>>>>>>>>> *fit);*
>>>>>>>>>>> >>>     OutputIterator           outIter(output, *fit);
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>     OutputPixelType out;
>>>>>>>>>>> >>>     NumericTraits<OutputPixelType>::SetLength( out,
>>>>>>>>>>> >>> this->GetNumberOfOutputComponents() );
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>     while( !nIter.IsAtEnd() )
>>>>>>>>>>> >>>       {
>>>>>>>>>>> >>>       this->FillHistogram( *histogram, nIter, *maskIter *);
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>       ...
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>       ++nIter;
>>>>>>>>>>> >>>       ++outIter;
>>>>>>>>>>> >>>      * ++maskIter;*
>>>>>>>>>>> >>>     ...
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> In the *FillHistogram *method:
>>>>>>>>>>> >>> {
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> ...
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>   while( iter != m_CooccurenceOffsetVector.end() )
>>>>>>>>>>> >>>     {
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>     const PixelType p1 = niter.GetPixel(iter->first);
>>>>>>>>>>> >>>     const PixelType p2 = niter.GetPixel(iter->second);
>>>>>>>>>>> >>>     std::cout << "Before p3" << std::endl;
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> *    const PixelType p3 = maskIter.GetPixel(iter->first);
>>>>>>>>>>> *std::cout
>>>>>>>>>>> >>> << "After p3: " << p3 << std::endl;
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> *    const PixelType p4 = maskIter.GetPixel(iter->second);
>>>>>>>>>>>  *
>>>>>>>>>>> >>> std::cout << "After p4: " << p4 << std::endl;
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2
>>>>>>>>>>> <= m_Max
>>>>>>>>>>> >>>             *&& p3 == _insidePixelValue && p4 ==
>>>>>>>>>>> _insidePixelValue* )
>>>>>>>>>>> >>> // The point
>>>>>>>>>>> >>>       {
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> ...
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> Thank you so much.
>>>>>>>>>>> >>> My kind regards.
>>>>>>>>>>> >>> /Paco
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca
>>>>>>>>>>> <[hidden email]
>>>>>>>>>>> >>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588477&i=2>>>:
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>> Hello Bradley again.
>>>>>>>>>>> >>>> Sorry but I'd like to re-open this issue because I need
>>>>>>>>>>> your class but
>>>>>>>>>>> >>>> with some modification.
>>>>>>>>>>> >>>> I pass to tell you.
>>>>>>>>>>> >>>>
>>>>>>>>>>> >>>> As my tests with your external class were not good taking
>>>>>>>>>>> into account
>>>>>>>>>>> >>>> the performance, I wonder if you could create a variant of
>>>>>>>>>>> it, but in which
>>>>>>>>>>> >>>> I can set a mask image and your class just return the
>>>>>>>>>>> VectorImage with all
>>>>>>>>>>> >>>> the features for that region (the masked locations) as
>>>>>>>>>>> >>>> itk::ScalarImageToTextureFeaturesFilter class does.
>>>>>>>>>>> >>>> I mean, to get the vector image with all the features but
>>>>>>>>>>> just
>>>>>>>>>>> >>>> calculate it for the regions belonging to the mask image.
>>>>>>>>>>> Positions not
>>>>>>>>>>> >>>> belonging to the mask region could have a pixel value of 0,
>>>>>>>>>>> for instance.
>>>>>>>>>>> >>>>
>>>>>>>>>>> >>>> I don?t know if it is very costly for you,  but I would
>>>>>>>>>>> thank you so
>>>>>>>>>>> >>>> much. Otherwise, I could try it but I'd need your
>>>>>>>>>>> suggestions on how to do
>>>>>>>>>>> >>>> it.
>>>>>>>>>>> >>>>
>>>>>>>>>>> >>>> Thanks a lot.
>>>>>>>>>>> >>>> Best regards.
>>>>>>>>>>> >>>>
>>>>>>>>>>> >>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca
>>>>>>>>>>> <[hidden email]
>>>>>>>>>>> >>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588477&i=3>>>:
>>>>>>>>>>> >>>>
>>>>>>>>>>> >>>>> Hello Bradley again,
>>>>>>>>>>> >>>>> I would like to ask you for a couple of favours. In the
>>>>>>>>>>> one hand,
>>>>>>>>>>> >>>>> could you please send me your 3D image so that I can test
>>>>>>>>>>> on it? And on the
>>>>>>>>>>> >>>>> other hand, could you test the example I have referenced
>>>>>>>>>>> in the previous
>>>>>>>>>>> >>>>> email with your image, not changing anything in the code,
>>>>>>>>>>> such as it is,
>>>>>>>>>>> >>>>> and tell me if the execution time is normal?
>>>>>>>>>>> >>>>> Thank you very much.
>>>>>>>>>>> >>>>> Regards,
>>>>>>>>>>> >>>>> /Francisco
>>>>>>>>>>> >>>>>
>>>>>>>>>>> >>>>> PS: All my application trace is printed via standard
>>>>>>>>>>> 'cout' command,
>>>>>>>>>>> >>>>> not due to a debugging compilation mode.
>>>>>>>>>>> >>>>>
>>>>>>>>>>> >>>>>
>>>>>>>>>>> >>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp
>>>>>>>>>>> <[hidden
>>>>>>>>>>> >>>>> email] <
>>>>>>>>>>> http:///user/SendEmail.jtp?type=node&node=7588477&i=4
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588477&i=4>>>
>>>>>>>>>>> >>>>> escribi?:
>>>>>>>>>>> >>>>>
>>>>>>>>>>> >>>>>> Hello,
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> Did you compile TextureFeatureImage in Release mode?
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> 1) The filter does not scale well with a large radius.
>>>>>>>>>>> And given by
>>>>>>>>>>> >>>>>> your initial report of print a very large number of
>>>>>>>>>>> offset you, it sounds
>>>>>>>>>>> >>>>>> like you are using a large radius with many offsets. I
>>>>>>>>>>> created a
>>>>>>>>>>> >>>>>> 224x224x300 unsigned short image and ran with the default
>>>>>>>>>>> offset and a
>>>>>>>>>>> >>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this
>>>>>>>>>>> filter is was ~10x
>>>>>>>>>>> >>>>>> faster than this example... things change though...
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> 2) I sounds like the boundaries/limits of the histogram
>>>>>>>>>>> may be
>>>>>>>>>>> >>>>>> clipping you values. I would inspect the co-occurance
>>>>>>>>>>> matrix.
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> HTH,
>>>>>>>>>>> >>>>>> Brad
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca
>>>>>>>>>>> <[hidden
>>>>>>>>>>> >>>>>> email] <
>>>>>>>>>>> http:///user/SendEmail.jtp?type=node&node=7588477&i=5
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588477&i=5>>>
>>>>>>>>>>> >>>>>> wrote:
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> I've tested with itkTextureFeatureImageFilter, with
>>>>>>>>>>> >>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures
>>>>>>>>>>> example,
>>>>>>>>>>> >>>>>> for a 3D image and here are my comments:
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> 1. I had to interrupt the test after several hours and it
>>>>>>>>>>> kept on
>>>>>>>>>>> >>>>>> calculating. And this is for only a 3D image
>>>>>>>>>>> (224x224x300). I need to
>>>>>>>>>>> >>>>>> process around 35 images.
>>>>>>>>>>> >>>>>> 2. The result (texture features: entropy, energy,
>>>>>>>>>>> correlation, LH,
>>>>>>>>>>> >>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0,
>>>>>>>>>>> 0, 7.83083e+247].
>>>>>>>>>>> >>>>>> These values were not what I expected based on my
>>>>>>>>>>> experience on another
>>>>>>>>>>> >>>>>> application I developed, but in that case, I calculated
>>>>>>>>>>> the texture
>>>>>>>>>>> >>>>>> features for an image as a whole, not voxel by voxel.
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> Regards.
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
>>>>>>>>>>> >>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588477&i=6>>>:
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>>> i yes i have tried radius = 3;
>>>>>>>>>>> >>>>>>> still no luck
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca
>>>>>>>>>>> [via ITK
>>>>>>>>>>> >>>>>>> Insight
>>>>>>>>>>> >>>>>>> Users] <[hidden email]
>>>>>>>>>>> >>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588477&i=7>>> wrote:
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>> > Have you tried with a radius of 3 instead of 1?
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>>>>>>>>>>> >>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7587961&i=0>>>:
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> >> hey Matt,
>>>>>>>>>>> >>>>>>> >> thanks for ur advice.. it did build successfully...
>>>>>>>>>>> but im not
>>>>>>>>>>> >>>>>>> able to run
>>>>>>>>>>> >>>>>>> >> the code for 2D png image... i tried to change the
>>>>>>>>>>> dimension to 2
>>>>>>>>>>> >>>>>>> and
>>>>>>>>>>> >>>>>>> >> build
>>>>>>>>>>> >>>>>>> >> it which it did.. but when i run the code using the
>>>>>>>>>>> command
>>>>>>>>>>> >>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png
>>>>>>>>>>> putput.png
>>>>>>>>>>> >>>>>>> 1... i see
>>>>>>>>>>> >>>>>>> >> this output
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >> offset: [-1, -1] [0, -1]
>>>>>>>>>>> >>>>>>> >> offset: [0, -1] [1, -1]
>>>>>>>>>>> >>>>>>> >> offset: [-1, 0] [0, 0]
>>>>>>>>>>> >>>>>>> >> offset: [0, 0] [1, 0]
>>>>>>>>>>> >>>>>>> >> offset: [-1, 1] [0, 1]
>>>>>>>>>>> >>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the
>>>>>>>>>>> program... if pls
>>>>>>>>>>> >>>>>>> tel me
>>>>>>>>>>> >>>>>>> >> how can i modify this code to work wid 2d image...
>>>>>>>>>>> forgive me if
>>>>>>>>>>> >>>>>>> my ques
>>>>>>>>>>> >>>>>>> >> are really silly im trying to learn something..
>>>>>>>>>>> >>>>>>> >> regards
>>>>>>>>>>> >>>>>>> >> Vis
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2
>>>>>>>>>>> [via ITK
>>>>>>>>>>> >>>>>>> Insight Users]
>>>>>>>>>>> >>>>>>> >> <
>>>>>>>>>>> >>>>>>> >> [hidden email] <
>>>>>>>>>>> >>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7587961&i=1>>>
>>>>>>>>>>> >>>>>>> >> wrote:
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >> > Hi,
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > The function:
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char
>>>>>>>>>>> *argv[])
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > must be renamed to
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> >   main(int argc, char* argv[])
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > HTH,
>>>>>>>>>>> >>>>>>> >> > Matt
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>>>>>>>>>>> >>>>>>> >> > <
>>>>>>>>>>> http:///user/SendEmail.jtp?type=node&node=7587952&i=0
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7587952&i=0>>> wrote:
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > > hi all,
>>>>>>>>>>> >>>>>>> >> > > im trying to build the
>>>>>>>>>>> itkTextureFeatureImageFilterTest.cxx
>>>>>>>>>>> >>>>>>> code but
>>>>>>>>>>> >>>>>>> >> im
>>>>>>>>>>> >>>>>>> >> > not
>>>>>>>>>>> >>>>>>> >> > > able to it is showing the following error
>>>>>>>>>>> >>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>>>>>>>>>>> >>>>>>> Configuration:
>>>>>>>>>>> >>>>>>> >> Debug
>>>>>>>>>>> >>>>>>> >> > x64
>>>>>>>>>>> >>>>>>> >> > > ------
>>>>>>>>>>> >>>>>>> >> > > 1>  Checking Build System
>>>>>>>>>>> >>>>>>> >> > > 1>  CMake does not need to re-run because
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>>>>>>>>>>> >>>>>>> >> > is
>>>>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>>>>> >>>>>>> >> > > 2>------ Rebuild All started: Project:
>>>>>>>>>>> >>>>>>> >> itkTextureFeatureImageFilterTest,
>>>>>>>>>>> >>>>>>> >> > > Configuration: Debug x64 ------
>>>>>>>>>>> >>>>>>> >> > > 2>  Building Custom Rule
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>>>>>> >>>>>>> >> > > 2>  CMake does not need to re-run because
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>>>>>> >>>>>>> >> > is
>>>>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>>>>> >>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>>>>>>>>>>> >>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>>>>>>>>>>> >>>>>>> 'std::_Copy_impl':
>>>>>>>>>>> >>>>>>> >> > Function
>>>>>>>>>>> >>>>>>> >> > > call with parameters that may be unsafe - this
>>>>>>>>>>> call relies on
>>>>>>>>>>> >>>>>>> the
>>>>>>>>>>> >>>>>>> >> caller
>>>>>>>>>>> >>>>>>> >> > to
>>>>>>>>>>> >>>>>>> >> > > check that the passed values are correct. To
>>>>>>>>>>> disable this
>>>>>>>>>>> >>>>>>> warning, use
>>>>>>>>>>> >>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on
>>>>>>>>>>> how to use
>>>>>>>>>>> >>>>>>> Visual C++
>>>>>>>>>>> >>>>>>> >> > > 'Checked Iterators'
>>>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft
>>>>>>>>>>> Visual Studio
>>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration
>>>>>>>>>>> of
>>>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>>>>>>>>>>> >>>>>>> >> > see
>>>>>>>>>>> >>>>>>> >> > > reference to function template instantiation
>>>>>>>>>>> '_OutIt
>>>>>>>>>>> >>>>>>> std::copy<const
>>>>>>>>>>> >>>>>>> >> > > unsigned char*,unsigned
>>>>>>>>>>> char*>(_InIt,_InIt,_OutIt)' being
>>>>>>>>>>> >>>>>>> compiled
>>>>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>>>>> >>>>>>> >> > > 2>              _OutIt=unsigned char *,
>>>>>>>>>>> >>>>>>> >> > > 2>              _InIt=const unsigned char *
>>>>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>>>>>>>>>>> >>>>>>> >> > > while compiling class template member function
>>>>>>>>>>> 'void
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>>>>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > > : see reference to class template instantiation
>>>>>>>>>>> >>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being
>>>>>>>>>>> compiled
>>>>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft
>>>>>>>>>>> Visual Studio
>>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration
>>>>>>>>>>> of
>>>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft
>>>>>>>>>>> Visual Studio
>>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration
>>>>>>>>>>> of
>>>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft
>>>>>>>>>>> Visual Studio
>>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration
>>>>>>>>>>> of
>>>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>>>> >>>>>>> >> > > 2>     Creating library
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > > and object
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019:
>>>>>>>>>>> unresolved
>>>>>>>>>>> >>>>>>> external symbol
>>>>>>>>>>> >>>>>>> >> > main
>>>>>>>>>>> >>>>>>> >> > > referenced in function __tmainCRTStartup
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>>>>>>>>>>> >>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>>>>>>>>>>> >>>>>>> Configuration: Debug
>>>>>>>>>>> >>>>>>> >> > x64
>>>>>>>>>>> >>>>>>> >> > > ------
>>>>>>>>>>> >>>>>>> >> > > 3>  Building Custom Rule
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>>>>>> >>>>>>> >> > > 3>  CMake does not need to re-run because
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>>>>>> >>>>>>> >> > is
>>>>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>>>>> >>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0
>>>>>>>>>>> skipped
>>>>>>>>>>> >>>>>>> ==========
>>>>>>>>>>> >>>>>>> >> > > im using the follwing CMakeList.txt
>>>>>>>>>>> >>>>>>> >> > > # This is the root ITK CMakeLists file.
>>>>>>>>>>> >>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>>>>>>>>>>> >>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>>>>>>>>>>> >>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>>>>>>>>>>> >>>>>>> >> > > endif()
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > > # This project is designed to be built outside
>>>>>>>>>>> the Insight
>>>>>>>>>>> >>>>>>> source
>>>>>>>>>>> >>>>>>> >> tree.
>>>>>>>>>>> >>>>>>> >> > > project(HelloWorld)
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > > # Find ITK.
>>>>>>>>>>> >>>>>>> >> > > find_package(ITK REQUIRED)
>>>>>>>>>>> >>>>>>> >> > > include(${ITK_USE_FILE})
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>>>>>>>>>>> >>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> target_link_libraries(itkTextureFeatureImageFilterTest
>>>>>>>>>>> >>>>>>> >> ${ITK_LIBRARIES})
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > > please tel me wat the error is??
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > > --
>>>>>>>>>>> >>>>>>> >> > > View this message in context:
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>>>>>>>>>>> >>>>>>> >> > > Sent from the ITK Insight Users mailing list
>>>>>>>>>>> archive at
>>>>>>>>>>> >>>>>>> Nabble.com <http://nabble.com/>.
>>>>>>>>>>> >>>>>>> >> > > _____________________________________
>>>>>>>>>>> >>>>>>> >> > > Powered by www.kitware.com
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > > Visit other Kitware open-source projects at
>>>>>>>>>>> >>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > > Kitware offers ITK Training Courses, for more
>>>>>>>>>>> information
>>>>>>>>>>> >>>>>>> visit:
>>>>>>>>>>> >>>>>>> >> > > http://www.kitware.com/products/protraining.php
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > > Please keep messages on-topic and check the ITK
>>>>>>>>>>> FAQ at:
>>>>>>>>>>> >>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > > Follow this link to subscribe/unsubscribe:
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>> >>>>>>> >> > _____________________________________
>>>>>>>>>>> >>>>>>> >> > Powered by www.kitware.com
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > Visit other Kitware open-source projects at
>>>>>>>>>>> >>>>>>> >> > http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > Kitware offers ITK Training Courses, for more
>>>>>>>>>>> information visit:
>>>>>>>>>>> >>>>>>> >> > http://www.kitware.com/products/protraining.php
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > Please keep messages on-topic and check the ITK FAQ
>>>>>>>>>>> at:
>>>>>>>>>>> >>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > Follow this link to subscribe/unsubscribe:
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > ------------------------------
>>>>>>>>>>> >>>>>>> >> > If you reply to this email, your message will be
>>>>>>>>>>> added to the
>>>>>>>>>>> >>>>>>> discussion
>>>>>>>>>>> >>>>>>> >> > below:
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587952.html
>>>>>>>>>>> >>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by
>>>>>>>>>>> pixel, click
>>>>>>>>>>> >>>>>>> here
>>>>>>>>>>> >>>>>>> >> > < > .
>>>>>>>>>>> >>>>>>> >> > NAML
>>>>>>>>>>> >>>>>>> >> > <
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >> --
>>>>>>>>>>> >>>>>>> >> View this message in context:
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>>>>>>>>>>> >>>>>>> >> Sent from the ITK Insight Users mailing list archive
>>>>>>>>>>> at
>>>>>>>>>>> >>>>>>> Nabble.com <http://nabble.com/>.
>>>>>>>>>>> >>>>>>> >> _____________________________________
>>>>>>>>>>> >>>>>>> >> Powered by www.kitware.com
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >> Visit other Kitware open-source projects at
>>>>>>>>>>> >>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >> Kitware offers ITK Training Courses, for more
>>>>>>>>>>> information visit:
>>>>>>>>>>> >>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >> Please keep messages on-topic and check the ITK FAQ
>>>>>>>>>>> at:
>>>>>>>>>>> >>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> > _____________________________________
>>>>>>>>>>> >>>>>>> > Powered by www.kitware.com
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> > Visit other Kitware open-source projects at
>>>>>>>>>>> >>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> > Kitware offers ITK Training Courses, for more
>>>>>>>>>>> information visit:
>>>>>>>>>>> >>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>>> >>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> > ------------------------------
>>>>>>>>>>> >>>>>>> > If you reply to this email, your message will be added
>>>>>>>>>>> to the
>>>>>>>>>>> >>>>>>> discussion
>>>>>>>>>>> >>>>>>> > below:
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587961.html
>>>>>>>>>>> >>>>>>> > To unsubscribe from [ITK-users] Texture pixel by
>>>>>>>>>>> pixel, click here
>>>>>>>>>>> >>>>>>> > < > .
>>>>>>>>>>> >>>>>>> > NAML
>>>>>>>>>>> >>>>>>> > <
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>> --
>>>>>>>>>>> >>>>>>> View this message in context:
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
>>>>>>>>>>> >>>>>>> Sent from the ITK Insight Users mailing list archive at
>>>>>>>>>>> Nabble.com <http://nabble.com/>.
>>>>>>>>>>> >>>>>>> _____________________________________
>>>>>>>>>>> >>>>>>> Powered by www.kitware.com
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>> Visit other Kitware open-source projects at
>>>>>>>>>>> >>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>> Kitware offers ITK Training Courses, for more
>>>>>>>>>>> information visit:
>>>>>>>>>>> >>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>>> >>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>>>>> >>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> _____________________________________
>>>>>>>>>>> >>>>>> Powered by www.kitware.com
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> Visit other Kitware open-source projects at
>>>>>>>>>>> >>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> Kitware offers ITK Training Courses, for more information
>>>>>>>>>>> visit:
>>>>>>>>>>> >>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>>> >>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>>>>> >>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>
>>>>>>>>>>> >>>
>>>>>>>>>>> >>
>>>>>>>>>>> >> _____________________________________
>>>>>>>>>>> >> Powered by www.kitware.com
>>>>>>>>>>> >>
>>>>>>>>>>> >> Visit other Kitware open-source projects at
>>>>>>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>> >>
>>>>>>>>>>> >> Kitware offers ITK Training Courses, for more information
>>>>>>>>>>> visit:
>>>>>>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>>>>>>> >>
>>>>>>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>> >>
>>>>>>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>> >>
>>>>>>>>>>> >>
>>>>>>>>>>> >
>>>>>>>>>>> > _____________________________________
>>>>>>>>>>> > Powered by www.kitware.com
>>>>>>>>>>> >
>>>>>>>>>>> > Visit other Kitware open-source projects at
>>>>>>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>> >
>>>>>>>>>>> > Kitware offers ITK Training Courses, for more information
>>>>>>>>>>> visit:
>>>>>>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>>>>>>> >
>>>>>>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>> >
>>>>>>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>>>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>> >
>>>>>>>>>>> >
>>>>>>>>>>> > ------------------------------
>>>>>>>>>>> > If you reply to this email, your message will be added to the
>>>>>>>>>>> discussion
>>>>>>>>>>> > below:
>>>>>>>>>>> >
>>>>>>>>>>> >
>>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588477.html
>>>>>>>>>>> > To start a new topic under ITK Insight Users, email
>>>>>>>>>>> > [hidden email]
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588490&i=2>
>>>>>>>>>>> > To unsubscribe from ITK Insight Users, click here
>>>>>>>>>>> > < > .
>>>>>>>>>>> > NAML
>>>>>>>>>>> > <
>>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>>>>> >
>>>>>>>>>>> >
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> --
>>>>>>>>>>> View this message in context:
>>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588483.html
>>>>>>>>>>> Sent from the ITK Insight Users mailing list archive at
>>>>>>>>>>> Nabble.com <http://nabble.com/>.
>>>>>>>>>>> _____________________________________
>>>>>>>>>>> Powered by www.kitware.com
>>>>>>>>>>>
>>>>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>>
>>>>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>>>>
>>>>>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>>
>>>>>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> _____________________________________
>>>>>>>>>> Powered by www.kitware.com
>>>>>>>>>>
>>>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>
>>>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>>>
>>>>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>
>>>>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> ------------------------------
>>>>>>>>>> If you reply to this email, your message will be added to the
>>>>>>>>>> discussion below:
>>>>>>>>>>
>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588490.html
>>>>>>>>>> To start a new topic under ITK Insight Users, email [hidden
>>>>>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=2>
>>>>>>>>>> To unsubscribe from ITK Insight Users, click here.
>>>>>>>>>> NAML
>>>>>>>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> _____________________________________
>>>>>>>>> Powered by www.kitware.com
>>>>>>>>>
>>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>
>>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>>
>>>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>
>>>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>
>>>>>>>>>
>>>>>>>>
>>>>>>>> _____________________________________
>>>>>>>> Powered by www.kitware.com
>>>>>>>>
>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>
>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>
>>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>
>>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>
>>>>>>>>
>>>>>>>> ------------------------------
>>>>>>>> If you reply to this email, your message will be added to the
>>>>>>>> discussion below:
>>>>>>>>
>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588495.html
>>>>>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588505&i=3>
>>>>>>>> To unsubscribe from ITK Insight Users, click here.
>>>>>>>> NAML
>>>>>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> _____________________________________
>>>>>>> Powered by www.kitware.com
>>>>>>>
>>>>>>> Visit other Kitware open-source projects at
>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>
>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>
>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>
>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>
>>>>>>>
>>>>>> <tester.cpp>_____________________________________
>>>>>> Powered by www.kitware.com
>>>>>>
>>>>>> Visit other Kitware open-source projects at
>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>
>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>
>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>
>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>
>>>>>>
>>>>>>
>>>>>> _____________________________________
>>>>>> Powered by www.kitware.com
>>>>>>
>>>>>> Visit other Kitware open-source projects at
>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>
>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>
>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>
>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>
>>>>>>
>>>>>> ------------------------------
>>>>>> If you reply to this email, your message will be added to the
>>>>>> discussion below:
>>>>>>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588505.html
>>>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>>>> <http://user/SendEmail.jtp?type=node&node=7588513&i=2>
>>>>>> To unsubscribe from ITK Insight Users, click here.
>>>>>> NAML
>>>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>>>
>>>>>
>>>>>
>>>>> _____________________________________
>>>>> Powered by www.kitware.com
>>>>>
>>>>> Visit other Kitware open-source projects at
>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>
>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>> http://www.kitware.com/products/protraining.php
>>>>>
>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>
>>>>> Follow this link to subscribe/unsubscribe:
>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>
>>>>>
>>>>
>>>> _____________________________________
>>>> Powered by www.kitware.com
>>>>
>>>> Visit other Kitware open-source projects at
>>>> http://www.kitware.com/opensource/opensource.html
>>>>
>>>> Kitware offers ITK Training Courses, for more information visit:
>>>> http://www.kitware.com/products/protraining.php
>>>>
>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>
>>>> Follow this link to subscribe/unsubscribe:
>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>
>>>>
>>>> ------------------------------
>>>> If you reply to this email, your message will be added to the
>>>> discussion below:
>>>>
>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588513.html
>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>> <http://user/SendEmail.jtp?type=node&node=7588516&i=2>
>>>> To unsubscribe from ITK Insight Users, click here.
>>>> NAML
>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>
>>>
>>>
>>> _____________________________________
>>> Powered by www.kitware.com
>>>
>>> Visit other Kitware open-source projects at
>>> http://www.kitware.com/opensource/opensource.html
>>>
>>> Kitware offers ITK Training Courses, for more information visit:
>>> http://www.kitware.com/products/protraining.php
>>>
>>> Please keep messages on-topic and check the ITK FAQ at:
>>> http://www.itk.org/Wiki/ITK_FAQ
>>>
>>> Follow this link to subscribe/unsubscribe:
>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>
>>>
>>
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://www.kitware.com/products/protraining.php
>>
>> Please keep messages on-topic and check the ITK FAQ at:
>> http://www.itk.org/Wiki/ITK_FAQ
>>
>> Follow this link to subscribe/unsubscribe:
>> http://public.kitware.com/mailman/listinfo/insight-users
>>
>>
>> ------------------------------
>> If you reply to this email, your message will be added to the discussion
>> below:
>>
>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588516.html
>> To start a new topic under ITK Insight Users, email [hidden email]
>> <http:///user/SendEmail.jtp?type=node&node=7588531&i=2>
>> To unsubscribe from ITK Insight Users, click here.
>> NAML
>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
>
> ------------------------------
> If you reply to this email, your message will be added to the discussion
> below:
>
> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588531.html
> To start a new topic under ITK Insight Users, email
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From franciscolopezdelafranca at gmail.com  Mon Feb 22 08:49:46 2016
From: franciscolopezdelafranca at gmail.com (=?UTF-8?Q?Francisco_L=C3=B3pez-Franca?=)
Date: Mon, 22 Feb 2016 06:49:46 -0700 (MST)
Subject: [ITK-users] Texture pixel by pixel
In-Reply-To: <B08CBB97-B663-4235-AAE7-A9F9D2A28222@mail.nih.gov>
References: <CAPf2UMSs-q8_s=5k6KcX48zjEsyKWQ-RzJ3O0ik1ihFcHcp+vg@mail.gmail.com>
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 <3F877AC4-BCD1-43FF-B8B3-7B30F9B6D30B@mail.nih.gov>
 <CAJqi3EKcF8T1goR3UTHiBS4br3NqAR7Z9HQqGaKYGJs21_XByA@mail.gmail.com>
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 <CAJqi3E++Zm9xcfe=D=Hrhd-F4NGnOf99XQwqQ_83RXxF1bE1GA@mail.gmail.com>
 <CAPf2UMSf_Yk1Va2=g7CzdR8Pcy1j4n+H7pXBeeq5sCYzOYz-OA@mail.gmail.com>
 <CAJqi3EKNwP5CyjanQQKg82e=1fnN=BFS-MoDzPveSj2wvbT7Mw@mail.gmail.com>
 <B08CBB97-B663-4235-AAE7-A9F9D2A28222@mail.nih.gov>
Message-ID: <CAJqi3ELbbazonERf4h3xQYMrZ0kBK1m8SVj50ruXoFEBeL6nAw@mail.gmail.com>

Hi Brad,
Of course I tried out the mask support you provide to the github
repository. In fact, if I donot make use of the mask image, the processing
of a 3D image takes 10 minutes aproximately. By using the mask image, it
takes 75 seconds on a Intel Core2.
What I do with the 3D image is to extract all its blobs and within a loop
dealing with each one and calculating their texture features with your
class.
So, I'm very glad that finally I've got what I needed and the performance
is very good.
Thank you so much.
/Francisco

2016-02-22 14:42 GMT+01:00 Bradley Lowekamp [via ITK Insight Users] <
ml-node+s2283740n7588531h96 at n2.nabble.com>:

> Francisco,
>
> Glad to hear that you figured out the problem with your code.
>
> Were you able to try out the change to add Mask support I committed to the
> github repository? Does this meet you masking needs and improve your
> performance?
>
> Please consider studying the difference between your change any my change
> and the performance implications.
>
> Enjoy,
> Brad
>
> On Feb 22, 2016, at 7:18 AM, Francisco Lopez de la Franca <[hidden email]
> <http:///user/SendEmail.jtp?type=node&node=7588531&i=0>> wrote:
>
> Hi.
> In the end the crash came for my fault. I was creating the mask image in
> the wrong way. Sorry for the disturbances, and thank you very much
> everybody.
> Kind regards.
> /Francisco
>
> 2016-02-18 19:00 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden email]
> <http:///user/SendEmail.jtp?type=node&node=7588531&i=1>>:
>
>> /bigobj is an option for msvc, not mingw.
>>
>> But that is a different problem from crashing code. If you start a new
>> thread, somebody with MinGW experience might help you.
>>
>> On Thu, Feb 18, 2016 at 12:30 PM, Francisco Lopez de la Franca <[hidden
>> email] <http://user/SendEmail.jtp?type=node&node=7588516&i=0>> wrote:
>>
>>> Yes. I use mingw (x86_64-w64-mingw32-g++.exe) and I set in CMAKE GUI the
>>> entry CMAKE_CXX_FLAGS to -bigobj and the result is "unrecognized option".
>>>
>>>
>>> 2016-02-18 15:25 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>> email] <http://user/SendEmail.jtp?type=node&node=7588516&i=1>>:
>>>
>>>> Have you tried /bigobj
>>>> <https://msdn.microsoft.com/en-us/library/ms173499.aspx?f=255&MSPPError=-2147217396>?
>>>> Are you using MinGW? Visual Studio is now free
>>>> <https://www.visualstudio.com/en-us/news/vs2013-community-vs.aspx>.
>>>>
>>>> HTH
>>>>
>>>> On Thu, Feb 18, 2016 at 6:37 AM, Francisco Lopez de la Franca <[hidden
>>>> email] <http://user/SendEmail.jtp?type=node&node=7588513&i=0>> wrote:
>>>>
>>>>> Hi again,
>>>>> I've got ITK version 4.5.1 (a little bit old, I know), and after
>>>>> making the changes suggested by Dzenanz and recompiling ITK, the problem
>>>>> continues, that is, my code crashes at the same point.
>>>>>
>>>>> Then, I've downloaded the latest stable ITK version, ITK 4.9.0 and
>>>>> compiled from scratch and I get the following error:
>>>>>
>>>>> [ 98%] Building CXX object
>>>>> Modules/IO/TransformBase/src/CMakeFiles/ITKIOTransformBase.dir/itkTransformFactoryBase.cxx.obj
>>>>> C:/MINGW/mingw64/bin/../lib/gcc/x86_64-w64-mingw32/4.8.2/../../../../x86_64-w64-mingw32/bin/as.exe:
>>>>> CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj: too many
>>>>> sections (33106)
>>>>> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Assembler messages:
>>>>> C:\Users\User~1\AppData\Local\Temp\ccrJIGis.s: Fatal error: can't
>>>>> write CMakeFiles\ITKIOTransformBase.dir\itkTransformFactoryBase.cxx.obj:
>>>>> File too big
>>>>>
>>>>> After doing some "googling" and follow some of the instructions
>>>>> referred on the web, I've been unable to solve this.
>>>>> Has anyone met this problem and solved it?
>>>>> Thanks.
>>>>> KR.
>>>>> /Francisco
>>>>>
>>>>> 2016-02-16 22:13 GMT+01:00 Bradley Lowekamp [via ITK Insight Users] <[hidden
>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588513&i=1>>:
>>>>>
>>>>>> Hello,
>>>>>>
>>>>>> Please take a look at these changes:
>>>>>>
>>>>>> https://github.com/blowekamp/itkTextureAnalysis/commit/9654d74ea1d09f0677f1d1b93242cc94340591bf
>>>>>>
>>>>>> Brad
>>>>>>
>>>>>> On Feb 16, 2016, at 10:35 AM, D?enan Zuki? <[hidden email]
>>>>>> <http://user/SendEmail.jtp?type=node&node=7588505&i=0>> wrote:
>>>>>>
>>>>>> I have set up a project using one of the tests from Brad's repository
>>>>>> (attached), and it works in debug mode both with his original code and with
>>>>>> your modified class, and crashes in release mode both with his original
>>>>>> code and with your modified class. I will now compile ITK in RelWithDebInfo
>>>>>> in an attempt to figure out where is the crash occurring.
>>>>>>
>>>>>> Regards,
>>>>>> D?enan
>>>>>>
>>>>>> On Tue, Feb 16, 2016 at 1:52 AM, Francisco Lopez de la Franca <[hidden
>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588505&i=1>> wrote:
>>>>>>
>>>>>>> Excuse me Dzenanz, but that's not completely true, because I've
>>>>>>> tested Brad's class and it works right.
>>>>>>> The problem seems to be that when you add a new neighbor iterator to
>>>>>>> include just the mask points in the "histogram" then it is when the
>>>>>>> application crashes, and I donot understand why.
>>>>>>> If you just comment the 'maskIter' references you'll see that the
>>>>>>> application works.
>>>>>>> I've created a single threaded class based on the Brad's code and it
>>>>>>> works but it is twice slower, that is why I'm interesting on Brad's class
>>>>>>> (multi-threaded) to make it work.
>>>>>>>
>>>>>>>
>>>>>>> 2016-02-15 17:15 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588505&i=2>>:
>>>>>>>
>>>>>>>> Hi Francisco,
>>>>>>>>
>>>>>>>> both your code and Brad's code run in debug mode (I did not wait
>>>>>>>> for the end), and both crash in release mode immediately on startup. Here
>>>>>>>> is a sample output:
>>>>>>>>
>>>>>>>> Progress input: 0000000002868970
>>>>>>>> input: 0000000002868970
>>>>>>>> _maskImage: 0000000002868970
>>>>>>>> _maskImage: 0000000002868970
>>>>>>>> input: 0000000002868970
>>>>>>>> _maskImage: 0000000002868970
>>>>>>>> iter.first: iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>>>> [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>>>> niter index: [5, 5, 210]
>>>>>>>> niter index: [5, 5, 140]
>>>>>>>> maskIter index: [5, 5, 140]
>>>>>>>> maskIter index: [5, 5, 210]
>>>>>>>> Before p3
>>>>>>>> input: 0000000002868970
>>>>>>>> _maskImage: 0000000002868970
>>>>>>>> After p3:  | 0niter index: [5, 5, 70]
>>>>>>>> iter.first: [-5, -5, -5] iter.second: [-4, -5, -5]
>>>>>>>> niter index: [5, 5, 5]
>>>>>>>> ?
>>>>>>>> maskIter index: [5, 5, 70]
>>>>>>>> After p4: ?
>>>>>>>> Before p3
>>>>>>>> Before p3
>>>>>>>> After p3: ?iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>>>>> niter index: [5, 5, 140]
>>>>>>>> maskIter index: [5, 5, 140]
>>>>>>>> maskIter index: [5, 5, 5]
>>>>>>>> Before p3
>>>>>>>> After p3: ?
>>>>>>>> After p3: ?
>>>>>>>> After p4: ?
>>>>>>>> After p4: ?
>>>>>>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>>>>> niter index: [5, 5, 5]
>>>>>>>> maskIter index: [5, 5, 5]
>>>>>>>>
>>>>>>>> iter.first: [-4, -5, -5] iter.second: [-3, -5, -5]
>>>>>>>> Before p3
>>>>>>>> Before p3
>>>>>>>> After p4: ?
>>>>>>>> After p3: ?
>>>>>>>> After p4: ?
>>>>>>>>
>>>>>>>> Regards,
>>>>>>>> D?enan
>>>>>>>>
>>>>>>>> On Mon, Feb 15, 2016 at 1:36 AM, Francisco Lopez de la Franca <[hidden
>>>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=0>>
>>>>>>>> wrote:
>>>>>>>>
>>>>>>>>> Hi,
>>>>>>>>> Here they are.
>>>>>>>>> KR.
>>>>>>>>>
>>>>>>>>> 2016-02-12 16:22 GMT+01:00 dzenanz [via ITK Insight Users] <[hidden
>>>>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588495&i=1>>:
>>>>>>>>>
>>>>>>>>>> Hi Francisco,
>>>>>>>>>>
>>>>>>>>>> do you mind attaching the modified files or pointing to your fork
>>>>>>>>>> of it on GitHub?
>>>>>>>>>>
>>>>>>>>>> Regards
>>>>>>>>>>
>>>>>>>>>> On Thu, Feb 11, 2016 at 12:08 PM, Francisco L?pez-Franca <[hidden
>>>>>>>>>> email] <http://user/SendEmail.jtp?type=node&node=7588490&i=0>>
>>>>>>>>>> wrote:
>>>>>>>>>>
>>>>>>>>>>> Hi Dzenan,
>>>>>>>>>>> The original class is here:
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/master/include/itkTextureFeatureImageFilter.h
>>>>>>>>>>>
>>>>>>>>>>> https://github.com/blowekamp/itkTextureAnalysis/blob/b3911a8ab891859c50c7e3c8819d1a9fa0eaf4af/include/itkTextureFeatureImageFilter.hxx
>>>>>>>>>>>
>>>>>>>>>>> I've just added setInput and setMaskImage methods and modify
>>>>>>>>>>> some lines in
>>>>>>>>>>> the original class as I indicated in the yesterday mail within
>>>>>>>>>>> this thread.
>>>>>>>>>>> I'm running it on Windows, and there is no error at all, just a
>>>>>>>>>>> crash. I
>>>>>>>>>>> may have to include exceptions management.
>>>>>>>>>>> The crash occurs just when calling p3 =
>>>>>>>>>>> maskIter.GetPixel(iter->first)
>>>>>>>>>>>
>>>>>>>>>>> If you know why it could be or if you need more clarification,
>>>>>>>>>>> please let
>>>>>>>>>>> me know.
>>>>>>>>>>> Many thanks
>>>>>>>>>>>
>>>>>>>>>>> 2016-02-11 17:16 GMT+01:00 dzenanz [via ITK Insight Users] <
>>>>>>>>>>> [hidden email]
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588490&i=1>>:
>>>>>>>>>>>
>>>>>>>>>>> > Hi Francisco,
>>>>>>>>>>> >
>>>>>>>>>>> > "THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES." What is the
>>>>>>>>>>> error message
>>>>>>>>>>> > that goes along with the crash? In which file and line does it
>>>>>>>>>>> crash?
>>>>>>>>>>> >
>>>>>>>>>>> > Regards
>>>>>>>>>>> >
>>>>>>>>>>> > On Thu, Feb 11, 2016 at 4:55 AM, Francisco Lopez de la Franca
>>>>>>>>>>> <[hidden
>>>>>>>>>>> > email] <http:///user/SendEmail.jtp?type=node&node=7588477&i=0
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588477&i=0>>> wrote:
>>>>>>>>>>> >
>>>>>>>>>>> >> Hi,
>>>>>>>>>>> >> Please, someone that could help me. I'm working in a
>>>>>>>>>>> pre-doctorate
>>>>>>>>>>> >> project and I need this class to work.
>>>>>>>>>>> >> I've read the chapter 13 in the ITK Software Guide on how to
>>>>>>>>>>> write a
>>>>>>>>>>> >> filter and now I see the fact of the threads due to
>>>>>>>>>>> inheritance of
>>>>>>>>>>> >> ImageToImageFilter.
>>>>>>>>>>> >> But, I keep on without understanding why the code crashes
>>>>>>>>>>> just when
>>>>>>>>>>> >> calling
>>>>>>>>>>> >> *const PixelType p3 = maskIter.GetPixel(iter->first);*
>>>>>>>>>>> >> It is just a call to read data, not to write.
>>>>>>>>>>> >>
>>>>>>>>>>> >> I guess somebody that had worked with creation of filters
>>>>>>>>>>> might see
>>>>>>>>>>> >> "easily" the problem, but not me.
>>>>>>>>>>> >>
>>>>>>>>>>> >> So, again, please, I need someone to help me with this
>>>>>>>>>>> because I'm stuck
>>>>>>>>>>> >> on this point.
>>>>>>>>>>> >>
>>>>>>>>>>> >> Thank you very much.
>>>>>>>>>>> >> KR.
>>>>>>>>>>> >> /Francisco
>>>>>>>>>>> >>
>>>>>>>>>>> >> 2016-02-10 12:53 GMT+01:00 Francisco Lopez de la Franca
>>>>>>>>>>> <[hidden email]
>>>>>>>>>>> >> <http:///user/SendEmail.jtp?type=node&node=7588477&i=1
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588477&i=1>>>:
>>>>>>>>>>> >>
>>>>>>>>>>> >>> Hi Bradley again.
>>>>>>>>>>> >>> I'm modifying your class in order to be able to set a mask
>>>>>>>>>>> image (a
>>>>>>>>>>> >>> binary image) to be used as a limit in the histogram
>>>>>>>>>>> calculations, I mean,
>>>>>>>>>>> >>> I set an input, a mask and the class should take into
>>>>>>>>>>> account to calculate
>>>>>>>>>>> >>> the histograms only the voxels that belong to the input and
>>>>>>>>>>> to the mask
>>>>>>>>>>> >>> image and having the value 1 in the mask image.
>>>>>>>>>>> >>> The changes seem to be easy but I don?t know why my tests
>>>>>>>>>>> are not
>>>>>>>>>>> >>> working. It seems that 2 threads are working at the same
>>>>>>>>>>> time and when I
>>>>>>>>>>> >>> added my mask iterator, the code crashes.
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> *** Consider that the input and mask images are the same
>>>>>>>>>>> origin, spacing
>>>>>>>>>>> >>> and size.
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> I attach the main changes I've done, and I would thank you a
>>>>>>>>>>> lot if you
>>>>>>>>>>> >>> don't mind having a look and help me to find what I'm doing
>>>>>>>>>>> wrong:
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>>>>>>> >>> void
>>>>>>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>>>>>>> >::*SetInput*(InputImageType
>>>>>>>>>>> >>> *image)
>>>>>>>>>>> >>> {
>>>>>>>>>>> >>>   // Process object is not const-correct so the const_cast
>>>>>>>>>>> is required
>>>>>>>>>>> >>> here
>>>>>>>>>>> >>>   this->ProcessObject::SetNthInput( 0,
>>>>>>>>>>> >>>                                     const_cast<
>>>>>>>>>>> InputImageType * >(
>>>>>>>>>>> >>> image ) );
>>>>>>>>>>> >>> }
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> template< class TImageType, class TOutputImage >
>>>>>>>>>>> >>> void
>>>>>>>>>>> >>> TextureFeatureImageFilterV2< TImageType, TOutputImage
>>>>>>>>>>> >::*SetMaskImage*(InputImageType
>>>>>>>>>>> >>> *image)
>>>>>>>>>>> >>> {
>>>>>>>>>>> >>>   // Process object is not const-correct so the const_cast
>>>>>>>>>>> is required
>>>>>>>>>>> >>> here
>>>>>>>>>>> >>>   this->ProcessObject::SetNthInput( 1, const_cast<
>>>>>>>>>>> InputImageType * >(
>>>>>>>>>>> >>> image ) );
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>   _maskImage = image; // _maskImage is a private member
>>>>>>>>>>> >>> }
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> In the *ThreadedGenerateData*(const RegionType&
>>>>>>>>>>> outputRegionForThread,
>>>>>>>>>>> >>> ThreadIdType threadId ) method:
>>>>>>>>>>> >>> {
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> ...
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>   for ( fit = faceList.begin(); fit != faceList.end(); ++fit
>>>>>>>>>>> )
>>>>>>>>>>> >>>     {
>>>>>>>>>>> >>>     NeighborhoodIteratorType nIter( radius, input, *fit );
>>>>>>>>>>> >>>     *NeighborhoodIteratorType maskIter( radius, _maskImage,
>>>>>>>>>>> *fit);*
>>>>>>>>>>> >>>     OutputIterator           outIter(output, *fit);
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>     OutputPixelType out;
>>>>>>>>>>> >>>     NumericTraits<OutputPixelType>::SetLength( out,
>>>>>>>>>>> >>> this->GetNumberOfOutputComponents() );
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>     while( !nIter.IsAtEnd() )
>>>>>>>>>>> >>>       {
>>>>>>>>>>> >>>       this->FillHistogram( *histogram, nIter, *maskIter *);
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>       ...
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>       ++nIter;
>>>>>>>>>>> >>>       ++outIter;
>>>>>>>>>>> >>>      * ++maskIter;*
>>>>>>>>>>> >>>     ...
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> In the *FillHistogram *method:
>>>>>>>>>>> >>> {
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> ...
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>   while( iter != m_CooccurenceOffsetVector.end() )
>>>>>>>>>>> >>>     {
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>     const PixelType p1 = niter.GetPixel(iter->first);
>>>>>>>>>>> >>>     const PixelType p2 = niter.GetPixel(iter->second);
>>>>>>>>>>> >>>     std::cout << "Before p3" << std::endl;
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> *    const PixelType p3 = maskIter.GetPixel(iter->first);
>>>>>>>>>>> *std::cout
>>>>>>>>>>> >>> << "After p3: " << p3 << std::endl;
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> *    const PixelType p4 = maskIter.GetPixel(iter->second);
>>>>>>>>>>>  *
>>>>>>>>>>> >>> std::cout << "After p4: " << p4 << std::endl;
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>     if (    p1 >= m_Min && p2 >= m_Min && p1 <= m_Max && p2
>>>>>>>>>>> <= m_Max
>>>>>>>>>>> >>>             *&& p3 == _insidePixelValue && p4 ==
>>>>>>>>>>> _insidePixelValue* )
>>>>>>>>>>> >>> // The point
>>>>>>>>>>> >>>       {
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> ...
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> *THE CODE PRINTS TWICE "BEFORE P3" AND CRASHES.*
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> Thank you so much.
>>>>>>>>>>> >>> My kind regards.
>>>>>>>>>>> >>> /Paco
>>>>>>>>>>> >>>
>>>>>>>>>>> >>> 2016-01-25 12:50 GMT+01:00 Francisco Lopez de la Franca
>>>>>>>>>>> <[hidden email]
>>>>>>>>>>> >>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=2
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588477&i=2>>>:
>>>>>>>>>>> >>>
>>>>>>>>>>> >>>> Hello Bradley again.
>>>>>>>>>>> >>>> Sorry but I'd like to re-open this issue because I need
>>>>>>>>>>> your class but
>>>>>>>>>>> >>>> with some modification.
>>>>>>>>>>> >>>> I pass to tell you.
>>>>>>>>>>> >>>>
>>>>>>>>>>> >>>> As my tests with your external class were not good taking
>>>>>>>>>>> into account
>>>>>>>>>>> >>>> the performance, I wonder if you could create a variant of
>>>>>>>>>>> it, but in which
>>>>>>>>>>> >>>> I can set a mask image and your class just return the
>>>>>>>>>>> VectorImage with all
>>>>>>>>>>> >>>> the features for that region (the masked locations) as
>>>>>>>>>>> >>>> itk::ScalarImageToTextureFeaturesFilter class does.
>>>>>>>>>>> >>>> I mean, to get the vector image with all the features but
>>>>>>>>>>> just
>>>>>>>>>>> >>>> calculate it for the regions belonging to the mask image.
>>>>>>>>>>> Positions not
>>>>>>>>>>> >>>> belonging to the mask region could have a pixel value of 0,
>>>>>>>>>>> for instance.
>>>>>>>>>>> >>>>
>>>>>>>>>>> >>>> I don?t know if it is very costly for you,  but I would
>>>>>>>>>>> thank you so
>>>>>>>>>>> >>>> much. Otherwise, I could try it but I'd need your
>>>>>>>>>>> suggestions on how to do
>>>>>>>>>>> >>>> it.
>>>>>>>>>>> >>>>
>>>>>>>>>>> >>>> Thanks a lot.
>>>>>>>>>>> >>>> Best regards.
>>>>>>>>>>> >>>>
>>>>>>>>>>> >>>> 2015-09-30 23:38 GMT+02:00 Francisco Lopez de la Franca
>>>>>>>>>>> <[hidden email]
>>>>>>>>>>> >>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=3
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588477&i=3>>>:
>>>>>>>>>>> >>>>
>>>>>>>>>>> >>>>> Hello Bradley again,
>>>>>>>>>>> >>>>> I would like to ask you for a couple of favours. In the
>>>>>>>>>>> one hand,
>>>>>>>>>>> >>>>> could you please send me your 3D image so that I can test
>>>>>>>>>>> on it? And on the
>>>>>>>>>>> >>>>> other hand, could you test the example I have referenced
>>>>>>>>>>> in the previous
>>>>>>>>>>> >>>>> email with your image, not changing anything in the code,
>>>>>>>>>>> such as it is,
>>>>>>>>>>> >>>>> and tell me if the execution time is normal?
>>>>>>>>>>> >>>>> Thank you very much.
>>>>>>>>>>> >>>>> Regards,
>>>>>>>>>>> >>>>> /Francisco
>>>>>>>>>>> >>>>>
>>>>>>>>>>> >>>>> PS: All my application trace is printed via standard
>>>>>>>>>>> 'cout' command,
>>>>>>>>>>> >>>>> not due to a debugging compilation mode.
>>>>>>>>>>> >>>>>
>>>>>>>>>>> >>>>>
>>>>>>>>>>> >>>>> El mi?rcoles, 30 de septiembre de 2015, Bradley Lowekamp
>>>>>>>>>>> <[hidden
>>>>>>>>>>> >>>>> email] <
>>>>>>>>>>> http:///user/SendEmail.jtp?type=node&node=7588477&i=4
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588477&i=4>>>
>>>>>>>>>>> >>>>> escribi?:
>>>>>>>>>>> >>>>>
>>>>>>>>>>> >>>>>> Hello,
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> Did you compile TextureFeatureImage in Release mode?
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> 1) The filter does not scale well with a large radius.
>>>>>>>>>>> And given by
>>>>>>>>>>> >>>>>> your initial report of print a very large number of
>>>>>>>>>>> offset you, it sounds
>>>>>>>>>>> >>>>>> like you are using a large radius with many offsets. I
>>>>>>>>>>> created a
>>>>>>>>>>> >>>>>> 224x224x300 unsigned short image and ran with the default
>>>>>>>>>>> offset and a
>>>>>>>>>>> >>>>>> radius of 2 in 5 minutes on my laptop. When I wrote this
>>>>>>>>>>> filter is was ~10x
>>>>>>>>>>> >>>>>> faster than this example... things change though...
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> 2) I sounds like the boundaries/limits of the histogram
>>>>>>>>>>> may be
>>>>>>>>>>> >>>>>> clipping you values. I would inspect the co-occurance
>>>>>>>>>>> matrix.
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> HTH,
>>>>>>>>>>> >>>>>> Brad
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca
>>>>>>>>>>> <[hidden
>>>>>>>>>>> >>>>>> email] <
>>>>>>>>>>> http:///user/SendEmail.jtp?type=node&node=7588477&i=5
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588477&i=5>>>
>>>>>>>>>>> >>>>>> wrote:
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> I've tested with itkTextureFeatureImageFilter, with
>>>>>>>>>>> >>>>>> itk::ScalarImageToTextureFeaturesFilter and also with the
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures
>>>>>>>>>>> example,
>>>>>>>>>>> >>>>>> for a 3D image and here are my comments:
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> 1. I had to interrupt the test after several hours and it
>>>>>>>>>>> kept on
>>>>>>>>>>> >>>>>> calculating. And this is for only a 3D image
>>>>>>>>>>> (224x224x300). I need to
>>>>>>>>>>> >>>>>> process around 35 images.
>>>>>>>>>>> >>>>>> 2. The result (texture features: entropy, energy,
>>>>>>>>>>> correlation, LH,
>>>>>>>>>>> >>>>>> inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0,
>>>>>>>>>>> 0, 7.83083e+247].
>>>>>>>>>>> >>>>>> These values were not what I expected based on my
>>>>>>>>>>> experience on another
>>>>>>>>>>> >>>>>> application I developed, but in that case, I calculated
>>>>>>>>>>> the texture
>>>>>>>>>>> >>>>>> features for an image as a whole, not voxel by voxel.
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> Regards.
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> 2015-09-30 8:46 GMT+02:00 vis <[hidden email]
>>>>>>>>>>> >>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=6
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588477&i=6>>>:
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>>> i yes i have tried radius = 3;
>>>>>>>>>>> >>>>>>> still no luck
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>> On Wed, Sep 30, 2015 at 12:06 PM, Francisco L?pez-Franca
>>>>>>>>>>> [via ITK
>>>>>>>>>>> >>>>>>> Insight
>>>>>>>>>>> >>>>>>> Users] <[hidden email]
>>>>>>>>>>> >>>>>>> <http:///user/SendEmail.jtp?type=node&node=7588477&i=7
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588477&i=7>>> wrote:
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>> > Have you tried with a radius of 3 instead of 1?
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>>>>>>>>>>> >>>>>>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7587961&i=0>>>:
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> >> hey Matt,
>>>>>>>>>>> >>>>>>> >> thanks for ur advice.. it did build successfully...
>>>>>>>>>>> but im not
>>>>>>>>>>> >>>>>>> able to run
>>>>>>>>>>> >>>>>>> >> the code for 2D png image... i tried to change the
>>>>>>>>>>> dimension to 2
>>>>>>>>>>> >>>>>>> and
>>>>>>>>>>> >>>>>>> >> build
>>>>>>>>>>> >>>>>>> >> it which it did.. but when i run the code using the
>>>>>>>>>>> command
>>>>>>>>>>> >>>>>>> >> line itkTextureFeatureImageFilterTest.exe cthead.png
>>>>>>>>>>> putput.png
>>>>>>>>>>> >>>>>>> 1... i see
>>>>>>>>>>> >>>>>>> >> this output
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >> offset: [-1, -1] [0, -1]
>>>>>>>>>>> >>>>>>> >> offset: [0, -1] [1, -1]
>>>>>>>>>>> >>>>>>> >> offset: [-1, 0] [0, 0]
>>>>>>>>>>> >>>>>>> >> offset: [0, 0] [1, 0]
>>>>>>>>>>> >>>>>>> >> offset: [-1, 1] [0, 1]
>>>>>>>>>>> >>>>>>> >> offset: [0, 1] [1, 1] and it asks for abort the
>>>>>>>>>>> program... if pls
>>>>>>>>>>> >>>>>>> tel me
>>>>>>>>>>> >>>>>>> >> how can i modify this code to work wid 2d image...
>>>>>>>>>>> forgive me if
>>>>>>>>>>> >>>>>>> my ques
>>>>>>>>>>> >>>>>>> >> are really silly im trying to learn something..
>>>>>>>>>>> >>>>>>> >> regards
>>>>>>>>>>> >>>>>>> >> Vis
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2
>>>>>>>>>>> [via ITK
>>>>>>>>>>> >>>>>>> Insight Users]
>>>>>>>>>>> >>>>>>> >> <
>>>>>>>>>>> >>>>>>> >> [hidden email] <
>>>>>>>>>>> >>>>>>> http:///user/SendEmail.jtp?type=node&node=7587961&i=1
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7587961&i=1>>>
>>>>>>>>>>> >>>>>>> >> wrote:
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >> > Hi,
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > The function:
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> >   itkTextureFeatureImageFilterTest(int argc, char
>>>>>>>>>>> *argv[])
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > must be renamed to
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> >   main(int argc, char* argv[])
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > HTH,
>>>>>>>>>>> >>>>>>> >> > Matt
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>>>>>>>>>>> >>>>>>> >> > <
>>>>>>>>>>> http:///user/SendEmail.jtp?type=node&node=7587952&i=0
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7587952&i=0>>> wrote:
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > > hi all,
>>>>>>>>>>> >>>>>>> >> > > im trying to build the
>>>>>>>>>>> itkTextureFeatureImageFilterTest.cxx
>>>>>>>>>>> >>>>>>> code but
>>>>>>>>>>> >>>>>>> >> im
>>>>>>>>>>> >>>>>>> >> > not
>>>>>>>>>>> >>>>>>> >> > > able to it is showing the following error
>>>>>>>>>>> >>>>>>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK,
>>>>>>>>>>> >>>>>>> Configuration:
>>>>>>>>>>> >>>>>>> >> Debug
>>>>>>>>>>> >>>>>>> >> > x64
>>>>>>>>>>> >>>>>>> >> > > ------
>>>>>>>>>>> >>>>>>> >> > > 1>  Checking Build System
>>>>>>>>>>> >>>>>>> >> > > 1>  CMake does not need to re-run because
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>>>>>>>>>>> >>>>>>> >> > is
>>>>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>>>>> >>>>>>> >> > > 2>------ Rebuild All started: Project:
>>>>>>>>>>> >>>>>>> >> itkTextureFeatureImageFilterTest,
>>>>>>>>>>> >>>>>>> >> > > Configuration: Debug x64 ------
>>>>>>>>>>> >>>>>>> >> > > 2>  Building Custom Rule
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>>>>>> >>>>>>> >> > > 2>  CMake does not need to re-run because
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>>>>>> >>>>>>> >> > is
>>>>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>>>>> >>>>>>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>>>>>>>>>>> >>>>>>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2176): warning C4996:
>>>>>>>>>>> >>>>>>> 'std::_Copy_impl':
>>>>>>>>>>> >>>>>>> >> > Function
>>>>>>>>>>> >>>>>>> >> > > call with parameters that may be unsafe - this
>>>>>>>>>>> call relies on
>>>>>>>>>>> >>>>>>> the
>>>>>>>>>>> >>>>>>> >> caller
>>>>>>>>>>> >>>>>>> >> > to
>>>>>>>>>>> >>>>>>> >> > > check that the passed values are correct. To
>>>>>>>>>>> disable this
>>>>>>>>>>> >>>>>>> warning, use
>>>>>>>>>>> >>>>>>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on
>>>>>>>>>>> how to use
>>>>>>>>>>> >>>>>>> Visual C++
>>>>>>>>>>> >>>>>>> >> > > 'Checked Iterators'
>>>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft
>>>>>>>>>>> Visual Studio
>>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration
>>>>>>>>>>> of
>>>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
>>>>>>>>>>> >>>>>>> >> > see
>>>>>>>>>>> >>>>>>> >> > > reference to function template instantiation
>>>>>>>>>>> '_OutIt
>>>>>>>>>>> >>>>>>> std::copy<const
>>>>>>>>>>> >>>>>>> >> > > unsigned char*,unsigned
>>>>>>>>>>> char*>(_InIt,_InIt,_OutIt)' being
>>>>>>>>>>> >>>>>>> compiled
>>>>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>>>>> >>>>>>> >> > > 2>              _OutIt=unsigned char *,
>>>>>>>>>>> >>>>>>> >> > > 2>              _InIt=const unsigned char *
>>>>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
>>>>>>>>>>> >>>>>>> >> > > while compiling class template member function
>>>>>>>>>>> 'void
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>>>>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>>>>> >>>>>>> >> > > 2>
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > > : see reference to class template instantiation
>>>>>>>>>>> >>>>>>> >> > > 'itk::ImageFileReader<TOutputImage>' being
>>>>>>>>>>> compiled
>>>>>>>>>>> >>>>>>> >> > > 2>          with
>>>>>>>>>>> >>>>>>> >> > > 2>          [
>>>>>>>>>>> >>>>>>> >> > > 2>              TOutputImage=InputImageType
>>>>>>>>>>> >>>>>>> >> > > 2>          ]
>>>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft
>>>>>>>>>>> Visual Studio
>>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration
>>>>>>>>>>> of
>>>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft
>>>>>>>>>>> Visual Studio
>>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration
>>>>>>>>>>> of
>>>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>>>> >>>>>>> >> > > 2>          C:\Program Files (x86)\Microsoft
>>>>>>>>>>> Visual Studio
>>>>>>>>>>> >>>>>>> >> > > 11.0\VC\include\xutility(2157) : see declaration
>>>>>>>>>>> of
>>>>>>>>>>> >>>>>>> 'std::_Copy_impl'
>>>>>>>>>>> >>>>>>> >> > > 2>     Creating library
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > > and object
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019:
>>>>>>>>>>> unresolved
>>>>>>>>>>> >>>>>>> external symbol
>>>>>>>>>>> >>>>>>> >> > main
>>>>>>>>>>> >>>>>>> >> > > referenced in function __tmainCRTStartup
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > > : fatal error LNK1120: 1 unresolved externals
>>>>>>>>>>> >>>>>>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD,
>>>>>>>>>>> >>>>>>> Configuration: Debug
>>>>>>>>>>> >>>>>>> >> > x64
>>>>>>>>>>> >>>>>>> >> > > ------
>>>>>>>>>>> >>>>>>> >> > > 3>  Building Custom Rule
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>>>>>>>>>>> >>>>>>> >> > > 3>  CMake does not need to re-run because
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>>>>>>>>>>> >>>>>>> >> > is
>>>>>>>>>>> >>>>>>> >> > > up-to-date.
>>>>>>>>>>> >>>>>>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0
>>>>>>>>>>> skipped
>>>>>>>>>>> >>>>>>> ==========
>>>>>>>>>>> >>>>>>> >> > > im using the follwing CMakeList.txt
>>>>>>>>>>> >>>>>>> >> > > # This is the root ITK CMakeLists file.
>>>>>>>>>>> >>>>>>> >> > > cmake_minimum_required(VERSION 2.4)
>>>>>>>>>>> >>>>>>> >> > > if(COMMAND CMAKE_POLICY)
>>>>>>>>>>> >>>>>>> >> > >   cmake_policy(SET CMP0003 NEW)
>>>>>>>>>>> >>>>>>> >> > > endif()
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > > # This project is designed to be built outside
>>>>>>>>>>> the Insight
>>>>>>>>>>> >>>>>>> source
>>>>>>>>>>> >>>>>>> >> tree.
>>>>>>>>>>> >>>>>>> >> > > project(HelloWorld)
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > > # Find ITK.
>>>>>>>>>>> >>>>>>> >> > > find_package(ITK REQUIRED)
>>>>>>>>>>> >>>>>>> >> > > include(${ITK_USE_FILE})
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > > add_executable(itkTextureFeatureImageFilterTest
>>>>>>>>>>> >>>>>>> >> > > itkTextureFeatureImageFilterTest.cxx )
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> target_link_libraries(itkTextureFeatureImageFilterTest
>>>>>>>>>>> >>>>>>> >> ${ITK_LIBRARIES})
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > > please tel me wat the error is??
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > > --
>>>>>>>>>>> >>>>>>> >> > > View this message in context:
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>>>>>>>>>>> >>>>>>> >> > > Sent from the ITK Insight Users mailing list
>>>>>>>>>>> archive at
>>>>>>>>>>> >>>>>>> Nabble.com <http://nabble.com/>.
>>>>>>>>>>> >>>>>>> >> > > _____________________________________
>>>>>>>>>>> >>>>>>> >> > > Powered by www.kitware.com
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > > Visit other Kitware open-source projects at
>>>>>>>>>>> >>>>>>> >> > > http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > > Kitware offers ITK Training Courses, for more
>>>>>>>>>>> information
>>>>>>>>>>> >>>>>>> visit:
>>>>>>>>>>> >>>>>>> >> > > http://www.kitware.com/products/protraining.php
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > > Please keep messages on-topic and check the ITK
>>>>>>>>>>> FAQ at:
>>>>>>>>>>> >>>>>>> >> > > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> >>>>>>> >> > > Follow this link to subscribe/unsubscribe:
>>>>>>>>>>> >>>>>>> >> > >
>>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>> >>>>>>> >> > _____________________________________
>>>>>>>>>>> >>>>>>> >> > Powered by www.kitware.com
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > Visit other Kitware open-source projects at
>>>>>>>>>>> >>>>>>> >> > http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > Kitware offers ITK Training Courses, for more
>>>>>>>>>>> information visit:
>>>>>>>>>>> >>>>>>> >> > http://www.kitware.com/products/protraining.php
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > Please keep messages on-topic and check the ITK FAQ
>>>>>>>>>>> at:
>>>>>>>>>>> >>>>>>> >> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > Follow this link to subscribe/unsubscribe:
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> > ------------------------------
>>>>>>>>>>> >>>>>>> >> > If you reply to this email, your message will be
>>>>>>>>>>> added to the
>>>>>>>>>>> >>>>>>> discussion
>>>>>>>>>>> >>>>>>> >> > below:
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587952.html
>>>>>>>>>>> >>>>>>> >> > To unsubscribe from [ITK-users] Texture pixel by
>>>>>>>>>>> pixel, click
>>>>>>>>>>> >>>>>>> here
>>>>>>>>>>> >>>>>>> >> > < > .
>>>>>>>>>>> >>>>>>> >> > NAML
>>>>>>>>>>> >>>>>>> >> > <
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >> >
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >> --
>>>>>>>>>>> >>>>>>> >> View this message in context:
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587960.html
>>>>>>>>>>> >>>>>>> >> Sent from the ITK Insight Users mailing list archive
>>>>>>>>>>> at
>>>>>>>>>>> >>>>>>> Nabble.com <http://nabble.com/>.
>>>>>>>>>>> >>>>>>> >> _____________________________________
>>>>>>>>>>> >>>>>>> >> Powered by www.kitware.com
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >> Visit other Kitware open-source projects at
>>>>>>>>>>> >>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >> Kitware offers ITK Training Courses, for more
>>>>>>>>>>> information visit:
>>>>>>>>>>> >>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >> Please keep messages on-topic and check the ITK FAQ
>>>>>>>>>>> at:
>>>>>>>>>>> >>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>> >>>>>>> >>
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> > _____________________________________
>>>>>>>>>>> >>>>>>> > Powered by www.kitware.com
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> > Visit other Kitware open-source projects at
>>>>>>>>>>> >>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> > Kitware offers ITK Training Courses, for more
>>>>>>>>>>> information visit:
>>>>>>>>>>> >>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>>> >>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> > ------------------------------
>>>>>>>>>>> >>>>>>> > If you reply to this email, your message will be added
>>>>>>>>>>> to the
>>>>>>>>>>> >>>>>>> discussion
>>>>>>>>>>> >>>>>>> > below:
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587961.html
>>>>>>>>>>> >>>>>>> > To unsubscribe from [ITK-users] Texture pixel by
>>>>>>>>>>> pixel, click here
>>>>>>>>>>> >>>>>>> > < > .
>>>>>>>>>>> >>>>>>> > NAML
>>>>>>>>>>> >>>>>>> > <
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>> >
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>> --
>>>>>>>>>>> >>>>>>> View this message in context:
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587963.html
>>>>>>>>>>> >>>>>>> Sent from the ITK Insight Users mailing list archive at
>>>>>>>>>>> Nabble.com <http://nabble.com/>.
>>>>>>>>>>> >>>>>>> _____________________________________
>>>>>>>>>>> >>>>>>> Powered by www.kitware.com
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>> Visit other Kitware open-source projects at
>>>>>>>>>>> >>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>> Kitware offers ITK Training Courses, for more
>>>>>>>>>>> information visit:
>>>>>>>>>>> >>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>>> >>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>>>>> >>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>> >>>>>>>
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> _____________________________________
>>>>>>>>>>> >>>>>> Powered by www.kitware.com
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> Visit other Kitware open-source projects at
>>>>>>>>>>> >>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> Kitware offers ITK Training Courses, for more information
>>>>>>>>>>> visit:
>>>>>>>>>>> >>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>>> >>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>>>>> >>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>>>
>>>>>>>>>>> >>>>
>>>>>>>>>>> >>>
>>>>>>>>>>> >>
>>>>>>>>>>> >> _____________________________________
>>>>>>>>>>> >> Powered by www.kitware.com
>>>>>>>>>>> >>
>>>>>>>>>>> >> Visit other Kitware open-source projects at
>>>>>>>>>>> >> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>> >>
>>>>>>>>>>> >> Kitware offers ITK Training Courses, for more information
>>>>>>>>>>> visit:
>>>>>>>>>>> >> http://www.kitware.com/products/protraining.php
>>>>>>>>>>> >>
>>>>>>>>>>> >> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>>> >> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>> >>
>>>>>>>>>>> >> Follow this link to subscribe/unsubscribe:
>>>>>>>>>>> >> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>> >>
>>>>>>>>>>> >>
>>>>>>>>>>> >
>>>>>>>>>>> > _____________________________________
>>>>>>>>>>> > Powered by www.kitware.com
>>>>>>>>>>> >
>>>>>>>>>>> > Visit other Kitware open-source projects at
>>>>>>>>>>> > http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>> >
>>>>>>>>>>> > Kitware offers ITK Training Courses, for more information
>>>>>>>>>>> visit:
>>>>>>>>>>> > http://www.kitware.com/products/protraining.php
>>>>>>>>>>> >
>>>>>>>>>>> > Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>>>> > http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>>> >
>>>>>>>>>>> > Follow this link to subscribe/unsubscribe:
>>>>>>>>>>> > http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>>>>> >
>>>>>>>>>>> >
>>>>>>>>>>> > ------------------------------
>>>>>>>>>>> > If you reply to this email, your message will be added to the
>>>>>>>>>>> discussion
>>>>>>>>>>> > below:
>>>>>>>>>>> >
>>>>>>>>>>> >
>>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588477.html
>>>>>>>>>>> > To start a new topic under ITK Insight Users, email
>>>>>>>>>>> > [hidden email]
>>>>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588490&i=2>
>>>>>>>>>>> > To unsubscribe from ITK Insight Users, click here
>>>>>>>>>>> > < > .
>>>>>>>>>>> > NAML
>>>>>>>>>>> > <
>>>>>>>>>>> http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml
>>>>>>>>>>> >
>>>>>>>>>>> >
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> --
>>>>>>>>>>> View this message in context:
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>>>>>>>>>>> _____________________________________
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>>>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>>
>>>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>>>
>>>>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
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>>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> _____________________________________
>>>>>>>>> Powered by www.kitware.com
>>>>>>>>>
>>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>>
>>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>>
>>>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>>>
>>>>>>>>> Follow this link to subscribe/unsubscribe:
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>>>>>>>>
>>>>>>>> _____________________________________
>>>>>>>> Powered by www.kitware.com
>>>>>>>>
>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>
>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>>
>>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
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>>>>>>>> Follow this link to subscribe/unsubscribe:
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>>>>>>>> ------------------------------
>>>>>>>> If you reply to this email, your message will be added to the
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>>>>>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>>>>>> <http://user/SendEmail.jtp?type=node&node=7588505&i=3>
>>>>>>>> To unsubscribe from ITK Insight Users, click here.
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>>>>>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> _____________________________________
>>>>>>> Powered by www.kitware.com
>>>>>>>
>>>>>>> Visit other Kitware open-source projects at
>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>
>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>
>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>
>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>>
>>>>>>>
>>>>>> <tester.cpp>_____________________________________
>>>>>> Powered by www.kitware.com
>>>>>>
>>>>>> Visit other Kitware open-source projects at
>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>
>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>
>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>
>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
>>>>>>
>>>>>>
>>>>>>
>>>>>> _____________________________________
>>>>>> Powered by www.kitware.com
>>>>>>
>>>>>> Visit other Kitware open-source projects at
>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>
>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>
>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>
>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> http://public.kitware.com/mailman/listinfo/insight-users
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>>>>>>
>>>>>> ------------------------------
>>>>>> If you reply to this email, your message will be added to the
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>>>>>>
>>>>>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7588505.html
>>>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>>>> <http://user/SendEmail.jtp?type=node&node=7588513&i=2>
>>>>>> To unsubscribe from ITK Insight Users, click here.
>>>>>> NAML
>>>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>>>
>>>>>
>>>>>
>>>>> _____________________________________
>>>>> Powered by www.kitware.com
>>>>>
>>>>> Visit other Kitware open-source projects at
>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>
>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>> http://www.kitware.com/products/protraining.php
>>>>>
>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>
>>>>> Follow this link to subscribe/unsubscribe:
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>>>>>
>>>>
>>>> _____________________________________
>>>> Powered by www.kitware.com
>>>>
>>>> Visit other Kitware open-source projects at
>>>> http://www.kitware.com/opensource/opensource.html
>>>>
>>>> Kitware offers ITK Training Courses, for more information visit:
>>>> http://www.kitware.com/products/protraining.php
>>>>
>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>> http://www.itk.org/Wiki/ITK_FAQ
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>>>>
>>>> ------------------------------
>>>> If you reply to this email, your message will be added to the
>>>> discussion below:
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>>>> To start a new topic under ITK Insight Users, email [hidden email]
>>>> <http://user/SendEmail.jtp?type=node&node=7588516&i=2>
>>>> To unsubscribe from ITK Insight Users, click here.
>>>> NAML
>>>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>>>
>>>
>>>
>>> _____________________________________
>>> Powered by www.kitware.com
>>>
>>> Visit other Kitware open-source projects at
>>> http://www.kitware.com/opensource/opensource.html
>>>
>>> Kitware offers ITK Training Courses, for more information visit:
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>>>
>>> Please keep messages on-topic and check the ITK FAQ at:
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>>
>> _____________________________________
>> Powered by www.kitware.com
>>
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>>
>> Kitware offers ITK Training Courses, for more information visit:
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>> <http:///user/SendEmail.jtp?type=node&node=7588531&i=2>
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>> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
>>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
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>
>
> _____________________________________
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>
> Visit other Kitware open-source projects at
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>
> Kitware offers ITK Training Courses, for more information visit:
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> Please keep messages on-topic and check the ITK FAQ at:
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> ml-node+s2283740n2283740h75 at n2.nabble.com
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> NAML
> <http://itk-insight-users.2283740.n2.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml>
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From noreply at insightsoftwareconsortium.org  Mon Feb 22 09:39:04 2016
From: noreply at insightsoftwareconsortium.org (MIDAS Journal)
Date: Mon, 22 Feb 2016 09:39:04 -0500 (EST)
Subject: [ITK-users] New Submission: A Multi-atlas Approach for the
	Automatic Segmentation of Multiple Structures in Head and
	Neck CT Images
Message-ID: <20160222143904.60C233D6207F@insight-journal.org>

Hello,

A new submission has been added to the MIDAS Journal.

Title: A Multi-atlas Approach for the Automatic Segmentation of Multiple Structures in Head and Neck CT Images
Authors: Chen A., Dawant B.
Abstract: A multi-atlas approach is proposed for the automatic segmentation of nine different structures in a set of head and neck CT images for radiotherapy. The approach takes advantage of a training dataset of 25 images to build average head and neck atlases of high-quality. By registering patient images with the atlases at the global level, structures of interest are aligned approximately in space, which allowed multi-atlas-based segmentations and correlation-based label fusion to be performed at the local level in the following steps. Qualitative and quantitative evaluations are performed on a set of 15 testing images. As shown by the results, mandible, brainstem and parotid glands are segmented accurately (mean volume DSC>0.8). The segmentation accuracy for the optic nerves is also improved over previously reported results (mean DSC above 0.61 compared with 0.52 for previous results). 

Download and review this publication at: http://hdl.handle.net/10380/3540

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From noreply at insightsoftwareconsortium.org  Mon Feb 22 09:39:43 2016
From: noreply at insightsoftwareconsortium.org (MIDAS Journal)
Date: Mon, 22 Feb 2016 09:39:43 -0500 (EST)
Subject: [ITK-users] New Submission: Head and Neck Auto Segmentation
	Challenge based on Non-Local Generative Models
Message-ID: <20160222143943.DD15E3D6220D@insight-journal.org>

Hello,

A new submission has been added to the MIDAS Journal.

Title: Head and Neck Auto Segmentation Challenge based on Non-Local Generative Models
Authors: Orbes Arteaga M., Cardenas Pe??a D., Castellanos Dominguez G.
Abstract:  We have presented a novel patch label fusion method based on a generative probabilistic approach for weighting the label votes of the neighborhood patches. Additionally a 3D sliding Gaussian window is used to combine the multiples estimations of the overlapping neighborhoods. The proposed method obtained 0.85, 0.93, and 0.76 of average DSC for Brainstem, Mandible, and Parotid glangs respectively.

Download and review this publication at: http://hdl.handle.net/10380/3539

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From noreply at insightsoftwareconsortium.org  Mon Feb 22 09:42:03 2016
From: noreply at insightsoftwareconsortium.org (MIDAS Journal)
Date: Mon, 22 Feb 2016 09:42:03 -0500 (EST)
Subject: [ITK-users] New Submission: Head and Neck Auto Segmentation
	Challenge based on Non-Local Generative Models
Message-ID: <20160222144203.1494F3D62102@insight-journal.org>

Hello,

A new submission has been added to the MIDAS Journal.

Title: Head and Neck Auto Segmentation Challenge based on Non-Local Generative Models
Authors: Orbes Arteaga M., C??rdenas Pe??a D., Castellanos Dominguez G.
Abstract:  We have presented a novel patch label fusion method based on generative probabilistic approach for weighting the label votes of the neighborhood patches, additionally a 3D sliding Gaussian window is used to combine the multiples estimations of the overlapping neighborhoods. The proposed method obtained 0.85, 0.93, and 0.76 of average DSC for Brainstem, Mandible, and Parotid glangs respectively. 

Download and review this publication at: http://hdl.handle.net/10380/3538

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From noreply at insightsoftwareconsortium.org  Mon Feb 22 09:42:51 2016
From: noreply at insightsoftwareconsortium.org (MIDAS Journal)
Date: Mon, 22 Feb 2016 09:42:51 -0500 (EST)
Subject: [ITK-users] New Submission: Fully Automatic Segmentation of Head
	and Neck Organs using Active Appearance Models
Message-ID: <20160222144251.C20E63D62177@insight-journal.org>

Hello,

A new submission has been added to the MIDAS Journal.

Title: Fully Automatic Segmentation of Head and Neck Organs using Active Appearance Models
Authors: Mannion-Haworth R., Bowes M., Ashman A., Guillard G., Brett A., Vincent G.
Abstract: We present a fully automatic model based system for segmenting the mandible, parotid and submandibular glands, brainstem, optic nerves and the optic chiasm in CT images, which won the MICCAI 2015 Head and Neck Auto Segmentation Grand Challenge. The method is based on Active Appearance Models (AAM) built from manually segmented examples via a cancer imaging archive provided by the challenge organisers. High quality anatomical correspondences for the models are generated using a Minimum Description Length (MDL) Groupwise Image Registration method. A multi start optimisation scheme is used to robustly match the model to new images. The model has been cross validated on the training data to a good degree of accuracy, and successfully segmented all the test data. 


Download and review this publication at: http://hdl.handle.net/10380/3537

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From noreply at insightsoftwareconsortium.org  Mon Feb 22 09:43:41 2016
From: noreply at insightsoftwareconsortium.org (MIDAS Journal)
Date: Mon, 22 Feb 2016 09:43:41 -0500 (EST)
Subject: [ITK-users] New Submission: Multi Atlas Segmentation with Active
	Shape Model Refinement for Multi-Organ Segmentation in Head
	and Neck Cancer Radiotherapy Planning
Message-ID: <20160222144341.7D7DA3D622EB@insight-journal.org>

Hello,

A new submission has been added to the MIDAS Journal.

Title: Multi Atlas Segmentation with Active Shape Model Refinement for Multi-Organ Segmentation in Head and Neck Cancer Radiotherapy Planning
Authors: Albrecht T., Gass T., Langguth C., L??thi M.
Abstract: We describe a segmentation method that was used in the Head and Neck Auto Segmentation Challenge held at the MICCAI 2015 conference. The algorithm consists of two building blocks. First, we employ a multi-atlas segmentation to obtain an initial segmentation for the considered organs at risk. Secondly, we use an Active Shape Model (ASM) segmentation to refine the initial segmentation of some of the organs. Leave-one-out experiments with the training data were used to determine suitable parameters for the individual steps of the segmentation. The ASM refinement resulted in improved segmentation for the optic nerves and submandibular glands, while for the brain stem, parotid glands, chiasm, and mandibular bone, the multi-atlas segmentation was preferable. Our submission achieved the second rank in the challenge.

Download and review this publication at: http://hdl.handle.net/10380/3531

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From kolin9105 at gmail.com  Mon Feb 22 13:34:30 2016
From: kolin9105 at gmail.com (meikolin saimara)
Date: Tue, 23 Feb 2016 01:34:30 +0700
Subject: [ITK-users] (no subject)
Message-ID: <CAEiw7u5kV1KBJMEiRerLopt=3-J8cmsRVDoS+_Df=jkNKqHkCQ@mail.gmail.com>

hello guys I need your help.
 I have a image of head with brain tumor and I want to analyze the area of
the brain tumor
now my problem is how I can find it without visualization.
I just use ITK library
can you give sourcecode for this??
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From dzenanz at gmail.com  Mon Feb 22 13:51:15 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Mon, 22 Feb 2016 13:51:15 -0500
Subject: [ITK-users] (no subject)
In-Reply-To: <CAEiw7u5kV1KBJMEiRerLopt=3-J8cmsRVDoS+_Df=jkNKqHkCQ@mail.gmail.com>
References: <CAEiw7u5kV1KBJMEiRerLopt=3-J8cmsRVDoS+_Df=jkNKqHkCQ@mail.gmail.com>
Message-ID: <CAPf2UMTooKjcVpQQhrVBDcWNkXifPh4oxcPxJS0LCgnzfYfV1w@mail.gmail.com>

Hi Saimara,

what you want to do is called image segmentation
<https://en.wikipedia.org/wiki/Image_segmentation>. How to do it is an open
question in science. Open means there is no universally accepted solution,
there are only partial solutions which work well for some case or which
partially work for most cases. ITK has many algorithms which do basic image
processing operations, and it is your task to assemble them into a program
which solves your problem (brain tumor segmentation).

One way to get going is to pick an introduction
<http://www.cs.toronto.edu/~jepson/csc2503/segmentation.pdf>, read it and
then try writing source code which implements one method. ITK has many
basic operations (like Gaussian blurring, watershed calculation etc)
already implemented.

Regards,
D?enan

On Mon, Feb 22, 2016 at 1:34 PM, meikolin saimara <kolin9105 at gmail.com>
wrote:

> hello guys I need your help.
>  I have a image of head with brain tumor and I want to analyze the area of
> the brain tumor
> now my problem is how I can find it without visualization.
> I just use ITK library
> can you give sourcecode for this??
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
>
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From gunjan_naik at persistent.com  Wed Feb 24 00:34:38 2016
From: gunjan_naik at persistent.com (Gunjan Naik)
Date: Wed, 24 Feb 2016 05:34:38 +0000
Subject: [ITK-users] Issue with Seed points in Geodesic Active contour
In-Reply-To: <CAPf2UMRt3N6q2LiidwwKO4Bm7WhRqheVsOv_qJZJj9MoxXQeXw@mail.gmail.com>
References: <SG2PR04MB12463AA9590DA6F3A5D5B788FBD60@SG2PR04MB1246.apcprd04.prod.outlook.com>
 <CAPf2UMS_E3ONdE4ajOR3MxoLGa8xi6ctuXncbFwiS0GpJK+akA@mail.gmail.com>
 <SG2PR04MB1246CAE80A09392277BF81B1FBAD0@SG2PR04MB1246.apcprd04.prod.outlook.com>
 <CAPf2UMRt3N6q2LiidwwKO4Bm7WhRqheVsOv_qJZJj9MoxXQeXw@mail.gmail.com>
Message-ID: <SG2PR04MB1246C2A1ECCF3564BB5E22F7FBA50@SG2PR04MB1246.apcprd04.prod.outlook.com>

Thanks D?enan.

It worked after I set origin to (0,0).

Regards,
Gunjan Naik

Gunjan G. Naik | Persistent LABS | PhD Student ? University of Pune
gunjan_naik at persistent.com<mailto:gunjan_naik at persistent.com> | Cell: +91-8087996979 | Tel: +91-20-670 34878
Persistent Systems Ltd. | Partners in Innovation | www.persistent.com<http://www.persistent.com/>

From: D?enan Zuki? [mailto:dzenanz at gmail.com]
Sent: Tuesday, February 16, 2016 8:46 PM
To: Gunjan Naik <gunjan_naik at persistent.com>
Cc: insight-users at itk.org
Subject: Re: [ITK-users] Issue with Seed points in Geodesic Active contour

Hi Naik,

with directions being identity matrix and

Size: [240, 240, 155]
Spacing: [1, 1, 1]
Origin: [0, -239, 0]

the physical extent of your image is x: -0.5 to 239.5, y: -239.5 to 0.5 and z: -0.5 to 154.5 (all millimeters). In other words, x and z are positive, while y is negative.

HTH,
D?enan

On Tue, Feb 16, 2016 at 7:40 AM, Gunjan Naik <gunjan_naik at persistent.com<mailto:gunjan_naik at persistent.com>> wrote:
Hi D?enan

I am using T1 weighted brain tumor image from BRATS challenge.

The meta information is as follows:
Image (00000000193D62F0)
  RTTI typeinfo:   class itk::Image<short,3>
  Reference Count: 1
  Modified Time: 1194
  Debug: Off
  Object Name:
  Observers:
    none
  Source: (none)
  Source output name: (none)
  Release Data: Off
  Data Released: False
  Global Release Data: Off
  PipelineMTime: 1034
  UpdateMTime: 1193
  RealTimeStamp: 0 seconds
  LargestPossibleRegion:
    Dimension: 3
    Index: [0, 0, 0]
    Size: [240, 240, 155]
  BufferedRegion:
    Dimension: 3
    Index: [0, 0, 0]
    Size: [240, 240, 155]
  RequestedRegion:
    Dimension: 3
    Index: [0, 0, 0]
    Size: [240, 240, 155]
  Spacing: [1, 1, 1]
  Origin: [0, -239, 0]
  Direction:
1 0 0
0 1 0
0 0 1

  IndexToPointMatrix:
1 0 0
0 1 0
0 0 1

  PointToIndexMatrix:
1 0 0
0 1 0
0 0 1

  Inverse Direction:
1 0 0
0 1 0
0 0 1

  PixelContainer:
    ImportImageContainer (000000001917BD50)
      RTTI typeinfo:   class itk::ImportImageContainer<unsigned __int64,short>
      Reference Count: 1
      Modified Time: 1190
      Debug: Off
      Object Name:
      Observers:
        none
      Pointer: 000000001B8E0040
      Container manages memory: true
      Size: 8928000
      Capacity: 8928000

I am passing co-ordinate to tumor region using Opencv.

Thanks and Regards,
Gunjan Naik

Gunjan G. Naik | Persistent LABS | PhD Student ? University of Pune
gunjan_naik at persistent.com<mailto:gunjan_naik at persistent.com> | Cell: +91-8087996979<tel:%2B91-8087996979> | Tel: +91-20-670 34878
Persistent Systems Ltd. | Partners in Innovation | www.persistent.com<http://www.persistent.com/>

From: D?enan Zuki? [mailto:dzenanz at gmail.com<mailto:dzenanz at gmail.com>]
Sent: Tuesday, February 09, 2016 8:53 PM
To: Gunjan Naik <gunjan_naik at persistent.com<mailto:gunjan_naik at persistent.com>>
Cc: insight-users at itk.org<mailto:insight-users at itk.org>
Subject: Re: [ITK-users] Issue with Seed points in Geodesic Active contour

Hi Naik,

you should provide your image's meta-information e.g. by:
std::cout<<theImageInQuestion;
as well as coordinates of the point which you try to pass. Then we will be able to tell you what is wrong.

Regards,
D?enan

On Tue, Feb 9, 2016 at 1:12 AM, Gunjan Naik <gunjan_naik at persistent.com<mailto:gunjan_naik at persistent.com>> wrote:
Hi All,

I am using geodesic active contour for brain tumor segmentation.

In that, I have to give seed points for creating level set.

I have calculated seed points using opencv, but when I input these points using ?TransformPhysicalPointToIndex? it throws error stating that index out of bounds.

It works for only points [(0,0)].

Please provide me directions.

Thanks and Regards,
Gunjan Naik


Gunjan G. Naik | Persistent LABS | PhD Student ? University of Pune
gunjan_naik at persistent.com<mailto:gunjan_naik at persistent.com> | Cell: +91-8087996979<tel:%2B91-8087996979> | Tel: +91-20-670 34878
Persistent Systems Ltd. | Partners in Innovation | www.persistent.com<http://www.persistent.com/>


DISCLAIMER ========== This e-mail may contain privileged and confidential information which is the property of Persistent Systems Ltd. It is intended only for the use of the individual or entity to which it is addressed. If you are not the intended recipient, you are not authorized to read, retain, copy, print, distribute or use this message. If you have received this communication in error, please notify the sender and delete all copies of this message. Persistent Systems Ltd. does not accept any liability for virus infected mails.

_____________________________________
Powered by www.kitware.com<http://www.kitware.com>

Visit other Kitware open-source projects at
http://www.kitware.com/opensource/opensource.html

Kitware offers ITK Training Courses, for more information visit:
http://www.kitware.com/products/protraining.php

Please keep messages on-topic and check the ITK FAQ at:
http://www.itk.org/Wiki/ITK_FAQ

Follow this link to subscribe/unsubscribe:
http://public.kitware.com/mailman/listinfo/insight-users


DISCLAIMER ========== This e-mail may contain privileged and confidential information which is the property of Persistent Systems Ltd. It is intended only for the use of the individual or entity to which it is addressed. If you are not the intended recipient, you are not authorized to read, retain, copy, print, distribute or use this message. If you have received this communication in error, please notify the sender and delete all copies of this message. Persistent Systems Ltd. does not accept any liability for virus infected mails.


DISCLAIMER
==========
This e-mail may contain privileged and confidential information which is the property of Persistent Systems Ltd. It is intended only for the use of the individual or entity to which it is addressed. If you are not the intended recipient, you are not authorized to read, retain, copy, print, distribute or use this message. If you have received this communication in error, please notify the sender and delete all copies of this message. Persistent Systems Ltd. does not accept any liability for virus infected mails.

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From andinet.enqu at kitware.com  Thu Feb 25 07:50:19 2016
From: andinet.enqu at kitware.com (Andinet Enquobahrie)
Date: Thu, 25 Feb 2016 07:50:19 -0500
Subject: [ITK-users] ANN: Medical Computing Group at Kitware is hiring R&D
 engineers and technical leads in image analysis and visualization
Message-ID: <CANrU59_ENjQMu-0KR4tKvjif4VsxCp64Q71-oEVvb7sZ5tRgLw@mail.gmail.com>

Apologies for duplicate postings.

===================

Hi folks,

We are looking to hire talented individuals for image guided
intervention and image analysis and visualization application
development in our Medical Computing group. We have four job
opportunities

Technical Lead in Biomedical Image Analysis and Visualization
http://tinyurl.com/jx3cgnc

Image-Guided Intervention Applications Research and Development Engineer
http://tinyurl.com/zxlpyyj

Biomechanical Modeling and Surgical Simulation Research and Development Engineer
http://tinyurl.com/jtsnf2y

Research and Development Involving Machine Learning and Medical Image Analysis
http://tinyurl.com/hy58kq8

For other job openings at Kitware, please check
http://jobs.kitware.com/opportunities.html





-- 
Andinet Enquobahrie, Ph.D., MBA
Assistant Director of Medical Computing
Kitware, Inc.

http://www.kitware.com
(919) 969-6990 x311

From noreply at insightsoftwareconsortium.org  Sat Feb 27 19:52:54 2016
From: noreply at insightsoftwareconsortium.org (Insight Journal)
Date: Sat, 27 Feb 2016 19:52:54 -0500 (EST)
Subject: [ITK-users] New Submission: ITK in Biomedical Research and
	Commercial Applications
Message-ID: <20160228005254.5A5E73D620A7@insight-journal.org>

Hello,

A new submission has been added to the Insight Journal.

Title: ITK in Biomedical Research and Commercial Applications
Authors: McCormick M., Aylward S., Johnson H., Lowekamp B.
Abstract: The Insight Segmentation and Registration Toolkit (www.itk.org) has become a standard in academia and industry for medical image analysis. In recent years, the ITK developers' community has focused on providing programming interfaces to ITK from Python, Java, and Javascript and making ITK available via leading applications such as Slicer and ImageJ. In this course we present best practices for taking advantage of ITK in your imaging research and commercial products. We demonstrate how script writing and interactive GUIs can be used to access the algorithms in ITK and the multitude of ITK extensions that are freely available on the web. We also cover the opportunities and challenges with using open-source software in research and in commercial applications: from prototypes that can lead to venture capital funding to applications for first-in-human trials and ultimately for regulatory approval.

Download and review this publication at: http://hdl.handle.net/10380/3542

Generated by the Insight Journal

You are receiving this email because you asked to be informed by the Insight Journal for new submissions. To change your email preference visit http://insight-journal.org/ .

From jothybasu at gmail.com  Sun Feb 28 19:53:03 2016
From: jothybasu at gmail.com (Jothybasu Selvaraj)
Date: Mon, 29 Feb 2016 11:53:03 +1100
Subject: [ITK-users] Error downloading data from Midas
Message-ID: <CAKuw5X1MZYLLCrdetX0tFpuA5+PcoNLOFfwQeG7_4fk+zjad5Q@mail.gmail.com>

Dear All

I am trying to build ITK with fftw and fftd but I get the following error
 saying it could not connect to the server while building.

I use mingw32-make. i tried even enabling the CMAKE_USE_OPENSSL. I use
cmake 3.50rc3.

Any hints?

The errors message is:

D:\Libs\ITK\Build>mingw32-make install
[  0%] Built target ITKData
Scanning dependencies of target fftwd
[  0%] Creating directories for 'fftwd'
[  0%] Performing download step (download, verify and extract) for 'fftwd'
-- downloading...
     src='
http://midas3.kitware.com/midas/api/rest?method=midas.bitstream.downlo
ad&checksum=2edab8c06b24feeb3b82bbb3ebf3e7b3&name=fftw-3.3.4.tar.gz'
     dst='D:/Libs/ITK/Build/fftwd/src/fftw-3.3.4.tar.gz'
     timeout='none'
CMake Error at fftwd-stamp/download-fftwd.cmake:27 (message):
  error: downloading
  '
http://midas3.kitware.com/midas/api/rest?method=midas.bitstream.download&chec
ksum=2edab8c06b24feeb3b82bbb3ebf3e7b3&name=fftw-3.3.4.tar.gz'
  failed

    status_code: 7
    status_string: "Couldn't connect to server"
    log: timeout on name lookup is not supported
    Trying 50.58.123.181...

  connect to 50.58.123.181 port 80 failed: Timed out

  Failed to connect to midas3.kitware.com port 80: Timed out

  Closing connection 0


Thanks

Jothy
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From dzenanz at gmail.com  Mon Feb 29 11:43:06 2016
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Mon, 29 Feb 2016 11:43:06 -0500
Subject: [ITK-users] Error downloading data from Midas
In-Reply-To: <CAKuw5X1MZYLLCrdetX0tFpuA5+PcoNLOFfwQeG7_4fk+zjad5Q@mail.gmail.com>
References: <CAKuw5X1MZYLLCrdetX0tFpuA5+PcoNLOFfwQeG7_4fk+zjad5Q@mail.gmail.com>
Message-ID: <CAPf2UMQLtUpgQd=rO9nhaZXOsNkuP9NM=ohaRboT+fW5gDcV+Q@mail.gmail.com>

I can download it now. Maybe it was a temporary unavailability (power down,
network down). Can you try again?

On Sun, Feb 28, 2016 at 7:53 PM, Jothybasu Selvaraj <jothybasu at gmail.com>
wrote:

> Dear All
>
> I am trying to build ITK with fftw and fftd but I get the following error
>  saying it could not connect to the server while building.
>
> I use mingw32-make. i tried even enabling the CMAKE_USE_OPENSSL. I use
> cmake 3.50rc3.
>
> Any hints?
>
> The errors message is:
>
> D:\Libs\ITK\Build>mingw32-make install
> [  0%] Built target ITKData
> Scanning dependencies of target fftwd
> [  0%] Creating directories for 'fftwd'
> [  0%] Performing download step (download, verify and extract) for 'fftwd'
> -- downloading...
>      src='
> http://midas3.kitware.com/midas/api/rest?method=midas.bitstream.downlo
> ad&checksum=2edab8c06b24feeb3b82bbb3ebf3e7b3&name=fftw-3.3.4.tar.gz'
>      dst='D:/Libs/ITK/Build/fftwd/src/fftw-3.3.4.tar.gz'
>      timeout='none'
> CMake Error at fftwd-stamp/download-fftwd.cmake:27 (message):
>   error: downloading
>   '
> http://midas3.kitware.com/midas/api/rest?method=midas.bitstream.download&chec
> ksum=2edab8c06b24feeb3b82bbb3ebf3e7b3&name=fftw-3.3.4.tar.gz'
>   failed
>
>     status_code: 7
>     status_string: "Couldn't connect to server"
>     log: timeout on name lookup is not supported
>     Trying 50.58.123.181...
>
>   connect to 50.58.123.181 port 80 failed: Timed out
>
>   Failed to connect to midas3.kitware.com port 80: Timed out
>
>   Closing connection 0
>
>
> Thanks
>
> Jothy
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://public.kitware.com/mailman/listinfo/insight-users
>
>
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