From carminepagliaro at gmail.com  Sun Nov  1 05:48:44 2015
From: carminepagliaro at gmail.com (Carmine Pagliaro)
Date: Sun, 1 Nov 2015 11:48:44 +0100
Subject: [ITK-users] (no subject)
In-Reply-To: <CALA4QTjd7e=Bt2ZhoiV7Lg2nM=3skaRtn--i-26OvuyhsG1QbQ@mail.gmail.com>
References: <CALA4QThEPAgh9J=jUVRXN5VZUUDKYsN-T2v+no2TzRpfTZQk1A@mail.gmail.com>
 <CALzTN-QnHH6ngXA4ukPSZNQLETopzEFgu=VtriCn3+pOHYmjQA@mail.gmail.com>
 <CALA4QTjNgLCyz7665jfJJ_BPQRmOxA2cX-mWFtVQXx6Lf0Suzw@mail.gmail.com>
 <CAPf2UMTyS9Y_hpDToZgBfACLv-aSdUz+5zCPXr+t5bUYtauphA@mail.gmail.com>
 <CALA4QTgzcke68Dhfgmbw9uMUhobWc-2w1=PgMTB42V73wXN5Zg@mail.gmail.com>
 <CALzTN-RTyN=TBpKgV0we_mr58OmxUCzaSsL3caEPpk9789RLVA@mail.gmail.com>
 <CALA4QTjd7e=Bt2ZhoiV7Lg2nM=3skaRtn--i-26OvuyhsG1QbQ@mail.gmail.com>
Message-ID: <CALA4QTgBPzif0qJ+YSekbhp0s4Oe_-v+F6yBOkvmAV+16cQ6xQ@mail.gmail.com>

very very complicated

2015-10-31 17:51 GMT+01:00 Carmine Pagliaro <carminepagliaro at gmail.com>:

> ok
>
> 2015-10-31 17:49 GMT+01:00 Matt McCormick <matt.mccormick at kitware.com>:
>
>> Hi Carmine,
>>
>> Use the existing optimizer classes as an example, and examine the API
>> and its descriptions in the Doxygen documentation.
>>
>> HTH,
>> Matt
>>
>> On Sat, Oct 31, 2015 at 12:07 PM, Carmine Pagliaro
>> <carminepagliaro at gmail.com> wrote:
>> > oh yes but, I would know how can I create a new one. i.e
>> > RegularStepGradientDescentBaseOptimizer becomes MyPersonalOptimizer. in
>> this
>> > class i'll write my personal algorithm.
>> >
>> > 2015-10-31 16:54 GMT+01:00 D?enan Zuki? <dzenanz at gmail.com>:
>> >>
>> >> You should probably look at one of the registration examples to see
>> how an
>> >> optimizer is used:
>> >> http://itk.org/Wiki/ITK/Examples/Included/Registration
>> >>
>> >> HTH
>> >>
>> >> On Sat, Oct 31, 2015 at 7:07 AM, Carmine Pagliaro
>> >> <carminepagliaro at gmail.com> wrote:
>> >>>
>> >>> Thank you for the reply, Dr. McCormick.
>> >>> But that not help me.
>> >>> I don't understand how I can create a new optimizer algorithm and
>> pass it
>> >>> to the registration->SetOptimizer() method
>> >>>
>> >>>
>> >>> 2015-10-30 17:02 GMT+01:00 Matt McCormick <matt.mccormick at kitware.com
>> >:
>> >>>>
>> >>>> Hi Carmine,
>> >>>>
>> >>>> To see all the optimizer options, go to the base class in Doxygen:
>> >>>>
>> >>>>
>> >>>>
>> http://www.itk.org/Doxygen/html/classitk_1_1SingleValuedNonLinearOptimizer.html
>> >>>>
>> >>>> Then, look at the inheritance diagram.  There are options like the
>> >>>> OnePlusOneEvolutionaryOptimizer and ParticleSwarmOptimizer.
>> >>>>
>> >>>> Hope this helps,
>> >>>> Matt
>> >>>>
>> >>>> On Fri, Oct 30, 2015 at 10:59 AM, Carmine Pagliaro
>> >>>> <carminepagliaro at gmail.com> wrote:
>> >>>> > Dear ITK team,
>> >>>> >
>> >>>> > in the file attacched I register 2 mri image in nifti format.
>> >>>> >
>> >>>> > the optimization algorithm is gradientdescent
>> >>>> >
>> >>>> > typedef itk::RegularStepGradientDescentOptimizer
>>  OptimizerType;
>> >>>> >
>> >>>> > I would make one myself using annealing. so how can I do this?
>> >>>> >
>> >>>> > how could I must modified the follow code ? what is optimizer?
>> >>>> >
>> >>>> > OptimizerType::Pointer      optimizer     = OptimizerType::New();
>> >>>> > registration->SetOptimizer(     optimizer     );
>> >>>> >
>> >>>> > thank you very much
>> >>>> > --
>> >>>> > Carmine Pagliaro
>> >>>> > Life is for sharing.
>> >>>> >
>> >>>> >
>> >>>> > _____________________________________
>> >>>> > Powered by www.kitware.com
>> >>>> >
>> >>>> > Visit other Kitware open-source projects at
>> >>>> > http://www.kitware.com/opensource/opensource.html
>> >>>> >
>> >>>> > Kitware offers ITK Training Courses, for more information visit:
>> >>>> > http://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
>> >>>> >
>> >>>
>> >>>
>> >>>
>> >>>
>> >>> --
>> >>> Carmine Pagliaro
>> >>> Life is for sharing.
>> >>>
>> >>>
>> >>> _____________________________________
>> >>> Powered by www.kitware.com
>> >>>
>> >>> Visit other Kitware open-source projects at
>> >>> http://www.kitware.com/opensource/opensource.html
>> >>>
>> >>> Kitware offers ITK Training Courses, for more information visit:
>> >>> http://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
>> >>>
>> >>
>> >
>> >
>> >
>> > --
>> > Carmine Pagliaro
>> > Life is for sharing.
>> >
>>
>
>
>
> --
> Carmine Pagliaro
> *Life is for sharing.*
>
>


-- 
Carmine Pagliaro
*Life is for sharing.*
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From loic.itk at gmail.com  Sun Nov  1 09:02:23 2015
From: loic.itk at gmail.com (Loic Le Folgoc)
Date: Sun, 1 Nov 2015 15:02:23 +0100
Subject: [ITK-users] Demons Registration on a Region of Interest
In-Reply-To: <CAARpg10Ptegj8O2dOKMOHoptrH_5pmV1NXrjWfD2KEL6CgmVUA@mail.gmail.com>
References: <1124110917.5970566.1446126548319.JavaMail.zimbra@univ-poitiers.fr>
 <CAPf2UMTrenc_djUsOoAA82eqg8g06jPSOP4LD1hgGvLVA_0n_g@mail.gmail.com>
 <CAARpg10Ptegj8O2dOKMOHoptrH_5pmV1NXrjWfD2KEL6CgmVUA@mail.gmail.com>
Message-ID: <56361B6F.5040206@gmail.com>

 From the previous mails I'd assume you tried this as a starting point 
but just in case: you did try to pass a smaller region as requested 
region for the output 
(filter->GetOutput()->SetRequestedRegion(my_region) before calling 
filter->Update()), didn't you? From a quick glance at the cascade of 
filters which the DemonsImageFilter inherits from, it's not obvious that 
the filter does not respect the requested region set by the user for the 
output.

Otherwise, assuming your images are already affinely registered, it 
should be fairly safe to only run the algorithm on cropped images as 
suggested, yes, especially if you expect the motion at the boundary of 
your smaller domain to be roughly null.

Another silly question/comment in case none of the above helps, and 
before you decide to invest time adapting the code: is the runtime of 
the demons algorithm an annoying bottleneck to you? I'd imagine it's one 
of the fastest algorithms out there. If it's fast enough, maybe you can 
just run it on the full images regardless.

Le 31/10/2015 17:07, Nhung Pham a ?crit :
> Normally with Python, I can register one template( e.g: a center 
> region of reference image) to the target image to find the 
> corresponding position of the template in the target image. In this 
> Demon Registration algorithm, we of course do not know the position of 
> the template in the fixed image, so my goal is not to register two 
> smaller images but to find the best match of the small region in the 
> fixed image, or do you mean I should do registration with small 
> regions of fixed image iteratively? (Sorry, my English is not so good)
>
> Best regards,
> ===============================
> Pha?m H??ng Nhung,
> ICT Department,
> University of Science and Technology of Hanoi.
> Mobile: +84979093732
> Gmail: phnhung98 at gmail.com <mailto:phnhung98 at gmail.com>
> Skype: phnhung98
>
> On Sat, Oct 31, 2015 at 4:51 PM, D?enan Zuki? <dzenanz at gmail.com 
> <mailto:dzenanz at gmail.com>> wrote:
>
>     Have you tried extracting only the regions of interest using RoI
>     <http://www.itk.org/Doxygen/html/classitk_1_1RegionOfInterestImageFilter.html>
>     filter and registering these two smaller images? That is the usual
>     workaround if some filter does not respect requested region.
>
>     HTH
>
>     On Thu, Oct 29, 2015 at 9:49 AM, HONG NHUNG PHAM
>     <hong.nhung.pham at univ-poitiers.fr
>     <mailto:hong.nhung.pham at univ-poitiers.fr>> wrote:
>
>         Hello everyone,
>
>         I want to apply Demons Registration to register two medical
>         images, the image information is strong at the center,
>         therefore I want to apply registration method on only the
>         center region of the images. For example, take a center region
>         of moving image, and find the corresponding positions of each
>         pixel of the region in the fixed image. However, I can not
>         find a method that allows processing on a region like that in
>         itkDemonsRegistrationFilter.h. I tried passing the full fixed
>         image as SetFixedImage, and only the center region of moving
>         image as SetMovingImage. However, it crashes because it
>         requires same size of fixed image and moving image.
>
>         Does anyone have any idea of how to pass a region to demons
>         registration filter?
>
>         Thank you in advance!
>
>
>
>         _____________________________________
>         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
>
>
>
>     _____________________________________
>     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
>
>
>
>
> _____________________________________ Powered by www.kitware.com Visit 
> other Kitware open-source projects at 
> http://www.kitware.com/opensource/opensource.html Kitware offers ITK 
> Training Courses, for more information visit: 
> http://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 bill.lorensen at gmail.com  Sun Nov  1 11:32:02 2015
From: bill.lorensen at gmail.com (Bill Lorensen)
Date: Sun, 1 Nov 2015 11:32:02 -0500
Subject: [ITK-users] ItkVtkglue and VTK OpenGL2
In-Reply-To: <3DEFA5A8-871A-493C-A328-5D3664D8566E@dominionsw.com>
References: <3DEFA5A8-871A-493C-A328-5D3664D8566E@dominionsw.com>
Message-ID: <CADZJ4hNEy4EoDXxs8dsdbLyzXYrOh5r4+Qh4p--MGW7XQSKr7Q@mail.gmail.com>

There is no itkVtkGlue.cmake file that I can find. Can you show me
what you are doing? Are you building wiki examples locally, as a
remote module. Or are you just trying to build ITK with the glue stuff
enabled?

Bill


On Sat, Oct 31, 2015 at 1:02 PM, Richard Frank <rfrank at dominionsw.com> wrote:
>
> Hi,
>
> Any further developments on this? If there's a patch I can apply I would
> like to try it.
> Would like to have the OpenGL 2 support for an application using the vtkITK
> bridge.
>
>
> Thanks,
>
> Rick
>
>
> Date: Thu, 29 Oct 2015 18:32:49 -0400
> From: Bill Lorensen <bill.lorensen at gmail.com>
> To: Richard Frank <rfrank at dominionsw.com>
> Cc: Insight-Users <insight-users at itk.org>
> Subject: Re: [ITK-users] ItkVtkglue and VTK OpenGL2?
> Message-ID:
>    <CADZJ4hOEgyk=CTo_+dg9=HAvEmrmAY7tFE6xnrCwij2LHGrnnQ at mail.gmail.com>
> Content-Type: text/plain; charset="utf-8"
>
> I'll check into this.
>
> On Oct 29, 2015 6:31 PM, "Richard Frank" <rfrank at dominionsw.com> wrote:
>
>
> It seems that in itkVtkGlue.cmake CMake is looking for vtkRenderingOpenGL
>
> which isn't available with OpenGL2 flags turned on for CMake.
>
>
> Is this a problem with the Cmake file or did I forget to check or uncheck
>
> something?
>
> Rick Frank
>
> Sent from my iPad



-- 
Unpaid intern in BillsBasement at noware dot com

From rfrank at dominionsw.com  Sun Nov  1 14:42:58 2015
From: rfrank at dominionsw.com (Richard Frank)
Date: Sun, 1 Nov 2015 19:42:58 +0000
Subject: [ITK-users] ItkVtkglue and VTK OpenGL2
In-Reply-To: <CADZJ4hNEy4EoDXxs8dsdbLyzXYrOh5r4+Qh4p--MGW7XQSKr7Q@mail.gmail.com>
References: <3DEFA5A8-871A-493C-A328-5D3664D8566E@dominionsw.com>
 <CADZJ4hNEy4EoDXxs8dsdbLyzXYrOh5r4+Qh4p--MGW7XQSKr7Q@mail.gmail.com>
Message-ID: <616BE53F43DE0848B1810A093098277E658E1D5E@S11MAILD032N2.sh11.lan>

Hi Bill

Thanks for checking into this.

I am building Qt5.5.0 VTK6.3.0 and ITK4.8.1
I think my issue has something to do with not having the right flags set when building VTK or.....
VTK OpenGL2 doesn't support QVTKWidget2 perhaps.

I tossed everything and rebuilt using on VTK

Module_vtkRenderingContextOpenGL2 on
Module_vtkR.........LICOpenGL2 on
Module_vtkR.......OpenGL2 on
Module_vtkR........Qt on
Module_vtkR.......VolumentOpenGL2 on.

This built fine with the itkVtkGlue on in ITK4.8.1.

But when I run my application I get
"The program can't start because vtkGUISupportQtOpenGL-6.5.dll is missing."   (it wasn't built)

However if I turn that on in CMake I believe (I'll have to rebuild to try again) it  tells me that I can't have them openGL and openGL2 both on......
Or something and if I turn it off I think I run into the problem I mentioned.

I guess does OpenGL2 work with QT via VTK? If it does then what settings am I messing up?

Thanks

Rick


-----Original Message-----
From: Bill Lorensen [mailto:bill.lorensen at gmail.com] 
Sent: Sunday, November 01, 2015 11:32 AM
To: Richard Frank
Cc: insight-users at itk.org
Subject: Re: [ITK-users] ItkVtkglue and VTK OpenGL2

There is no itkVtkGlue.cmake file that I can find. Can you show me what you are doing? Are you building wiki examples locally, as a remote module. Or are you just trying to build ITK with the glue stuff enabled?

Bill


On Sat, Oct 31, 2015 at 1:02 PM, Richard Frank <rfrank at dominionsw.com> wrote:
>
> Hi,
>
> Any further developments on this? If there's a patch I can apply I 
> would like to try it.
> Would like to have the OpenGL 2 support for an application using the 
> vtkITK bridge.
>
>
> Thanks,
>
> Rick
>
>
> Date: Thu, 29 Oct 2015 18:32:49 -0400
> From: Bill Lorensen <bill.lorensen at gmail.com>
> To: Richard Frank <rfrank at dominionsw.com>
> Cc: Insight-Users <insight-users at itk.org>
> Subject: Re: [ITK-users] ItkVtkglue and VTK OpenGL2?
> Message-ID:
>    
> <CADZJ4hOEgyk=CTo_+dg9=HAvEmrmAY7tFE6xnrCwij2LHGrnnQ at mail.gmail.com>
> Content-Type: text/plain; charset="utf-8"
>
> I'll check into this.
>
> On Oct 29, 2015 6:31 PM, "Richard Frank" <rfrank at dominionsw.com> wrote:
>
>
> It seems that in itkVtkGlue.cmake CMake is looking for 
> vtkRenderingOpenGL
>
> which isn't available with OpenGL2 flags turned on for CMake.
>
>
> Is this a problem with the Cmake file or did I forget to check or 
> uncheck
>
> something?
>
> Rick Frank
>
> Sent from my iPad



--
Unpaid intern in BillsBasement at noware dot com

From bill.lorensen at gmail.com  Sun Nov  1 15:39:02 2015
From: bill.lorensen at gmail.com (Bill Lorensen)
Date: Sun, 1 Nov 2015 15:39:02 -0500
Subject: [ITK-users] ItkVtkglue and VTK OpenGL2
In-Reply-To: <616BE53F43DE0848B1810A093098277E658E1D5E@S11MAILD032N2.sh11.lan>
References: <3DEFA5A8-871A-493C-A328-5D3664D8566E@dominionsw.com>
 <CADZJ4hNEy4EoDXxs8dsdbLyzXYrOh5r4+Qh4p--MGW7XQSKr7Q@mail.gmail.com>
 <616BE53F43DE0848B1810A093098277E658E1D5E@S11MAILD032N2.sh11.lan>
Message-ID: <CADZJ4hPr04ksLwzX8GC+o2C3txRN+U--323uM2_yXX0vErpWYQ@mail.gmail.com>

So this does not sound like a  itkVtkGlue issue but rather a VTK issue?

If you have a small, complete compilable example with a cmake file
that illustrates the problem I might be able to help.

On Sun, Nov 1, 2015 at 2:42 PM, Richard Frank <rfrank at dominionsw.com> wrote:
> Hi Bill
>
> Thanks for checking into this.
>
> I am building Qt5.5.0 VTK6.3.0 and ITK4.8.1
> I think my issue has something to do with not having the right flags set when building VTK or.....
> VTK OpenGL2 doesn't support QVTKWidget2 perhaps.
>
> I tossed everything and rebuilt using on VTK
>
> Module_vtkRenderingContextOpenGL2 on
> Module_vtkR.........LICOpenGL2 on
> Module_vtkR.......OpenGL2 on
> Module_vtkR........Qt on
> Module_vtkR.......VolumentOpenGL2 on.
>
> This built fine with the itkVtkGlue on in ITK4.8.1.
>
> But when I run my application I get
> "The program can't start because vtkGUISupportQtOpenGL-6.5.dll is missing."   (it wasn't built)
>
> However if I turn that on in CMake I believe (I'll have to rebuild to try again) it  tells me that I can't have them openGL and openGL2 both on......
> Or something and if I turn it off I think I run into the problem I mentioned.
>
> I guess does OpenGL2 work with QT via VTK? If it does then what settings am I messing up?
>
> Thanks
>
> Rick
>
>
> -----Original Message-----
> From: Bill Lorensen [mailto:bill.lorensen at gmail.com]
> Sent: Sunday, November 01, 2015 11:32 AM
> To: Richard Frank
> Cc: insight-users at itk.org
> Subject: Re: [ITK-users] ItkVtkglue and VTK OpenGL2
>
> There is no itkVtkGlue.cmake file that I can find. Can you show me what you are doing? Are you building wiki examples locally, as a remote module. Or are you just trying to build ITK with the glue stuff enabled?
>
> Bill
>
>
> On Sat, Oct 31, 2015 at 1:02 PM, Richard Frank <rfrank at dominionsw.com> wrote:
>>
>> Hi,
>>
>> Any further developments on this? If there's a patch I can apply I
>> would like to try it.
>> Would like to have the OpenGL 2 support for an application using the
>> vtkITK bridge.
>>
>>
>> Thanks,
>>
>> Rick
>>
>>
>> Date: Thu, 29 Oct 2015 18:32:49 -0400
>> From: Bill Lorensen <bill.lorensen at gmail.com>
>> To: Richard Frank <rfrank at dominionsw.com>
>> Cc: Insight-Users <insight-users at itk.org>
>> Subject: Re: [ITK-users] ItkVtkglue and VTK OpenGL2?
>> Message-ID:
>>
>> <CADZJ4hOEgyk=CTo_+dg9=HAvEmrmAY7tFE6xnrCwij2LHGrnnQ at mail.gmail.com>
>> Content-Type: text/plain; charset="utf-8"
>>
>> I'll check into this.
>>
>> On Oct 29, 2015 6:31 PM, "Richard Frank" <rfrank at dominionsw.com> wrote:
>>
>>
>> It seems that in itkVtkGlue.cmake CMake is looking for
>> vtkRenderingOpenGL
>>
>> which isn't available with OpenGL2 flags turned on for CMake.
>>
>>
>> Is this a problem with the Cmake file or did I forget to check or
>> uncheck
>>
>> something?
>>
>> Rick Frank
>>
>> Sent from my iPad
>
>
>
> --
> Unpaid intern in BillsBasement at noware dot com



-- 
Unpaid intern in BillsBasement at noware dot com

From bakkari.abdelkhalek at hotmail.fr  Sun Nov  1 17:00:25 2015
From: bakkari.abdelkhalek at hotmail.fr (Abdelkhalek Bakkari)
Date: Sun, 1 Nov 2015 23:00:25 +0100
Subject: [ITK-users] Automatic Window/Level
Message-ID: <DUB129-W31DB518C2B3A750F99DB82832D0@phx.gbl>

Hi,
I  need here an automatic window/level algorithm. Something that makes Window min max and Level Min Max related to the image infomation.I tried to understand the Window/Level in ImageJ  And you will notice something interstingonce you move the Window level the value of Level changes and also the minimum and maximum changes too.
Best regards, 		 	   		  
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From rfrank at dominionsw.com  Sun Nov  1 17:17:29 2015
From: rfrank at dominionsw.com (Richard Frank)
Date: Sun, 1 Nov 2015 22:17:29 +0000
Subject: [ITK-users] ItkVtkglue and VTK OpenGL2
In-Reply-To: <CADZJ4hPr04ksLwzX8GC+o2C3txRN+U--323uM2_yXX0vErpWYQ@mail.gmail.com>
References: <3DEFA5A8-871A-493C-A328-5D3664D8566E@dominionsw.com>
 <CADZJ4hNEy4EoDXxs8dsdbLyzXYrOh5r4+Qh4p--MGW7XQSKr7Q@mail.gmail.com>
 <616BE53F43DE0848B1810A093098277E658E1D5E@S11MAILD032N2.sh11.lan>,
 <CADZJ4hPr04ksLwzX8GC+o2C3txRN+U--323uM2_yXX0vErpWYQ@mail.gmail.com>
Message-ID: <9FDD55EF-CADE-455A-8EFE-620B8020464E@dominionsw.com>

Ok I'll put something together 

Thanks 

Rick Frank

> On Nov 1, 2015, at 3:39 PM, Bill Lorensen <bill.lorensen at gmail.com> wrote:
> 
> So this does not sound like a  itkVtkGlue issue but rather a VTK issue?
> 
> If you have a small, complete compilable example with a cmake file
> that illustrates the problem I might be able to help.
> 
>> On Sun, Nov 1, 2015 at 2:42 PM, Richard Frank <rfrank at dominionsw.com> wrote:
>> Hi Bill
>> 
>> Thanks for checking into this.
>> 
>> I am building Qt5.5.0 VTK6.3.0 and ITK4.8.1
>> I think my issue has something to do with not having the right flags set when building VTK or.....
>> VTK OpenGL2 doesn't support QVTKWidget2 perhaps.
>> 
>> I tossed everything and rebuilt using on VTK
>> 
>> Module_vtkRenderingContextOpenGL2 on
>> Module_vtkR.........LICOpenGL2 on
>> Module_vtkR.......OpenGL2 on
>> Module_vtkR........Qt on
>> Module_vtkR.......VolumentOpenGL2 on.
>> 
>> This built fine with the itkVtkGlue on in ITK4.8.1.
>> 
>> But when I run my application I get
>> "The program can't start because vtkGUISupportQtOpenGL-6.5.dll is missing."   (it wasn't built)
>> 
>> However if I turn that on in CMake I believe (I'll have to rebuild to try again) it  tells me that I can't have them openGL and openGL2 both on......
>> Or something and if I turn it off I think I run into the problem I mentioned.
>> 
>> I guess does OpenGL2 work with QT via VTK? If it does then what settings am I messing up?
>> 
>> Thanks
>> 
>> Rick
>> 
>> 
>> -----Original Message-----
>> From: Bill Lorensen [mailto:bill.lorensen at gmail.com]
>> Sent: Sunday, November 01, 2015 11:32 AM
>> To: Richard Frank
>> Cc: insight-users at itk.org
>> Subject: Re: [ITK-users] ItkVtkglue and VTK OpenGL2
>> 
>> There is no itkVtkGlue.cmake file that I can find. Can you show me what you are doing? Are you building wiki examples locally, as a remote module. Or are you just trying to build ITK with the glue stuff enabled?
>> 
>> Bill
>> 
>> 
>>> On Sat, Oct 31, 2015 at 1:02 PM, Richard Frank <rfrank at dominionsw.com> wrote:
>>> 
>>> Hi,
>>> 
>>> Any further developments on this? If there's a patch I can apply I
>>> would like to try it.
>>> Would like to have the OpenGL 2 support for an application using the
>>> vtkITK bridge.
>>> 
>>> 
>>> Thanks,
>>> 
>>> Rick
>>> 
>>> 
>>> Date: Thu, 29 Oct 2015 18:32:49 -0400
>>> From: Bill Lorensen <bill.lorensen at gmail.com>
>>> To: Richard Frank <rfrank at dominionsw.com>
>>> Cc: Insight-Users <insight-users at itk.org>
>>> Subject: Re: [ITK-users] ItkVtkglue and VTK OpenGL2?
>>> Message-ID:
>>> 
>>> <CADZJ4hOEgyk=CTo_+dg9=HAvEmrmAY7tFE6xnrCwij2LHGrnnQ at mail.gmail.com>
>>> Content-Type: text/plain; charset="utf-8"
>>> 
>>> I'll check into this.
>>> 
>>> On Oct 29, 2015 6:31 PM, "Richard Frank" <rfrank at dominionsw.com> wrote:
>>> 
>>> 
>>> It seems that in itkVtkGlue.cmake CMake is looking for
>>> vtkRenderingOpenGL
>>> 
>>> which isn't available with OpenGL2 flags turned on for CMake.
>>> 
>>> 
>>> Is this a problem with the Cmake file or did I forget to check or
>>> uncheck
>>> 
>>> something?
>>> 
>>> Rick Frank
>>> 
>>> Sent from my iPad
>> 
>> 
>> 
>> --
>> Unpaid intern in BillsBasement at noware dot com
> 
> 
> 
> -- 
> Unpaid intern in BillsBasement at noware dot com

From rfrank at dominionsw.com  Sun Nov  1 22:15:59 2015
From: rfrank at dominionsw.com (Richard Frank)
Date: Mon, 2 Nov 2015 03:15:59 +0000
Subject: [ITK-users] ItkVtkglue and VTK OpenGL2
In-Reply-To: <CADZJ4hPr04ksLwzX8GC+o2C3txRN+U--323uM2_yXX0vErpWYQ@mail.gmail.com>
References: <3DEFA5A8-871A-493C-A328-5D3664D8566E@dominionsw.com>
 <CADZJ4hNEy4EoDXxs8dsdbLyzXYrOh5r4+Qh4p--MGW7XQSKr7Q@mail.gmail.com>
 <616BE53F43DE0848B1810A093098277E658E1D5E@S11MAILD032N2.sh11.lan>
 <CADZJ4hPr04ksLwzX8GC+o2C3txRN+U--323uM2_yXX0vErpWYQ@mail.gmail.com>
Message-ID: <616BE53F43DE0848B1810A093098277E658E270A@S11MAILD032N2.sh11.lan>

Hi Bill,

I made a small project and of course that worked. I rebuilt my project from scratch and now that works. 
And I don't know what I did differently. 

:>/

Sorry about that...


However, I can now run but I hit this issue now that it's running

https://gitlab.kitware.com/vtk/vtk/merge_requests/638/diffs

So I guess I'll have to pull from git and see how well we work with the OpenGL2 that's the latest code.

Thanks

Rick

-----Original Message-----
From: Bill Lorensen [mailto:bill.lorensen at gmail.com] 
Sent: Sunday, November 01, 2015 3:39 PM
To: Richard Frank
Cc: insight-users at itk.org
Subject: Re: [ITK-users] ItkVtkglue and VTK OpenGL2

So this does not sound like a  itkVtkGlue issue but rather a VTK issue?

If you have a small, complete compilable example with a cmake file that illustrates the problem I might be able to help.

On Sun, Nov 1, 2015 at 2:42 PM, Richard Frank <rfrank at dominionsw.com> wrote:
> Hi Bill
>
> Thanks for checking into this.
>
> I am building Qt5.5.0 VTK6.3.0 and ITK4.8.1 I think my issue has 
> something to do with not having the right flags set when building VTK or.....
> VTK OpenGL2 doesn't support QVTKWidget2 perhaps.
>
> I tossed everything and rebuilt using on VTK
>
> Module_vtkRenderingContextOpenGL2 on
> Module_vtkR.........LICOpenGL2 on
> Module_vtkR.......OpenGL2 on
> Module_vtkR........Qt on
> Module_vtkR.......VolumentOpenGL2 on.
>
> This built fine with the itkVtkGlue on in ITK4.8.1.
>
> But when I run my application I get
> "The program can't start because vtkGUISupportQtOpenGL-6.5.dll is missing."   (it wasn't built)
>
> However if I turn that on in CMake I believe (I'll have to rebuild to try again) it  tells me that I can't have them openGL and openGL2 both on......
> Or something and if I turn it off I think I run into the problem I mentioned.
>
> I guess does OpenGL2 work with QT via VTK? If it does then what settings am I messing up?
>
> Thanks
>
> Rick
>
>
> -----Original Message-----
> From: Bill Lorensen [mailto:bill.lorensen at gmail.com]
> Sent: Sunday, November 01, 2015 11:32 AM
> To: Richard Frank
> Cc: insight-users at itk.org
> Subject: Re: [ITK-users] ItkVtkglue and VTK OpenGL2
>
> There is no itkVtkGlue.cmake file that I can find. Can you show me what you are doing? Are you building wiki examples locally, as a remote module. Or are you just trying to build ITK with the glue stuff enabled?
>
> Bill
>
>
> On Sat, Oct 31, 2015 at 1:02 PM, Richard Frank <rfrank at dominionsw.com> wrote:
>>
>> Hi,
>>
>> Any further developments on this? If there's a patch I can apply I 
>> would like to try it.
>> Would like to have the OpenGL 2 support for an application using the 
>> vtkITK bridge.
>>
>>
>> Thanks,
>>
>> Rick
>>
>>
>> Date: Thu, 29 Oct 2015 18:32:49 -0400
>> From: Bill Lorensen <bill.lorensen at gmail.com>
>> To: Richard Frank <rfrank at dominionsw.com>
>> Cc: Insight-Users <insight-users at itk.org>
>> Subject: Re: [ITK-users] ItkVtkglue and VTK OpenGL2?
>> Message-ID:
>>
>> <CADZJ4hOEgyk=CTo_+dg9=HAvEmrmAY7tFE6xnrCwij2LHGrnnQ at mail.gmail.com>
>> Content-Type: text/plain; charset="utf-8"
>>
>> I'll check into this.
>>
>> On Oct 29, 2015 6:31 PM, "Richard Frank" <rfrank at dominionsw.com> wrote:
>>
>>
>> It seems that in itkVtkGlue.cmake CMake is looking for 
>> vtkRenderingOpenGL
>>
>> which isn't available with OpenGL2 flags turned on for CMake.
>>
>>
>> Is this a problem with the Cmake file or did I forget to check or 
>> uncheck
>>
>> something?
>>
>> Rick Frank
>>
>> Sent from my iPad
>
>
>
> --
> Unpaid intern in BillsBasement at noware dot com



--
Unpaid intern in BillsBasement at noware dot com

From phnhung98 at gmail.com  Mon Nov  2 04:41:20 2015
From: phnhung98 at gmail.com (nhungpham)
Date: Mon, 2 Nov 2015 02:41:20 -0700 (MST)
Subject: [ITK-users] Buffered region of size [0, 0, 0]
In-Reply-To: <CAM_gOLNe=vQSRnJ6G0Z_EfRBHsGsjg09JNLahez-REu=mWyiHA@mail.gmail.com>
References: <CAM_gOLNe=vQSRnJ6G0Z_EfRBHsGsjg09JNLahez-REu=mWyiHA@mail.gmail.com>
Message-ID: <1446457280978-7588113.post@n2.nabble.com>

Hello,

Have you found your solution for this error. I have similar error when I try
to use DemonsRegistrationFilter on a region of interest by using method 
filter->GetOutput()->SetRequestedRegion(smallregion);, and it throws this
exception:

itk::ExceptionObject (0020EBBC)
Location: "void __thiscall itk::MultiThreader::SingleMethodExecute(void)"
File: ..\..\..\..\..\src\Modules\Core\Common\src\itkMultiThreader.cxx
Line: 416
Description: itk::ERROR: MultiThreader(067680C8): Exception occurred during
Sing
leMethodExecute
c:\itk\src\modules\core\common\include\itkImageConstIterator.h:211:
itk::ERROR: Region ImageRegion (0020E998)
  Dimension: 2
  Index: [208, 210]
  Size: [34, 8]
 is outside of buffered region ImageRegion (06758724)
  Dimension: 2
  Index: [210, 210]
  Size: [30, 30]



--
View this message in context: http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Buffered-region-of-size-0-0-0-tp7587225p7588113.html
Sent from the ITK Insight Users mailing list archive at Nabble.com.

From dzenanz at gmail.com  Mon Nov  2 09:09:07 2015
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Mon, 2 Nov 2015 09:09:07 -0500
Subject: [ITK-users] [ITK] Automatic Window/Level
In-Reply-To: <DUB129-W31DB518C2B3A750F99DB82832D0@phx.gbl>
References: <DUB129-W31DB518C2B3A750F99DB82832D0@phx.gbl>
Message-ID: <CAPf2UMQireUyMjWhLY3KHy_RED2AOLfRLi7-BMqWP3oQ4eqyrg@mail.gmail.com>

Hi Abdelkhalek,

maybe you can take a look at Slicer's volumes module (docs
<http://www.slicer.org/slicerWiki/index.php/Documentation/4.4/Modules/Volumes>,
source
<https://github.com/Slicer/Slicer/tree/master/Modules/Loadable/Volumes>).
It has an auto window/level function.

Regards

On Sun, Nov 1, 2015 at 5:00 PM, Abdelkhalek Bakkari <
bakkari.abdelkhalek at hotmail.fr> wrote:

> Hi,
>
> I  need here an automatic window/level algorithm. Something that makes
> Window min max and Level Min Max related to the image infomation.
> I tried to understand the Window/Level in ImageJ  And you will notice
> something intersting
> once you move the Window level the value of Level changes and also the
> minimum and maximum changes too.
>
> Best regards,
>
> _______________________________________________
> 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 Nov  2 09:23:45 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Mon, 2 Nov 2015 09:23:45 -0500
Subject: [ITK-users] [ITK] Automatic Window/Level
In-Reply-To: <CAPf2UMQireUyMjWhLY3KHy_RED2AOLfRLi7-BMqWP3oQ4eqyrg@mail.gmail.com>
References: <DUB129-W31DB518C2B3A750F99DB82832D0@phx.gbl>
 <CAPf2UMQireUyMjWhLY3KHy_RED2AOLfRLi7-BMqWP3oQ4eqyrg@mail.gmail.com>
Message-ID: <CALzTN-RHTo4C44SiL63KxitoOhDmmX_wrd9xV-z1CoobpKPPgw@mail.gmail.com>

Hi Abdelkhalek,

The RescaleIntesityImageFilter will rescale image intensities based on
the image's minimum and maximum values and the range of output values.

HTH,
Matt

 [1] http://www.itk.org/Doxygen/html/classitk_1_1RescaleIntensityImageFilter.html

On Mon, Nov 2, 2015 at 9:09 AM, D?enan Zuki? <dzenanz at gmail.com> wrote:
> Hi Abdelkhalek,
>
> maybe you can take a look at Slicer's volumes module (docs, source). It has
> an auto window/level function.
>
> Regards
>
> On Sun, Nov 1, 2015 at 5:00 PM, Abdelkhalek Bakkari
> <bakkari.abdelkhalek at hotmail.fr> wrote:
>>
>> Hi,
>>
>> I  need here an automatic window/level algorithm. Something that makes
>> Window min max and Level Min Max related to the image infomation.
>> I tried to understand the Window/Level in ImageJ  And you will notice
>> something intersting
>> once you move the Window level the value of Level changes and also the
>> minimum and maximum changes too.
>>
>> Best regards,
>>
>> _______________________________________________
>> 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 matt.mccormick at kitware.com  Mon Nov  2 11:10:08 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Mon, 2 Nov 2015 11:10:08 -0500
Subject: [ITK-users] Segmentation fault when trying to generate a
 BSpline transform from a set of matching landmarks
In-Reply-To: <CAHa3=2kYemTOMua1BHkXpNNRiqPanfFd6WUU3poE+eGdn8ahAg@mail.gmail.com>
References: <CAHa3=2kYemTOMua1BHkXpNNRiqPanfFd6WUU3poE+eGdn8ahAg@mail.gmail.com>
Message-ID: <CALzTN-R8kkctx8NmKJVEtaNEOU61TPCeFpAFO58Zs5RsCN_WPw@mail.gmail.com>

Hi Carlos,

There have been some improvements to the
LandmarkBasedTransformInitializer recently, so could you please try
with Git master [1]?

If the issue remains, could you please share a short, self-contained,
compilable example?

Thanks,
Matt

[1] http://www.itk.org/Wiki/ITK/Git

[2] http://www.sscce.org/

On Thu, Oct 29, 2015 at 9:12 AM, Carlos Henrique Villa Pinto
<chvillap at gmail.com> wrote:
> Hi, everyone.
>
> I have two sets of landmark points, detected from two different 3D MR
> images, and I'm trying to estimate a nonlinear mapping between the pairs of
> matching landmarks. I already have the matchings, I just need to generate a
> BSpline transform from them. The LandmarkBasedTransformInitializer class
> seems perfect for that, but when I call its InitializeTransform() method
> (after setting all the required input parameters), the result is a
> segmentation fault.
>
> I'm using ITK 4.8.0. I checked the source code and made some tests, but the
> only thing that I could find out is that the problem happens in the
> GenerateData() method of the BSplineScatteredDataPointSetToImageFilter
> class, when the SingleMethodExecute() method is called by the
> ThreadGenerator object. In such version of ITK, that happens in line 314 of
> the file BSplineScatteredDataPointSetToImageFilter.hxx. I couldn't go
> further because I have no clue of what exactly is being called by the
> ThreaderCallback in that class.
>
> Does anyone have any clue about what sort of things could cause a
> segmentation fault in the BSplineScatteredDataPointSetToImageFilter class?
> Could that be a bug, maybe?
>
> I don't know if this information is relevant, but my images have both LPI
> orientation, origin = (-127.5, -127.5, -127.5) and spacing = 2 x 2 x 2 mm.
> And I'm using the SetReferenceImage() method of the
> LandmarkBasedTransformInitializer class to define the parametric domain of
> the BSpline transform.
>
> I can provide some pieces of code and more information about my data if
> needed.
>
> Thanks in advance!
>
> []s
>
> --
> Carlos Henrique Villa Pinto
> Graduate Student in Computer Science
> Federal University of S?o Carlos - Brazil
> XCS
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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 mike.jackson at bluequartz.net  Mon Nov  2 12:17:17 2015
From: mike.jackson at bluequartz.net (Michael Jackson)
Date: Mon, 2 Nov 2015 12:17:17 -0500
Subject: [ITK-users] [ITK] Buffered Region out of Range error
In-Reply-To: <CALzTN-QvbYv6z6oNdOS6atmMntu8T3scug7Ja9vf8Nrs6k15Vw@mail.gmail.com>
References: <C1CA0247-EC76-4677-8679-6A2867C7ED59@bluequartz.net>
 <CALzTN-S-xzRugHCgP6KeEfM7HzjxLXE7ONOSsQ+kTCutUT4mxQ@mail.gmail.com>
 <9D1176BA-4865-45C9-B499-234F66922463@bluequartz.net>
 <17C498DE-21D8-4EE5-BCD9-85286B8B9E50@mail.nih.gov>
 <B517CAFD-A291-4213-B507-D00447853697@bluequartz.net>
 <5EA71915-616F-4FFD-91E8-26941201051C@mail.nih.gov>
 <29375C19-58B7-4A9A-9B6D-EF79D51A7691@bluequartz.net>
 <CF65FCD6-70C6-440B-A4A2-1F5D2D183AF6@bluequartz.net>
 <CALzTN-RwaPUD_KvJDptjfXr84oX_uY7ig2pC0mE=e+0jUr+OzQ@mail.gmail.com>
 <DE6F155B-2295-46BE-AB01-F0B04EB37DC0@bluequartz.net>
 <CALzTN-QyFafJ-yibz+B3Qs6Xf-1XMLbjOYVKREi4ssrQVS1yBA@mail.gmail.com>
 <454718DB-56FA-4AC3-B1CF-59964ED9523B@bluequartz.net>
 <7EFC0503-D75F-4E0D-94F9-42679FBFF090@bluequartz.net>
 <CALzTN-QvbYv6z6oNdOS6atmMntu8T3scug7Ja9vf8Nrs6k15Vw@mail.gmail.com>
Message-ID: <1A9507C2-C1A4-4D77-A6A2-EE79D111F578@bluequartz.net>

That did not seem to help either. Any more ideas? Does ITK build some intermediate static libraries that have ?managers? that load filters? I ran into an issue with our own code where we had static libraries with singleton ?manager? design patterns that turned out not to work due to each library getting its own singleton instance.
--
Mike Jackson  [mike.jackson at bluequartz.net]


> On Oct 30, 2015, at 4:07 PM, Matt McCormick <matt.mccormick at kitware.com> wrote:
> 
> Thanks for the information.
> 
> It is hard to tell, but maybe it is related to factory registration.
> To test, try this:
> 
> In the plugin CMake code, add
> 
>  set(ITK_NO_IO_FACTORY_REGISTER_MANAGER 1)
> 
> before
> 
>  include(${ITK_USE_FILE})
> 
> Then see if neither plugins work, both plugins work, and one of the
> plugins works.
> 
> HTH,
> Matt
> 
> On Fri, Oct 30, 2015 at 1:36 PM, Michael Jackson
> <mike.jackson at bluequartz.net> wrote:
>> Some more data. If we create an intermediate library that links to ITK, called ITKSupport, and then have our plugins link against ITKSupport then the code executes correctly. Just another data point.
>> --
>> Michael A. Jackson
>> BlueQuartz Software, LLC
>> [e]: mike.jackson at bluequartz.net
>> 
>>> On Oct 30, 2015, at 12:57 PM, Michael Jackson <mike.jackson at bluequartz.net> wrote:
>>> 
>>> Yes. Verified. Both plugins are built as part of DREAM.3D and we don?t put any extra CXX_FLAGS in any of the CMake files. We also built with VERBOSE=1 and looked at the compile commands to ensure that what we wanted was actually being used. Then we looked at the libraries themselves with otool -L to ensure they all link against libC++. Which they do.
>>> 
>>> 
>>> --
>>> Michael A. Jackson
>>> BlueQuartz Software, LLC
>>> [e]: mike.jackson at bluequartz.net
>>> 
>>>> On Oct 30, 2015, at 12:05 PM, Matt McCormick <matt.mccormick at kitware.com> wrote:
>>>> 
>>>> Hi Michael,
>>>> 
>>>> Sorry to be redundant, and just to be sure: are both A.plugin and
>>>> B.plugin built with the same C++ standard library, OSX deployment
>>>> target, and C++ standard?
>>>> 
>>>> Thanks,
>>>> Matt
>>>> 
>>>> On Fri, Oct 30, 2015 at 11:35 AM, Michael Jackson
>>>> <mike.jackson at bluequartz.net> wrote:
>>>>> 
>>>>> 
>>>>>> On Oct 29, 2015, at 11:40 AM, Matt McCormick <matt.mccormick at kitware.com> wrote:
>>>>>> 
>>>>>> On Thu, Oct 29, 2015 at 10:00 AM, Michael Jackson
>>>>>> <mike.jackson at bluequartz.net> wrote:
>>>>>>> We also ran an experiment where we moved the ITK Dependency from just the
>>>>>>> plugin down into one of our lower level libraries. So now we have the plugin
>>>>>>> dependent on a lower level library which then is dependent on the ITK
>>>>>>> Libraries. Now the code seems to execute and produce results. This was on OS
>>>>>>> X 10.9 and 10.10. So it seems that there is some odd issue with loading the
>>>>>>> ITK libraries through a plugin mechanism? Does ITK need the ?-fPIC? added to
>>>>>>> the list of compile commands?
>>>>>> 
>>>>>> If ITK is built in a plugin as shared libraries, then it will already
>>>>>> be built with -fPIC.
>>>>>> 
>>>>>> 
>>>>>>> Qt is actually built WITHOUT C++11 support but still links against libc++.
>>>>>>> They (the Qt Devs) set the OS X Min Deployment Version to 10.7. I have no
>>>>>>> idea what that triggers or not.
>>>>>> 
>>>>>> All code should be built with the same C++ standard and OSX deployment
>>>>>> target. When building ITK and related code, set
>>>>>> CMAKE_OSX_DEPLOYMENT_TARGET [1] to 10.7 to ensure all binaries are
>>>>>> using consistent libraries.
>>>>>> 
>>>>>> HTH,
>>>>>> Matt
>>>>>> 
>>>>>> [1] https://cmake.org/cmake/help/v3.3/variable/CMAKE_OSX_DEPLOYMENT_TARGET.html
>>>>> 
>>>>> Matt,
>>>>> We have verified that ALL dependent libraries are built with libC++, 10.7 as the min deployment, C++11 enabled. This goes for Boost, HDF5, Eigen, ITK, and Qt 5.5.1. We still have the issue. We can also reproduce that if we move the dependency to a lower level then the issue goes away. So it would seem that there is a problem with multiple plugins being dependent on the same External library. in this case it is ITK. I?ll try to diagram below.
>>>>> ## Failure Mode ##
>>>>> A.plugin depends on ITK
>>>>> A.plugin depends on SIMPlib.
>>>>> 
>>>>> B.plugin depends on ITK
>>>>> B.plugin depends on SIMPlib.
>>>>> 
>>>>> B.plugin will fail to execute properly.
>>>>> 
>>>>> ## Success Mode ##
>>>>> A.plugin depends on SIMPlib.
>>>>> SIMPlib depends on ITK
>>>>> 
>>>>> B.plugin depends on SIMPlib.
>>>>> SIMPlib depends on ITK
>>>>> 
>>>>> The DREAM.3D filters both execute properly and give the proper output.
>>>>> 
>>>>> --
>>>>> Michael A. Jackson
>>>>> BlueQuartz Software, LLC
>>>>> [e]: mike.jackson at bluequartz.net
>>>>> _____________________________________
>>>>> Powered by www.kitware.com
>>>>> 
>>>>> Visit other Kitware open-source projects at
>>>>> http://www.kitware.com/opensource/opensource.html
>>>>> 
>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>> http://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  Mon Nov  2 13:11:48 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Mon, 2 Nov 2015 13:11:48 -0500
Subject: [ITK-users] [ITK] Buffered Region out of Range error
In-Reply-To: <1A9507C2-C1A4-4D77-A6A2-EE79D111F578@bluequartz.net>
References: <C1CA0247-EC76-4677-8679-6A2867C7ED59@bluequartz.net>
 <CALzTN-S-xzRugHCgP6KeEfM7HzjxLXE7ONOSsQ+kTCutUT4mxQ@mail.gmail.com>
 <9D1176BA-4865-45C9-B499-234F66922463@bluequartz.net>
 <17C498DE-21D8-4EE5-BCD9-85286B8B9E50@mail.nih.gov>
 <B517CAFD-A291-4213-B507-D00447853697@bluequartz.net>
 <5EA71915-616F-4FFD-91E8-26941201051C@mail.nih.gov>
 <29375C19-58B7-4A9A-9B6D-EF79D51A7691@bluequartz.net>
 <CF65FCD6-70C6-440B-A4A2-1F5D2D183AF6@bluequartz.net>
 <CALzTN-RwaPUD_KvJDptjfXr84oX_uY7ig2pC0mE=e+0jUr+OzQ@mail.gmail.com>
 <DE6F155B-2295-46BE-AB01-F0B04EB37DC0@bluequartz.net>
 <CALzTN-QyFafJ-yibz+B3Qs6Xf-1XMLbjOYVKREi4ssrQVS1yBA@mail.gmail.com>
 <454718DB-56FA-4AC3-B1CF-59964ED9523B@bluequartz.net>
 <7EFC0503-D75F-4E0D-94F9-42679FBFF090@bluequartz.net>
 <CALzTN-QvbYv6z6oNdOS6atmMntu8T3scug7Ja9vf8Nrs6k15Vw@mail.gmail.com>
 <1A9507C2-C1A4-4D77-A6A2-EE79D111F578@bluequartz.net>
Message-ID: <CALzTN-TSbY_FErsaR5-hc8NiwOX+FKteSeqAbp-qC5spRpB-UQ@mail.gmail.com>

What happened? Which of the plugins worked or did not work?

ITK does use static initialization to populate the IO factories. The
solution, if that is the problem, is to have a library, like your
ITKSupport, that all the plugins link to which does the
initialization, but to turn off the static initialization for the
plugins with ITK_NO_IO_FACTORY_REGISTER_MANAGER.

HTH,
Matt

On Mon, Nov 2, 2015 at 12:17 PM, Michael Jackson
<mike.jackson at bluequartz.net> wrote:
> That did not seem to help either. Any more ideas? Does ITK build some
> intermediate static libraries that have ?managers? that load filters? I ran
> into an issue with our own code where we had static libraries with singleton
> ?manager? design patterns that turned out not to work due to each library
> getting its own singleton instance.
> --
> Mike Jackson  [mike.jackson at bluequartz.net]
>
>
> On Oct 30, 2015, at 4:07 PM, Matt McCormick <matt.mccormick at kitware.com>
> wrote:
>
> Thanks for the information.
>
> It is hard to tell, but maybe it is related to factory registration.
> To test, try this:
>
> In the plugin CMake code, add
>
>  set(ITK_NO_IO_FACTORY_REGISTER_MANAGER 1)
>
> before
>
>  include(${ITK_USE_FILE})
>
> Then see if neither plugins work, both plugins work, and one of the
> plugins works.
>
> HTH,
> Matt
>
> On Fri, Oct 30, 2015 at 1:36 PM, Michael Jackson
> <mike.jackson at bluequartz.net> wrote:
>
> Some more data. If we create an intermediate library that links to ITK,
> called ITKSupport, and then have our plugins link against ITKSupport then
> the code executes correctly. Just another data point.
> --
> Michael A. Jackson
> BlueQuartz Software, LLC
> [e]: mike.jackson at bluequartz.net
>
> On Oct 30, 2015, at 12:57 PM, Michael Jackson <mike.jackson at bluequartz.net>
> wrote:
>
> Yes. Verified. Both plugins are built as part of DREAM.3D and we don?t put
> any extra CXX_FLAGS in any of the CMake files. We also built with VERBOSE=1
> and looked at the compile commands to ensure that what we wanted was
> actually being used. Then we looked at the libraries themselves with otool
> -L to ensure they all link against libC++. Which they do.
>
>
> --
> Michael A. Jackson
> BlueQuartz Software, LLC
> [e]: mike.jackson at bluequartz.net
>
> On Oct 30, 2015, at 12:05 PM, Matt McCormick <matt.mccormick at kitware.com>
> wrote:
>
> Hi Michael,
>
> Sorry to be redundant, and just to be sure: are both A.plugin and
> B.plugin built with the same C++ standard library, OSX deployment
> target, and C++ standard?
>
> Thanks,
> Matt
>
> On Fri, Oct 30, 2015 at 11:35 AM, Michael Jackson
> <mike.jackson at bluequartz.net> wrote:
>
>
>
> On Oct 29, 2015, at 11:40 AM, Matt McCormick <matt.mccormick at kitware.com>
> wrote:
>
> On Thu, Oct 29, 2015 at 10:00 AM, Michael Jackson
> <mike.jackson at bluequartz.net> wrote:
>
> We also ran an experiment where we moved the ITK Dependency from just the
> plugin down into one of our lower level libraries. So now we have the plugin
> dependent on a lower level library which then is dependent on the ITK
> Libraries. Now the code seems to execute and produce results. This was on OS
> X 10.9 and 10.10. So it seems that there is some odd issue with loading the
> ITK libraries through a plugin mechanism? Does ITK need the ?-fPIC? added to
> the list of compile commands?
>
>
> If ITK is built in a plugin as shared libraries, then it will already
> be built with -fPIC.
>
>
> Qt is actually built WITHOUT C++11 support but still links against libc++.
> They (the Qt Devs) set the OS X Min Deployment Version to 10.7. I have no
> idea what that triggers or not.
>
>
> All code should be built with the same C++ standard and OSX deployment
> target. When building ITK and related code, set
> CMAKE_OSX_DEPLOYMENT_TARGET [1] to 10.7 to ensure all binaries are
> using consistent libraries.
>
> HTH,
> Matt
>
> [1]
> https://cmake.org/cmake/help/v3.3/variable/CMAKE_OSX_DEPLOYMENT_TARGET.html
>
>
> Matt,
> We have verified that ALL dependent libraries are built with libC++, 10.7 as
> the min deployment, C++11 enabled. This goes for Boost, HDF5, Eigen, ITK,
> and Qt 5.5.1. We still have the issue. We can also reproduce that if we move
> the dependency to a lower level then the issue goes away. So it would seem
> that there is a problem with multiple plugins being dependent on the same
> External library. in this case it is ITK. I?ll try to diagram below.
> ## Failure Mode ##
> A.plugin depends on ITK
> A.plugin depends on SIMPlib.
>
> B.plugin depends on ITK
> B.plugin depends on SIMPlib.
>
> B.plugin will fail to execute properly.
>
> ## Success Mode ##
> A.plugin depends on SIMPlib.
> SIMPlib depends on ITK
>
> B.plugin depends on SIMPlib.
> SIMPlib depends on ITK
>
> The DREAM.3D filters both execute properly and give the proper output.
>
> --
> Michael A. Jackson
> BlueQuartz Software, LLC
> [e]: mike.jackson at bluequartz.net
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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 blowekamp at mail.nih.gov  Mon Nov  2 13:12:38 2015
From: blowekamp at mail.nih.gov (Bradley Lowekamp)
Date: Mon, 2 Nov 2015 13:12:38 -0500
Subject: [ITK-users] [ITK] Buffered Region out of Range error
In-Reply-To: <1A9507C2-C1A4-4D77-A6A2-EE79D111F578@bluequartz.net>
References: <C1CA0247-EC76-4677-8679-6A2867C7ED59@bluequartz.net>
 <CALzTN-S-xzRugHCgP6KeEfM7HzjxLXE7ONOSsQ+kTCutUT4mxQ@mail.gmail.com>
 <9D1176BA-4865-45C9-B499-234F66922463@bluequartz.net>
 <17C498DE-21D8-4EE5-BCD9-85286B8B9E50@mail.nih.gov>
 <B517CAFD-A291-4213-B507-D00447853697@bluequartz.net>
 <5EA71915-616F-4FFD-91E8-26941201051C@mail.nih.gov>
 <29375C19-58B7-4A9A-9B6D-EF79D51A7691@bluequartz.net>
 <CF65FCD6-70C6-440B-A4A2-1F5D2D183AF6@bluequartz.net>
 <CALzTN-RwaPUD_KvJDptjfXr84oX_uY7ig2pC0mE=e+0jUr+OzQ@mail.gmail.com>
 <DE6F155B-2295-46BE-AB01-F0B04EB37DC0@bluequartz.net>
 <CALzTN-QyFafJ-yibz+B3Qs6Xf-1XMLbjOYVKREi4ssrQVS1yBA@mail.gmail.com>
 <454718DB-56FA-4AC3-B1CF-59964ED9523B@bluequartz.net>
 <7EFC0503-D75F-4E0D-94F9-42679FBFF090@bluequartz.net>
 <CALzTN-QvbYv6z6oNdOS6atmMntu8T3scug7Ja9vf8Nrs6k15Vw@mail.gmail.com>
 <1A9507C2-C1A4-4D77-A6A2-EE79D111F578@bluequartz.net>
Message-ID: <57B084C5-869D-4074-BE60-54016738F139@mail.nih.gov>

I still think it's a failing dynamic cast some place.

You could try adding SimpleITK's Explicit library[1] which explicitly instantiates common types used in SimpleITK. Its possible having some of the Core Common classes instated in a shared library resolves the problem. The library should be fairly independent and easy to separate.

HTH,
Brad

[1] https://github.com/SimpleITK/SimpleITK/tree/master/Code/Explicit

On Nov 2, 2015, at 12:17 PM, Michael Jackson <mike.jackson at bluequartz.net> wrote:

> That did not seem to help either. Any more ideas? Does ITK build some intermediate static libraries that have ?managers? that load filters? I ran into an issue with our own code where we had static libraries with singleton ?manager? design patterns that turned out not to work due to each library getting its own singleton instance.
> --
> Mike Jackson  [mike.jackson at bluequartz.net]
> 
> 
>> On Oct 30, 2015, at 4:07 PM, Matt McCormick <matt.mccormick at kitware.com> wrote:
>> 
>> Thanks for the information.
>> 
>> It is hard to tell, but maybe it is related to factory registration.
>> To test, try this:
>> 
>> In the plugin CMake code, add
>> 
>>  set(ITK_NO_IO_FACTORY_REGISTER_MANAGER 1)
>> 
>> before
>> 
>>  include(${ITK_USE_FILE})
>> 
>> Then see if neither plugins work, both plugins work, and one of the
>> plugins works.
>> 
>> HTH,
>> Matt
>> 
>> On Fri, Oct 30, 2015 at 1:36 PM, Michael Jackson
>> <mike.jackson at bluequartz.net> wrote:
>>> Some more data. If we create an intermediate library that links to ITK, called ITKSupport, and then have our plugins link against ITKSupport then the code executes correctly. Just another data point.
>>> --
>>> Michael A. Jackson
>>> BlueQuartz Software, LLC
>>> [e]: mike.jackson at bluequartz.net
>>> 
>>>> On Oct 30, 2015, at 12:57 PM, Michael Jackson <mike.jackson at bluequartz.net> wrote:
>>>> 
>>>> Yes. Verified. Both plugins are built as part of DREAM.3D and we don?t put any extra CXX_FLAGS in any of the CMake files. We also built with VERBOSE=1 and looked at the compile commands to ensure that what we wanted was actually being used. Then we looked at the libraries themselves with otool -L to ensure they all link against libC++. Which they do.
>>>> 
>>>> 
>>>> --
>>>> Michael A. Jackson
>>>> BlueQuartz Software, LLC
>>>> [e]: mike.jackson at bluequartz.net
>>>> 
>>>>> On Oct 30, 2015, at 12:05 PM, Matt McCormick <matt.mccormick at kitware.com> wrote:
>>>>> 
>>>>> Hi Michael,
>>>>> 
>>>>> Sorry to be redundant, and just to be sure: are both A.plugin and
>>>>> B.plugin built with the same C++ standard library, OSX deployment
>>>>> target, and C++ standard?
>>>>> 
>>>>> Thanks,
>>>>> Matt
>>>>> 
>>>>> On Fri, Oct 30, 2015 at 11:35 AM, Michael Jackson
>>>>> <mike.jackson at bluequartz.net> wrote:
>>>>>> 
>>>>>> 
>>>>>>> On Oct 29, 2015, at 11:40 AM, Matt McCormick <matt.mccormick at kitware.com> wrote:
>>>>>>> 
>>>>>>> On Thu, Oct 29, 2015 at 10:00 AM, Michael Jackson
>>>>>>> <mike.jackson at bluequartz.net> wrote:
>>>>>>>> We also ran an experiment where we moved the ITK Dependency from just the
>>>>>>>> plugin down into one of our lower level libraries. So now we have the plugin
>>>>>>>> dependent on a lower level library which then is dependent on the ITK
>>>>>>>> Libraries. Now the code seems to execute and produce results. This was on OS
>>>>>>>> X 10.9 and 10.10. So it seems that there is some odd issue with loading the
>>>>>>>> ITK libraries through a plugin mechanism? Does ITK need the ?-fPIC? added to
>>>>>>>> the list of compile commands?
>>>>>>> 
>>>>>>> If ITK is built in a plugin as shared libraries, then it will already
>>>>>>> be built with -fPIC.
>>>>>>> 
>>>>>>> 
>>>>>>>> Qt is actually built WITHOUT C++11 support but still links against libc++.
>>>>>>>> They (the Qt Devs) set the OS X Min Deployment Version to 10.7. I have no
>>>>>>>> idea what that triggers or not.
>>>>>>> 
>>>>>>> All code should be built with the same C++ standard and OSX deployment
>>>>>>> target. When building ITK and related code, set
>>>>>>> CMAKE_OSX_DEPLOYMENT_TARGET [1] to 10.7 to ensure all binaries are
>>>>>>> using consistent libraries.
>>>>>>> 
>>>>>>> HTH,
>>>>>>> Matt
>>>>>>> 
>>>>>>> [1] https://cmake.org/cmake/help/v3.3/variable/CMAKE_OSX_DEPLOYMENT_TARGET.html
>>>>>> 
>>>>>> Matt,
>>>>>> We have verified that ALL dependent libraries are built with libC++, 10.7 as the min deployment, C++11 enabled. This goes for Boost, HDF5, Eigen, ITK, and Qt 5.5.1. We still have the issue. We can also reproduce that if we move the dependency to a lower level then the issue goes away. So it would seem that there is a problem with multiple plugins being dependent on the same External library. in this case it is ITK. I?ll try to diagram below.
>>>>>> ## Failure Mode ##
>>>>>> A.plugin depends on ITK
>>>>>> A.plugin depends on SIMPlib.
>>>>>> 
>>>>>> B.plugin depends on ITK
>>>>>> B.plugin depends on SIMPlib.
>>>>>> 
>>>>>> B.plugin will fail to execute properly.
>>>>>> 
>>>>>> ## Success Mode ##
>>>>>> A.plugin depends on SIMPlib.
>>>>>> SIMPlib depends on ITK
>>>>>> 
>>>>>> B.plugin depends on SIMPlib.
>>>>>> SIMPlib depends on ITK
>>>>>> 
>>>>>> The DREAM.3D filters both execute properly and give the proper output.
>>>>>> 
>>>>>> --
>>>>>> Michael A. Jackson
>>>>>> BlueQuartz Software, LLC
>>>>>> [e]: mike.jackson at bluequartz.net
>>>>>> _____________________________________
>>>>>> Powered by www.kitware.com
>>>>>> 
>>>>>> Visit other Kitware open-source projects at
>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>> 
>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>> http://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 f_u_7 at yahoo.com  Mon Nov  2 15:03:22 2015
From: f_u_7 at yahoo.com (lucky)
Date: Mon, 2 Nov 2015 13:03:22 -0700 (MST)
Subject: [ITK-users] How can I remove overlapped MRI DICOM images from the
	data?
Message-ID: <1446494602425-7588120.post@n2.nabble.com>

I have a data set of MRI DICOM images that was scanned using Torso/Body Coil.
We used multiple slabs of the coil to scanned the full arm. In the finalized
data, we have the overlapped region/images of sequences, we want to remove
those overlapped images from the data set. Of course, we will want to use
the high quality image and discard the noisy one if there is a overlap of
two.  

My first question is, 

How can we distinguish the overlapped image from the DICOM data set? There
is one metadata "0020|0032 "Image Position Patient" that can be used for
this, but is there anything else that I can use? 

My second question is, 

Is there any way/algorithm in ITK that can remove/delete the overlapped
images and save after that as new data set? I would also need to rearrange
the "vtkImageData*" in order to visualize the final data set without any
overlapped regions? 

third question, 

Is there anything similar to what I want to achieve in 3D Slicer 4.4. 

I have my own visualizer that is written in C++, ITK, VTK, so it would be
great if I can use something from ITK. Can anyone point me out what features
of ITK do I need to consider to remove/delete overlapped images and save the
remaining images as a new data set? I am also confused about what images do
I need to remove Axial only? Images were scanned as Axial. 

Thanks, 



--
View this message in context: http://itk-insight-users.2283740.n2.nabble.com/How-can-I-remove-overlapped-MRI-DICOM-images-from-the-data-tp7588120.html
Sent from the ITK Insight Users mailing list archive at Nabble.com.

From mike.jackson at bluequartz.net  Mon Nov  2 16:36:41 2015
From: mike.jackson at bluequartz.net (Michael Jackson)
Date: Mon, 2 Nov 2015 16:36:41 -0500
Subject: [ITK-users] [ITK] Buffered Region out of Range error
In-Reply-To: <57B084C5-869D-4074-BE60-54016738F139@mail.nih.gov>
References: <C1CA0247-EC76-4677-8679-6A2867C7ED59@bluequartz.net>
 <CALzTN-S-xzRugHCgP6KeEfM7HzjxLXE7ONOSsQ+kTCutUT4mxQ@mail.gmail.com>
 <9D1176BA-4865-45C9-B499-234F66922463@bluequartz.net>
 <17C498DE-21D8-4EE5-BCD9-85286B8B9E50@mail.nih.gov>
 <B517CAFD-A291-4213-B507-D00447853697@bluequartz.net>
 <5EA71915-616F-4FFD-91E8-26941201051C@mail.nih.gov>
 <29375C19-58B7-4A9A-9B6D-EF79D51A7691@bluequartz.net>
 <CF65FCD6-70C6-440B-A4A2-1F5D2D183AF6@bluequartz.net>
 <CALzTN-RwaPUD_KvJDptjfXr84oX_uY7ig2pC0mE=e+0jUr+OzQ@mail.gmail.com>
 <DE6F155B-2295-46BE-AB01-F0B04EB37DC0@bluequartz.net>
 <CALzTN-QyFafJ-yibz+B3Qs6Xf-1XMLbjOYVKREi4ssrQVS1yBA@mail.gmail.com>
 <454718DB-56FA-4AC3-B1CF-59964ED9523B@bluequartz.net>
 <7EFC0503-D75F-4E0D-94F9-42679FBFF090@bluequartz.net>
 <CALzTN-QvbYv6z6oNdOS6atmMntu8T3scug7Ja9vf8Nrs6k15Vw@mail.gmail.com>
 <1A9507C2-C1A4-4D77-A6A2-EE79D111F578@bluequartz.net>
 <57B084C5-869D-4074-BE60-54016738F139@mail.nih.gov>
Message-ID: <A775F221-C42C-4620-AD54-4AF5D5241A64@bluequartz.net>

Your suspicions may be correct. We tried with a different filter (Sobel Edge) and get the following Exception from ITK:

"Failed to execute itk::SobelEdgeDetectionImageFilter filter. Error Message returned from ITK:
      itk::ERROR: Image(0x7fb12a112f60): itk::ImageBase::CopyInformation() cannot cast PKN3itk10DataObjectE to PKN3itk9ImageBaseILj3EEE?

Does this help diagnosing the issue?

We have also found that if our actual application is linked against ITK then the code will execute without issues. If the application is NOT linked against ITK but instead only the plugin itself is linked against ITK then the code will fail when multiple plugins are linked against ITK.

Again, thanks for all the help.
--
Mike Jackson  [mike.jackson at bluequartz.net]


> On Nov 2, 2015, at 1:12 PM, Bradley Lowekamp <blowekamp at mail.nih.gov> wrote:
> 
> I still think it's a failing dynamic cast some place.
> 
> You could try adding SimpleITK's Explicit library[1] which explicitly instantiates common types used in SimpleITK. Its possible having some of the Core Common classes instated in a shared library resolves the problem. The library should be fairly independent and easy to separate.
> 
> HTH,
> Brad
> 
> [1] https://github.com/SimpleITK/SimpleITK/tree/master/Code/Explicit
> 
> On Nov 2, 2015, at 12:17 PM, Michael Jackson <mike.jackson at bluequartz.net> wrote:
> 
>> That did not seem to help either. Any more ideas? Does ITK build some intermediate static libraries that have ?managers? that load filters? I ran into an issue with our own code where we had static libraries with singleton ?manager? design patterns that turned out not to work due to each library getting its own singleton instance.
>> --
>> Mike Jackson  [mike.jackson at bluequartz.net]
>> 
>> 
>>> On Oct 30, 2015, at 4:07 PM, Matt McCormick <matt.mccormick at kitware.com> wrote:
>>> 
>>> Thanks for the information.
>>> 
>>> It is hard to tell, but maybe it is related to factory registration.
>>> To test, try this:
>>> 
>>> In the plugin CMake code, add
>>> 
>>>  set(ITK_NO_IO_FACTORY_REGISTER_MANAGER 1)
>>> 
>>> before
>>> 
>>>  include(${ITK_USE_FILE})
>>> 
>>> Then see if neither plugins work, both plugins work, and one of the
>>> plugins works.
>>> 
>>> HTH,
>>> Matt
>>> 
>>> On Fri, Oct 30, 2015 at 1:36 PM, Michael Jackson
>>> <mike.jackson at bluequartz.net> wrote:
>>>> Some more data. If we create an intermediate library that links to ITK, called ITKSupport, and then have our plugins link against ITKSupport then the code executes correctly. Just another data point.
>>>> --
>>>> Michael A. Jackson
>>>> BlueQuartz Software, LLC
>>>> [e]: mike.jackson at bluequartz.net
>>>> 
>>>>> On Oct 30, 2015, at 12:57 PM, Michael Jackson <mike.jackson at bluequartz.net> wrote:
>>>>> 
>>>>> Yes. Verified. Both plugins are built as part of DREAM.3D and we don?t put any extra CXX_FLAGS in any of the CMake files. We also built with VERBOSE=1 and looked at the compile commands to ensure that what we wanted was actually being used. Then we looked at the libraries themselves with otool -L to ensure they all link against libC++. Which they do.
>>>>> 
>>>>> 
>>>>> --
>>>>> Michael A. Jackson
>>>>> BlueQuartz Software, LLC
>>>>> [e]: mike.jackson at bluequartz.net
>>>>> 
>>>>>> On Oct 30, 2015, at 12:05 PM, Matt McCormick <matt.mccormick at kitware.com> wrote:
>>>>>> 
>>>>>> Hi Michael,
>>>>>> 
>>>>>> Sorry to be redundant, and just to be sure: are both A.plugin and
>>>>>> B.plugin built with the same C++ standard library, OSX deployment
>>>>>> target, and C++ standard?
>>>>>> 
>>>>>> Thanks,
>>>>>> Matt
>>>>>> 
>>>>>> On Fri, Oct 30, 2015 at 11:35 AM, Michael Jackson
>>>>>> <mike.jackson at bluequartz.net> wrote:
>>>>>>> 
>>>>>>> 
>>>>>>>> On Oct 29, 2015, at 11:40 AM, Matt McCormick <matt.mccormick at kitware.com> wrote:
>>>>>>>> 
>>>>>>>> On Thu, Oct 29, 2015 at 10:00 AM, Michael Jackson
>>>>>>>> <mike.jackson at bluequartz.net> wrote:
>>>>>>>>> We also ran an experiment where we moved the ITK Dependency from just the
>>>>>>>>> plugin down into one of our lower level libraries. So now we have the plugin
>>>>>>>>> dependent on a lower level library which then is dependent on the ITK
>>>>>>>>> Libraries. Now the code seems to execute and produce results. This was on OS
>>>>>>>>> X 10.9 and 10.10. So it seems that there is some odd issue with loading the
>>>>>>>>> ITK libraries through a plugin mechanism? Does ITK need the ?-fPIC? added to
>>>>>>>>> the list of compile commands?
>>>>>>>> 
>>>>>>>> If ITK is built in a plugin as shared libraries, then it will already
>>>>>>>> be built with -fPIC.
>>>>>>>> 
>>>>>>>> 
>>>>>>>>> Qt is actually built WITHOUT C++11 support but still links against libc++.
>>>>>>>>> They (the Qt Devs) set the OS X Min Deployment Version to 10.7. I have no
>>>>>>>>> idea what that triggers or not.
>>>>>>>> 
>>>>>>>> All code should be built with the same C++ standard and OSX deployment
>>>>>>>> target. When building ITK and related code, set
>>>>>>>> CMAKE_OSX_DEPLOYMENT_TARGET [1] to 10.7 to ensure all binaries are
>>>>>>>> using consistent libraries.
>>>>>>>> 
>>>>>>>> HTH,
>>>>>>>> Matt
>>>>>>>> 
>>>>>>>> [1] https://cmake.org/cmake/help/v3.3/variable/CMAKE_OSX_DEPLOYMENT_TARGET.html
>>>>>>> 
>>>>>>> Matt,
>>>>>>> We have verified that ALL dependent libraries are built with libC++, 10.7 as the min deployment, C++11 enabled. This goes for Boost, HDF5, Eigen, ITK, and Qt 5.5.1. We still have the issue. We can also reproduce that if we move the dependency to a lower level then the issue goes away. So it would seem that there is a problem with multiple plugins being dependent on the same External library. in this case it is ITK. I?ll try to diagram below.
>>>>>>> ## Failure Mode ##
>>>>>>> A.plugin depends on ITK
>>>>>>> A.plugin depends on SIMPlib.
>>>>>>> 
>>>>>>> B.plugin depends on ITK
>>>>>>> B.plugin depends on SIMPlib.
>>>>>>> 
>>>>>>> B.plugin will fail to execute properly.
>>>>>>> 
>>>>>>> ## Success Mode ##
>>>>>>> A.plugin depends on SIMPlib.
>>>>>>> SIMPlib depends on ITK
>>>>>>> 
>>>>>>> B.plugin depends on SIMPlib.
>>>>>>> SIMPlib depends on ITK
>>>>>>> 
>>>>>>> The DREAM.3D filters both execute properly and give the proper output.
>>>>>>> 
>>>>>>> --
>>>>>>> Michael A. Jackson
>>>>>>> BlueQuartz Software, LLC
>>>>>>> [e]: mike.jackson at bluequartz.net
>>>>>>> _____________________________________
>>>>>>> Powered by www.kitware.com
>>>>>>> 
>>>>>>> Visit other Kitware open-source projects at
>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>> 
>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>> http://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 wiegel at mv.uni-kl.de  Tue Nov  3 08:22:22 2015
From: wiegel at mv.uni-kl.de (Timo Wiegel)
Date: Tue, 3 Nov 2015 13:22:22 +0000
Subject: [ITK-users] Cable Swig, what changes to normal swig
Message-ID: <F0552EDC5C1B3741BF19D8D223B5CEAEEADA81@EXMBX06.rhrk.uni-kl.de>

Hello,

I used swig for a Matab Wrapper. There is a Matlab Modul for swig by jaeandersson (https://github.com/jaeandersson/swig).
Because I work on a Windows System I used MinGW to compile, which isn't a nice work.

As I saw, the swig/CableSwig implementation of Kitware, so I tried to move to CableSwig. I'm a happy user of CMake :).

I now see there is some difference in the swig-syntax. Can you sum up the changes for me, so I have an opinion how long I will need for the move to CableSwig.

At the moment I see:
Fragments can't be type specialized as in swig.
Is there a reason you removed this?
I think I could change this for me, but if there are lot of those changes it will be to time consuming.

The swig-language-moduls have a little bit different interface. I think if there aren't to many changes, I could change the matlab modul, to work with CableSwig

Thx
Timo


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From matt.mccormick at kitware.com  Tue Nov  3 10:39:55 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Tue, 3 Nov 2015 10:39:55 -0500
Subject: [ITK-users] Cable Swig, what changes to normal swig
In-Reply-To: <F0552EDC5C1B3741BF19D8D223B5CEAEEADA81@EXMBX06.rhrk.uni-kl.de>
References: <F0552EDC5C1B3741BF19D8D223B5CEAEEADA81@EXMBX06.rhrk.uni-kl.de>
Message-ID: <CALzTN-SBgWTWx7esSQLHzO6Dh=y+CQQmKNGajaUB7aWvEoYrRg@mail.gmail.com>

Hi Timo,

The CableSwig package is no longer supported.  We currently use
upstream swig for wrapping ITK. In general, though, CMake works well
for building swig output.

HTH,
Matt

On Tue, Nov 3, 2015 at 8:22 AM, Timo Wiegel <wiegel at mv.uni-kl.de> wrote:
> Hello,
>
>
>
> I used swig for a Matab Wrapper. There is a Matlab Modul for swig by
> jaeandersson (https://github.com/jaeandersson/swig).
>
> Because I work on a Windows System I used MinGW to compile, which isn?t a
> nice work.
>
>
>
> As I saw, the swig/CableSwig implementation of Kitware, so I tried to move
> to CableSwig. I?m a happy user of CMake J.
>
>
>
> I now see there is some difference in the swig-syntax. Can you sum up the
> changes for me, so I have an opinion how long I will need for the move to
> CableSwig.
>
>
>
> At the moment I see:
>
> Fragments can?t be type specialized as in swig.
>
> Is there a reason you removed this?
>
> I think I could change this for me, but if there are lot of those changes it
> will be to time consuming.
>
>
>
> The swig-language-moduls have a little bit different interface. I think if
> there aren?t to many changes, I could change the matlab modul, to work with
> CableSwig
>
>
>
> Thx
>
> Timo
>
>
>
>
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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 zhuangming.shen at sphic.org.cn  Tue Nov  3 19:17:48 2015
From: zhuangming.shen at sphic.org.cn (=?utf-8?B?5rKI5bqE5piO?=)
Date: Wed, 4 Nov 2015 00:17:48 +0000
Subject: [ITK-users] How to write the codes in python?
Message-ID: <1446596266338.47108@sphic.org.cn>

Hi all,


I'd like to know how to convert Image1.cxx (see codes below) to python, especially "ImageType::RegionType region;?". Could anyone give me some hints? Thanks in advance.



typedef itk::Image<unsigned short, 3> ImageType;

ImageType::Pointer image = ImageType::New();


ImageType::IndexType start;

start[0] = 0;

start[1] = 0;

start[2] = 0;


ImageType::SizeType size;

size[0] = 200;

size[1] = 200;

size[2] = 200;


ImageType::RegionType region;

region.SetSize(size);

region.SetIndex(start);


image->SetRegions(region);

image->Allocate();



Regards,


Zhuangming Shen
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From juanprietob at gmail.com  Tue Nov  3 20:55:13 2015
From: juanprietob at gmail.com (Juan Carlos Prieto)
Date: Tue, 3 Nov 2015 20:55:13 -0500
Subject: [ITK-users] emscripten itkImageReader
Message-ID: <CAPWJNGQaues0FOf7sqpR9iVvdB572R0EavUW--eZ9TLBcLCGYA@mail.gmail.com>

Dear all,

I have started using emscripten to develop a plugin to read medical images
in the browser.

I have a compiled version of my code that works in Node.js.
I am able to read an image, manipulate the data and write the image.

However, whenever I tried to execute the same code in the browser, the
itk::ImageReader seems to be creating a reader for PNG only.

This is an example code that I am execuitng:

var itkImageJS = new module.itkImageJS();
console.log("Installing file: ");
var input_filepath = '/raw/test.nii.gz';
FS.writeFile(input_filepath, imagedata, { encoding: 'binary' });

var stat = FS.stat(input_filepath);//The file exists!

itkImageJS.ReadImage(input_filepath);


And this is the output from the exception:

itk::ExceptionObject (0x6a5710)
testFS.js:1 Location: "unknown"
testFS.js:1 File: .../ITK/Modules/IO/PNG/src/itkPNGImageIO.cxx
testFS.js:1 Line: 107
testFS.js:1 Description: itk::ERROR: PNGImageIO(0x975628): PNGImageIO
failed to read header for file:
testFS.js:1 Reason: fread read only 0 instead of 8

Instead of creating the reader for a Nifti image, the reader is for PNG
image.

Is it possible to read other type of files in the browser?
Do I have to read the data server side and stream it to the client?

Any comments or suggestions will be greatly appreciated.

Best regards,

Juan
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From juanprietob at gmail.com  Tue Nov  3 22:07:09 2015
From: juanprietob at gmail.com (Juan Carlos Prieto)
Date: Tue, 3 Nov 2015 22:07:09 -0500
Subject: [ITK-users] emscripten itkImageReader
In-Reply-To: <CAPWJNGQaues0FOf7sqpR9iVvdB572R0EavUW--eZ9TLBcLCGYA@mail.gmail.com>
References: <CAPWJNGQaues0FOf7sqpR9iVvdB572R0EavUW--eZ9TLBcLCGYA@mail.gmail.com>
Message-ID: <CAPWJNGQgQmpR_AuL155N_NPL6XU5wvv=6s=dBhyZ8H6_Q6hk2g@mail.gmail.com>

Apologies,

I found the error in my code, now it works!

var itkImageJS = new module.itkImageJS();
console.log("Installing file: ");
var input_filepath = '/raw/test.nii.gz';
FS.writeFile(input_filepath, *new Uint8Array(imagedata)*, { encoding:
'binary' });

var stat = FS.stat(input_filepath);//The file exists!
itkImageJS.ReadImage(input_filepath);



Best regards,

Juan



On Tue, Nov 3, 2015 at 8:55 PM, Juan Carlos Prieto <juanprietob at gmail.com>
wrote:

> Dear all,
>
> I have started using emscripten to develop a plugin to read medical images
> in the browser.
>
> I have a compiled version of my code that works in Node.js.
> I am able to read an image, manipulate the data and write the image.
>
> However, whenever I tried to execute the same code in the browser, the
> itk::ImageReader seems to be creating a reader for PNG only.
>
> This is an example code that I am execuitng:
>
> var itkImageJS = new module.itkImageJS();
> console.log("Installing file: ");
> var input_filepath = '/raw/test.nii.gz';
> FS.writeFile(input_filepath, imagedata, { encoding: 'binary' });
>
> var stat = FS.stat(input_filepath);//The file exists!
>
> itkImageJS.ReadImage(input_filepath);
>
>
> And this is the output from the exception:
>
> itk::ExceptionObject (0x6a5710)
> testFS.js:1 Location: "unknown"
> testFS.js:1 File: .../ITK/Modules/IO/PNG/src/itkPNGImageIO.cxx
> testFS.js:1 Line: 107
> testFS.js:1 Description: itk::ERROR: PNGImageIO(0x975628): PNGImageIO
> failed to read header for file:
> testFS.js:1 Reason: fread read only 0 instead of 8
>
> Instead of creating the reader for a Nifti image, the reader is for PNG
> image.
>
> Is it possible to read other type of files in the browser?
> Do I have to read the data server side and stream it to the client?
>
> Any comments or suggestions will be greatly appreciated.
>
> Best regards,
>
> Juan
>
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From matt.mccormick at kitware.com  Tue Nov  3 23:24:44 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Tue, 3 Nov 2015 23:24:44 -0500
Subject: [ITK-users] emscripten itkImageReader
In-Reply-To: <CAPWJNGQgQmpR_AuL155N_NPL6XU5wvv=6s=dBhyZ8H6_Q6hk2g@mail.gmail.com>
References: <CAPWJNGQaues0FOf7sqpR9iVvdB572R0EavUW--eZ9TLBcLCGYA@mail.gmail.com>
 <CAPWJNGQgQmpR_AuL155N_NPL6XU5wvv=6s=dBhyZ8H6_Q6hk2g@mail.gmail.com>
Message-ID: <CALzTN-TjbqzrBdTy9UUv_RCbLyH+zmAPKdmL2WroxHNS_zeQtQ@mail.gmail.com>

Hi Juan,

Good to hear -- thanks for sharing!


Side note -- by using

  find_package(ITK REQUIRED COMPONENTS ModuleA ModuleB IOModuleA IOModuleB ... )

you can specify what IO modules to support.  If COMPONENTS is not
specified, then all the available modules are used.  However, for
Emscripten, this can greatly increase the .js file size.  So, limiting
the modules to the formats is a way to improve .js file size.

Cheers,
Matt

On Tue, Nov 3, 2015 at 10:07 PM, Juan Carlos Prieto
<juanprietob at gmail.com> wrote:
> Apologies,
>
> I found the error in my code, now it works!
>
> var itkImageJS = new module.itkImageJS();
> console.log("Installing file: ");
> var input_filepath = '/raw/test.nii.gz';
> FS.writeFile(input_filepath, new Uint8Array(imagedata), { encoding: 'binary'
> });
>
> var stat = FS.stat(input_filepath);//The file exists!
> itkImageJS.ReadImage(input_filepath);
>
>
>
> Best regards,
>
> Juan
>
>
>
> On Tue, Nov 3, 2015 at 8:55 PM, Juan Carlos Prieto <juanprietob at gmail.com>
> wrote:
>>
>> Dear all,
>>
>> I have started using emscripten to develop a plugin to read medical images
>> in the browser.
>>
>> I have a compiled version of my code that works in Node.js.
>> I am able to read an image, manipulate the data and write the image.
>>
>> However, whenever I tried to execute the same code in the browser, the
>> itk::ImageReader seems to be creating a reader for PNG only.
>>
>> This is an example code that I am execuitng:
>>
>> var itkImageJS = new module.itkImageJS();
>> console.log("Installing file: ");
>> var input_filepath = '/raw/test.nii.gz';
>> FS.writeFile(input_filepath, imagedata, { encoding: 'binary' });
>>
>> var stat = FS.stat(input_filepath);//The file exists!
>>
>> itkImageJS.ReadImage(input_filepath);
>>
>>
>> And this is the output from the exception:
>>
>> itk::ExceptionObject (0x6a5710)
>> testFS.js:1 Location: "unknown"
>> testFS.js:1 File: .../ITK/Modules/IO/PNG/src/itkPNGImageIO.cxx
>> testFS.js:1 Line: 107
>> testFS.js:1 Description: itk::ERROR: PNGImageIO(0x975628): PNGImageIO
>> failed to read header for file:
>> testFS.js:1 Reason: fread read only 0 instead of 8
>>
>> Instead of creating the reader for a Nifti image, the reader is for PNG
>> image.
>>
>> Is it possible to read other type of files in the browser?
>> Do I have to read the data server side and stream it to the client?
>>
>> Any comments or suggestions will be greatly appreciated.
>>
>> Best regards,
>>
>> Juan
>
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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 matt.mccormick at kitware.com  Tue Nov  3 23:52:58 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Tue, 3 Nov 2015 23:52:58 -0500
Subject: [ITK-users] How to write the codes in python?
In-Reply-To: <1446596266338.47108@sphic.org.cn>
References: <1446596266338.47108@sphic.org.cn>
Message-ID: <CALzTN-Sy=HMRT-6fmq0N-L0R-wYpsaQS=eNP5u6YXH3rLb_91Q@mail.gmail.com>

Hello Zhuangming,

Here is a gist:

  https://gist.github.com/thewtex/ce403fef7bc09ca5392d

Note that you should ensure that ITK_WRAP_unsigned_short is ON in your
CMake configuration.

HTH,
Matt

On Tue, Nov 3, 2015 at 7:17 PM, ??? <zhuangming.shen at sphic.org.cn> wrote:
> Hi all,
>
>
> I'd like to know how to convert Image1.cxx (see codes below) to python,
> especially "ImageType::RegionType region;". Could anyone give me some hints?
> Thanks in advance.
>
>
>
> typedef itk::Image<unsigned short, 3> ImageType;
>
> ImageType::Pointer image = ImageType::New();
>
>
> ImageType::IndexType start;
>
> start[0] = 0;
>
> start[1] = 0;
>
> start[2] = 0;
>
>
> ImageType::SizeType size;
>
> size[0] = 200;
>
> size[1] = 200;
>
> size[2] = 200;
>
>
> ImageType::RegionType region;
>
> region.SetSize(size);
>
> region.SetIndex(start);
>
>
> image->SetRegions(region);
>
> image->Allocate();
>
>
>
> Regards,
>
>
> Zhuangming Shen
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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 fitz at zhaw.ch  Wed Nov  4 07:54:27 2015
From: fitz at zhaw.ch (Fitze Thomas (fitz))
Date: Wed, 4 Nov 2015 12:54:27 +0000
Subject: [ITK-users] IOSTL module does not register the factory
Message-ID: <1F4578D0-5EFF-411D-B292-89463BBCD32A@zhaw.ch>

Hi all,

I built ITK 4.8.1 with the external IOSTL module and am trying to use it in my CMake project like this:

find_package(ITK REQUIRED IOSTL)
include(${ITK_USE_FILE})

But that does not seem to correctly register the STLMeshIOFactory yielding a a "Could not create IO object for file test.stl? error when trying to load a stl. When i register the factory manually:

itk::STLMeshIOFactory::RegisterOneFactory();

it works as expected. But of course, that messes up all the other factories registered by CMake.

Whats going on here and how do i fix it?

Best,
Thomas
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From chvillap at gmail.com  Wed Nov  4 11:44:50 2015
From: chvillap at gmail.com (Carlos Henrique Villa Pinto)
Date: Wed, 4 Nov 2015 14:44:50 -0200
Subject: [ITK-users] Segmentation fault when trying to generate a
 BSpline transform from a set of matching landmarks
In-Reply-To: <CALzTN-R8kkctx8NmKJVEtaNEOU61TPCeFpAFO58Zs5RsCN_WPw@mail.gmail.com>
References: <CAHa3=2kYemTOMua1BHkXpNNRiqPanfFd6WUU3poE+eGdn8ahAg@mail.gmail.com>
 <CALzTN-R8kkctx8NmKJVEtaNEOU61TPCeFpAFO58Zs5RsCN_WPw@mail.gmail.com>
Message-ID: <CAHa3=2kCC8b+bcLy9zqs8=-TmkoXfBpOgfN9v2ncB9iSChNiFQ@mail.gmail.com>

Hi Matt,

I installed the most recent version of ITK from Git master, wrote a SSCCE
code and tried again.
There is no segmentation fault anymore (good!), but now the program
terminates after throwing the following exception:

terminate called after throwing an instance of 'itk::ExceptionObject'
  what():
 /home/carlos/workspace/libraries/ITK/src/Modules/Core/Common/src/itkMultiThreader.cxx:417:
itk::ERROR: MultiThreader(0x1757290): Exception occurred during
SingleMethodExecute
/usr/local/include/ITK-4.9/itkBSplineScatteredDataPointSetToImageFilter.hxx:621:
itk::ERROR: PointSetToImageFilter(0x1761130): The reparameterized point
component -0.15748 is outside the corresponding parametric domain of [0, 2).

I still don't know why this is happening, but it seems to me that it has to
do with the image orientation... because my short example works fine when
the direction matrices of the fixed/moving images have positive values
only. If they have any negative value, however, the exception above is
thrown (segmentation fault in previous ITK versions).

I attached my SSCCE code for anyone who wants to take a look. You can use
it to manually define values for the direction matrix and see what happens.
No input data is needed.

Please let me know if you find out anything.

Thanks!
[]s

2015-11-02 14:10 GMT-02:00 Matt McCormick <matt.mccormick at kitware.com>:

> Hi Carlos,
>
> There have been some improvements to the
> LandmarkBasedTransformInitializer recently, so could you please try
> with Git master [1]?
>
> If the issue remains, could you please share a short, self-contained,
> compilable example?
>
> Thanks,
> Matt
>
> [1] http://www.itk.org/Wiki/ITK/Git
>
> [2] http://www.sscce.org/
>
> On Thu, Oct 29, 2015 at 9:12 AM, Carlos Henrique Villa Pinto
> <chvillap at gmail.com> wrote:
> > Hi, everyone.
> >
> > I have two sets of landmark points, detected from two different 3D MR
> > images, and I'm trying to estimate a nonlinear mapping between the pairs
> of
> > matching landmarks. I already have the matchings, I just need to
> generate a
> > BSpline transform from them. The LandmarkBasedTransformInitializer class
> > seems perfect for that, but when I call its InitializeTransform() method
> > (after setting all the required input parameters), the result is a
> > segmentation fault.
> >
> > I'm using ITK 4.8.0. I checked the source code and made some tests, but
> the
> > only thing that I could find out is that the problem happens in the
> > GenerateData() method of the BSplineScatteredDataPointSetToImageFilter
> > class, when the SingleMethodExecute() method is called by the
> > ThreadGenerator object. In such version of ITK, that happens in line 314
> of
> > the file BSplineScatteredDataPointSetToImageFilter.hxx. I couldn't go
> > further because I have no clue of what exactly is being called by the
> > ThreaderCallback in that class.
> >
> > Does anyone have any clue about what sort of things could cause a
> > segmentation fault in the BSplineScatteredDataPointSetToImageFilter
> class?
> > Could that be a bug, maybe?
> >
> > I don't know if this information is relevant, but my images have both LPI
> > orientation, origin = (-127.5, -127.5, -127.5) and spacing = 2 x 2 x 2
> mm.
> > And I'm using the SetReferenceImage() method of the
> > LandmarkBasedTransformInitializer class to define the parametric domain
> of
> > the BSpline transform.
> >
> > I can provide some pieces of code and more information about my data if
> > needed.
> >
> > Thanks in advance!
> >
> > []s
> >
> > --
> > Carlos Henrique Villa Pinto
> > Graduate Student in Computer Science
> > Federal University of S?o Carlos - Brazil
> > XCS
> >
> > _____________________________________
> > Powered by www.kitware.com
> >
> > Visit other Kitware open-source projects at
> > http://www.kitware.com/opensource/opensource.html
> >
> > Kitware offers ITK Training Courses, for more information visit:
> > http://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
> >
>



-- 
Carlos Henrique Villa Pinto
Graduate Student in Computer Science
Federal University of S?o Carlos - Brazil
XCS
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From ntustison at gmail.com  Wed Nov  4 11:54:37 2015
From: ntustison at gmail.com (Nicholas Tustison)
Date: Wed, 4 Nov 2015 08:54:37 -0800
Subject: [ITK-users] Segmentation fault when trying to generate a
	BSpline transform from a set of matching landmarks
In-Reply-To: <CAHa3=2kCC8b+bcLy9zqs8=-TmkoXfBpOgfN9v2ncB9iSChNiFQ@mail.gmail.com>
References: <CAHa3=2kYemTOMua1BHkXpNNRiqPanfFd6WUU3poE+eGdn8ahAg@mail.gmail.com>
 <CALzTN-R8kkctx8NmKJVEtaNEOU61TPCeFpAFO58Zs5RsCN_WPw@mail.gmail.com>
 <CAHa3=2kCC8b+bcLy9zqs8=-TmkoXfBpOgfN9v2ncB9iSChNiFQ@mail.gmail.com>
Message-ID: <4CABB15B-8C47-4C59-98A5-232643308995@gmail.com>

Hi all,

The problem, I?m guessing, is exactly as Carlos points out?
The direction cosines are not identity and the LandmarkBased
TransformInitializer isn?t handling it properly.  The B-spline 
filter operates in the parametric domain and so it has no sense of 
the physical orientation.  

if you take a look at this filter

https://github.com/InsightSoftwareConsortium/ITK/blob/master/Modules/Filtering/DisplacementField/include/itkDisplacementFieldToBSplineImageFilter.hxx

you can see how I go between domains.  Particularly, take a look
at the following code sections:

https://github.com/InsightSoftwareConsortium/ITK/blob/master/Modules/Filtering/DisplacementField/include/itkDisplacementFieldToBSplineImageFilter.hxx#L159-L171
https://github.com/InsightSoftwareConsortium/ITK/blob/master/Modules/Filtering/DisplacementField/include/itkDisplacementFieldToBSplineImageFilter.hxx#L253-L255

I can probably take a look at the initializer to propose a fix but I?m
leaving tomorrow on vacation for a week and a half and won?t be
able to get to it until afterwards.

Nick



> On Nov 4, 2015, at 8:44 AM, Carlos Henrique Villa Pinto <chvillap at gmail.com> wrote:
> 
> Hi Matt,
> 
> I installed the most recent version of ITK from Git master, wrote a SSCCE code and tried again.
> There is no segmentation fault anymore (good!), but now the program terminates after throwing the following exception:
> 
> terminate called after throwing an instance of 'itk::ExceptionObject'
>   what():  /home/carlos/workspace/libraries/ITK/src/Modules/Core/Common/src/itkMultiThreader.cxx:417:
> itk::ERROR: MultiThreader(0x1757290): Exception occurred during SingleMethodExecute
> /usr/local/include/ITK-4.9/itkBSplineScatteredDataPointSetToImageFilter.hxx:621:
> itk::ERROR: PointSetToImageFilter(0x1761130): The reparameterized point component -0.15748 is outside the corresponding parametric domain of [0, 2).
> 
> I still don't know why this is happening, but it seems to me that it has to do with the image orientation... because my short example works fine when the direction matrices of the fixed/moving images have positive values only. If they have any negative value, however, the exception above is thrown (segmentation fault in previous ITK versions).
> 
> I attached my SSCCE code for anyone who wants to take a look. You can use it to manually define values for the direction matrix and see what happens. No input data is needed.
> 
> Please let me know if you find out anything.
> 
> Thanks!
> []s
> 
> 2015-11-02 14:10 GMT-02:00 Matt McCormick <matt.mccormick at kitware.com <mailto:matt.mccormick at kitware.com>>:
> Hi Carlos,
> 
> There have been some improvements to the
> LandmarkBasedTransformInitializer recently, so could you please try
> with Git master [1]?
> 
> If the issue remains, could you please share a short, self-contained,
> compilable example?
> 
> Thanks,
> Matt
> 
> [1] http://www.itk.org/Wiki/ITK/Git <http://www.itk.org/Wiki/ITK/Git>
> 
> [2] http://www.sscce.org/ <http://www.sscce.org/>
> 
> On Thu, Oct 29, 2015 at 9:12 AM, Carlos Henrique Villa Pinto
> <chvillap at gmail.com <mailto:chvillap at gmail.com>> wrote:
> > Hi, everyone.
> >
> > I have two sets of landmark points, detected from two different 3D MR
> > images, and I'm trying to estimate a nonlinear mapping between the pairs of
> > matching landmarks. I already have the matchings, I just need to generate a
> > BSpline transform from them. The LandmarkBasedTransformInitializer class
> > seems perfect for that, but when I call its InitializeTransform() method
> > (after setting all the required input parameters), the result is a
> > segmentation fault.
> >
> > I'm using ITK 4.8.0. I checked the source code and made some tests, but the
> > only thing that I could find out is that the problem happens in the
> > GenerateData() method of the BSplineScatteredDataPointSetToImageFilter
> > class, when the SingleMethodExecute() method is called by the
> > ThreadGenerator object. In such version of ITK, that happens in line 314 of
> > the file BSplineScatteredDataPointSetToImageFilter.hxx. I couldn't go
> > further because I have no clue of what exactly is being called by the
> > ThreaderCallback in that class.
> >
> > Does anyone have any clue about what sort of things could cause a
> > segmentation fault in the BSplineScatteredDataPointSetToImageFilter class?
> > Could that be a bug, maybe?
> >
> > I don't know if this information is relevant, but my images have both LPI
> > orientation, origin = (-127.5, -127.5, -127.5) and spacing = 2 x 2 x 2 mm.
> > And I'm using the SetReferenceImage() method of the
> > LandmarkBasedTransformInitializer class to define the parametric domain of
> > the BSpline transform.
> >
> > I can provide some pieces of code and more information about my data if
> > needed.
> >
> > Thanks in advance!
> >
> > []s
> >
> > --
> > Carlos Henrique Villa Pinto
> > Graduate Student in Computer Science
> > Federal University of S?o Carlos - Brazil
> > XCS
> >
> > _____________________________________
> > 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>
> >
> 
> 
> 
> -- 
> Carlos Henrique Villa Pinto
> Graduate Student in Computer Science
> Federal University of S?o Carlos - Brazil
> XCS
> <Example.zip>_____________________________________
> Powered by www.kitware.com
> 
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
> 
> Kitware offers ITK Training Courses, for more information visit:
> http://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  Wed Nov  4 16:31:57 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Wed, 4 Nov 2015 16:31:57 -0500
Subject: [ITK-users] IOSTL module does not register the factory
In-Reply-To: <1F4578D0-5EFF-411D-B292-89463BBCD32A@zhaw.ch>
References: <1F4578D0-5EFF-411D-B292-89463BBCD32A@zhaw.ch>
Message-ID: <CALzTN-ReK5nSudf_joLgZB3K+kiXPd0fsjqK=A=RzTiFoSHV4A@mail.gmail.com>

Hi Thomas,

Automatic factory registration is not yet supported for the the MeshIO
implementations like it is for ImageIO TransformIO.  Contributions are
welcome! [1]

But, there should be no issues with using
itk::STLMeshIOFactory::RegisterOneFactory().

HTH,
Matt


[1] http://www.itk.org/Wiki/ITK/Git

On Wed, Nov 4, 2015 at 7:54 AM, Fitze Thomas (fitz) <fitz at zhaw.ch> wrote:
> Hi all,
>
> I built ITK 4.8.1 with the external IOSTL module and am trying to use it in
> my CMake project like this:
>
> find_package(ITK REQUIRED IOSTL)
> include(${ITK_USE_FILE})
>
> But that does not seem to correctly register the STLMeshIOFactory yielding a
> a "Could not create IO object for file test.stl? error when trying to load a
> stl. When i register the factory manually:
>
> itk::STLMeshIOFactory::RegisterOneFactory();
>
> it works as expected. But of course, that messes up all the other factories
> registered by CMake.
>
> Whats going on here and how do i fix it?
>
> Best,
> Thomas
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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 mike.jackson at bluequartz.net  Wed Nov  4 17:56:28 2015
From: mike.jackson at bluequartz.net (Michael Jackson)
Date: Wed, 4 Nov 2015 17:56:28 -0500
Subject: [ITK-users] [ITK] Buffered Region out of Range error
In-Reply-To: <A775F221-C42C-4620-AD54-4AF5D5241A64@bluequartz.net>
References: <C1CA0247-EC76-4677-8679-6A2867C7ED59@bluequartz.net>
 <CALzTN-S-xzRugHCgP6KeEfM7HzjxLXE7ONOSsQ+kTCutUT4mxQ@mail.gmail.com>
 <9D1176BA-4865-45C9-B499-234F66922463@bluequartz.net>
 <17C498DE-21D8-4EE5-BCD9-85286B8B9E50@mail.nih.gov>
 <B517CAFD-A291-4213-B507-D00447853697@bluequartz.net>
 <5EA71915-616F-4FFD-91E8-26941201051C@mail.nih.gov>
 <29375C19-58B7-4A9A-9B6D-EF79D51A7691@bluequartz.net>
 <CF65FCD6-70C6-440B-A4A2-1F5D2D183AF6@bluequartz.net>
 <CALzTN-RwaPUD_KvJDptjfXr84oX_uY7ig2pC0mE=e+0jUr+OzQ@mail.gmail.com>
 <DE6F155B-2295-46BE-AB01-F0B04EB37DC0@bluequartz.net>
 <CALzTN-QyFafJ-yibz+B3Qs6Xf-1XMLbjOYVKREi4ssrQVS1yBA@mail.gmail.com>
 <454718DB-56FA-4AC3-B1CF-59964ED9523B@bluequartz.net>
 <7EFC0503-D75F-4E0D-94F9-42679FBFF090@bluequartz.net>
 <CALzTN-QvbYv6z6oNdOS6atmMntu8T3scug7Ja9vf8Nrs6k15Vw@mail.gmail.com>
 <1A9507C2-C1A4-4D77-A6A2-EE79D111F578@bluequartz.net>
 <57B084C5-869D-4074-BE60-54016738F139@mail.nih.gov>
 <A775F221-C42C-4620-AD54-4AF5D5241A64@bluequartz.net>
Message-ID: <AF4541FA-E535-4BCC-94E7-8A08232FF135@bluequartz.net>

On the advice from Matt we stripped out the ?Explicit? library code from SimpleITK and integrated it into DREAM.3D as a test and we were finally able to have  multiple plugins load ITK and use ITK functionality without casting errors. Not sure what we are going to do for a long term solution but it is obvious that we were missing a cast operation somewhere.

Thanks for all the help.
--
Mike Jackson  [mike.jackson at bluequartz.net]


> On Nov 2, 2015, at 4:36 PM, Michael Jackson <mike.jackson at bluequartz.net> wrote:
> 
> Your suspicions may be correct. We tried with a different filter (Sobel Edge) and get the following Exception from ITK:
> 
> "Failed to execute itk::SobelEdgeDetectionImageFilter filter. Error Message returned from ITK:
>      itk::ERROR: Image(0x7fb12a112f60): itk::ImageBase::CopyInformation() cannot cast PKN3itk10DataObjectE to PKN3itk9ImageBaseILj3EEE?
> 
> Does this help diagnosing the issue?
> 
> We have also found that if our actual application is linked against ITK then the code will execute without issues. If the application is NOT linked against ITK but instead only the plugin itself is linked against ITK then the code will fail when multiple plugins are linked against ITK.
> 
> Again, thanks for all the help.
> --
> Mike Jackson  [mike.jackson at bluequartz.net]
> 
> 
>> On Nov 2, 2015, at 1:12 PM, Bradley Lowekamp <blowekamp at mail.nih.gov> wrote:
>> 
>> I still think it's a failing dynamic cast some place.
>> 
>> You could try adding SimpleITK's Explicit library[1] which explicitly instantiates common types used in SimpleITK. Its possible having some of the Core Common classes instated in a shared library resolves the problem. The library should be fairly independent and easy to separate.
>> 
>> HTH,
>> Brad
>> 
>> [1] https://github.com/SimpleITK/SimpleITK/tree/master/Code/Explicit
>> 
>> On Nov 2, 2015, at 12:17 PM, Michael Jackson <mike.jackson at bluequartz.net> wrote:
>> 
>>> That did not seem to help either. Any more ideas? Does ITK build some intermediate static libraries that have ?managers? that load filters? I ran into an issue with our own code where we had static libraries with singleton ?manager? design patterns that turned out not to work due to each library getting its own singleton instance.
>>> --
>>> Mike Jackson  [mike.jackson at bluequartz.net]
>>> 
>>> 
>>>> On Oct 30, 2015, at 4:07 PM, Matt McCormick <matt.mccormick at kitware.com> wrote:
>>>> 
>>>> Thanks for the information.
>>>> 
>>>> It is hard to tell, but maybe it is related to factory registration.
>>>> To test, try this:
>>>> 
>>>> In the plugin CMake code, add
>>>> 
>>>> set(ITK_NO_IO_FACTORY_REGISTER_MANAGER 1)
>>>> 
>>>> before
>>>> 
>>>> include(${ITK_USE_FILE})
>>>> 
>>>> Then see if neither plugins work, both plugins work, and one of the
>>>> plugins works.
>>>> 
>>>> HTH,
>>>> Matt
>>>> 
>>>> On Fri, Oct 30, 2015 at 1:36 PM, Michael Jackson
>>>> <mike.jackson at bluequartz.net> wrote:
>>>>> Some more data. If we create an intermediate library that links to ITK, called ITKSupport, and then have our plugins link against ITKSupport then the code executes correctly. Just another data point.
>>>>> --
>>>>> Michael A. Jackson
>>>>> BlueQuartz Software, LLC
>>>>> [e]: mike.jackson at bluequartz.net
>>>>> 
>>>>>> On Oct 30, 2015, at 12:57 PM, Michael Jackson <mike.jackson at bluequartz.net> wrote:
>>>>>> 
>>>>>> Yes. Verified. Both plugins are built as part of DREAM.3D and we don?t put any extra CXX_FLAGS in any of the CMake files. We also built with VERBOSE=1 and looked at the compile commands to ensure that what we wanted was actually being used. Then we looked at the libraries themselves with otool -L to ensure they all link against libC++. Which they do.
>>>>>> 
>>>>>> 
>>>>>> --
>>>>>> Michael A. Jackson
>>>>>> BlueQuartz Software, LLC
>>>>>> [e]: mike.jackson at bluequartz.net
>>>>>> 
>>>>>>> On Oct 30, 2015, at 12:05 PM, Matt McCormick <matt.mccormick at kitware.com> wrote:
>>>>>>> 
>>>>>>> Hi Michael,
>>>>>>> 
>>>>>>> Sorry to be redundant, and just to be sure: are both A.plugin and
>>>>>>> B.plugin built with the same C++ standard library, OSX deployment
>>>>>>> target, and C++ standard?
>>>>>>> 
>>>>>>> Thanks,
>>>>>>> Matt
>>>>>>> 
>>>>>>> On Fri, Oct 30, 2015 at 11:35 AM, Michael Jackson
>>>>>>> <mike.jackson at bluequartz.net> wrote:
>>>>>>>> 
>>>>>>>> 
>>>>>>>>> On Oct 29, 2015, at 11:40 AM, Matt McCormick <matt.mccormick at kitware.com> wrote:
>>>>>>>>> 
>>>>>>>>> On Thu, Oct 29, 2015 at 10:00 AM, Michael Jackson
>>>>>>>>> <mike.jackson at bluequartz.net> wrote:
>>>>>>>>>> We also ran an experiment where we moved the ITK Dependency from just the
>>>>>>>>>> plugin down into one of our lower level libraries. So now we have the plugin
>>>>>>>>>> dependent on a lower level library which then is dependent on the ITK
>>>>>>>>>> Libraries. Now the code seems to execute and produce results. This was on OS
>>>>>>>>>> X 10.9 and 10.10. So it seems that there is some odd issue with loading the
>>>>>>>>>> ITK libraries through a plugin mechanism? Does ITK need the ?-fPIC? added to
>>>>>>>>>> the list of compile commands?
>>>>>>>>> 
>>>>>>>>> If ITK is built in a plugin as shared libraries, then it will already
>>>>>>>>> be built with -fPIC.
>>>>>>>>> 
>>>>>>>>> 
>>>>>>>>>> Qt is actually built WITHOUT C++11 support but still links against libc++.
>>>>>>>>>> They (the Qt Devs) set the OS X Min Deployment Version to 10.7. I have no
>>>>>>>>>> idea what that triggers or not.
>>>>>>>>> 
>>>>>>>>> All code should be built with the same C++ standard and OSX deployment
>>>>>>>>> target. When building ITK and related code, set
>>>>>>>>> CMAKE_OSX_DEPLOYMENT_TARGET [1] to 10.7 to ensure all binaries are
>>>>>>>>> using consistent libraries.
>>>>>>>>> 
>>>>>>>>> HTH,
>>>>>>>>> Matt
>>>>>>>>> 
>>>>>>>>> [1] https://cmake.org/cmake/help/v3.3/variable/CMAKE_OSX_DEPLOYMENT_TARGET.html
>>>>>>>> 
>>>>>>>> Matt,
>>>>>>>> We have verified that ALL dependent libraries are built with libC++, 10.7 as the min deployment, C++11 enabled. This goes for Boost, HDF5, Eigen, ITK, and Qt 5.5.1. We still have the issue. We can also reproduce that if we move the dependency to a lower level then the issue goes away. So it would seem that there is a problem with multiple plugins being dependent on the same External library. in this case it is ITK. I?ll try to diagram below.
>>>>>>>> ## Failure Mode ##
>>>>>>>> A.plugin depends on ITK
>>>>>>>> A.plugin depends on SIMPlib.
>>>>>>>> 
>>>>>>>> B.plugin depends on ITK
>>>>>>>> B.plugin depends on SIMPlib.
>>>>>>>> 
>>>>>>>> B.plugin will fail to execute properly.
>>>>>>>> 
>>>>>>>> ## Success Mode ##
>>>>>>>> A.plugin depends on SIMPlib.
>>>>>>>> SIMPlib depends on ITK
>>>>>>>> 
>>>>>>>> B.plugin depends on SIMPlib.
>>>>>>>> SIMPlib depends on ITK
>>>>>>>> 
>>>>>>>> The DREAM.3D filters both execute properly and give the proper output.
>>>>>>>> 
>>>>>>>> --
>>>>>>>> Michael A. Jackson
>>>>>>>> BlueQuartz Software, LLC
>>>>>>>> [e]: mike.jackson at bluequartz.net
>>>>>>>> _____________________________________
>>>>>>>> Powered by www.kitware.com
>>>>>>>> 
>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>> 
>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>> http://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 brad at lowekamp.net  Wed Nov  4 18:02:58 2015
From: brad at lowekamp.net (Bradley Lowekamp)
Date: Wed, 4 Nov 2015 18:02:58 -0500
Subject: [ITK-users] [ITK] Buffered Region out of Range error
In-Reply-To: <AF4541FA-E535-4BCC-94E7-8A08232FF135@bluequartz.net>
References: <C1CA0247-EC76-4677-8679-6A2867C7ED59@bluequartz.net>
 <CALzTN-S-xzRugHCgP6KeEfM7HzjxLXE7ONOSsQ+kTCutUT4mxQ@mail.gmail.com>
 <9D1176BA-4865-45C9-B499-234F66922463@bluequartz.net>
 <17C498DE-21D8-4EE5-BCD9-85286B8B9E50@mail.nih.gov>
 <B517CAFD-A291-4213-B507-D00447853697@bluequartz.net>
 <5EA71915-616F-4FFD-91E8-26941201051C@mail.nih.gov>
 <29375C19-58B7-4A9A-9B6D-EF79D51A7691@bluequartz.net>
 <CF65FCD6-70C6-440B-A4A2-1F5D2D183AF6@bluequartz.net>
 <CALzTN-RwaPUD_KvJDptjfXr84oX_uY7ig2pC0mE=e+0jUr+OzQ@mail.gmail.com>
 <DE6F155B-2295-46BE-AB01-F0B04EB37DC0@bluequartz.net>
 <CALzTN-QyFafJ-yibz+B3Qs6Xf-1XMLbjOYVKREi4ssrQVS1yBA@mail.gmail.com>
 <454718DB-56FA-4AC3-B1CF-59964ED9523B@bluequartz.net>
 <7EFC0503-D75F-4E0D-94F9-42679FBFF090@bluequartz.net>
 <CALzTN-QvbYv6z6oNdOS6atmMntu8T3scug7Ja9vf8Nrs6k15Vw@mail.gmail.com>
 <1A9507C2-C1A4-4D77-A6A2-EE79D111F578@bluequartz.net>
 <57B084C5-869D-4074-BE60-54016738F139@mail.nih.gov>
 <A775F221-C42C-4620-AD54-4AF5D5241A64@bluequartz.net>
 <AF4541FA-E535-4BCC-94E7-8A08232FF135@bluequartz.net>
Message-ID: <F3230EA6-FF87-4D98-9AEE-091CBA04DFA2@mail.nih.gov>

Glad to hear the recommendation worked for you. You likely can trim that library up a bit for your needs. 

> On Nov 4, 2015, at 5:56 PM, Michael Jackson <mike.jackson at bluequartz.net> wrote:
> 
> On the advice from Matt we stripped out the ?Explicit? library code from SimpleITK and integrated it into DREAM.3D as a test and we were finally able to have  multiple plugins load ITK and use ITK functionality without casting errors. Not sure what we are going to do for a long term solution but it is obvious that we were missing a cast operation somewhere.
> 
> Thanks for all the help.
> --
> Mike Jackson  [mike.jackson at bluequartz.net]
> 
> 
>> On Nov 2, 2015, at 4:36 PM, Michael Jackson <mike.jackson at bluequartz.net> wrote:
>> 
>> Your suspicions may be correct. We tried with a different filter (Sobel Edge) and get the following Exception from ITK:
>> 
>> "Failed to execute itk::SobelEdgeDetectionImageFilter filter. Error Message returned from ITK:
>>      itk::ERROR: Image(0x7fb12a112f60): itk::ImageBase::CopyInformation() cannot cast PKN3itk10DataObjectE to PKN3itk9ImageBaseILj3EEE?
>> 
>> Does this help diagnosing the issue?
>> 
>> We have also found that if our actual application is linked against ITK then the code will execute without issues. If the application is NOT linked against ITK but instead only the plugin itself is linked against ITK then the code will fail when multiple plugins are linked against ITK.
>> 
>> Again, thanks for all the help.
>> --
>> Mike Jackson  [mike.jackson at bluequartz.net]
>> 
>> 
>>> On Nov 2, 2015, at 1:12 PM, Bradley Lowekamp <blowekamp at mail.nih.gov> wrote:
>>> 
>>> I still think it's a failing dynamic cast some place.
>>> 
>>> You could try adding SimpleITK's Explicit library[1] which explicitly instantiates common types used in SimpleITK. Its possible having some of the Core Common classes instated in a shared library resolves the problem. The library should be fairly independent and easy to separate.
>>> 
>>> HTH,
>>> Brad
>>> 
>>> [1] https://github.com/SimpleITK/SimpleITK/tree/master/Code/Explicit
>>> 
>>>> On Nov 2, 2015, at 12:17 PM, Michael Jackson <mike.jackson at bluequartz.net> wrote:
>>>> 
>>>> That did not seem to help either. Any more ideas? Does ITK build some intermediate static libraries that have ?managers? that load filters? I ran into an issue with our own code where we had static libraries with singleton ?manager? design patterns that turned out not to work due to each library getting its own singleton instance.
>>>> --
>>>> Mike Jackson  [mike.jackson at bluequartz.net]
>>>> 
>>>> 
>>>>> On Oct 30, 2015, at 4:07 PM, Matt McCormick <matt.mccormick at kitware.com> wrote:
>>>>> 
>>>>> Thanks for the information.
>>>>> 
>>>>> It is hard to tell, but maybe it is related to factory registration.
>>>>> To test, try this:
>>>>> 
>>>>> In the plugin CMake code, add
>>>>> 
>>>>> set(ITK_NO_IO_FACTORY_REGISTER_MANAGER 1)
>>>>> 
>>>>> before
>>>>> 
>>>>> include(${ITK_USE_FILE})
>>>>> 
>>>>> Then see if neither plugins work, both plugins work, and one of the
>>>>> plugins works.
>>>>> 
>>>>> HTH,
>>>>> Matt
>>>>> 
>>>>> On Fri, Oct 30, 2015 at 1:36 PM, Michael Jackson
>>>>> <mike.jackson at bluequartz.net> wrote:
>>>>>> Some more data. If we create an intermediate library that links to ITK, called ITKSupport, and then have our plugins link against ITKSupport then the code executes correctly. Just another data point.
>>>>>> --
>>>>>> Michael A. Jackson
>>>>>> BlueQuartz Software, LLC
>>>>>> [e]: mike.jackson at bluequartz.net
>>>>>> 
>>>>>>> On Oct 30, 2015, at 12:57 PM, Michael Jackson <mike.jackson at bluequartz.net> wrote:
>>>>>>> 
>>>>>>> Yes. Verified. Both plugins are built as part of DREAM.3D and we don?t put any extra CXX_FLAGS in any of the CMake files. We also built with VERBOSE=1 and looked at the compile commands to ensure that what we wanted was actually being used. Then we looked at the libraries themselves with otool -L to ensure they all link against libC++. Which they do.
>>>>>>> 
>>>>>>> 
>>>>>>> --
>>>>>>> Michael A. Jackson
>>>>>>> BlueQuartz Software, LLC
>>>>>>> [e]: mike.jackson at bluequartz.net
>>>>>>> 
>>>>>>>> On Oct 30, 2015, at 12:05 PM, Matt McCormick <matt.mccormick at kitware.com> wrote:
>>>>>>>> 
>>>>>>>> Hi Michael,
>>>>>>>> 
>>>>>>>> Sorry to be redundant, and just to be sure: are both A.plugin and
>>>>>>>> B.plugin built with the same C++ standard library, OSX deployment
>>>>>>>> target, and C++ standard?
>>>>>>>> 
>>>>>>>> Thanks,
>>>>>>>> Matt
>>>>>>>> 
>>>>>>>> On Fri, Oct 30, 2015 at 11:35 AM, Michael Jackson
>>>>>>>> <mike.jackson at bluequartz.net> wrote:
>>>>>>>>> 
>>>>>>>>> 
>>>>>>>>>> On Oct 29, 2015, at 11:40 AM, Matt McCormick <matt.mccormick at kitware.com> wrote:
>>>>>>>>>> 
>>>>>>>>>> On Thu, Oct 29, 2015 at 10:00 AM, Michael Jackson
>>>>>>>>>> <mike.jackson at bluequartz.net> wrote:
>>>>>>>>>>> We also ran an experiment where we moved the ITK Dependency from just the
>>>>>>>>>>> plugin down into one of our lower level libraries. So now we have the plugin
>>>>>>>>>>> dependent on a lower level library which then is dependent on the ITK
>>>>>>>>>>> Libraries. Now the code seems to execute and produce results. This was on OS
>>>>>>>>>>> X 10.9 and 10.10. So it seems that there is some odd issue with loading the
>>>>>>>>>>> ITK libraries through a plugin mechanism? Does ITK need the ?-fPIC? added to
>>>>>>>>>>> the list of compile commands?
>>>>>>>>>> 
>>>>>>>>>> If ITK is built in a plugin as shared libraries, then it will already
>>>>>>>>>> be built with -fPIC.
>>>>>>>>>> 
>>>>>>>>>> 
>>>>>>>>>>> Qt is actually built WITHOUT C++11 support but still links against libc++.
>>>>>>>>>>> They (the Qt Devs) set the OS X Min Deployment Version to 10.7. I have no
>>>>>>>>>>> idea what that triggers or not.
>>>>>>>>>> 
>>>>>>>>>> All code should be built with the same C++ standard and OSX deployment
>>>>>>>>>> target. When building ITK and related code, set
>>>>>>>>>> CMAKE_OSX_DEPLOYMENT_TARGET [1] to 10.7 to ensure all binaries are
>>>>>>>>>> using consistent libraries.
>>>>>>>>>> 
>>>>>>>>>> HTH,
>>>>>>>>>> Matt
>>>>>>>>>> 
>>>>>>>>>> [1] https://cmake.org/cmake/help/v3.3/variable/CMAKE_OSX_DEPLOYMENT_TARGET.html
>>>>>>>>> 
>>>>>>>>> Matt,
>>>>>>>>> We have verified that ALL dependent libraries are built with libC++, 10.7 as the min deployment, C++11 enabled. This goes for Boost, HDF5, Eigen, ITK, and Qt 5.5.1. We still have the issue. We can also reproduce that if we move the dependency to a lower level then the issue goes away. So it would seem that there is a problem with multiple plugins being dependent on the same External library. in this case it is ITK. I?ll try to diagram below.
>>>>>>>>> ## Failure Mode ##
>>>>>>>>> A.plugin depends on ITK
>>>>>>>>> A.plugin depends on SIMPlib.
>>>>>>>>> 
>>>>>>>>> B.plugin depends on ITK
>>>>>>>>> B.plugin depends on SIMPlib.
>>>>>>>>> 
>>>>>>>>> B.plugin will fail to execute properly.
>>>>>>>>> 
>>>>>>>>> ## Success Mode ##
>>>>>>>>> A.plugin depends on SIMPlib.
>>>>>>>>> SIMPlib depends on ITK
>>>>>>>>> 
>>>>>>>>> B.plugin depends on SIMPlib.
>>>>>>>>> SIMPlib depends on ITK
>>>>>>>>> 
>>>>>>>>> The DREAM.3D filters both execute properly and give the proper output.
>>>>>>>>> 
>>>>>>>>> --
>>>>>>>>> Michael A. Jackson
>>>>>>>>> BlueQuartz Software, LLC
>>>>>>>>> [e]: mike.jackson at bluequartz.net
>>>>>>>>> _____________________________________
>>>>>>>>> Powered by www.kitware.com
>>>>>>>>> 
>>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>> 
>>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>>> http://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
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From kensuth at med.hokudai.ac.jp  Wed Nov  4 19:05:33 2015
From: kensuth at med.hokudai.ac.jp (Ken Sutherland)
Date: Thu, 5 Nov 2015 09:05:33 +0900
Subject: [ITK-users] [ITK]
	GeodesicActiveContourShapePriorLevelSetImageFilter
In-Reply-To: <56298E9F.9080301@med.hokudai.ac.jp>
References: <56298E9F.9080301@med.hokudai.ac.jp>
Message-ID: <563A9D4D.50605@med.hokudai.ac.jp>

Hi Everyone,

I have created a shape model of one of the bones of the hand. In the 
training images, some bones are short and fat and some are long and 
thin. Here is an animation of the segmentation process:

https://drive.google.com/file/d/0B30jBBgGrOnrN2otV2t1ZGtpakE/view?usp=sharing

In this example I'm trying to segment one of the long and thin bones. It 
seems to me that the prior shape image should change according to the 
statistics in the three principal component files.

Here is the mean image:

https://drive.google.com/file/d/0B30jBBgGrOnrb09NQ1l2QThvVU0/view?usp=sharing

Thank you for any help.

On 2015/10/23 10:34, Ken Sutherland wrote:
> Hi,
>
> I am trying to use GeodesicActiveContourShapePriorLevelSetImageFilter.
>
> I'm using the knee sample from "Create2DActiveShapeModel", with the 
> mean image and three principle component files. I then use one of the 
> training images as the target, so it should be an easy task. I'm using 
> all the default parameters from the sample code.
>
> I've created an animation by outputting the result image at each step 
> of the registration. The cyan image is the shape model, the white 
> image is the target that I am trying to segment. But it seems that the 
> shape is never changing, only the mean shape image is being used. It 
> shifts left, right, up, down and rotates, but never changes shape, no 
> matter how many iterations I run.
>
> Can anyone provide any insight?
>
> The animated GIF file is here:
> https://drive.google.com/file/d/0B30jBBgGrOnreEZGbDBHcmppZ1U/view?usp=sharing 
>
>
> The log file is here:
> https://drive.google.com/file/d/0B30jBBgGrOnrSjU4RDZvSEJEdm8/view?usp=sharing 
>
>
> Thanks!
>

-- 
Ken Sutherland
Hokkaido University
Graduate School of Medicine
Department of Medical Physics
kensuth at med.hokudai.ac.jp


From yassminabdallah at gmail.com  Wed Nov  4 20:01:16 2015
From: yassminabdallah at gmail.com (Yassmin)
Date: Wed, 4 Nov 2015 18:01:16 -0700 (MST)
Subject: [ITK-users] Compile ITK for iPhone
Message-ID: <1446685276695-7588136.post@n2.nabble.com>

Hello,

i trying to build ITK for iPhone (xcode 6.3, itk 4.8.1, cmake 3.0.2, iOS 8)
but the tutorial i'm follow seems of out of date.

first it say, 

"in ITK SOURCE DIR/Utilities/vxl/core/vnl/vnl math.cxx, after line 77, add
the line #define finite(x) ? ? inline isfinited((double)x)"

but i can't find "ITK SOURCE DIR" and i don't know where to add the line ?


i compile it anyway and i face this,

//////////////////////////////////////////
 CMake Warning at

 /usr/local/Cellar/cmake/3.0.2/share/cmake/Modules/Platform/Darwin.cmake:179

 (message):

   Ignoring CMAKE_OSX_SYSROOT value:


/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer

 /SDKs/MacOSX10.10.sdk

   because the directory does not exist.

 Call Stack (most recent call first):


/usr/local/Cellar/cmake/3.0.2/share/cmake/Modules/CMakeSystemSpecificInformati

 on.cmake:36 (include)

   CMakeLists.txt:14 (project)



CMake Warning at
 /usr/local/Cellar/cmake/3.0.2/share/cmake/Modules/Platform/Darwin.cmake:179
 (message):
   Ignoring CMAKE_OSX_SYSROOT value:



/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer
 /SDKs/MacOSX10.10.sdk

   because the directory does not exist.
 Call Stack (most recent call first):


/usr/local/Cellar/cmake/3.0.2/share/cmake/Modules/CMakeSystemSpecificInformati
 on.cmake:36 (include)
   CMakeLists.txt:10 (PROJECT)
//////////////////////////////////////////


anyone compile ITK recently can help me with this please ?




--
View this message in context: http://itk-insight-users.2283740.n2.nabble.com/Compile-ITK-for-iPhone-tp7588136.html
Sent from the ITK Insight Users mailing list archive at Nabble.com.

From zhuangming.shen at sphic.org.cn  Thu Nov  5 01:09:20 2015
From: zhuangming.shen at sphic.org.cn (=?gb2312?B?yfLXr8P3?=)
Date: Thu, 5 Nov 2015 06:09:20 +0000
Subject: [ITK-users] How to write the codes in python?
In-Reply-To: <CALzTN-Sy=HMRT-6fmq0N-L0R-wYpsaQS=eNP5u6YXH3rLb_91Q@mail.gmail.com>
References: <1446596266338.47108@sphic.org.cn>,
 <CALzTN-Sy=HMRT-6fmq0N-L0R-wYpsaQS=eNP5u6YXH3rLb_91Q@mail.gmail.com>
Message-ID: <1446703758686.88214@sphic.org.cn>

Hi Matt,

Thanks for your prompt response. BTW, How can I convert "ImageType::SpacingType spacing" and "ImageType::PointType origin" to Python? Currently, is there a manual or a website (e.g. like http://www.itk.org/Doxygen/html/) for me to get information on ITK using Python? Thanks again.

Regards,

Zhuangming Shen
________________________________________
From: Matt McCormick <matt.mccormick at kitware.com>
Sent: Wednesday, November 4, 2015 12:52 PM
To: ???
Cc: insight-users at itk.org
Subject: Re: [ITK-users] How to write the codes in python?

Hello Zhuangming,

Here is a gist:

  https://gist.github.com/thewtex/ce403fef7bc09ca5392d

Note that you should ensure that ITK_WRAP_unsigned_short is ON in your
CMake configuration.

HTH,
Matt

On Tue, Nov 3, 2015 at 7:17 PM, ??? <zhuangming.shen at sphic.org.cn> wrote:
> Hi all,
>
>
> I'd like to know how to convert Image1.cxx (see codes below) to python,
> especially "ImageType::RegionType region;". Could anyone give me some hints?
> Thanks in advance.
>
>
>
> typedef itk::Image<unsigned short, 3> ImageType;
>
> ImageType::Pointer image = ImageType::New();
>
>
> ImageType::IndexType start;
>
> start[0] = 0;
>
> start[1] = 0;
>
> start[2] = 0;
>
>
> ImageType::SizeType size;
>
> size[0] = 200;
>
> size[1] = 200;
>
> size[2] = 200;
>
>
> ImageType::RegionType region;
>
> region.SetSize(size);
>
> region.SetIndex(start);
>
>
> image->SetRegions(region);
>
> image->Allocate();
>
>
>
> Regards,
>
>
> Zhuangming Shen
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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 mlt.khawla at gmail.com  Thu Nov  5 09:39:19 2015
From: mlt.khawla at gmail.com (Daoued23)
Date: Thu, 5 Nov 2015 07:39:19 -0700 (MST)
Subject: [ITK-users] Euler Number of 3D object
Message-ID: <1446734359688-36432.post@n7.nabble.com>

Hello everyone,
I am developping a 3D Hybrid Thinning algorithm, and i need to calculate the
euler number in order to preserve the object topology.

Does anyone happen to know if ITK can calculate the Euler number of a 3D
object? 

Thanks

Daoued23



--
View this message in context: http://itk-users.7.n7.nabble.com/Euler-Number-of-3D-object-tp36432.html
Sent from the ITK - Users mailing list archive at Nabble.com.

From matt.mccormick at kitware.com  Thu Nov  5 12:17:16 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Thu, 5 Nov 2015 12:17:16 -0500
Subject: [ITK-users] How to write the codes in python?
In-Reply-To: <1446703758686.88214@sphic.org.cn>
References: <1446596266338.47108@sphic.org.cn>
 <CALzTN-Sy=HMRT-6fmq0N-L0R-wYpsaQS=eNP5u6YXH3rLb_91Q@mail.gmail.com>
 <1446703758686.88214@sphic.org.cn>
Message-ID: <CALzTN-TXuxn5yBYxmjjtd_uPFvk6jaJDqJFii371w35pnpg8gA@mail.gmail.com>

Hi Zhuangming Shen,

There is some documentation in the ITK Software Guide:

  http://itk.org/ITKSoftwareGuide/html/Book1/ITKSoftwareGuide-Book1ch3.html#x34-410003.7

Please review this patch, which add notes about .GetTypes() and type conversion:

  http://review.source.kitware.com/20362

Thanks,
Matt

On Thu, Nov 5, 2015 at 1:09 AM, ??? <zhuangming.shen at sphic.org.cn> wrote:
> Hi Matt,
>
> Thanks for your prompt response. BTW, How can I convert "ImageType::SpacingType spacing" and "ImageType::PointType origin" to Python? Currently, is there a manual or a website (e.g. like http://www.itk.org/Doxygen/html/) for me to get information on ITK using Python? Thanks again.
>
> Regards,
>
> Zhuangming Shen
> ________________________________________
> From: Matt McCormick <matt.mccormick at kitware.com>
> Sent: Wednesday, November 4, 2015 12:52 PM
> To: ???
> Cc: insight-users at itk.org
> Subject: Re: [ITK-users] How to write the codes in python?
>
> Hello Zhuangming,
>
> Here is a gist:
>
>   https://gist.github.com/thewtex/ce403fef7bc09ca5392d
>
> Note that you should ensure that ITK_WRAP_unsigned_short is ON in your
> CMake configuration.
>
> HTH,
> Matt
>
> On Tue, Nov 3, 2015 at 7:17 PM, ??? <zhuangming.shen at sphic.org.cn> wrote:
>> Hi all,
>>
>>
>> I'd like to know how to convert Image1.cxx (see codes below) to python,
>> especially "ImageType::RegionType region;". Could anyone give me some hints?
>> Thanks in advance.
>>
>>
>>
>> typedef itk::Image<unsigned short, 3> ImageType;
>>
>> ImageType::Pointer image = ImageType::New();
>>
>>
>> ImageType::IndexType start;
>>
>> start[0] = 0;
>>
>> start[1] = 0;
>>
>> start[2] = 0;
>>
>>
>> ImageType::SizeType size;
>>
>> size[0] = 200;
>>
>> size[1] = 200;
>>
>> size[2] = 200;
>>
>>
>> ImageType::RegionType region;
>>
>> region.SetSize(size);
>>
>> region.SetIndex(start);
>>
>>
>> image->SetRegions(region);
>>
>> image->Allocate();
>>
>>
>>
>> Regards,
>>
>>
>> Zhuangming Shen
>>
>>
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://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 seun at rogue-research.com  Thu Nov  5 15:31:03 2015
From: seun at rogue-research.com (Seun Odutola)
Date: Thu, 5 Nov 2015 15:31:03 -0500
Subject: [ITK-users] Issues with transitioning from ITK 3 to ITK 4
Message-ID: <94B6ADAE-C83D-476B-BD1D-D9E2FA97AF1D@rogue-research.com>

Hello Everyone,
 
        I was wondering if someone could point me in the right direction. I?m currently trying to transition from ITK 3 to ITK 4. However, I?m facing an issue with reading an Image file using the AnalyzeImageIO which was present in 3 and I believe deprecated in ITK 4. Can anyone tell me how to go about reading the files previously done by using the AnalyzeImageIO. 
Thanks

Regards,
    Seun


From zhuangming.shen at sphic.org.cn  Fri Nov  6 03:22:14 2015
From: zhuangming.shen at sphic.org.cn (=?gb2312?B?yfLXr8P3?=)
Date: Fri, 6 Nov 2015 08:22:14 +0000
Subject: [ITK-users] How to write the codes in python?
In-Reply-To: <CALzTN-TXuxn5yBYxmjjtd_uPFvk6jaJDqJFii371w35pnpg8gA@mail.gmail.com>
References: <1446596266338.47108@sphic.org.cn>
 <CALzTN-Sy=HMRT-6fmq0N-L0R-wYpsaQS=eNP5u6YXH3rLb_91Q@mail.gmail.com>
 <1446703758686.88214@sphic.org.cn>,
 <CALzTN-TXuxn5yBYxmjjtd_uPFvk6jaJDqJFii371w35pnpg8gA@mail.gmail.com>
Message-ID: <1446798132287.85659@sphic.org.cn>

Hi Matt,

Thank you so much. By the way,the Python examples in InsightToolkit-4.8.1.tar.gz are out of date.  I currently could find a few Python examples supporting ITK 4.x from http://itk.org/ITKExamples/index.html.  Are there more examples available at the moment? Thanks again.

Regards,

Zhuangming Shen
________________________________________
From: Matt McCormick <matt.mccormick at kitware.com>
Sent: Friday, November 6, 2015 1:17 AM
To: ???
Cc: insight-users at itk.org
Subject: Re: [ITK-users] How to write the codes in python?

Hi Zhuangming Shen,

There is some documentation in the ITK Software Guide:

  http://itk.org/ITKSoftwareGuide/html/Book1/ITKSoftwareGuide-Book1ch3.html#x34-410003.7

Please review this patch, which add notes about .GetTypes() and type conversion:

  http://review.source.kitware.com/20362

Thanks,
Matt

On Thu, Nov 5, 2015 at 1:09 AM, ??? <zhuangming.shen at sphic.org.cn> wrote:
> Hi Matt,
>
> Thanks for your prompt response. BTW, How can I convert "ImageType::SpacingType spacing" and "ImageType::PointType origin" to Python? Currently, is there a manual or a website (e.g. like http://www.itk.org/Doxygen/html/) for me to get information on ITK using Python? Thanks again.
>
> Regards,
>
> Zhuangming Shen
> ________________________________________
> From: Matt McCormick <matt.mccormick at kitware.com>
> Sent: Wednesday, November 4, 2015 12:52 PM
> To: ???
> Cc: insight-users at itk.org
> Subject: Re: [ITK-users] How to write the codes in python?
>
> Hello Zhuangming,
>
> Here is a gist:
>
>   https://gist.github.com/thewtex/ce403fef7bc09ca5392d
>
> Note that you should ensure that ITK_WRAP_unsigned_short is ON in your
> CMake configuration.
>
> HTH,
> Matt
>
> On Tue, Nov 3, 2015 at 7:17 PM, ??? <zhuangming.shen at sphic.org.cn> wrote:
>> Hi all,
>>
>>
>> I'd like to know how to convert Image1.cxx (see codes below) to python,
>> especially "ImageType::RegionType region;". Could anyone give me some hints?
>> Thanks in advance.
>>
>>
>>
>> typedef itk::Image<unsigned short, 3> ImageType;
>>
>> ImageType::Pointer image = ImageType::New();
>>
>>
>> ImageType::IndexType start;
>>
>> start[0] = 0;
>>
>> start[1] = 0;
>>
>> start[2] = 0;
>>
>>
>> ImageType::SizeType size;
>>
>> size[0] = 200;
>>
>> size[1] = 200;
>>
>> size[2] = 200;
>>
>>
>> ImageType::RegionType region;
>>
>> region.SetSize(size);
>>
>> region.SetIndex(start);
>>
>>
>> image->SetRegions(region);
>>
>> image->Allocate();
>>
>>
>>
>> Regards,
>>
>>
>> Zhuangming Shen
>>
>>
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://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 dzenanz at gmail.com  Fri Nov  6 08:38:04 2015
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Fri, 6 Nov 2015 08:38:04 -0500
Subject: [ITK-users] How can I remove overlapped MRI DICOM images from
	the data?
In-Reply-To: <1446494602425-7588120.post@n2.nabble.com>
References: <1446494602425-7588120.post@n2.nabble.com>
Message-ID: <CAPf2UMRuR+_D8Kaq1NVL6O5Jbe_o8MEhyvOud0dKmaaHbxHP_w@mail.gmail.com>

Your solution will depend on what positions are assigned to images arising
from different coils. I suspect you will have to manipulate position and
orientation. Take a look at this example and links therein:
http://itk.org/ITKExamples/src/Filtering/ImageGrid/AppendTwo3DVolumes/Documentation.html

HTH

On Mon, Nov 2, 2015 at 3:03 PM, lucky via Insight-users <
insight-users at itk.org> wrote:

> I have a data set of MRI DICOM images that was scanned using Torso/Body
> Coil.
> We used multiple slabs of the coil to scanned the full arm. In the
> finalized
> data, we have the overlapped region/images of sequences, we want to remove
> those overlapped images from the data set. Of course, we will want to use
> the high quality image and discard the noisy one if there is a overlap of
> two.
>
> My first question is,
>
> How can we distinguish the overlapped image from the DICOM data set? There
> is one metadata "0020|0032 "Image Position Patient" that can be used for
> this, but is there anything else that I can use?
>
> My second question is,
>
> Is there any way/algorithm in ITK that can remove/delete the overlapped
> images and save after that as new data set? I would also need to rearrange
> the "vtkImageData*" in order to visualize the final data set without any
> overlapped regions?
>
> third question,
>
> Is there anything similar to what I want to achieve in 3D Slicer 4.4.
>
> I have my own visualizer that is written in C++, ITK, VTK, so it would be
> great if I can use something from ITK. Can anyone point me out what
> features
> of ITK do I need to consider to remove/delete overlapped images and save
> the
> remaining images as a new data set? I am also confused about what images do
> I need to remove Axial only? Images were scanned as Axial.
>
> Thanks,
>
>
>
> --
> View this message in context:
> http://itk-insight-users.2283740.n2.nabble.com/How-can-I-remove-overlapped-MRI-DICOM-images-from-the-data-tp7588120.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 dzenanz at gmail.com  Fri Nov  6 08:43:00 2015
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Fri, 6 Nov 2015 08:43:00 -0500
Subject: [ITK-users] Euler Number of 3D object
In-Reply-To: <1446734359688-36432.post@n7.nabble.com>
References: <1446734359688-36432.post@n7.nabble.com>
Message-ID: <CAPf2UMQ-r4o7oK2K6yShi3uF8TH9FGyjkPH3PssHpER+ayFu_w@mail.gmail.com>

Hi Daoued,

Will this class be sufficient:
http://www.itk.org/Doxygen/html/classitk_1_1QuadEdgeMeshTopologyChecker.html
If not, you could modify it to suit your needs.

Regards,
D?enan

On Thu, Nov 5, 2015 at 9:39 AM, Daoued23 <mlt.khawla at gmail.com> wrote:

> Hello everyone,
> I am developping a 3D Hybrid Thinning algorithm, and i need to calculate
> the
> euler number in order to preserve the object topology.
>
> Does anyone happen to know if ITK can calculate the Euler number of a 3D
> object?
>
> Thanks
>
> Daoued23
>
>
>
> --
> View this message in context:
> http://itk-users.7.n7.nabble.com/Euler-Number-of-3D-object-tp36432.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  Fri Nov  6 08:45:25 2015
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Fri, 6 Nov 2015 08:45:25 -0500
Subject: [ITK-users] Issues with transitioning from ITK 3 to ITK 4
In-Reply-To: <94B6ADAE-C83D-476B-BD1D-D9E2FA97AF1D@rogue-research.com>
References: <94B6ADAE-C83D-476B-BD1D-D9E2FA97AF1D@rogue-research.com>
Message-ID: <CAPf2UMS7+9nFx6JKqbpiu-bMTBDAYng=ojcWZejL980hvM-A_Q@mail.gmail.com>

Hi Seun,

this question might be basic, but have you tried reading it the normal way
(using itk::ImageFileReader
<http://www.itk.org/Doxygen/html/classitk_1_1ImageFileReader.html>)?

Regards,
D?enan

On Thu, Nov 5, 2015 at 3:31 PM, Seun Odutola <seun at rogue-research.com>
wrote:

> Hello Everyone,
>
>         I was wondering if someone could point me in the right direction.
> I?m currently trying to transition from ITK 3 to ITK 4. However, I?m facing
> an issue with reading an Image file using the AnalyzeImageIO which was
> present in 3 and I believe deprecated in ITK 4. Can anyone tell me how to
> go about reading the files previously done by using the AnalyzeImageIO.
> Thanks
>
> Regards,
>     Seun
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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 yassminabdallah at gmail.com  Fri Nov  6 09:15:43 2015
From: yassminabdallah at gmail.com (Yassmin)
Date: Fri, 6 Nov 2015 07:15:43 -0700 (MST)
Subject: [ITK-users] Compile ITK for iPhone
In-Reply-To: <1446685276695-7588136.post@n2.nabble.com>
References: <1446685276695-7588136.post@n2.nabble.com>
Message-ID: <1446819343470-7588145.post@n2.nabble.com>

any recommendation please?



--
View this message in context: http://itk-insight-users.2283740.n2.nabble.com/Compile-ITK-for-iPhone-tp7588136p7588145.html
Sent from the ITK Insight Users mailing list archive at Nabble.com.

From matt.mccormick at kitware.com  Fri Nov  6 10:49:00 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Fri, 6 Nov 2015 10:49:00 -0500
Subject: [ITK-users] How to write the codes in python?
In-Reply-To: <1446798132287.85659@sphic.org.cn>
References: <1446596266338.47108@sphic.org.cn>
 <CALzTN-Sy=HMRT-6fmq0N-L0R-wYpsaQS=eNP5u6YXH3rLb_91Q@mail.gmail.com>
 <1446703758686.88214@sphic.org.cn>
 <CALzTN-TXuxn5yBYxmjjtd_uPFvk6jaJDqJFii371w35pnpg8gA@mail.gmail.com>
 <1446798132287.85659@sphic.org.cn>
Message-ID: <CALzTN-RSKuOYZqQWgeEKTYAWCcf0L5skLwhcFC4tWpA1VvHkeQ@mail.gmail.com>

Hi,

Yes, some of the Python examples in the ITK repository have been
updated for ITK 4.9 in Git master.  But, more examples with Python
versions should be added to http://itk.org/ITKExamples/index.html
going forward.

Thanks,
Matt




On Fri, Nov 6, 2015 at 3:22 AM, ??? <zhuangming.shen at sphic.org.cn> wrote:
> Hi Matt,
>
> Thank you so much. By the way,the Python examples in InsightToolkit-4.8.1.tar.gz are out of date.  I currently could find a few Python examples supporting ITK 4.x from http://itk.org/ITKExamples/index.html.  Are there more examples available at the moment? Thanks again.
>
> Regards,
>
> Zhuangming Shen
> ________________________________________
> From: Matt McCormick <matt.mccormick at kitware.com>
> Sent: Friday, November 6, 2015 1:17 AM
> To: ???
> Cc: insight-users at itk.org
> Subject: Re: [ITK-users] How to write the codes in python?
>
> Hi Zhuangming Shen,
>
> There is some documentation in the ITK Software Guide:
>
>   http://itk.org/ITKSoftwareGuide/html/Book1/ITKSoftwareGuide-Book1ch3.html#x34-410003.7
>
> Please review this patch, which add notes about .GetTypes() and type conversion:
>
>   http://review.source.kitware.com/20362
>
> Thanks,
> Matt
>
> On Thu, Nov 5, 2015 at 1:09 AM, ??? <zhuangming.shen at sphic.org.cn> wrote:
>> Hi Matt,
>>
>> Thanks for your prompt response. BTW, How can I convert "ImageType::SpacingType spacing" and "ImageType::PointType origin" to Python? Currently, is there a manual or a website (e.g. like http://www.itk.org/Doxygen/html/) for me to get information on ITK using Python? Thanks again.
>>
>> Regards,
>>
>> Zhuangming Shen
>> ________________________________________
>> From: Matt McCormick <matt.mccormick at kitware.com>
>> Sent: Wednesday, November 4, 2015 12:52 PM
>> To: ???
>> Cc: insight-users at itk.org
>> Subject: Re: [ITK-users] How to write the codes in python?
>>
>> Hello Zhuangming,
>>
>> Here is a gist:
>>
>>   https://gist.github.com/thewtex/ce403fef7bc09ca5392d
>>
>> Note that you should ensure that ITK_WRAP_unsigned_short is ON in your
>> CMake configuration.
>>
>> HTH,
>> Matt
>>
>> On Tue, Nov 3, 2015 at 7:17 PM, ??? <zhuangming.shen at sphic.org.cn> wrote:
>>> Hi all,
>>>
>>>
>>> I'd like to know how to convert Image1.cxx (see codes below) to python,
>>> especially "ImageType::RegionType region;". Could anyone give me some hints?
>>> Thanks in advance.
>>>
>>>
>>>
>>> typedef itk::Image<unsigned short, 3> ImageType;
>>>
>>> ImageType::Pointer image = ImageType::New();
>>>
>>>
>>> ImageType::IndexType start;
>>>
>>> start[0] = 0;
>>>
>>> start[1] = 0;
>>>
>>> start[2] = 0;
>>>
>>>
>>> ImageType::SizeType size;
>>>
>>> size[0] = 200;
>>>
>>> size[1] = 200;
>>>
>>> size[2] = 200;
>>>
>>>
>>> ImageType::RegionType region;
>>>
>>> region.SetSize(size);
>>>
>>> region.SetIndex(start);
>>>
>>>
>>> image->SetRegions(region);
>>>
>>> image->Allocate();
>>>
>>>
>>>
>>> Regards,
>>>
>>>
>>> Zhuangming Shen
>>>
>>>
>>> _____________________________________
>>> Powered by www.kitware.com
>>>
>>> Visit other Kitware open-source projects at
>>> http://www.kitware.com/opensource/opensource.html
>>>
>>> Kitware offers ITK Training Courses, for more information visit:
>>> http://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 matt.mccormick at kitware.com  Fri Nov  6 14:15:03 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Fri, 6 Nov 2015 14:15:03 -0500
Subject: [ITK-users] Compile ITK for iPhone
In-Reply-To: <1446819343470-7588145.post@n2.nabble.com>
References: <1446685276695-7588136.post@n2.nabble.com>
 <1446819343470-7588145.post@n2.nabble.com>
Message-ID: <CALzTN-RRRvu0yPGVCvBFXpcaTWdA8u0DsTQmrGbSU-42NNiDaA@mail.gmail.com>

Hi Yassim,

It sounds like those changes are for ITKv3, and they were not merged
into ITK.  There also is not an iOS submission yet to the Nightly
Dashboard [1]. Following the principle "if it is not tested, it is
broken", other fixes are likely required.

On the plus side, recent ITKv4 has very good support for
cross-compiling.  See these post for cross-compiling instructions with
other tool chains:

  http://www.kitware.com/blog/home/post/912

Essentially,

1) Use the latest CMake.

2) Pass in a toolchain file with CMAKE_TOOLCHAIN_FILE.  Maybe this
project will work: [2]

3) Pass in a path to an emulator with CMAKE_CROSSCOMPILING_EMULATOR.
Maybe this project will work: [3]

Then, considering contributing any fixes upstream [4], and starting a
Nightly dashboard submission [5].

Please let use know how it goes.

Thanks,
Matt

[1] https://open.cdash.org/index.php?project=Insight#

[2] https://github.com/cristeab/ios-cmake

[3] https://github.com/phonegap/ios-sim

[4] https://cmake.org/Wiki/ITK/Git

[5] https://cmake.org/Wiki/ITK/Git/Dashboard

On Fri, Nov 6, 2015 at 9:15 AM, Yassmin <yassminabdallah at gmail.com> wrote:
> any recommendation please?
>
>
>
> --
> View this message in context: http://itk-insight-users.2283740.n2.nabble.com/Compile-ITK-for-iPhone-tp7588136p7588145.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 simpsona at gmail.com  Fri Nov  6 17:33:09 2015
From: simpsona at gmail.com (Amber Simpson)
Date: Fri, 6 Nov 2015 17:33:09 -0500
Subject: [ITK-users] problems installing ITK 4.8.1 on OS X 10.9.5
Message-ID: <CAMj5ekFHo5PmBRKLZ-k+9e29-6NkMwE=8UekmQYHnGbwrYfp8A@mail.gmail.com>

Hi All,

I'm having trouble compiling ITK, specifically itkvtkglue (see below),
using VTK 6.3.0 and CMake 3.4.0-rc3. CMakeCache.txt is attached. Any
suggestions?

Thanks,
Amber

--------------

[ 99%] Built target ITKRegionGrowing-all

[ 99%] Built target ITKRegistrationMethodsv4-all

[ 99%] Built target ITKSpatialFunction-all

[ 99%] Built target itkTestDriver

[ 99%] Built target ITKTestKernel-all

[ 99%] Built target ITKVTK

[ 99%] Built target ITKVTK-all

[ 99%] Built target ITKVideoCore

[ 99%] Built target ITKVideoCore-all

[ 99%] Built target ITKVideoFiltering-all

[100%] Built target ITKVideoIO

[100%] Built target ITKVideoIO-all

[100%] Built target ITKVoronoi-all

[100%] Building CXX object
Modules/Bridge/VtkGlue/src/CMakeFiles/ITKVtkGlue.dir/QuickView.cxx.o

*/Users/simpsonl/Software/ITK-4.8.1/Modules/Bridge/VtkGlue/src/QuickView.cxx:25:10:
**fatal error: **'vtkVersion.h' file not*

*      found*

#include "vtkVersion.h"

*         ^*

1 error generated.

make[2]: ***
[Modules/Bridge/VtkGlue/src/CMakeFiles/ITKVtkGlue.dir/QuickView.cxx.o]
Error 1

make[1]: *** [Modules/Bridge/VtkGlue/src/CMakeFiles/ITKVtkGlue.dir/all]
Error 2

make: *** [all] Error 2
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//Path to a program.
CPPCHECK_EXECUTABLE:FILEPATH=CPPCHECK_EXECUTABLE-NOTFOUND

//Path to search for cppcheck
CPPCHECK_ROOT_DIR:PATH=

//Test CXX_HAS_WARNING-Wformat=2
CXX_HAS_WARNING-Wformat:UNINITIALIZED=2:INTERNAL=1

//Test C_HAS_WARNING-Wformat=2
C_HAS_WARNING-Wformat:UNINITIALIZED=2:INTERNAL=1

//Path to a library.
EXECINFO_LIB:FILEPATH=EXECINFO_LIB-NOTFOUND

//Semicolon-separated list of local directories holding data objects
// in the layout %(algo)/%(hash).
ExternalData_OBJECT_STORES:STRING=

//Additional URL templates for the ExternalData CMake script to
// look for testing data. E.g.
//\nfile:///var/bigharddrive/%(algo)/%(hash)
ExternalData_URL_TEMPLATES:STRING=

//Value Computed by CMake
FilteringExamples_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Examples/Filtering

//Value Computed by CMake
FilteringExamples_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Examples/Filtering

//Value Computed by CMake
GDCMCHARLS_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/GDCM/src/gdcm/Utilities/gdcmcharls

//Value Computed by CMake
GDCMCHARLS_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/GDCM/src/gdcm/Utilities/gdcmcharls

//Value Computed by CMake
GDCMJPEG_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/GDCM/src/gdcm/Utilities/gdcmjpeg

//Value Computed by CMake
GDCMJPEG_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/GDCM/src/gdcm/Utilities/gdcmjpeg

//Value Computed by CMake
GDCMOPENJPEG_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/GDCM/src/gdcm/Utilities/gdcmopenjpeg-v2

//Value Computed by CMake
GDCMOPENJPEG_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/GDCM/src/gdcm/Utilities/gdcmopenjpeg-v2

//Value Computed by CMake
GDCMSOCKETXX_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/GDCM/src/gdcm/Utilities/socketxx

//Value Computed by CMake
GDCMSOCKETXX_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/GDCM/src/gdcm/Utilities/socketxx

//Value Computed by CMake
GDCMUUID_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/GDCM/src/gdcm/Utilities/gdcmuuid

//Value Computed by CMake
GDCMUUID_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/GDCM/src/gdcm/Utilities/gdcmuuid

//Value Computed by CMake
GDCM_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/GDCM/src/gdcm

//Value Computed by CMake
GDCM_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/GDCM/src/gdcm

//Value Computed by CMake
HDF5_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/HDF5/src/itkhdf5

//Build with library install_name set to the installation path
HDF5_BUILD_WITH_INSTALL_NAME:BOOL=OFF

//Value Computed by CMake
HDF5_CPP_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/HDF5/src/itkhdf5/c++

//Value Computed by CMake
HDF5_CPP_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/HDF5/src/itkhdf5/c++

//Value Computed by CMake
HDF5_CPP_SRC_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/HDF5/src/itkhdf5/c++/src

//Value Computed by CMake
HDF5_CPP_SRC_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/HDF5/src/itkhdf5/c++/src

//Value Computed by CMake
HDF5_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/HDF5/src/itkhdf5

//Value Computed by CMake
HDF5_SRC_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/HDF5/src/itkhdf5/src

//Value Computed by CMake
HDF5_SRC_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/HDF5/src/itkhdf5/src

//Value Computed by CMake
IOExamples_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Examples/IO

//Value Computed by CMake
IOExamples_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Examples/IO

//Value Computed by CMake
ITK-Convolution_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/Convolution

//Value Computed by CMake
ITK-Convolution_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/Convolution

//Value Computed by CMake
ITK-Deconvolution_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/Deconvolution

//Value Computed by CMake
ITK-Deconvolution_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/Deconvolution

//Value Computed by CMake
ITK3P_EXPAT_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/Expat/src/expat

//Value Computed by CMake
ITK3P_EXPAT_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/Expat/src/expat

//Value Computed by CMake
ITK3P_JPEG_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/JPEG/src/itkjpeg

//Value Computed by CMake
ITK3P_JPEG_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/JPEG/src/itkjpeg

//Value Computed by CMake
ITK3P_MetaIO_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/MetaIO/src/MetaIO/src

//Value Computed by CMake
ITK3P_MetaIO_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/MetaIO/src/MetaIO/src

//Value Computed by CMake
ITK3P_NrrdIO_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/NrrdIO/src/NrrdIO

//Value Computed by CMake
ITK3P_NrrdIO_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/NrrdIO/src/NrrdIO

//Value Computed by CMake
ITK3P_PNG_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/PNG/src/itkpng

//Value Computed by CMake
ITK3P_PNG_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/PNG/src/itkpng

//Value Computed by CMake
ITK3P_TIFF_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/TIFF/src/itktiff

//Value Computed by CMake
ITK3P_TIFF_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/TIFF/src/itktiff

//Value Computed by CMake
ITK3P_ZLIB_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/ZLIB/src/itkzlib

//Value Computed by CMake
ITK3P_ZLIB_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/ZLIB/src/itkzlib

//Value Computed by CMake
ITKAnisotropicSmoothing_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/AnisotropicSmoothing

//Value Computed by CMake
ITKAnisotropicSmoothing_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/AnisotropicSmoothing

//Value Computed by CMake
ITKAntiAlias_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/AntiAlias

//Value Computed by CMake
ITKAntiAlias_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/AntiAlias

//Value Computed by CMake
ITKBiasCorrection_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/BiasCorrection

//Dependencies for the target
ITKBiasCorrection_LIB_DEPENDS:STATIC=general;ITKCommon;general;ITKPolynomials;general;ITKStatistics;general;ITKOptimizers;

//Value Computed by CMake
ITKBiasCorrection_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/BiasCorrection

//Value Computed by CMake
ITKBinaryMathematicalMorphology_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/BinaryMathematicalMorphology

//Value Computed by CMake
ITKBinaryMathematicalMorphology_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/BinaryMathematicalMorphology

//Value Computed by CMake
ITKBioCell_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Segmentation/BioCell

//Dependencies for the target
ITKBioCell_LIB_DEPENDS:STATIC=general;ITKMesh;

//Value Computed by CMake
ITKBioCell_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Segmentation/BioCell

//Value Computed by CMake
ITKClassifiers_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Segmentation/Classifiers

//Value Computed by CMake
ITKClassifiers_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Segmentation/Classifiers

//Value Computed by CMake
ITKColormap_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/Colormap

//Value Computed by CMake
ITKColormap_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/Colormap

//Value Computed by CMake
ITKCommon_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Core/Common

//Dependencies for the target
ITKCommon_LIB_DEPENDS:STATIC=general;itksys;general;ITKVNLInstantiation;general;itkdouble-conversion;general;-lm;

//Value Computed by CMake
ITKCommon_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Core/Common

//Value Computed by CMake
ITKConnectedComponents_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Segmentation/ConnectedComponents

//Value Computed by CMake
ITKConnectedComponents_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Segmentation/ConnectedComponents

//Value Computed by CMake
ITKCurvatureFlow_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/CurvatureFlow

//Value Computed by CMake
ITKCurvatureFlow_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/CurvatureFlow

//Value Computed by CMake
ITKDICOMParser_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/DICOMParser

//Dependencies for target
ITKDICOMParser_LIB_DEPENDS:STATIC=

//Value Computed by CMake
ITKDICOMParser_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/DICOMParser

//Value Computed by CMake
ITKDeformableMesh_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Segmentation/DeformableMesh

//Value Computed by CMake
ITKDeformableMesh_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Segmentation/DeformableMesh

//Value Computed by CMake
ITKDenoising_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/Denoising

//Value Computed by CMake
ITKDenoising_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/Denoising

//Value Computed by CMake
ITKDiffusionTensorImage_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/DiffusionTensorImage

//Value Computed by CMake
ITKDiffusionTensorImage_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/DiffusionTensorImage

//Value Computed by CMake
ITKDisplacementField_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/DisplacementField

//Value Computed by CMake
ITKDisplacementField_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/DisplacementField

//Value Computed by CMake
ITKDistanceMap_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/DistanceMap

//Value Computed by CMake
ITKDistanceMap_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/DistanceMap

//Value Computed by CMake
ITKDoubleConversion_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/DoubleConversion

//Value Computed by CMake
ITKDoubleConversion_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/DoubleConversion

//Dependencies for target
ITKEXPAT_LIB_DEPENDS:STATIC=

//Value Computed by CMake
ITKEigen_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Numerics/Eigen

//Value Computed by CMake
ITKEigen_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Numerics/Eigen

//Value Computed by CMake
ITKExpat_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/Expat

//Value Computed by CMake
ITKExpat_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/Expat

//Value Computed by CMake
ITKFEMRegistration_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Registration/FEM

//Value Computed by CMake
ITKFEMRegistration_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Registration/FEM

//Value Computed by CMake
ITKFEM_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Numerics/FEM

//Dependencies for the target
ITKFEM_LIB_DEPENDS:STATIC=general;ITKMetaIO;general;ITKCommon;general;ITKStatistics;general;ITKCommon;general;ITKStatistics;general;ITKSpatialObjects;general;ITKPath;general;ITKOptimizers;

//Value Computed by CMake
ITKFEM_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Numerics/FEM

//Value Computed by CMake
ITKFFT_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/FFT

//Value Computed by CMake
ITKFFT_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/FFT

//Value Computed by CMake
ITKFastMarching_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/FastMarching

//Value Computed by CMake
ITKFastMarching_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/FastMarching

//Value Computed by CMake
ITKFiniteDifference_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Core/FiniteDifference

//Value Computed by CMake
ITKFiniteDifference_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Core/FiniteDifference

//Value Computed by CMake
ITKGDCM_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/GDCM

//Value Computed by CMake
ITKGDCM_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/GDCM

//Value Computed by CMake
ITKGIFTI_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/GIFTI

//Value Computed by CMake
ITKGIFTI_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/GIFTI

//Value Computed by CMake
ITKGPUAnisotropicSmoothing_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/GPUAnisotropicSmoothing

//Value Computed by CMake
ITKGPUAnisotropicSmoothing_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/GPUAnisotropicSmoothing

//Value Computed by CMake
ITKGPUCommon_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Core/GPUCommon

//Value Computed by CMake
ITKGPUCommon_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Core/GPUCommon

//Value Computed by CMake
ITKGPUFiniteDifference_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Core/GPUFiniteDifference

//Value Computed by CMake
ITKGPUFiniteDifference_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Core/GPUFiniteDifference

//Value Computed by CMake
ITKGPUImageFilterBase_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/GPUImageFilterBase

//Value Computed by CMake
ITKGPUImageFilterBase_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/GPUImageFilterBase

//Value Computed by CMake
ITKGPUPDEDeformable_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Registration/GPUPDEDeformable

//Value Computed by CMake
ITKGPUPDEDeformable_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Registration/GPUPDEDeformable

//Value Computed by CMake
ITKGPURegistrationCommon_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Registration/GPUCommon

//Value Computed by CMake
ITKGPURegistrationCommon_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Registration/GPUCommon

//Value Computed by CMake
ITKGPUSmoothing_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/GPUSmoothing

//Value Computed by CMake
ITKGPUSmoothing_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/GPUSmoothing

//Value Computed by CMake
ITKGPUThresholding_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/GPUThresholding

//Value Computed by CMake
ITKGPUThresholding_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/GPUThresholding

//Value Computed by CMake
ITKHDF5_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/HDF5

//Value Computed by CMake
ITKHDF5_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/HDF5

//Value Computed by CMake
ITKIOBMP_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/BMP

//Dependencies for the target
ITKIOBMP_LIB_DEPENDS:STATIC=general;ITKIOImageBase;

//Value Computed by CMake
ITKIOBMP_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/BMP

//Value Computed by CMake
ITKIOBioRad_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/BioRad

//Dependencies for the target
ITKIOBioRad_LIB_DEPENDS:STATIC=general;ITKIOImageBase;

//Value Computed by CMake
ITKIOBioRad_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/BioRad

//Value Computed by CMake
ITKIOCSV_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/CSV

//Dependencies for the target
ITKIOCSV_LIB_DEPENDS:STATIC=general;ITKIOImageBase;

//Value Computed by CMake
ITKIOCSV_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/CSV

//Value Computed by CMake
ITKIOGDCM_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/GDCM

//Dependencies for the target
ITKIOGDCM_LIB_DEPENDS:STATIC=general;gdcmDICT;general;gdcmMSFF;general;ITKIOImageBase;

//Value Computed by CMake
ITKIOGDCM_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/GDCM

//Value Computed by CMake
ITKIOGE_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/GE

//Dependencies for the target
ITKIOGE_LIB_DEPENDS:STATIC=general;ITKIOIPL;

//Value Computed by CMake
ITKIOGE_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/GE

//Value Computed by CMake
ITKIOGIPL_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/GIPL

//Dependencies for the target
ITKIOGIPL_LIB_DEPENDS:STATIC=general;ITKIOImageBase;general;itkzlib;

//Value Computed by CMake
ITKIOGIPL_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/GIPL

//Value Computed by CMake
ITKIOHDF5_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/HDF5

//Dependencies for the target
ITKIOHDF5_LIB_DEPENDS:STATIC=general;itkhdf5_cpp;general;itkhdf5;general;ITKIOImageBase;general;itkhdf5_cpp;general;itkhdf5;

//Value Computed by CMake
ITKIOHDF5_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/HDF5

//Value Computed by CMake
ITKIOIPL_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/IPL

//Dependencies for the target
ITKIOIPL_LIB_DEPENDS:STATIC=general;ITKIOImageBase;

//Value Computed by CMake
ITKIOIPL_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/IPL

//Value Computed by CMake
ITKIOImageBase_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/ImageBase

//Dependencies for the target
ITKIOImageBase_LIB_DEPENDS:STATIC=general;ITKCommon;

//Value Computed by CMake
ITKIOImageBase_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/ImageBase

//Value Computed by CMake
ITKIOJPEG_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/JPEG

//Dependencies for the target
ITKIOJPEG_LIB_DEPENDS:STATIC=general;itkjpeg;general;ITKIOImageBase;

//Value Computed by CMake
ITKIOJPEG_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/JPEG

//Value Computed by CMake
ITKIOLSM_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/LSM

//Dependencies for the target
ITKIOLSM_LIB_DEPENDS:STATIC=general;ITKIOTIFF;

//Value Computed by CMake
ITKIOLSM_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/LSM

//Value Computed by CMake
ITKIOMRC_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/MRC

//Dependencies for the target
ITKIOMRC_LIB_DEPENDS:STATIC=general;ITKIOImageBase;

//Value Computed by CMake
ITKIOMRC_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/MRC

//Value Computed by CMake
ITKIOMesh_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/Mesh

//Dependencies for the target
ITKIOMesh_LIB_DEPENDS:STATIC=general;ITKCommon;general;ITKgiftiio;general;ITKIOImageBase;

//Value Computed by CMake
ITKIOMesh_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/Mesh

//Value Computed by CMake
ITKIOMeta_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/Meta

//Dependencies for the target
ITKIOMeta_LIB_DEPENDS:STATIC=general;ITKMetaIO;general;ITKIOImageBase;

//Value Computed by CMake
ITKIOMeta_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/Meta

//Value Computed by CMake
ITKIONIFTI_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/NIFTI

//Dependencies for the target
ITKIONIFTI_LIB_DEPENDS:STATIC=general;ITKznz;general;ITKniftiio;general;ITKIOImageBase;

//Value Computed by CMake
ITKIONIFTI_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/NIFTI

//Value Computed by CMake
ITKIONRRD_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/NRRD

//Dependencies for the target
ITKIONRRD_LIB_DEPENDS:STATIC=general;ITKNrrdIO;general;ITKIOImageBase;

//Value Computed by CMake
ITKIONRRD_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/NRRD

//Value Computed by CMake
ITKIOPNG_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/PNG

//Dependencies for the target
ITKIOPNG_LIB_DEPENDS:STATIC=general;itkpng;general;ITKIOImageBase;

//Value Computed by CMake
ITKIOPNG_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/PNG

//Value Computed by CMake
ITKIORAW_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/RAW

//Value Computed by CMake
ITKIORAW_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/RAW

//Value Computed by CMake
ITKIOSiemens_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/Siemens

//Dependencies for the target
ITKIOSiemens_LIB_DEPENDS:STATIC=general;ITKIOIPL;general;ITKIOGE;

//Value Computed by CMake
ITKIOSiemens_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/Siemens

//Value Computed by CMake
ITKIOSpatialObjects_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/SpatialObjects

//Dependencies for the target
ITKIOSpatialObjects_LIB_DEPENDS:STATIC=general;ITKSpatialObjects;general;ITKIOXML;general;ITKIOImageBase;

//Value Computed by CMake
ITKIOSpatialObjects_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/SpatialObjects

//Value Computed by CMake
ITKIOStimulate_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/Stimulate

//Dependencies for the target
ITKIOStimulate_LIB_DEPENDS:STATIC=general;ITKIOImageBase;

//Value Computed by CMake
ITKIOStimulate_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/Stimulate

//Value Computed by CMake
ITKIOTIFF_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/TIFF

//Dependencies for the target
ITKIOTIFF_LIB_DEPENDS:STATIC=general;itktiff;general;ITKIOImageBase;

//Value Computed by CMake
ITKIOTIFF_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/TIFF

//Value Computed by CMake
ITKIOTransformBase_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/TransformBase

//Dependencies for the target
ITKIOTransformBase_LIB_DEPENDS:STATIC=general;ITKCommon;general;ITKStatistics;

//Value Computed by CMake
ITKIOTransformBase_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/TransformBase

//Value Computed by CMake
ITKIOTransformHDF5_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/TransformHDF5

//Dependencies for the target
ITKIOTransformHDF5_LIB_DEPENDS:STATIC=general;ITKIOTransformBase;general;itkhdf5_cpp;general;itkhdf5;

//Value Computed by CMake
ITKIOTransformHDF5_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/TransformHDF5

//Value Computed by CMake
ITKIOTransformInsightLegacy_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/TransformInsightLegacy

//Dependencies for the target
ITKIOTransformInsightLegacy_LIB_DEPENDS:STATIC=general;ITKIOTransformBase;general;itkdouble-conversion;

//Value Computed by CMake
ITKIOTransformInsightLegacy_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/TransformInsightLegacy

//Value Computed by CMake
ITKIOTransformMatlab_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/TransformMatlab

//Dependencies for the target
ITKIOTransformMatlab_LIB_DEPENDS:STATIC=general;ITKIOTransformBase;

//Value Computed by CMake
ITKIOTransformMatlab_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/TransformMatlab

//Value Computed by CMake
ITKIOVTK_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/VTK

//Dependencies for the target
ITKIOVTK_LIB_DEPENDS:STATIC=general;ITKIOImageBase;

//Value Computed by CMake
ITKIOVTK_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/VTK

//Value Computed by CMake
ITKIOXML_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/IO/XML

//Dependencies for the target
ITKIOXML_LIB_DEPENDS:STATIC=general;ITKEXPAT;general;ITKIOImageBase;

//Value Computed by CMake
ITKIOXML_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/IO/XML

//Value Computed by CMake
ITKImageAdaptors_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Core/ImageAdaptors

//Value Computed by CMake
ITKImageAdaptors_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Core/ImageAdaptors

//Value Computed by CMake
ITKImageCompare_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/ImageCompare

//Value Computed by CMake
ITKImageCompare_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/ImageCompare

//Value Computed by CMake
ITKImageCompose_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/ImageCompose

//Value Computed by CMake
ITKImageCompose_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/ImageCompose

//Value Computed by CMake
ITKImageFeature_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/ImageFeature

//Value Computed by CMake
ITKImageFeature_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/ImageFeature

//Value Computed by CMake
ITKImageFilterBase_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/ImageFilterBase

//Value Computed by CMake
ITKImageFilterBase_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/ImageFilterBase

//Value Computed by CMake
ITKImageFunction_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Core/ImageFunction

//Value Computed by CMake
ITKImageFunction_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Core/ImageFunction

//Value Computed by CMake
ITKImageFusion_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/ImageFusion

//Value Computed by CMake
ITKImageFusion_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/ImageFusion

//Value Computed by CMake
ITKImageGradient_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/ImageGradient

//Value Computed by CMake
ITKImageGradient_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/ImageGradient

//Value Computed by CMake
ITKImageGrid_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/ImageGrid

//Value Computed by CMake
ITKImageGrid_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/ImageGrid

//Value Computed by CMake
ITKImageIntensity_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/ImageIntensity

//Value Computed by CMake
ITKImageIntensity_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/ImageIntensity

//Value Computed by CMake
ITKImageLabel_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/ImageLabel

//Value Computed by CMake
ITKImageLabel_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/ImageLabel

//Value Computed by CMake
ITKImageNoise_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/ImageNoise

//Value Computed by CMake
ITKImageNoise_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/ImageNoise

//Value Computed by CMake
ITKImageSources_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/ImageSources

//Value Computed by CMake
ITKImageSources_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/ImageSources

//Value Computed by CMake
ITKImageStatistics_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/ImageStatistics

//Value Computed by CMake
ITKImageStatistics_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/ImageStatistics

//Value Computed by CMake
ITKIntegratedTest_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Nonunit/IntegratedTest

//Value Computed by CMake
ITKIntegratedTest_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Nonunit/IntegratedTest

//Value Computed by CMake
ITKJPEG_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/JPEG

//Value Computed by CMake
ITKJPEG_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/JPEG

//Value Computed by CMake
ITKKLMRegionGrowing_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Segmentation/KLMRegionGrowing

//Dependencies for the target
ITKKLMRegionGrowing_LIB_DEPENDS:STATIC=general;ITKCommon;

//Value Computed by CMake
ITKKLMRegionGrowing_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Segmentation/KLMRegionGrowing

//Value Computed by CMake
ITKKWSys_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/KWSys

//Value Computed by CMake
ITKKWSys_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/KWSys

//Value Computed by CMake
ITKLabelMap_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/LabelMap

//Dependencies for the target
ITKLabelMap_LIB_DEPENDS:STATIC=general;ITKStatistics;

//Value Computed by CMake
ITKLabelMap_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/LabelMap

//Value Computed by CMake
ITKLabelVoting_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Segmentation/LabelVoting

//Value Computed by CMake
ITKLabelVoting_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Segmentation/LabelVoting

//Value Computed by CMake
ITKLevelSets_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Segmentation/LevelSets

//Value Computed by CMake
ITKLevelSets_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Segmentation/LevelSets

//Value Computed by CMake
ITKLevelSetsv4_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Segmentation/LevelSetsv4

//Value Computed by CMake
ITKLevelSetsv4_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Segmentation/LevelSetsv4

//Value Computed by CMake
ITKMarkovRandomFieldsClassifiers_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Segmentation/MarkovRandomFieldsClassifiers

//Value Computed by CMake
ITKMarkovRandomFieldsClassifiers_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Segmentation/MarkovRandomFieldsClassifiers

//Value Computed by CMake
ITKMathematicalMorphology_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/MathematicalMorphology

//Value Computed by CMake
ITKMathematicalMorphology_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/MathematicalMorphology

//Value Computed by CMake
ITKMesh_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Core/Mesh

//Dependencies for the target
ITKMesh_LIB_DEPENDS:STATIC=general;ITKCommon;general;ITKStatistics;

//Value Computed by CMake
ITKMesh_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Core/Mesh

//Value Computed by CMake
ITKMetaIO_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/MetaIO

//Dependencies for the target
ITKMetaIO_LIB_DEPENDS:STATIC=general;itkzlib;

//Value Computed by CMake
ITKMetaIO_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/MetaIO

//Value Computed by CMake
ITKMetricsv4_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Registration/Metricsv4

//Value Computed by CMake
ITKMetricsv4_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Registration/Metricsv4

//Value Computed by CMake
ITKNIFTI_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/NIFTI

//Value Computed by CMake
ITKNIFTI_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/NIFTI

//Value Computed by CMake
ITKNarrowBand_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Numerics/NarrowBand

//Value Computed by CMake
ITKNarrowBand_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Numerics/NarrowBand

//Value Computed by CMake
ITKNetlib_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/Netlib

//Value Computed by CMake
ITKNetlib_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/Netlib

//Value Computed by CMake
ITKNeuralNetworks_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Numerics/NeuralNetworks

//Value Computed by CMake
ITKNeuralNetworks_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Numerics/NeuralNetworks

//Value Computed by CMake
ITKNrrdIO_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/NrrdIO

//Dependencies for the target
ITKNrrdIO_LIB_DEPENDS:STATIC=general;itkzlib;

//Value Computed by CMake
ITKNrrdIO_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/NrrdIO

//Value Computed by CMake
ITKOptimizers_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Numerics/Optimizers

//Dependencies for the target
ITKOptimizers_LIB_DEPENDS:STATIC=general;ITKStatistics;

//Value Computed by CMake
ITKOptimizers_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Numerics/Optimizers

//Value Computed by CMake
ITKOptimizersv4_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Numerics/Optimizersv4

//Dependencies for the target
ITKOptimizersv4_LIB_DEPENDS:STATIC=general;ITKOptimizers;

//Value Computed by CMake
ITKOptimizersv4_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Numerics/Optimizersv4

//Value Computed by CMake
ITKPDEDeformableRegistration_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Registration/PDEDeformable

//Value Computed by CMake
ITKPDEDeformableRegistration_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Registration/PDEDeformable

//Value Computed by CMake
ITKPNG_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/PNG

//Value Computed by CMake
ITKPNG_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/PNG

//Value Computed by CMake
ITKPath_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/Path

//Dependencies for the target
ITKPath_LIB_DEPENDS:STATIC=general;ITKCommon;general;ITKCommon;general;ITKStatistics;

//Value Computed by CMake
ITKPath_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/Path

//Value Computed by CMake
ITKPolynomials_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Numerics/Polynomials

//Dependencies for the target
ITKPolynomials_LIB_DEPENDS:STATIC=general;ITKCommon;

//Value Computed by CMake
ITKPolynomials_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Numerics/Polynomials

//Value Computed by CMake
ITKQuadEdgeMeshFiltering_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/QuadEdgeMeshFiltering

//Value Computed by CMake
ITKQuadEdgeMeshFiltering_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/QuadEdgeMeshFiltering

//Value Computed by CMake
ITKQuadEdgeMesh_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Core/QuadEdgeMesh

//Dependencies for the target
ITKQuadEdgeMesh_LIB_DEPENDS:STATIC=general;ITKMesh;

//Value Computed by CMake
ITKQuadEdgeMesh_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Core/QuadEdgeMesh

//Value Computed by CMake
ITKRegionGrowing_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Segmentation/RegionGrowing

//Value Computed by CMake
ITKRegionGrowing_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Segmentation/RegionGrowing

//Value Computed by CMake
ITKRegistrationCommon_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Registration/Common

//Value Computed by CMake
ITKRegistrationCommon_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Registration/Common

//Value Computed by CMake
ITKRegistrationMethodsv4_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Registration/RegistrationMethodsv4

//Value Computed by CMake
ITKRegistrationMethodsv4_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Registration/RegistrationMethodsv4

//Value Computed by CMake
ITKSignedDistanceFunction_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Segmentation/SignedDistanceFunction

//Value Computed by CMake
ITKSignedDistanceFunction_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Segmentation/SignedDistanceFunction

//Value Computed by CMake
ITKSmoothing_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/Smoothing

//Value Computed by CMake
ITKSmoothing_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/Smoothing

//Value Computed by CMake
ITKSpatialFunction_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/SpatialFunction

//Value Computed by CMake
ITKSpatialFunction_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/SpatialFunction

//Value Computed by CMake
ITKSpatialObjects_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Core/SpatialObjects

//Dependencies for the target
ITKSpatialObjects_LIB_DEPENDS:STATIC=general;ITKCommon;general;ITKStatistics;general;ITKMesh;general;ITKIOImageBase;

//Value Computed by CMake
ITKSpatialObjects_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Core/SpatialObjects

//Value Computed by CMake
ITKStatistics_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Numerics/Statistics

//Dependencies for the target
ITKStatistics_LIB_DEPENDS:STATIC=general;ITKCommon;general;itkNetlibSlatec;

//Value Computed by CMake
ITKStatistics_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Numerics/Statistics

//Value Computed by CMake
ITKTIFF_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/TIFF

//Value Computed by CMake
ITKTIFF_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/TIFF

//Value Computed by CMake
ITKTestKernel_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Core/TestKernel

//Value Computed by CMake
ITKTestKernel_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Core/TestKernel

//Value Computed by CMake
ITKThresholding_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Filtering/Thresholding

//Value Computed by CMake
ITKThresholding_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Filtering/Thresholding

//Value Computed by CMake
ITKTransform_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Core/Transform

//Value Computed by CMake
ITKTransform_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Core/Transform

//Enable compatibility with ITK3.x when possible.
ITKV3_COMPATIBILITY:BOOL=OFF

//Value Computed by CMake
ITKVNLInstantiation_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/VNLInstantiation

//Dependencies for the target
ITKVNLInstantiation_LIB_DEPENDS:STATIC=general;itkvnl_algo;general;itkvnl;general;itkv3p_netlib;

//Value Computed by CMake
ITKVNLInstantiation_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/VNLInstantiation

//Value Computed by CMake
ITKVNL_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/VNL

//Value Computed by CMake
ITKVNL_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/VNL

//Value Computed by CMake
ITKVTK_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Bridge/VTK

//Dependencies for the target
ITKVTK_LIB_DEPENDS:STATIC=general;ITKCommon;

//Value Computed by CMake
ITKVTK_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Bridge/VTK

//Value Computed by CMake
ITKVideoCore_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Video/Core

//Dependencies for the target
ITKVideoCore_LIB_DEPENDS:STATIC=general;ITKCommon;

//Value Computed by CMake
ITKVideoCore_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Video/Core

//Value Computed by CMake
ITKVideoFiltering_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Video/Filtering

//Value Computed by CMake
ITKVideoFiltering_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Video/Filtering

//Value Computed by CMake
ITKVideoIO_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Video/IO

//Dependencies for the target
ITKVideoIO_LIB_DEPENDS:STATIC=general;ITKVideoCore;general;ITKIOImageBase;

//Value Computed by CMake
ITKVideoIO_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Video/IO

//Value Computed by CMake
ITKVoronoi_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Segmentation/Voronoi

//Value Computed by CMake
ITKVoronoi_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Segmentation/Voronoi

//Value Computed by CMake
ITKVtkGlue_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Bridge/VtkGlue

//Dependencies for the target
ITKVtkGlue_LIB_DEPENDS:STATIC=general;ITKCommon;general;ITKVTK;general;vtkRenderingOpenGL;general;vtkImagingHybrid;general;vtkIOImage;general;vtkCommonDataModel;general;vtkCommonMath;general;vtkCommonCore;general;vtksys;general;vtkCommonMisc;general;vtkCommonSystem;general;vtkCommonTransforms;general;vtkCommonExecutionModel;general;vtkDICOMParser;general;vtkIOCore;general;/usr/lib/libz.dylib;general;vtkmetaio;general;vtkjpeg;general;vtkpng;general;vtktiff;general;vtkImagingCore;general;vtkRenderingCore;general;vtkCommonColor;general;vtkFiltersExtraction;general;vtkFiltersCore;general;vtkFiltersGeneral;general;vtkCommonComputationalGeometry;general;vtkFiltersStatistics;general;vtkImagingFourier;general;vtkalglib;general;vtkFiltersGeometry;general;vtkFiltersSources;general;vtkRenderingFreeType;general;vtkfreetype;general;vtkftgl;general;vtkInteractionStyle;general;vtkImagingSources;

//Value Computed by CMake
ITKVtkGlue_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Bridge/VtkGlue

//Value Computed by CMake
ITKWatersheds_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/Segmentation/Watersheds

//Dependencies for the target
ITKWatersheds_LIB_DEPENDS:STATIC=general;ITKCommon;general;ITKStatistics;general;ITKSpatialObjects;general;ITKPath;general;ITKCommon;general;ITKStatistics;general;ITKSpatialObjects;general;ITKPath;general;ITKCommon;general;ITKStatistics;general;ITKSpatialObjects;general;ITKPath;general;ITKCommon;general;ITKStatistics;

//Value Computed by CMake
ITKWatersheds_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/Segmentation/Watersheds

//Value Computed by CMake
ITKZLIB_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/ZLIB

//Value Computed by CMake
ITKZLIB_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/ZLIB

//Value Computed by CMake
ITK_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild

//Build the tests of module dependencies.
ITK_BUILD_ALL_MODULES_FOR_TESTS:BOOL=OFF

//Build the default ITK modules.
ITK_BUILD_DEFAULT_MODULES:BOOL=ON

//Provide here the size of your RAM Memory in GigaBytes
ITK_COMPUTER_MEMORY_SIZE:STRING=1

//Run cppcheck for static code analysis
ITK_CPPCHECK_TEST:BOOL=OFF

//Doxygen will generate Microsoft HTML help
ITK_DOXYGEN_CHM:BOOL=OFF

//Doxygen will generate additional index files for Xcode 3
ITK_DOXYGEN_DOCSET:BOOL=OFF

//Doxygen will generate Eclipse help plugin
ITK_DOXYGEN_ECLIPSEHELP:BOOL=OFF

//Doxygen will generate HTML Output
ITK_DOXYGEN_HTML:BOOL=ON

//Doxygen will generate LaTeX output
ITK_DOXYGEN_LATEX:BOOL=OFF

//Doxygen will generate Qt Compressed Help
ITK_DOXYGEN_QHP:BOOL=OFF

//Doxygen will generate RTF output optimized for Word 97
ITK_DOXYGEN_RTF:BOOL=OFF

//Doxygen will generate XML output
ITK_DOXYGEN_XML:BOOL=OFF

//Support run-time loading of shared libraries
ITK_DYNAMIC_LOADING:BOOL=ON

//Do not download source code or data from the network
ITK_FORBID_DOWNLOADS:BOOL=OFF

//Remove all legacy code completely.
ITK_LEGACY_REMOVE:BOOL=OFF

//Silence all legacy code messages.
ITK_LEGACY_SILENT:BOOL=OFF

//Value Computed by CMake
ITK_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1

//When ON, ITK will use 64 bits integers to index pixels. This
// is needed for managing images larger than 4Gb in some platforms.
ITK_USE_64BITS_IDS:BOOL=ON

//Download and use BrainWeb data for advanced testing
ITK_USE_BRAINWEB_DATA:BOOL=OFF

//Turn on concept checking to give helpful errors at compile time
// if a type cannot be used as a template parameter.
ITK_USE_CONCEPT_CHECKING:BOOL=ON

//Use double precision fftw if found
ITK_USE_FFTWD:BOOL=OFF

//Use single precision fftw if found
ITK_USE_FFTWF:BOOL=OFF

//Use single precision for origin/spacing/directions in itk::Image
ITK_USE_FLOAT_SPACE_PRECISION:BOOL=OFF

//GPU acceleration via OpenCL
ITK_USE_GPU:BOOL=OFF

//Enable the use of KWStyle for checking coding style.
ITK_USE_KWSTYLE:BOOL=OFF

//Turn on Strict concept checking to give more stringent errors
// at compile time if a type cannot be used as a template parameter.
ITK_USE_STRICT_CONCEPT_CHECKING:BOOL=OFF

//Use an outside build of double-conversion
ITK_USE_SYSTEM_DOUBLECONVERSION:BOOL=OFF

//Use system-installed expat
ITK_USE_SYSTEM_EXPAT:BOOL=OFF

//Use an installed version of fftw
ITK_USE_SYSTEM_FFTW:BOOL=OFF

//Use an outside build of GDCM.
ITK_USE_SYSTEM_GDCM:BOOL=OFF

//Use an outside build of HDF5.
ITK_USE_SYSTEM_HDF5:BOOL=OFF

//Use an outside build of JPEG.
ITK_USE_SYSTEM_JPEG:BOOL=OFF

//Use the system's libraries by default.
//\nIf this is not set during the initial configuration, it will
// have no effect.
ITK_USE_SYSTEM_LIBRARIES:BOOL=OFF

//Use system-installed png
ITK_USE_SYSTEM_PNG:BOOL=OFF

//Use system SZIP. If OFF, SZIP is built as an external project.
ITK_USE_SYSTEM_SZIP:BOOL=OFF

//Use system-installed tiff
ITK_USE_SYSTEM_TIFF:BOOL=OFF

//Use an outside build of VXL.
ITK_USE_SYSTEM_VXL:BOOL=OFF

//Use system ZLIB. If OFF, ZLIB is built as an external project.
ITK_USE_SYSTEM_ZLIB:BOOL=OFF

//Build Java support (Currently not supported)
ITK_WRAP_JAVA:BOOL=OFF

//Build Perl support (Currently not supported)
ITK_WRAP_PERL:BOOL=OFF

//Build Python support
ITK_WRAP_PYTHON:BOOL=OFF

//Build Ruby support (Currently not supported)
ITK_WRAP_RUBY:BOOL=OFF

//Build Tcl support (Currently not supported)
ITK_WRAP_TCL:BOOL=OFF

//Dependencies for the target
ITKgiftiio_LIB_DEPENDS:STATIC=general;ITKEXPAT;general;ITKznz;general;ITKniftiio;

//Dependencies for the target
ITKniftiio_LIB_DEPENDS:STATIC=general;ITKznz;general;-lm;

//Value Computed by CMake
ITKv4ImageRegistration_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Examples/RegistrationITKv4

//Value Computed by CMake
ITKv4ImageRegistration_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Examples/RegistrationITKv4

//Dependencies for the target
ITKznz_LIB_DEPENDS:STATIC=general;itkzlib;

//Value Computed by CMake
ImageExamples_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Examples/DataRepresentation/Image

//Value Computed by CMake
ImageExamples_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Examples/DataRepresentation/Image

//Value Computed by CMake
ImageSegmentation_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Examples/Segmentation

//Value Computed by CMake
ImageSegmentation_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Examples/Segmentation

//Value Computed by CMake
IteratorExamples_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Examples/Iterators

//Value Computed by CMake
IteratorExamples_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Examples/Iterators

//Path to the KWStyle executable
KWSTYLE_EXECUTABLE:FILEPATH=KWSTYLE_EXECUTABLE-NOTFOUND

//The number of headers in a HeaderTest code.
MAXIMUM_NUMBER_OF_HEADERS:STRING=35

//Value Computed by CMake
MeshExamples_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Examples/DataRepresentation/Mesh

//Value Computed by CMake
MeshExamples_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Examples/DataRepresentation/Mesh

//AnalyzeObjectMapIO plugin for ITK. From Insight Journal article
// with handle: http://hdl.handle.net/1926/593
Module_AnalyzeObjectMapIO:BOOL=OFF

//This module contains wrapper code to convert ITK Image's to
//\n  NumPy array's and back.  For example:
//\n
//\n    import itk
//\n    ImageType = itk.Image[itk.F, 2]
//\n    image = ImageType.New()
//\n    array = itk.PyBuffer[ImageType].GetArrayFromImage(image)
//\n    image = itk.PyBuffer[ImageType].GetImageFromArray(array)
//\n
//\n  See http://insight-journal.org/browse/publication/85
//\n      http://hdl.handle.net/1926/188
Module_BridgeNumPy:BOOL=OFF

//This module contains a filter to compute higher order
//\n  accurate numerical derivatives and gradients from an input
// scalar image.
//\n  field from a displacement field image.
//\n  Higher Order Accurate Derivative and Gradient Calculation
// in ITK
//\n  http://www.insight-journal.org/browse/publication/775
//\n  http://hdl.handle.net/10380/3231
Module_HigherOrderAccurateGradient:BOOL=OFF

//FDFImageIO plugin for ITK. Authors Gleen Pierce/Nick Tustison/Kent
// Williams
Module_IOFDF:BOOL=OFF

//This module contains classes for reading and writing QuadEdgeMeshes
// using
//\n  the STL (STereoLithography)file format. http://hdl.handle.net/10380/3452
Module_IOSTL:BOOL=OFF

//The modules contains classes for reading spatial transform from
// DICOM
//\n  files. See http://www.insight-journal.org/browse/publication/923
//\n             http://hdl.handle.net/10380/3468
Module_IOTransformDCMTK:BOOL=OFF

//Request building ITKDCMTK
Module_ITKDCMTK:BOOL=OFF

//Request building ITKDeprecated
Module_ITKDeprecated:BOOL=OFF

//Request building ITKIODCMTK
Module_ITKIODCMTK:BOOL=OFF

//Request building ITKIOMINC
Module_ITKIOMINC:BOOL=OFF

//Request building ITKIOPhilipsREC
Module_ITKIOPhilipsREC:BOOL=OFF

//Request building ITKLevelSetsv4Visualization
Module_ITKLevelSetsv4Visualization:BOOL=OFF

//Request building ITKMINC
Module_ITKMINC:BOOL=OFF

//Request building ITKOpenJPEG
Module_ITKOpenJPEG:BOOL=OFF

//Request building ITKReview
Module_ITKReview:BOOL=OFF

//Request building ITKV3Compatibility
Module_ITKV3Compatibility:BOOL=OFF

//Request building ITKVideoBridgeOpenCV
Module_ITKVideoBridgeOpenCV:BOOL=OFF

//Request building ITKVideoBridgeVXL
Module_ITKVideoBridgeVXL:BOOL=OFF

//Request building ITKVtkGlue
Module_ITKVtkGlue:BOOL=ON

//Classes performing morphology efficiently on label images.
//\n  Label collisions are consistently handled, and
//\n  operations are efficient (approximately constant time wrt
//\n  structuring element size). Only circular/spherical/hyperspherical
//\n  structuring elements are supported.
//\n  http://www.insight-journal.org/browse/publication/228
//\n  http://hdl.handle.net/10380/3399
Module_LabelErodeDilate:BOOL=OFF

//Framework for determining the sizes of lesions in medical images.
Module_LesionSizingToolkit:BOOL=OFF

//MGHIO ImageIO plugin for ITK
Module_MGHIO:BOOL=OFF

//http://www.insight-journal.org/browse/publication/213
//\n
Module_MinimalPathExtraction:BOOL=OFF

//Classes performing morphology using parabolic functions.
//\n  Fast distance transforms and binary erosions/dilations/openings/closings
//\n  by spheres, sharpenings and grayscale operations.
//\n  http://www.insight-journal.org/browse/publication/228
//\n  http://hdl.handle.net/1926/1370
Module_ParabolicMorphology:BOOL=OFF

//SCIFIO (Bioformats) ImageIO plugin for ITK
Module_SCIFIO:BOOL=OFF

//A class to perform automatic skull-stripping for neuroimage analysis.
Module_SkullStrip:BOOL=OFF

//GPU and CPU Young & Van Vliet Recursive Gaussian Smoothing Filter:
// http://hdl.handle.net/10380/3425
Module_SmoothingRecursiveYvvGaussianFilter:BOOL=OFF

//This module builds the examples found at http://itk.org/ITKExamples/
Module_SphinxExamples:BOOL=OFF

//This module contains filter called
//\nitk::SplitComponentsImageFilter.  This filter generates component
// images from an
//\nitk::Image of, for example, itk::Vector, itk::CovariantVector,
// or
//\nitk::SymmetricSecondRankTensor. http://hdl.handle.net/10380/3230
Module_SplitComponents:BOOL=OFF

//Triangle and edge based QuadEdgeMesh subdivision filters.
//\n
//\nSee the following Insight Journal's publication:
//\n
//\n  Wanlin Zhu, "Triangle Mesh Subdivision"
//\n  http://www.insight-journal.org/browse/publication/831
//\n  http://hdl.handle.net/10380/3307
Module_SubdivisionQuadEdgeMeshFilter:BOOL=OFF

//A module to perform variational image registration. http://hdl.handle.net/10380/3460
Module_VariationalRegistration:BOOL=OFF

//A collection of examples that illustrate how to use ITK.
Module_WikiExamples:BOOL=OFF

//Value Computed by CMake
NIFTI_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/NIFTI/src/nifti

//Value Computed by CMake
NIFTI_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/NIFTI/src/nifti

//Value Computed by CMake
NumericsExamples_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Examples/Numerics

//Value Computed by CMake
NumericsExamples_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Examples/Numerics

//Path to a program.
PERL_EXECUTABLE:FILEPATH=/usr/bin/perl

//Path to a program.
PYTHON_EXECUTABLE:FILEPATH=/usr/bin/python

//Value Computed by CMake
PathExamples_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Examples/DataRepresentation/Path

//Value Computed by CMake
PathExamples_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Examples/DataRepresentation/Path

//Value Computed by CMake
SpatialObjectsExamples_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Examples/SpatialObjects

//Value Computed by CMake
SpatialObjectsExamples_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Examples/SpatialObjects

//Value Computed by CMake
StatisticsExamples_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Examples/Statistics

//Value Computed by CMake
StatisticsExamples_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Examples/Statistics

//Use HIDDEN visibility support if available.
USE_COMPILER_HIDDEN_VISIBILITY:BOOL=ON

//Enable C++0x standard extensions
VCL_INCLUDE_CXX_0X:BOOL=OFF

//Whether vnl_vector/vnl_matrix accessor methods check index bounds.
VNL_CONFIG_CHECK_BOUNDS:BOOL=ON

//Enable Streaming SIMD Extensions 2 optimisations (hardware dependant).
// Currently broken. For use by VNL developers only.
VNL_CONFIG_ENABLE_SSE2:BOOL=OFF

//Enable Streaming SIMD Extensions 2 implementation of rounding
// (hardware dependant).
VNL_CONFIG_ENABLE_SSE2_ROUNDING:BOOL=ON

//Whether backward-compatibility methods are provided by vnl.
VNL_CONFIG_LEGACY_METHODS:BOOL=OFF

//Whether thread-safe vnl implementations are used.
VNL_CONFIG_THREAD_SAFE:BOOL=ON

//v3p include files
VTHREEP_INCLUDE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/VNL/src/vxl/v3p

//v3p include files
VTHREEP_INSTALL_INCLUDE_DIR:STATIC=/usr/local/include/vxl/v3p

//The directory containing a CMake configuration file for VTK.
VTK_DIR:PATH=/Users/simpsonl/Software/VTKBuild

//Re-run the configuration tests?
VXL_UPDATE_CONFIGURATION:BOOL=OFF

//Path to a file.
X11_ICE_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_ICE_LIB:FILEPATH=/opt/X11/lib/libICE.dylib

//Path to a file.
X11_SM_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_SM_LIB:FILEPATH=/opt/X11/lib/libSM.dylib

//Path to a file.
X11_X11_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_X11_LIB:FILEPATH=/opt/X11/lib/libX11.dylib

//Path to a file.
X11_XRes_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_XRes_LIB:FILEPATH=/opt/X11/lib/libXRes.dylib

//Path to a file.
X11_XShm_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a file.
X11_XSync_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a file.
X11_XTest_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_XTest_LIB:FILEPATH=/opt/X11/lib/libXtst.dylib

//Path to a file.
X11_Xaccessrules_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a file.
X11_Xaccessstr_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a file.
X11_Xau_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_Xau_LIB:FILEPATH=/opt/X11/lib/libXau.dylib

//Path to a file.
X11_Xcomposite_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_Xcomposite_LIB:FILEPATH=/opt/X11/lib/libXcomposite.dylib

//Path to a file.
X11_Xcursor_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_Xcursor_LIB:FILEPATH=/opt/X11/lib/libXcursor.dylib

//Path to a file.
X11_Xdamage_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_Xdamage_LIB:FILEPATH=/opt/X11/lib/libXdamage.dylib

//Path to a file.
X11_Xdmcp_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_Xdmcp_LIB:FILEPATH=/opt/X11/lib/libXdmcp.dylib

//Path to a library.
X11_Xext_LIB:FILEPATH=/opt/X11/lib/libXext.dylib

//Path to a file.
X11_Xfixes_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_Xfixes_LIB:FILEPATH=/opt/X11/lib/libXfixes.dylib

//Path to a file.
X11_Xft_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_Xft_LIB:FILEPATH=/opt/X11/lib/libXft.dylib

//Path to a file.
X11_Xi_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_Xi_LIB:FILEPATH=/opt/X11/lib/libXi.dylib

//Path to a file.
X11_Xinerama_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_Xinerama_LIB:FILEPATH=/opt/X11/lib/libXinerama.dylib

//Path to a file.
X11_Xinput_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_Xinput_LIB:FILEPATH=/opt/X11/lib/libXi.dylib

//Path to a file.
X11_Xkb_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a file.
X11_Xkbfile_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_Xkbfile_LIB:FILEPATH=/opt/X11/lib/libxkbfile.dylib

//Path to a file.
X11_Xkblib_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a file.
X11_Xlib_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a file.
X11_Xmu_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_Xmu_LIB:FILEPATH=/opt/X11/lib/libXmu.dylib

//Path to a file.
X11_Xpm_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_Xpm_LIB:FILEPATH=/opt/X11/lib/libXpm.dylib

//Path to a file.
X11_Xrandr_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_Xrandr_LIB:FILEPATH=/opt/X11/lib/libXrandr.dylib

//Path to a file.
X11_Xrender_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_Xrender_LIB:FILEPATH=/opt/X11/lib/libXrender.dylib

//Path to a file.
X11_Xscreensaver_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_Xscreensaver_LIB:FILEPATH=/opt/X11/lib/libXss.dylib

//Path to a file.
X11_Xshape_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a file.
X11_Xt_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_Xt_LIB:FILEPATH=/opt/X11/lib/libXt.dylib

//Path to a file.
X11_Xutil_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a file.
X11_Xv_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a library.
X11_Xv_LIB:FILEPATH=/opt/X11/lib/libXv.dylib

//Path to a library.
X11_Xxf86misc_LIB:FILEPATH=/opt/X11/lib/libXxf86misc.dylib

//Path to a library.
X11_Xxf86vm_LIB:FILEPATH=/opt/X11/lib/libXxf86vm.dylib

//Path to a file.
X11_dpms_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a file.
X11_xf86misc_INCLUDE_PATH:PATH=/opt/X11/include

//Path to a file.
X11_xf86vmode_INCLUDE_PATH:PATH=/opt/X11/include

//Dependencies for the target
gdcmCommon_LIB_DEPENDS:STATIC=general;/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.9.sdk/System/Library/Frameworks/CoreFoundation.framework;

//Dependencies for the target
gdcmDICT_LIB_DEPENDS:STATIC=general;gdcmDSED;general;gdcmIOD;

//Dependencies for the target
gdcmDSED_LIB_DEPENDS:STATIC=general;gdcmCommon;general;itkzlib;

//Dependencies for the target
gdcmIOD_LIB_DEPENDS:STATIC=general;gdcmDSED;general;gdcmCommon;general;ITKEXPAT;

//Dependencies for the target
gdcmMEXD_LIB_DEPENDS:STATIC=general;gdcmMSFF;general;gdcmDICT;general;gdcmDSED;general;gdcmIOD;general;gdcmsocketxx;

//Dependencies for the target
gdcmMSFF_LIB_DEPENDS:STATIC=general;gdcmIOD;general;gdcmDSED;general;gdcmDICT;general;gdcmjpeg8;general;gdcmjpeg12;general;gdcmjpeg16;general;gdcmopenjpeg;general;gdcmcharls;general;gdcmuuid;

//Dependencies for target
gdcmcharls_LIB_DEPENDS:STATIC=

//Dependencies for target
gdcmjpeg12_LIB_DEPENDS:STATIC=

//Dependencies for target
gdcmjpeg16_LIB_DEPENDS:STATIC=

//Dependencies for target
gdcmjpeg8_LIB_DEPENDS:STATIC=

//Dependencies for the target
gdcmopenjpeg_LIB_DEPENDS:STATIC=general;m;

//Dependencies for target
gdcmsocketxx_LIB_DEPENDS:STATIC=

//Dependencies for target
gdcmuuid_LIB_DEPENDS:STATIC=

//Value Computed by CMake
gifticlib_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/GIFTI/src/gifticlib

//Value Computed by CMake
gifticlib_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/GIFTI/src/gifticlib

//Dependencies for the target
itkNetlibSlatec_LIB_DEPENDS:STATIC=general;itkv3p_netlib;

//Value Computed by CMake
itkdicomparser_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/DICOMParser/src/DICOMParser

//Value Computed by CMake
itkdicomparser_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/DICOMParser/src/DICOMParser

//Dependencies for target
itkdouble-conversion_LIB_DEPENDS:STATIC=

//Dependencies for the target
itkhdf5_LIB_DEPENDS:STATIC=general;m;general;itkzlib;

//Dependencies for the target
itkhdf5_cpp_LIB_DEPENDS:STATIC=general;itkhdf5;

//Dependencies for target
itkjpeg_LIB_DEPENDS:STATIC=

//Dependencies for the target
itkpng_LIB_DEPENDS:STATIC=general;itkzlib;

//Value Computed by CMake
itksys_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/KWSys/src/KWSys

//Dependencies for target
itksys_LIB_DEPENDS:STATIC=

//Value Computed by CMake
itksys_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/KWSys/src/KWSys

//Dependencies for the target
itktestlib_LIB_DEPENDS:STATIC=general;itkvcl;

//Dependencies for the target
itktiff_LIB_DEPENDS:STATIC=general;itkzlib;general;itkjpeg;general;-lm;

//Dependencies for the target
itkv3p_lsqr_LIB_DEPENDS:STATIC=general;m;

//Dependencies for the target
itkv3p_netlib_LIB_DEPENDS:STATIC=general;m;

//Dependencies for the target
itkvcl_LIB_DEPENDS:STATIC=general;m;

//Dependencies for the target
itkvnl_LIB_DEPENDS:STATIC=general;itkvcl;

//Dependencies for the target
itkvnl_algo_LIB_DEPENDS:STATIC=general;itkv3p_netlib;general;itkvnl;general;itkv3p_lsqr;

//Dependencies for target
itkzlib_LIB_DEPENDS:STATIC=

//Value Computed by CMake
lsqr_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/VNL/src/vxl/v3p/netlib/linalg

//Value Computed by CMake
lsqr_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/VNL/src/vxl/v3p/netlib/linalg

//Value Computed by CMake
netlib_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/VNL/src/vxl/v3p/netlib

//Value Computed by CMake
netlib_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/VNL/src/vxl/v3p/netlib

//Value Computed by CMake
vcl_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/VNL/src/vxl/vcl

//Value Computed by CMake
vcl_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/VNL/src/vxl/vcl

//Value Computed by CMake
vnl_algo_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo

//Value Computed by CMake
vnl_algo_SOURCE_DIR:STATIC=/Users/simpsonl/Software/ITK-4.8.1/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo

//Value Computed by CMake
vthreep_BINARY_DIR:STATIC=/Users/simpsonl/Software/ITKBuild/Modules/ThirdParty/VNL/src/vxl/v3p

//Value Computed by CMake
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//Checking IF accurately roundup converting floating-point to unsigned
// long long values
H5_FP_TO_ULLONG_ACCURATE:INTERNAL=1
//Result of TRY_COMPILE
H5_FP_TO_ULLONG_ACCURATE_COMPILE:INTERNAL=TRUE
//Result of TRY_RUN
H5_FP_TO_ULLONG_ACCURATE_RUN:INTERNAL=0
//Checking IF right maximum converting floating-point to unsigned
// long long values
H5_FP_TO_ULLONG_RIGHT_MAXIMUM:INTERNAL=
//Result of TRY_COMPILE
H5_FP_TO_ULLONG_RIGHT_MAXIMUM_COMPILE:INTERNAL=TRUE
//Result of TRY_RUN
H5_FP_TO_ULLONG_RIGHT_MAXIMUM_RUN:INTERNAL=1
//Other test 
H5_GETTIMEOFDAY_GIVES_TZ:INTERNAL=1
//Have function alarm
H5_HAVE_ALARM:INTERNAL=1
//Other test 
H5_HAVE_ATTRIBUTE:INTERNAL=1
//Other test 
H5_HAVE_C99_DESIGNATED_INITIALIZER:INTERNAL=1
//Other test 
H5_HAVE_C99_FUNC:INTERNAL=1
//Have symbol tzname
H5_HAVE_DECL_TZNAME:INTERNAL=1
//Have function difftime
H5_HAVE_DIFFTIME:INTERNAL=1
//Have include pthread.h;setjmp.h;stddef.h;stdint.h;string.h;strings.h;sys/ioctl.h;sys/resource.h;sys/socket.h;sys/stat.h;sys/time.h;time.h;sys/timeb.h;sys/types.h;unistd.h;stdlib.h;memory.h;dlfcn.h
H5_HAVE_DLFCN_H:INTERNAL=1
//Have includes pthread.h;setjmp.h;stddef.h;stdint.h;string.h;strings.h;sys/ioctl.h;sys/resource.h;sys/socket.h;sys/stat.h;sys/time.h;time.h;sys/timeb.h;sys/types.h;unistd.h;stdlib.h;memory.h;dlfcn.h;features.h
H5_HAVE_FEATURES_H:INTERNAL=
//Have function fork
H5_HAVE_FORK:INTERNAL=1
//Have function frexpf
H5_HAVE_FREXPF:INTERNAL=1
//Have function frexpl
H5_HAVE_FREXPL:INTERNAL=1
//Have function fseeko
H5_HAVE_FSEEKO:INTERNAL=1
//Have function fseeko64
H5_HAVE_FSEEKO64:INTERNAL=
//Have function fstat64
H5_HAVE_FSTAT64:INTERNAL=1
//Have function ftello
H5_HAVE_FTELLO:INTERNAL=1
//Have function ftello64
H5_HAVE_FTELLO64:INTERNAL=
//Other test 
H5_HAVE_FUNCTION:INTERNAL=1
//Have function gethostname
H5_HAVE_GETHOSTNAME:INTERNAL=1
//Have function getpwuid
H5_HAVE_GETPWUID:INTERNAL=1
//Have function getrusage
H5_HAVE_GETRUSAGE:INTERNAL=1
//H5_HAVE_GETTIMEOFDAY
H5_HAVE_GETTIMEOFDAY:INTERNAL=1
//Have includes ;globus/common.h
H5_HAVE_GLOBUS_COMMON_H:INTERNAL=
//Have include pthread.h;setjmp.h;stddef.h;stdint.h;string.h;strings.h;sys/ioctl.h;sys/resource.h;sys/socket.h;sys/stat.h;sys/time.h;time.h;sys/timeb.h;sys/types.h;unistd.h;stdlib.h;memory.h;dlfcn.h;inttypes.h
H5_HAVE_INTTYPES_H:INTERNAL=1
//Have function ioctl
H5_HAVE_IOCTL:INTERNAL=1
//Have includes ;io.h
H5_HAVE_IO_H:INTERNAL=
//Have library m;
H5_HAVE_LIBM:INTERNAL=1
//Have library socket;m
H5_HAVE_LIBSOCKET:INTERNAL=
//Have library ucb;m
H5_HAVE_LIBUCB:INTERNAL=
//Have library ws2_32;m
H5_HAVE_LIBWS2_32:INTERNAL=
//Have library wsock32;m
H5_HAVE_LIBWSOCK32:INTERNAL=
//Have function longjmp
H5_HAVE_LONGJMP:INTERNAL=1
//Have function lstat
H5_HAVE_LSTAT:INTERNAL=1
//Have include pthread.h;setjmp.h;stddef.h;stdint.h;string.h;strings.h;sys/ioctl.h;sys/resource.h;sys/socket.h;sys/stat.h;sys/time.h;time.h;sys/timeb.h;sys/types.h;unistd.h;stdlib.h;memory.h
H5_HAVE_MEMORY_H:INTERNAL=1
//Have includes ;mfhdf.h
H5_HAVE_MFHDF_H:INTERNAL=
//Have include pthread.h;setjmp.h;stddef.h;stdint.h;string.h;strings.h;sys/ioctl.h;sys/resource.h;sys/socket.h;sys/stat.h;sys/time.h;time.h;sys/timeb.h;sys/types.h;unistd.h;stdlib.h;memory.h;dlfcn.h;inttypes.h;netinet/in.h
H5_HAVE_NETINET_IN_H:INTERNAL=1
//Other test 
H5_HAVE_OFF64_T:INTERNAL=
//Have includes ;pdb.h
H5_HAVE_PDB_H:INTERNAL=
//Have include ;pthread.h
H5_HAVE_PTHREAD_H:INTERNAL=1
//Have function random
H5_HAVE_RANDOM:INTERNAL=1
//Have function rand_r
H5_HAVE_RAND_R:INTERNAL=1
//Have function setjmp
H5_HAVE_SETJMP:INTERNAL=1
//Have include pthread.h;setjmp.h
H5_HAVE_SETJMP_H:INTERNAL=1
//Have function setsysinfo
H5_HAVE_SETSYSINFO:INTERNAL=
//Have function sigaction
H5_HAVE_SIGACTION:INTERNAL=1
//Have function siglongjmp
H5_HAVE_SIGLONGJMP:INTERNAL=1
//Have function signal
H5_HAVE_SIGNAL:INTERNAL=1
//Have function sigprocmask
H5_HAVE_SIGPROCMASK:INTERNAL=1
//Have function sigsetjmp
H5_HAVE_SIGSETJMP:INTERNAL=1
//Have function snprintf
H5_HAVE_SNPRINTF:INTERNAL=1
//Other test 
H5_HAVE_SOCKLEN_T:INTERNAL=1
//Have function srandom
H5_HAVE_SRANDOM:INTERNAL=1
//Have includes pthread.h;setjmp.h;srbclient.h
H5_HAVE_SRBCLIENT_H:INTERNAL=
//Have function stat64
H5_HAVE_STAT64:INTERNAL=1
//Other test 
H5_HAVE_STAT_ST_BLOCKS:INTERNAL=1
//Have include pthread.h;setjmp.h;stddef.h
H5_HAVE_STDDEF_H:INTERNAL=1
//Have include pthread.h;setjmp.h;stddef.h;stdint.h
H5_HAVE_STDINT_H:INTERNAL=1
//Have include stdint.h
H5_HAVE_STDINT_H_CXX:INTERNAL=1
//Have include pthread.h;setjmp.h;stddef.h;stdint.h;string.h;strings.h;sys/ioctl.h;sys/resource.h;sys/socket.h;sys/stat.h;sys/time.h;time.h;sys/timeb.h;sys/types.h;unistd.h;stdlib.h
H5_HAVE_STDLIB_H:INTERNAL=1
//Have function strdup
H5_HAVE_STRDUP:INTERNAL=1
//Have include pthread.h;setjmp.h;stddef.h;stdint.h;string.h;strings.h
H5_HAVE_STRINGS_H:INTERNAL=1
//Have include pthread.h;setjmp.h;stddef.h;stdint.h;string.h
H5_HAVE_STRING_H:INTERNAL=1
//Other test 
H5_HAVE_STRUCT_TIMEZONE:INTERNAL=1
//Other test 
H5_HAVE_STRUCT_TM_TM_ZONE:INTERNAL=1
//Have function symlink
H5_HAVE_SYMLINK:INTERNAL=1
//Have function system
H5_HAVE_SYSTEM:INTERNAL=1
//Have include pthread.h;setjmp.h;stddef.h;stdint.h;string.h;strings.h;sys/ioctl.h
H5_HAVE_SYS_IOCTL_H:INTERNAL=1
//Have includes pthread.h;setjmp.h;stddef.h;stdint.h;string.h;strings.h;sys/ioctl.h;sys/proc.h
H5_HAVE_SYS_PROC_H:INTERNAL=
//Have include pthread.h;setjmp.h;stddef.h;stdint.h;string.h;strings.h;sys/ioctl.h;sys/resource.h
H5_HAVE_SYS_RESOURCE_H:INTERNAL=1
//Have include pthread.h;setjmp.h;stddef.h;stdint.h;string.h;strings.h;sys/ioctl.h;sys/resource.h;sys/socket.h
H5_HAVE_SYS_SOCKET_H:INTERNAL=1
//Have include pthread.h;setjmp.h;stddef.h;stdint.h;string.h;strings.h;sys/ioctl.h;sys/resource.h;sys/socket.h;sys/stat.h
H5_HAVE_SYS_STAT_H:INTERNAL=1
H5_HAVE_SYS_SYSINFO_H:INTERNAL=
//Have include pthread.h;setjmp.h;stddef.h;stdint.h;string.h;strings.h;sys/ioctl.h;sys/resource.h;sys/socket.h;sys/stat.h;sys/time.h;time.h;sys/timeb.h
H5_HAVE_SYS_TIMEB_H:INTERNAL=1
//H5_HAVE_SYS_TIME_GETTIMEOFDAY
H5_HAVE_SYS_TIME_GETTIMEOFDAY:INTERNAL=1
//Have include pthread.h;setjmp.h;stddef.h;stdint.h;string.h;strings.h;sys/ioctl.h;sys/resource.h;sys/socket.h;sys/stat.h;sys/time.h
H5_HAVE_SYS_TIME_H:INTERNAL=1
//Have include pthread.h;setjmp.h;stddef.h;stdint.h;string.h;strings.h;sys/ioctl.h;sys/resource.h;sys/socket.h;sys/stat.h;sys/time.h;time.h;sys/timeb.h;sys/types.h
H5_HAVE_SYS_TYPES_H:INTERNAL=1
//Other test 
H5_HAVE_TIMEZONE:INTERNAL=1
//Have include pthread.h;setjmp.h;stddef.h;stdint.h;string.h;strings.h;sys/ioctl.h;sys/resource.h;sys/socket.h;sys/stat.h;sys/time.h;time.h
H5_HAVE_TIME_H:INTERNAL=1
//Have symbol TIOCGETD
H5_HAVE_TIOCGETD:INTERNAL=1
//Have symbol TIOCGWINSZ
H5_HAVE_TIOCGWINSZ:INTERNAL=1
//Other test 
H5_HAVE_TM_GMTOFF:INTERNAL=1
//Other test 
H5_HAVE_TM_ZONE:INTERNAL=1
//Have include pthread.h;setjmp.h;stddef.h;stdint.h;string.h;strings.h;sys/ioctl.h;sys/resource.h;sys/socket.h;sys/stat.h;sys/time.h;time.h;sys/timeb.h;sys/types.h;unistd.h
H5_HAVE_UNISTD_H:INTERNAL=1
//Have function vasprintf
H5_HAVE_VASPRINTF:INTERNAL=1
//Have function vsnprintf
H5_HAVE_VSNPRINTF:INTERNAL=1
//Have function waitpid
H5_HAVE_WAITPID:INTERNAL=1
//Have includes pthread.h;setjmp.h;stddef.h;stdint.h;string.h;strings.h;sys/ioctl.h;sys/resource.h;sys/socket.h;sys/stat.h;sys/time.h;time.h;sys/timeb.h;sys/types.h;unistd.h;stdlib.h;memory.h;dlfcn.h;inttypes.h;netinet/in.h;winsock2.h
H5_HAVE_WINSOCK_H:INTERNAL=
//Other test 
H5_INLINE_TEST___inline:INTERNAL=1
//Other test 
H5_INLINE_TEST___inline__:INTERNAL=1
//Other test 
H5_INLINE_TEST_inline:INTERNAL=1
//checking IF accurately converting from integers to long double
H5_INTEGER_TO_LDOUBLE_ACCURATE:INTERNAL=1
//checking IF converting from long double to integers is accurate
H5_LDOUBLE_TO_INTEGER_ACCURATE:INTERNAL=1
//Checking IF converting from long double to integers works
H5_LDOUBLE_TO_INTEGER_WORKS:INTERNAL=1
//Result of TRY_COMPILE
H5_LDOUBLE_TO_INTEGER_WORKS_COMPILE:INTERNAL=TRUE
//Result of TRY_RUN
H5_LDOUBLE_TO_INTEGER_WORKS_RUN:INTERNAL=0
//Checking IF correctly converting long double to (unsigned) long
// long values
H5_LDOUBLE_TO_LLONG_ACCURATE:INTERNAL=1
//Result of TRY_COMPILE
H5_LDOUBLE_TO_LLONG_ACCURATE_COMPILE:INTERNAL=TRUE
//Result of TRY_RUN
H5_LDOUBLE_TO_LLONG_ACCURATE_RUN:INTERNAL=0
//Checking IF correctly converting long double to unsigned int
// values
H5_LDOUBLE_TO_UINT_ACCURATE:INTERNAL=1
//Result of TRY_COMPILE
H5_LDOUBLE_TO_UINT_ACCURATE_COMPILE:INTERNAL=TRUE
//Result of TRY_RUN
H5_LDOUBLE_TO_UINT_ACCURATE_RUN:INTERNAL=0
//Checking IF compiling long long to floating-point typecasts work
H5_LLONG_TO_FP_CAST_WORKS:INTERNAL=1
//Checking IF correctly converting (unsigned) long long to long
// double values
H5_LLONG_TO_LDOUBLE_CORRECT:INTERNAL=1
//Result of TRY_COMPILE
H5_LLONG_TO_LDOUBLE_CORRECT_COMPILE:INTERNAL=TRUE
//Result of TRY_RUN
H5_LLONG_TO_LDOUBLE_CORRECT_RUN:INTERNAL=0
//Other test 
H5_LONE_COLON:INTERNAL=
//Checking IF alignment restrictions are strictly enforced
H5_NO_ALIGNMENT_RESTRICTIONS:INTERNAL=1
//Result of TRY_COMPILE
H5_NO_ALIGNMENT_RESTRICTIONS_COMPILE:INTERNAL=TRUE
//Result of TRY_RUN
H5_NO_ALIGNMENT_RESTRICTIONS_RUN:INTERNAL=0
//Width for printf for type `long long' or `__int64', us. `ll
H5_PRINTF_LL_WIDTH:INTERNAL="ll"
//CHECK_TYPE_SIZE: sizeof(char)
H5_SIZEOF_CHAR:INTERNAL=1
//CHECK_TYPE_SIZE: sizeof(double)
H5_SIZEOF_DOUBLE:INTERNAL=8
//CHECK_TYPE_SIZE: sizeof(float)
H5_SIZEOF_FLOAT:INTERNAL=4
//CHECK_TYPE_SIZE: sizeof(int)
H5_SIZEOF_INT:INTERNAL=4
//CHECK_TYPE_SIZE: sizeof(int16_t)
H5_SIZEOF_INT16_T:INTERNAL=2
//CHECK_TYPE_SIZE: sizeof(int32_t)
H5_SIZEOF_INT32_T:INTERNAL=4
//CHECK_TYPE_SIZE: sizeof(int64_t)
H5_SIZEOF_INT64_T:INTERNAL=8
//CHECK_TYPE_SIZE: sizeof(int8_t)
H5_SIZEOF_INT8_T:INTERNAL=1
//CHECK_TYPE_SIZE: sizeof(int_fast16_t)
H5_SIZEOF_INT_FAST16_T:INTERNAL=2
//CHECK_TYPE_SIZE: sizeof(int_fast32_t)
H5_SIZEOF_INT_FAST32_T:INTERNAL=4
//CHECK_TYPE_SIZE: sizeof(int_fast64_t)
H5_SIZEOF_INT_FAST64_T:INTERNAL=8
//CHECK_TYPE_SIZE: sizeof(int_fast8_t)
H5_SIZEOF_INT_FAST8_T:INTERNAL=1
//CHECK_TYPE_SIZE: sizeof(int_least16_t)
H5_SIZEOF_INT_LEAST16_T:INTERNAL=2
//CHECK_TYPE_SIZE: sizeof(int_least32_t)
H5_SIZEOF_INT_LEAST32_T:INTERNAL=4
//CHECK_TYPE_SIZE: sizeof(int_least64_t)
H5_SIZEOF_INT_LEAST64_T:INTERNAL=8
//CHECK_TYPE_SIZE: sizeof(int_least8_t)
H5_SIZEOF_INT_LEAST8_T:INTERNAL=1
//CHECK_TYPE_SIZE: sizeof(long double)
H5_SIZEOF_LONG_DOUBLE:INTERNAL=16
//CHECK_TYPE_SIZE: sizeof(long long)
H5_SIZEOF_LONG_LONG:INTERNAL=8
//SizeOf for off64_t
H5_SIZEOF_OFF64_T:INTERNAL=0
//CHECK_TYPE_SIZE: sizeof(off_t)
H5_SIZEOF_OFF_T:INTERNAL=8
//CHECK_TYPE_SIZE: sizeof(short)
H5_SIZEOF_SHORT:INTERNAL=2
//CHECK_TYPE_SIZE: sizeof(uint16_t)
H5_SIZEOF_UINT16_T:INTERNAL=2
//CHECK_TYPE_SIZE: sizeof(uint32_t)
H5_SIZEOF_UINT32_T:INTERNAL=4
//CHECK_TYPE_SIZE: sizeof(uint64_t)
H5_SIZEOF_UINT64_T:INTERNAL=8
//CHECK_TYPE_SIZE: sizeof(uint8_t)
H5_SIZEOF_UINT8_T:INTERNAL=1
//CHECK_TYPE_SIZE: sizeof(uint_fast16_t)
H5_SIZEOF_UINT_FAST16_T:INTERNAL=2
//CHECK_TYPE_SIZE: sizeof(uint_fast32_t)
H5_SIZEOF_UINT_FAST32_T:INTERNAL=4
//CHECK_TYPE_SIZE: sizeof(uint_fast64_t)
H5_SIZEOF_UINT_FAST64_T:INTERNAL=8
//CHECK_TYPE_SIZE: sizeof(uint_fast8_t)
H5_SIZEOF_UINT_FAST8_T:INTERNAL=1
//CHECK_TYPE_SIZE: sizeof(uint_least16_t)
H5_SIZEOF_UINT_LEAST16_T:INTERNAL=2
//CHECK_TYPE_SIZE: sizeof(uint_least32_t)
H5_SIZEOF_UINT_LEAST32_T:INTERNAL=4
//CHECK_TYPE_SIZE: sizeof(uint_least64_t)
H5_SIZEOF_UINT_LEAST64_T:INTERNAL=8
//CHECK_TYPE_SIZE: sizeof(uint_least8_t)
H5_SIZEOF_UINT_LEAST8_T:INTERNAL=1
//CHECK_TYPE_SIZE: sizeof(unsigned)
H5_SIZEOF_UNSIGNED:INTERNAL=4
//SizeOf for __int64
H5_SIZEOF___INT64:INTERNAL=0
//Other test 
H5_STDC_HEADERS:INTERNAL=1
//Other test 
H5_SYSTEM_SCOPE_THREADS:INTERNAL=1
//Other test 
H5_TIME_WITH_SYS_TIME:INTERNAL=1
//Checking IF compiling unsigned long long to floating-point typecasts
// work
H5_ULLONG_TO_FP_CAST_WORKS:INTERNAL=1
//Checking IF converting unsigned long long to long double with
// precision
H5_ULLONG_TO_LDOUBLE_PRECISION:INTERNAL=1
//Result of TRY_COMPILE
H5_ULLONG_TO_LDOUBLE_PRECISION_COMPILE:INTERNAL=TRUE
//Result of TRY_RUN
H5_ULLONG_TO_LDOUBLE_PRECISION_RUN:INTERNAL=0
//Checking IF accurately converting unsigned long to float values
H5_ULONG_TO_FLOAT_ACCURATE:INTERNAL=1
//Result of TRY_COMPILE
H5_ULONG_TO_FLOAT_ACCURATE_COMPILE:INTERNAL=TRUE
//Result of TRY_RUN
H5_ULONG_TO_FLOAT_ACCURATE_RUN:INTERNAL=0
//Checking IF accurately converting unsigned long long to floating-point
// values
H5_ULONG_TO_FP_BOTTOM_BIT_ACCURATE:INTERNAL=
//Result of TRY_COMPILE
H5_ULONG_TO_FP_BOTTOM_BIT_ACCURATE_COMPILE:INTERNAL=TRUE
//Result of TRY_RUN
H5_ULONG_TO_FP_BOTTOM_BIT_ACCURATE_RUN:INTERNAL=1
//Other test 
H5_VSNPRINTF_WORKS:INTERNAL=1
//Have include assert.h
HAVE_ASSERT_H:INTERNAL=1
//Result of TRY_COMPILE
HAVE_ATTRIBUTE:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_C99_DESIGNATED_INITIALIZER:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_C99_FUNC:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_CMAKE_SIZEOF_CHAR:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_CMAKE_SIZEOF_DOUBLE:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_CMAKE_SIZEOF_FLOAT:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_CMAKE_SIZEOF_INT:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_CMAKE_SIZEOF_LONG:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_CMAKE_SIZEOF_SHORT:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_CMAKE_SIZEOF_UNSIGNED_SHORT:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_CMAKE_SIZEOF_VOID_P:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_CMAKE_WORDS_BIGENDIAN:INTERNAL=TRUE
//Have include dlfcn.h
HAVE_DLFCN_H:INTERNAL=1
//Have include emmintrin.h
HAVE_EMMINTRIN_H:INTERNAL=1
//Have include fcntl.h
HAVE_FCNTL_H:INTERNAL=1
//Have include fenv.h
HAVE_FENV_H:INTERNAL=1
//Have function floor
HAVE_FLOOR:INTERNAL=1
//Result of TRY_COMPILE
HAVE_FUNCTION:INTERNAL=TRUE
//Have function getopt
HAVE_GETOPT:INTERNAL=1
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_CHAR:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_DOUBLE:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_FLOAT:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_INT:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_INT16_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_INT32_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_INT64_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_INT8_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_INT_FAST16_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_INT_FAST32_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_INT_FAST64_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_INT_FAST8_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_INT_LEAST16_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_INT_LEAST32_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_INT_LEAST64_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_INT_LEAST8_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_LONG_DOUBLE:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_LONG_LONG:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_OFF64_T:INTERNAL=FALSE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_OFF_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_SHORT:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_UINT16_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_UINT32_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_UINT64_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_UINT8_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_UINT_FAST16_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_UINT_FAST32_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_UINT_FAST64_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_UINT_FAST8_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_UINT_LEAST16_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_UINT_LEAST32_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_UINT_LEAST64_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_UINT_LEAST8_T:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF_UNSIGNED:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_H5_SIZEOF___INT64:INTERNAL=FALSE
//Have includes ieeefp.h
HAVE_IEEEFP_H:INTERNAL=
//Have include stdlib.h;unistd.h;inttypes.h
HAVE_INTTYPES_H:INTERNAL=1
//Have function isascii
HAVE_ISASCII:INTERNAL=1
// 
HAVE_ITK_CPP_FUNCTION:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_KWSYS_SIZEOF_CHAR:INTERNAL=TRUE
//Result of TRY_COMPILE
HAVE_KWSYS_SIZEOF___INT64:INTERNAL=FALSE
//Have include limits.h
HAVE_LIMITS_H:INTERNAL=1
//Have includes malloc.h
HAVE_MALLOC_H:INTERNAL=
//Have function memmove
HAVE_MEMMOVE:INTERNAL=1
//Have include memory.h
HAVE_MEMORY_H:INTERNAL=1
//Have function memset
HAVE_MEMSET:INTERNAL=1
//Have function mmap
HAVE_MMAP:INTERNAL=1
//Have include stdlib.h;unistd.h;inttypes.h;sys/ioctl.h;sys/time.h;sys/file.h;sys/socket.h;sys/sockio.h;net/if.h;netinet/in.h
HAVE_NETINET_IN_H:INTERNAL=1
//Have include stdlib.h;unistd.h;inttypes.h;sys/ioctl.h;sys/time.h;sys/file.h;sys/socket.h;sys/sockio.h;net/if.h;netinet/in.h;net/if_dl.h;net/if_arp.h
HAVE_NET_IF_ARP_H:INTERNAL=1
//Have include stdlib.h;unistd.h;inttypes.h;sys/ioctl.h;sys/time.h;sys/file.h;sys/socket.h;sys/sockio.h;net/if.h;netinet/in.h;net/if_dl.h
HAVE_NET_IF_DL_H:INTERNAL=1
//Have include stdlib.h;unistd.h;inttypes.h;sys/ioctl.h;sys/time.h;sys/file.h;sys/socket.h;sys/sockio.h;net/if.h
HAVE_NET_IF_H:INTERNAL=1
//Result of TRY_COMPILE
HAVE_OFF64_T:INTERNAL=FALSE
//Have function pow
HAVE_POW:INTERNAL=1
//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_RUN
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//ADVANCED property for variable: ITK_DOXYGEN_XML
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//ADVANCED property for variable: ITK_FORBID_DOWNLOADS
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//Remove code that will become legacy in future releases completely.
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Have include tr1/type_traits
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//Have include type_traits
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//For __sync atomic builtins.
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//ADVANCED property for variable: ITK_LEGACY_REMOVE
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//ADVANCED property for variable: ITK_LEGACY_SILENT
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//ADVANCED property for variable: ITK_USE_64BITS_IDS
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//MODIFIED property for variable: ITK_USE_64BITS_IDS
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//ADVANCED property for variable: ITK_USE_FFTWD
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//ADVANCED property for variable: ITK_USE_FFTWF
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//ADVANCED property for variable: ITK_USE_FLOAT_SPACE_PRECISION
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//ADVANCED property for variable: ITK_USE_SYSTEM_HDF5
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//ADVANCED property for variable: ITK_USE_SYSTEM_JPEG
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//ADVANCED property for variable: ITK_USE_SYSTEM_LIBRARIES
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//ADVANCED property for variable: ITK_USE_SYSTEM_PNG
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//ADVANCED property for variable: ITK_USE_SYSTEM_SZIP
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//ADVANCED property for variable: ITK_USE_SYSTEM_ZLIB
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//Build external languages support
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//Result of TRY_RUN
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Result of TRY_COMPILE
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//Have include sys/types.h;ifaddrs.h
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//Result of TRY_COMPILE
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//ADVANCED property for variable: MAXIMUM_NUMBER_OF_HEADERS
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Module_ITKIOTransformHDF5:INTERNAL=OFF
//Request building ITKIOTransformInsightLegacy
Module_ITKIOTransformInsightLegacy:INTERNAL=OFF
//Request building ITKIOTransformMatlab
Module_ITKIOTransformMatlab:INTERNAL=OFF
//Request building ITKIOVTK
Module_ITKIOVTK:INTERNAL=OFF
//Request building ITKIOXML
Module_ITKIOXML:INTERNAL=OFF
//Request building ITKImageAdaptors
Module_ITKImageAdaptors:INTERNAL=OFF
//Request building ITKImageCompare
Module_ITKImageCompare:INTERNAL=OFF
//Request building ITKImageCompose
Module_ITKImageCompose:INTERNAL=OFF
//Request building ITKImageFeature
Module_ITKImageFeature:INTERNAL=OFF
//Request building ITKImageFilterBase
Module_ITKImageFilterBase:INTERNAL=OFF
//Request building ITKImageFunction
Module_ITKImageFunction:INTERNAL=OFF
//Request building ITKImageFusion
Module_ITKImageFusion:INTERNAL=OFF
//Request building ITKImageGradient
Module_ITKImageGradient:INTERNAL=OFF
//Request building ITKImageGrid
Module_ITKImageGrid:INTERNAL=OFF
//Request building ITKImageIntensity
Module_ITKImageIntensity:INTERNAL=OFF
//Request building ITKImageLabel
Module_ITKImageLabel:INTERNAL=OFF
//Request building ITKImageNoise
Module_ITKImageNoise:INTERNAL=OFF
//Request building ITKImageSources
Module_ITKImageSources:INTERNAL=OFF
//Request building ITKImageStatistics
Module_ITKImageStatistics:INTERNAL=OFF
//Request building ITKIntegratedTest
Module_ITKIntegratedTest:INTERNAL=OFF
//Request building ITKJPEG
Module_ITKJPEG:INTERNAL=OFF
//Request building ITKKLMRegionGrowing
Module_ITKKLMRegionGrowing:INTERNAL=OFF
//Request building ITKKWSys
Module_ITKKWSys:INTERNAL=OFF
//Request building ITKLabelMap
Module_ITKLabelMap:INTERNAL=OFF
//Request building ITKLabelVoting
Module_ITKLabelVoting:INTERNAL=OFF
//Request building ITKLevelSets
Module_ITKLevelSets:INTERNAL=OFF
//Request building ITKLevelSetsv4
Module_ITKLevelSetsv4:INTERNAL=OFF
//ADVANCED property for variable: Module_ITKLevelSetsv4Visualization
Module_ITKLevelSetsv4Visualization-ADVANCED:INTERNAL=1
//ADVANCED property for variable: Module_ITKMINC
Module_ITKMINC-ADVANCED:INTERNAL=1
//Request building ITKMarkovRandomFieldsClassifiers
Module_ITKMarkovRandomFieldsClassifiers:INTERNAL=OFF
//Request building ITKMathematicalMorphology
Module_ITKMathematicalMorphology:INTERNAL=OFF
//Request building ITKMesh
Module_ITKMesh:INTERNAL=OFF
//Request building ITKMetaIO
Module_ITKMetaIO:INTERNAL=OFF
//Request building ITKMetricsv4
Module_ITKMetricsv4:INTERNAL=OFF
//Request building ITKNIFTI
Module_ITKNIFTI:INTERNAL=OFF
//Request building ITKNarrowBand
Module_ITKNarrowBand:INTERNAL=OFF
//Request building ITKNetlib
Module_ITKNetlib:INTERNAL=OFF
//Request building ITKNeuralNetworks
Module_ITKNeuralNetworks:INTERNAL=OFF
//Request building ITKNrrdIO
Module_ITKNrrdIO:INTERNAL=OFF
//ADVANCED property for variable: Module_ITKOpenJPEG
Module_ITKOpenJPEG-ADVANCED:INTERNAL=1
//Request building ITKOptimizers
Module_ITKOptimizers:INTERNAL=OFF
//Request building ITKOptimizersv4
Module_ITKOptimizersv4:INTERNAL=OFF
//Request building ITKPDEDeformableRegistration
Module_ITKPDEDeformableRegistration:INTERNAL=OFF
//Request building ITKPNG
Module_ITKPNG:INTERNAL=OFF
//Request building ITKPath
Module_ITKPath:INTERNAL=OFF
//Request building ITKPolynomials
Module_ITKPolynomials:INTERNAL=OFF
//Request building ITKQuadEdgeMesh
Module_ITKQuadEdgeMesh:INTERNAL=OFF
//Request building ITKQuadEdgeMeshFiltering
Module_ITKQuadEdgeMeshFiltering:INTERNAL=OFF
//Request building ITKRegionGrowing
Module_ITKRegionGrowing:INTERNAL=OFF
//Request building ITKRegistrationCommon
Module_ITKRegistrationCommon:INTERNAL=OFF
//Request building ITKRegistrationMethodsv4
Module_ITKRegistrationMethodsv4:INTERNAL=OFF
//ADVANCED property for variable: Module_ITKReview
Module_ITKReview-ADVANCED:INTERNAL=1
//Request building ITKSignedDistanceFunction
Module_ITKSignedDistanceFunction:INTERNAL=OFF
//Request building ITKSmoothing
Module_ITKSmoothing:INTERNAL=OFF
//Request building ITKSpatialFunction
Module_ITKSpatialFunction:INTERNAL=OFF
//Request building ITKSpatialObjects
Module_ITKSpatialObjects:INTERNAL=OFF
//Request building ITKStatistics
Module_ITKStatistics:INTERNAL=OFF
//Request building ITKTIFF
Module_ITKTIFF:INTERNAL=OFF
//Request building ITKTestKernel
Module_ITKTestKernel:INTERNAL=OFF
//Request building ITKThresholding
Module_ITKThresholding:INTERNAL=OFF
//Request building ITKTransform
Module_ITKTransform:INTERNAL=OFF
//ADVANCED property for variable: Module_ITKV3Compatibility
Module_ITKV3Compatibility-ADVANCED:INTERNAL=1
//Request building ITKVNL
Module_ITKVNL:INTERNAL=OFF
//Request building ITKVNLInstantiation
Module_ITKVNLInstantiation:INTERNAL=OFF
//Request building ITKVTK
Module_ITKVTK:INTERNAL=OFF
//ADVANCED property for variable: Module_ITKVideoBridgeOpenCV
Module_ITKVideoBridgeOpenCV-ADVANCED:INTERNAL=1
//ADVANCED property for variable: Module_ITKVideoBridgeVXL
Module_ITKVideoBridgeVXL-ADVANCED:INTERNAL=1
//Request building ITKVideoCore
Module_ITKVideoCore:INTERNAL=OFF
//Request building ITKVideoFiltering
Module_ITKVideoFiltering:INTERNAL=OFF
//Request building ITKVideoIO
Module_ITKVideoIO:INTERNAL=OFF
//Request building ITKVoronoi
Module_ITKVoronoi:INTERNAL=OFF
//ADVANCED property for variable: Module_ITKVtkGlue
Module_ITKVtkGlue-ADVANCED:INTERNAL=1
//MODIFIED property for variable: Module_ITKVtkGlue
Module_ITKVtkGlue-MODIFIED:INTERNAL=ON
//Request building ITKWatersheds
Module_ITKWatersheds:INTERNAL=OFF
//Request building ITKZLIB
Module_ITKZLIB:INTERNAL=OFF
//ADVANCED property for variable: Module_LabelErodeDilate
Module_LabelErodeDilate-ADVANCED:INTERNAL=1
//ADVANCED property for variable: Module_LesionSizingToolkit
Module_LesionSizingToolkit-ADVANCED:INTERNAL=1
//ADVANCED property for variable: Module_MGHIO
Module_MGHIO-ADVANCED:INTERNAL=1
//ADVANCED property for variable: Module_MinimalPathExtraction
Module_MinimalPathExtraction-ADVANCED:INTERNAL=1
//ADVANCED property for variable: Module_ParabolicMorphology
Module_ParabolicMorphology-ADVANCED:INTERNAL=1
//ADVANCED property for variable: Module_SCIFIO
Module_SCIFIO-ADVANCED:INTERNAL=1
//ADVANCED property for variable: Module_SkullStrip
Module_SkullStrip-ADVANCED:INTERNAL=1
//ADVANCED property for variable: Module_SmoothingRecursiveYvvGaussianFilter
Module_SmoothingRecursiveYvvGaussianFilter-ADVANCED:INTERNAL=1
//ADVANCED property for variable: Module_SphinxExamples
Module_SphinxExamples-ADVANCED:INTERNAL=1
//ADVANCED property for variable: Module_SplitComponents
Module_SplitComponents-ADVANCED:INTERNAL=1
//ADVANCED property for variable: Module_SubdivisionQuadEdgeMeshFilter
Module_SubdivisionQuadEdgeMeshFilter-ADVANCED:INTERNAL=1
//ADVANCED property for variable: Module_VariationalRegistration
Module_VariationalRegistration-ADVANCED:INTERNAL=1
//ADVANCED property for variable: Module_WikiExamples
Module_WikiExamples-ADVANCED:INTERNAL=1
//Have library c
NOT_NEED_LIBNSL:INTERNAL=1
OPENJPEG_INSTALL_PACKAGE_DIR:INTERNAL=lib/gdcmopenjpeg-2.0
//ADVANCED property for variable: PERL_EXECUTABLE
PERL_EXECUTABLE-ADVANCED:INTERNAL=1
//ADVANCED property for variable: PYTHON_EXECUTABLE
PYTHON_EXECUTABLE-ADVANCED:INTERNAL=1
//The 22nd bit of 32-bit floating-point quiet NaN.
QNANHIBIT:INTERNAL=1
//Result of TRY_RUN
QNANHIBIT_VALUE:INTERNAL=1
//CHECK_TYPE_SIZE: sizeof(int)
SIZEOF_INT:INTERNAL=4
//CHECK_TYPE_SIZE: sizeof(long)
SIZEOF_LONG:INTERNAL=8
//Have function strsignal
SOCKETXX_HAVE_STRSIGNAL:INTERNAL=1
//Result of TRY_COMPILE
STDC_HEADERS:INTERNAL=TRUE
//Result of TRY_COMPILE
SYSTEM_SCOPE_THREADS:INTERNAL=TRUE
//Result of TRY_COMPILE
TIME_WITH_SYS_TIME:INTERNAL=TRUE
//ADVANCED property for variable: USE_COMPILER_HIDDEN_VISIBILITY
USE_COMPILER_HIDDEN_VISIBILITY-ADVANCED:INTERNAL=1
//VXL test 
VCL_ALLOWS_INLINE_INSTANTIATION:INTERNAL=1
//VXL test 
VCL_ALLOWS_NAMESPACE_STD:INTERNAL=1
//VXL test 
VCL_CANNOT_SPECIALIZE_CV:INTERNAL=1
//VXL test 
VCL_CAN_DO_COMPLETE_DEFAULT_TYPE_PARAMETER:INTERNAL=1
//VXL test 
VCL_CAN_DO_IMPLICIT_TEMPLATES:INTERNAL=1
//VXL test 
VCL_CAN_DO_NON_TYPE_FUNCTION_TEMPLATE_PARAMETER:INTERNAL=1
//VXL test 
VCL_CAN_DO_PARTIAL_SPECIALIZATION:INTERNAL=1
//VXL test 
VCL_CAN_DO_STATIC_TEMPLATE_MEMBER:INTERNAL=1
//VXL test 
VCL_CAN_DO_TEMPLATE_DEFAULT_TYPE_PARAMETER:INTERNAL=1
//VXL test  (successful run)
VCL_CHAR_IS_SIGNED:INTERNAL=1
//Result of TRY_COMPILE
VCL_CHAR_IS_SIGNED_COMPILED:INTERNAL=TRUE
//VXL test  (successful run)
VCL_COMPLEX_POW_WORKS:INTERNAL=1
//Result of TRY_COMPILE
VCL_COMPLEX_POW_WORKS_COMPILED:INTERNAL=TRUE
//Have include algorithm
VCL_CXX_HAS_HEADER_ALGORITHM:INTERNAL=1
//Have include bitset
VCL_CXX_HAS_HEADER_BITSET:INTERNAL=1
//Have include cassert
VCL_CXX_HAS_HEADER_CASSERT:INTERNAL=1
//Have include cctype
VCL_CXX_HAS_HEADER_CCTYPE:INTERNAL=1
//Have include cerrno
VCL_CXX_HAS_HEADER_CERRNO:INTERNAL=1
//Have include cfloat
VCL_CXX_HAS_HEADER_CFLOAT:INTERNAL=1
//Have include ciso646
VCL_CXX_HAS_HEADER_CISO646:INTERNAL=1
//Have include climits
VCL_CXX_HAS_HEADER_CLIMITS:INTERNAL=1
//Have include clocale
VCL_CXX_HAS_HEADER_CLOCALE:INTERNAL=1
//Have include cmath
VCL_CXX_HAS_HEADER_CMATH:INTERNAL=1
//Have include complex
VCL_CXX_HAS_HEADER_COMPLEX:INTERNAL=1
//Have include csetjmp
VCL_CXX_HAS_HEADER_CSETJMP:INTERNAL=1
//Have include csignal
VCL_CXX_HAS_HEADER_CSIGNAL:INTERNAL=1
//Have include cstdarg
VCL_CXX_HAS_HEADER_CSTDARG:INTERNAL=1
//Have include cstddef
VCL_CXX_HAS_HEADER_CSTDDEF:INTERNAL=1
//Have include cstdio
VCL_CXX_HAS_HEADER_CSTDIO:INTERNAL=1
//Have include cstdlib
VCL_CXX_HAS_HEADER_CSTDLIB:INTERNAL=1
//Have include cstring
VCL_CXX_HAS_HEADER_CSTRING:INTERNAL=1
//Have include ctime
VCL_CXX_HAS_HEADER_CTIME:INTERNAL=1
//Have include cwchar
VCL_CXX_HAS_HEADER_CWCHAR:INTERNAL=1
//Have include cwctype
VCL_CXX_HAS_HEADER_CWCTYPE:INTERNAL=1
//Have include deque
VCL_CXX_HAS_HEADER_DEQUE:INTERNAL=1
//Have include exception
VCL_CXX_HAS_HEADER_EXCEPTION:INTERNAL=1
//Have include fstream
VCL_CXX_HAS_HEADER_FSTREAM:INTERNAL=1
//Have include functional
VCL_CXX_HAS_HEADER_FUNCTIONAL:INTERNAL=1
//Have include iomanip
VCL_CXX_HAS_HEADER_IOMANIP:INTERNAL=1
//Have include ios
VCL_CXX_HAS_HEADER_IOS:INTERNAL=1
//Have include iosfwd
VCL_CXX_HAS_HEADER_IOSFWD:INTERNAL=1
//Have include iostream
VCL_CXX_HAS_HEADER_IOSTREAM:INTERNAL=1
//Have include iso646.h
VCL_CXX_HAS_HEADER_ISO646_H:INTERNAL=1
//Have include istream
VCL_CXX_HAS_HEADER_ISTREAM:INTERNAL=1
//Have include iterator
VCL_CXX_HAS_HEADER_ITERATOR:INTERNAL=1
//Have include limits
VCL_CXX_HAS_HEADER_LIMITS:INTERNAL=1
//Have include list
VCL_CXX_HAS_HEADER_LIST:INTERNAL=1
//Have include locale
VCL_CXX_HAS_HEADER_LOCALE:INTERNAL=1
//Have include map
VCL_CXX_HAS_HEADER_MAP:INTERNAL=1
//Have include memory
VCL_CXX_HAS_HEADER_MEMORY:INTERNAL=1
//Have include new
VCL_CXX_HAS_HEADER_NEW:INTERNAL=1
//Have include numeric
VCL_CXX_HAS_HEADER_NUMERIC:INTERNAL=1
//Have include ostream
VCL_CXX_HAS_HEADER_OSTREAM:INTERNAL=1
//Have include queue
VCL_CXX_HAS_HEADER_QUEUE:INTERNAL=1
//Have include set
VCL_CXX_HAS_HEADER_SET:INTERNAL=1
//Have include sstream
VCL_CXX_HAS_HEADER_SSTREAM:INTERNAL=1
//Have include stack
VCL_CXX_HAS_HEADER_STACK:INTERNAL=1
//Have include stdexcept
VCL_CXX_HAS_HEADER_STDEXCEPT:INTERNAL=1
//Have include streambuf
VCL_CXX_HAS_HEADER_STREAMBUF:INTERNAL=1
//Have include string
VCL_CXX_HAS_HEADER_STRING:INTERNAL=1
//Have include strstream
VCL_CXX_HAS_HEADER_STRSTREAM:INTERNAL=1
//Have include typeinfo
VCL_CXX_HAS_HEADER_TYPEINFO:INTERNAL=1
//Have include utility
VCL_CXX_HAS_HEADER_UTILITY:INTERNAL=1
//Have include valarray
VCL_CXX_HAS_HEADER_VALARRAY:INTERNAL=1
//Have include vector
VCL_CXX_HAS_HEADER_VECTOR:INTERNAL=1
//Have include tr1/memory
VCL_CXX_HAS_TR1:INTERNAL=1
//VXL test 
VCL_DEFAULT_VALUE:INTERNAL=1
//VXL test 
VCL_DEFINE_SPECIALIZATION:INTERNAL=1
//VXL test 
VCL_FOR_SCOPE_HACK:INTERNAL=1
//VXL test 
VCL_HAS_BOOL:INTERNAL=1
//VXL test 
VCL_HAS_DYNAMIC_CAST:INTERNAL=1
//VXL test 
VCL_HAS_EXCEPTIONS:INTERNAL=1
//VXL test 
VCL_HAS_EXPLICIT:INTERNAL=1
//VXL test 
VCL_HAS_EXPORT:INTERNAL=1
//VXL test  (successful run)
VCL_HAS_LFS:INTERNAL=1
//Result of TRY_COMPILE
VCL_HAS_LFS_COMPILED:INTERNAL=TRUE
//VXL test 
VCL_HAS_LONG_LONG:INTERNAL=1
//VXL test 
VCL_HAS_MEMBER_TEMPLATES:INTERNAL=1
//VXL test 
VCL_HAS_MUTABLE:INTERNAL=1
//VXL test 
VCL_HAS_NAMESPACES:INTERNAL=1
//VXL test 
VCL_HAS_RTTI:INTERNAL=1
//VXL test  (successful run)
VCL_HAS_SLICED_DESTRUCTOR_BUG:INTERNAL=1
//Result of TRY_COMPILE
VCL_HAS_SLICED_DESTRUCTOR_BUG_COMPILED:INTERNAL=TRUE
//Test  (failed to compile)
VCL_HAS_TEMPLATE_SYMBOLS:INTERNAL=0
//Result of TRY_COMPILE
VCL_HAS_TEMPLATE_SYMBOLS_COMPILED:INTERNAL=FALSE
//VXL test 
VCL_HAS_TYPENAME:INTERNAL=1
//VXL test  (successful run)
VCL_HAS_WORKING_STRINGSTREAM:INTERNAL=1
//Result of TRY_COMPILE
VCL_HAS_WORKING_STRINGSTREAM_COMPILED:INTERNAL=TRUE
//ADVANCED property for variable: VCL_INCLUDE_CXX_0X
VCL_INCLUDE_CXX_0X-ADVANCED:INTERNAL=1
//Have symbol std::shared_ptr<void>
VCL_MEMORY_HAS_SHARED_PTR:INTERNAL=
//VXL test 
VCL_NEEDS_INLINE_INSTANTIATION:INTERNAL=1
//Test 
VCL_NEEDS_NAMESPACE_STD:INTERNAL=0
//VXL test 
VCL_NEED_FRIEND_FOR_TEMPLATE_OVERLOAD:INTERNAL=1
//VXL test 
VCL_NO_STATIC_DATA_MEMBERS:INTERNAL=1
//Test 
VCL_NULL_TMPL_ARGS:INTERNAL=0
//VXL test  (successful run)
VCL_NUMERIC_LIMITS_HAS_INFINITY:INTERNAL=1
//Result of TRY_COMPILE
VCL_NUMERIC_LIMITS_HAS_INFINITY_COMPILED:INTERNAL=TRUE
//Test 
VCL_OVERLOAD_CAST:INTERNAL=0
//VXL test  (successful run)
VCL_PROCESSOR_HAS_INFINITY:INTERNAL=1
//Result of TRY_COMPILE
VCL_PROCESSOR_HAS_INFINITY_COMPILED:INTERNAL=TRUE
//Test 
VCL_STATIC_CONST_INIT_FLOAT:INTERNAL=0
//VXL test 
VCL_STATIC_CONST_INIT_INT:INTERNAL=1
//Test 
VCL_STATIC_CONST_INIT_NO_DEFN:INTERNAL=0
//VXL test 
VCL_SUNPRO_CLASS_SCOPE_HACK:INTERNAL=1
//VXL test 
VCL_TEMPLATE_MATCHES_TOO_OFTEN:INTERNAL=1
//Have symbol std::tr1::shared_ptr<void>
VCL_TR1_MEMORY_HAS_SHARED_PTR:INTERNAL=1
//ADVANCED property for variable: VNL_CONFIG_CHECK_BOUNDS
VNL_CONFIG_CHECK_BOUNDS-ADVANCED:INTERNAL=1
//ADVANCED property for variable: VNL_CONFIG_ENABLE_SSE2
VNL_CONFIG_ENABLE_SSE2-ADVANCED:INTERNAL=1
//ADVANCED property for variable: VNL_CONFIG_ENABLE_SSE2_ROUNDING
VNL_CONFIG_ENABLE_SSE2_ROUNDING-ADVANCED:INTERNAL=1
//ADVANCED property for variable: VNL_CONFIG_LEGACY_METHODS
VNL_CONFIG_LEGACY_METHODS-ADVANCED:INTERNAL=1
//ADVANCED property for variable: VNL_CONFIG_THREAD_SAFE
VNL_CONFIG_THREAD_SAFE-ADVANCED:INTERNAL=1
//Result of TRY_COMPILE
VSNPRINTF_WORKS:INTERNAL=TRUE
//MODIFIED property for variable: VTK_DIR
VTK_DIR-MODIFIED:INTERNAL=ON
//VXL test 
VXL_APPLE_HAS_INLINE_ISNAND:INTERNAL=1
//Test 
VXL_APPLE_HAS_ISNAND:INTERNAL=0
//Result of TEST_BIG_ENDIAN
VXL_BIG_ENDIAN:INTERNAL=0
//VXL test result
VXL_BYTE:INTERNAL=char
//Serial number of last configuration
VXL_CONFIG_SERIAL_LAST:INTERNAL=2009-04-28-001
//Have symbol finite
VXL_C_MATH_HAS_FINITE:INTERNAL=1
//Have symbol finitef
VXL_C_MATH_HAS_FINITEF:INTERNAL=
//Have symbol finitel
VXL_C_MATH_HAS_FINITEL:INTERNAL=
//VXL test 
VXL_C_MATH_HAS_LROUND:INTERNAL=1
//Have symbol sqrtf
VXL_C_MATH_HAS_SQRTF:INTERNAL=1
//Test 
VXL_HAS_ALIGNED_MALLOC:INTERNAL=0
//VXL test result
VXL_HAS_BYTE:INTERNAL=1
//Test 
VXL_HAS_DBGHELP_H:INTERNAL=0
//Have include emmintrin.h
VXL_HAS_EMMINTRIN_H:INTERNAL=1
//Have include ieeefp.h
VXL_HAS_IEEEFP_H:INTERNAL=
//VXL test result
VXL_HAS_IEEE_128:INTERNAL=1
//VXL test result
VXL_HAS_IEEE_32:INTERNAL=1
//VXL test result
VXL_HAS_IEEE_64:INTERNAL=1
//VXL test result
VXL_HAS_IEEE_96:INTERNAL=0
//VXL test result
VXL_HAS_INT_16:INTERNAL=1
//VXL test result
VXL_HAS_INT_32:INTERNAL=1
//VXL test result
VXL_HAS_INT_64:INTERNAL=1
//VXL test result
VXL_HAS_INT_8:INTERNAL=1
//Test 
VXL_HAS_MINGW_ALIGNED_MALLOC:INTERNAL=0
//VXL test 
VXL_HAS_MM_MALLOC:INTERNAL=1
//Test 
VXL_HAS_POSIX_MEMALIGN:INTERNAL=0
//Have include pthread.h
VXL_HAS_PTHREAD_H:INTERNAL=1
//Have include semaphore.h
VXL_HAS_SEMAPHORE_H:INTERNAL=1
//VXL test  (successful run)
VXL_HAS_SSE2_HARDWARE_SUPPORT:INTERNAL=1
//Result of TRY_COMPILE
VXL_HAS_SSE2_HARDWARE_SUPPORT_COMPILED:INTERNAL=TRUE
//Have symbol finite
VXL_IEEEFP_HAS_FINITE:INTERNAL=
//VXL test result
VXL_IEEE_128:INTERNAL=long double
//VXL test result
VXL_IEEE_32:INTERNAL=float
//VXL test result
VXL_IEEE_64:INTERNAL=double
//VXL test result
VXL_IEEE_96:INTERNAL=void
//VXL test result
VXL_INT_16:INTERNAL=short
//VXL test result
VXL_INT_32:INTERNAL=int
//VXL test result
VXL_INT_64:INTERNAL=long
//VXL test result
VXL_INT_8:INTERNAL=char
//VXL test 
VXL_PIC_COMPATIBLE:INTERNAL=1
//Have symbol drand48
VXL_STDLIB_HAS_DRAND48:INTERNAL=1
//Have symbol lrand48
VXL_STDLIB_HAS_LRAND48:INTERNAL=1
//VXL test 
VXL_STDLIB_HAS_QSORT:INTERNAL=1
//Have symbol srand48
VXL_STDLIB_HAS_SRAND48:INTERNAL=1
//Have function getpid
VXL_UNISTD_HAS_GETPID:INTERNAL=1
//Have symbol intptr_t
VXL_UNISTD_HAS_INTPTR_T:INTERNAL=1
//Have function lchown
VXL_UNISTD_HAS_LCHOWN:INTERNAL=1
//Have function pread
VXL_UNISTD_HAS_PREAD:INTERNAL=1
//Have function pwrite
VXL_UNISTD_HAS_PWRITE:INTERNAL=1
//Have function tell
VXL_UNISTD_HAS_TELL:INTERNAL=
//Have function ualarm
VXL_UNISTD_HAS_UALARM:INTERNAL=1
//Have symbol useconds_t
VXL_UNISTD_HAS_USECONDS_T:INTERNAL=1
//Have function usleep
VXL_UNISTD_HAS_USLEEP:INTERNAL=1
//VXL test 
VXL_UNISTD_USLEEP_IS_VOID:INTERNAL=1
//ADVANCED property for variable: VXL_UPDATE_CONFIGURATION
VXL_UPDATE_CONFIGURATION-ADVANCED:INTERNAL=1
//Result of TEST_BIG_ENDIAN
WORDS_BIGENDIAN:INTERNAL=0
//ADVANCED property for variable: X11_ICE_INCLUDE_PATH
X11_ICE_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_ICE_LIB
X11_ICE_LIB-ADVANCED:INTERNAL=1
//Have library /opt/X11/lib/libX11.dylib;/opt/X11/lib/libXext.dylib
X11_LIB_X11_SOLO:INTERNAL=1
//ADVANCED property for variable: X11_SM_INCLUDE_PATH
X11_SM_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_SM_LIB
X11_SM_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_X11_INCLUDE_PATH
X11_X11_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_X11_LIB
X11_X11_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_XRes_INCLUDE_PATH
X11_XRes_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_XRes_LIB
X11_XRes_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_XShm_INCLUDE_PATH
X11_XShm_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_XSync_INCLUDE_PATH
X11_XSync_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_XTest_INCLUDE_PATH
X11_XTest_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_XTest_LIB
X11_XTest_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xaccessrules_INCLUDE_PATH
X11_Xaccessrules_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xaccessstr_INCLUDE_PATH
X11_Xaccessstr_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xau_INCLUDE_PATH
X11_Xau_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xau_LIB
X11_Xau_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xcomposite_INCLUDE_PATH
X11_Xcomposite_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xcomposite_LIB
X11_Xcomposite_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xcursor_INCLUDE_PATH
X11_Xcursor_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xcursor_LIB
X11_Xcursor_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xdamage_INCLUDE_PATH
X11_Xdamage_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xdamage_LIB
X11_Xdamage_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xdmcp_INCLUDE_PATH
X11_Xdmcp_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xdmcp_LIB
X11_Xdmcp_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xext_LIB
X11_Xext_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xfixes_INCLUDE_PATH
X11_Xfixes_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xfixes_LIB
X11_Xfixes_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xft_INCLUDE_PATH
X11_Xft_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xft_LIB
X11_Xft_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xi_INCLUDE_PATH
X11_Xi_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xi_LIB
X11_Xi_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xinerama_INCLUDE_PATH
X11_Xinerama_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xinerama_LIB
X11_Xinerama_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xinput_INCLUDE_PATH
X11_Xinput_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xinput_LIB
X11_Xinput_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xkb_INCLUDE_PATH
X11_Xkb_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xkbfile_INCLUDE_PATH
X11_Xkbfile_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xkbfile_LIB
X11_Xkbfile_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xkblib_INCLUDE_PATH
X11_Xkblib_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xlib_INCLUDE_PATH
X11_Xlib_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xmu_INCLUDE_PATH
X11_Xmu_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xmu_LIB
X11_Xmu_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xpm_INCLUDE_PATH
X11_Xpm_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xpm_LIB
X11_Xpm_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xrandr_INCLUDE_PATH
X11_Xrandr_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xrandr_LIB
X11_Xrandr_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xrender_INCLUDE_PATH
X11_Xrender_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xrender_LIB
X11_Xrender_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xscreensaver_INCLUDE_PATH
X11_Xscreensaver_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xscreensaver_LIB
X11_Xscreensaver_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xshape_INCLUDE_PATH
X11_Xshape_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xt_INCLUDE_PATH
X11_Xt_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xt_LIB
X11_Xt_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xutil_INCLUDE_PATH
X11_Xutil_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xv_INCLUDE_PATH
X11_Xv_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xv_LIB
X11_Xv_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xxf86misc_LIB
X11_Xxf86misc_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_Xxf86vm_LIB
X11_Xxf86vm_LIB-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_dpms_INCLUDE_PATH
X11_dpms_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_xf86misc_INCLUDE_PATH
X11_xf86misc_INCLUDE_PATH-ADVANCED:INTERNAL=1
//ADVANCED property for variable: X11_xf86vmode_INCLUDE_PATH
X11_xf86vmode_INCLUDE_PATH-ADVANCED:INTERNAL=1
//Result of TRY_COMPILE
_using_libcxx:INTERNAL=FALSE


From yassminabdallah at gmail.com  Sat Nov  7 02:22:32 2015
From: yassminabdallah at gmail.com (Yassmin)
Date: Sat, 7 Nov 2015 00:22:32 -0700 (MST)
Subject: [ITK-users] Compile ITK for iPhone
In-Reply-To: <CALzTN-RRRvu0yPGVCvBFXpcaTWdA8u0DsTQmrGbSU-42NNiDaA@mail.gmail.com>
References: <1446685276695-7588136.post@n2.nabble.com>
 <1446819343470-7588145.post@n2.nabble.com>
 <CALzTN-RRRvu0yPGVCvBFXpcaTWdA8u0DsTQmrGbSU-42NNiDaA@mail.gmail.com>
Message-ID: <1446880952822-7588149.post@n2.nabble.com>

Hello Matt,

Thanks a lot for your reply,

The CMake warning about MacOSX10.10.sdk does not exist solved by,

-First go to
"/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs"
to find out if the SDK is there or not, i found elder version 
MacOSX10.9.sdk. So after run "cmake -GXcode ITK-Source_Dir" and generate the
build files you have to change the CMakeCache.txt  "CMAKE_OSX_SYSROOT:PATH="
to your current SDK version and then run "cmake -GXcode ITK-Source_Dir"
again and the warning won't show.

-The "vnl_math.cxx" generated in the build.

-- But I face another problem with "vnl_math.cxx" when i added the "#define
finite(x) ? ? __inline_isfinited((double)x)" line as mention in the
tutorial,  error with "Expected expression" found and i can't run the
project.

Till now i can't figure out how to solve this "Expected expression" error.





--
View this message in context: http://itk-insight-users.2283740.n2.nabble.com/Compile-ITK-for-iPhone-tp7588136p7588149.html
Sent from the ITK Insight Users mailing list archive at Nabble.com.

From gaoyi.cn at gmail.com  Tue Nov 10 09:21:47 2015
From: gaoyi.cn at gmail.com (Yi Gao)
Date: Tue, 10 Nov 2015 09:21:47 -0500
Subject: [ITK-users] Problem with configure with 4.8.1 and gcc 5
In-Reply-To: <1792052.Ej4RIIi5E6@hinata>
References: <1792052.Ej4RIIi5E6@hinata>
Message-ID: <CAC+uqGEjJgtdF9FyNiTA4J3c9ZGW8F8ub4HVYELYtuPgt99+rA@mail.gmail.com>

Dear Alfonso and All,

1. I got the same error with ITK 4.8.1 gcc 4.8.5 under CentOS 6.5 with
cmake binary 3.3 and 3.4rc3.

2. On another machine with Mint 17.2, ITK 4.8.1, gcc 4.8.4, cmake 3.3,
everything is fine.

I made a minimal test cmakelists to run the testBigEndian function in cmake
and that works, but when that's in the ITK cmakelists somewhere goes wrong.

After trying different things for several hours, my solution to the 1st
problem was: use ITK 4.7.2 and everything is fine (going back to ITK 4.6
works for me too).

I also noticed that ITK 4.8.1 is much smaller than 4.7 (>200M down to 16M).
This a dramatic change in size.

Best,
yi

On Tue, Oct 6, 2015 at 10:20 AM, Alfonso Castro <alfonso.castro at udc.es>
wrote:

> Hi.
>
> I tried to compiled in OpenSuSE Tumbleweed ITK 4.8.1 but I obtained an
> error
> in configure:
>
>  CMake Error at /usr/share/cmake/Modules/TestBigEndian.cmake:51 (message):
>    no suitable type found
>  Call Stack (most recent call first):
>    Modules/ThirdParty/VNL/src/vxl/config/cmake/config/CMakeLists.txt:285
> (TEST_BIG_ENDIAN)
>
> However, the configuration and compile are without a problem using clang.
>
> The info of gcc version is:
>
> Using built-in specs.
> COLLECT_GCC=gcc
> COLLECT_LTO_WRAPPER=/usr/lib64/gcc/x86_64-suse-linux/5/lto-wrapper
> Target: x86_64-suse-linux
> Configured with: ../configure --prefix=/usr --infodir=/usr/share/info --
> mandir=/usr/share/man --libdir=/usr/lib64 --libexecdir=/usr/lib64 --enable-
> languages=c,c++,objc,fortran,obj-c++,java,ada,go --enable-checking=release
> --
> with-gxx-include-dir=/usr/include/c++/5 --enable-ssp --disable-libssp --
> disable-libvtv --enable-libmpx --disable-plugin --with-bugurl=http://
> bugs.opensuse.org/ --with-pkgversion='SUSE Linux' --disable-libgcj --with-
> slibdir=/lib64 --with-system-zlib --enable-__cxa_atexit --enable-libstdcxx-
> allocator=new --disable-libstdcxx-pch
> --enable-version-specific-runtime-libs
> --enable-linker-build-id --enable-linux-futex --program-suffix=-5
> --without-
> system-libunwind --enable-multilib --with-arch-32=i586 --with-tune=generic
> --
> build=x86_64-suse-linux --host=x86_64-suse-linux
> Thread model: posix
> gcc version 5.1.1 20150713 [gcc-5-branch revision 225736] (SUSE Linux)
>
> VTK 6.3 compile without a problem using gcc 5.
>
> The info of clang version is:
>
> clang version 3.7.0 (tags/RELEASE_370/final 246586)
> Target: x86_64-suse-linux
> Thread model: posix
> Found candidate GCC installation:
> /usr/bin/../lib64/gcc/x86_64-suse-linux/4.8
> Found candidate GCC installation: /usr/bin/../lib64/gcc/x86_64-suse-linux/5
> Found candidate GCC installation: /usr/lib64/gcc/x86_64-suse-linux/4.8
> Found candidate GCC installation: /usr/lib64/gcc/x86_64-suse-linux/5
> Selected GCC installation: /usr/bin/../lib64/gcc/x86_64-suse-linux/5
> Candidate multilib: .;@m64
> Selected multilib: .;@m64
>
> Thanks in advance.
>
> Alfonso Castro
> Faculty of Computer Science
> University of A Coruna
>
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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
>





-- 
Yi Gao, Ph.D.
Assistant Professor
Department of Biomedical Informatics
Departments of Computer Science and Applied Mathematics & Statistics
Stony Brook University | The  State University of New York
Stony Brook, New York, 11794
631-632-9540
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From matimontg at gmail.com  Tue Nov 10 15:18:48 2015
From: matimontg at gmail.com (Matias Montroull)
Date: Tue, 10 Nov 2015 20:18:48 +0000
Subject: [ITK-users] Pointset registration
Message-ID: <CAKKNfuLX=6ntsiFc_iXTpHGr2cGdOfNpjZZMacMjF6BuYoy-7Q@mail.gmail.com>

Hi,

I have 2 sets of points (one is points on an image and another one is
points on a NDI tracker) and I need to obtain the transformation matrix.
What would be the best method? I'm currently using a Solver but I'd like to
implement this using ITK and better if it is SimpleITK.

Thank you!

Matias.
-- 
Matias
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From dzenanz at gmail.com  Tue Nov 10 16:15:49 2015
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Tue, 10 Nov 2015 16:15:49 -0500
Subject: [ITK-users] Pointset registration
In-Reply-To: <CAKKNfuLX=6ntsiFc_iXTpHGr2cGdOfNpjZZMacMjF6BuYoy-7Q@mail.gmail.com>
References: <CAKKNfuLX=6ntsiFc_iXTpHGr2cGdOfNpjZZMacMjF6BuYoy-7Q@mail.gmail.com>
Message-ID: <CAPf2UMRbSffEF0GFYs6n9nmgMOShCnbMAksXDWrYBGKFHnuSmQ@mail.gmail.com>

Have you seen these two examples:
http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv3_2IterativeClosestPoint3_8cxx-example.html
http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv4_2IterativeClosestPoint3_8cxx-example.html

HTH

On Tue, Nov 10, 2015 at 3:18 PM, Matias Montroull <matimontg at gmail.com>
wrote:

> Hi,
>
> I have 2 sets of points (one is points on an image and another one is
> points on a NDI tracker) and I need to obtain the transformation matrix.
> What would be the best method? I'm currently using a Solver but I'd like to
> implement this using ITK and better if it is SimpleITK.
>
> Thank you!
>
> Matias.
> --
> Matias
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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  Tue Nov 10 17:31:48 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Tue, 10 Nov 2015 17:31:48 -0500
Subject: [ITK-users] Problem with configure with 4.8.1 and gcc 5
In-Reply-To: <CAC+uqGEjJgtdF9FyNiTA4J3c9ZGW8F8ub4HVYELYtuPgt99+rA@mail.gmail.com>
References: <1792052.Ej4RIIi5E6@hinata>
 <CAC+uqGEjJgtdF9FyNiTA4J3c9ZGW8F8ub4HVYELYtuPgt99+rA@mail.gmail.com>
Message-ID: <CALzTN-SBtY5KJfO5pSjaueRdpgBGEwQ4Stg5j3eHVQym5s3nnA@mail.gmail.com>

Hi Yi and Alfonso,

Thanks for discussing the issue.

This error is due to faulty detection of the gold linker.  Please
review this patch, which addresses the issue:

  http://review.source.kitware.com/#/c/20384/

This will fix the detection of the gold linker, and avoid trying to
use it.  As a workaround, you can also install the package that
provides the gold linker.  For example, on Opensuse Tumbleweed (h/t
Ricardo Ortiz)

  zypper install binutils-gold

The gold linker results in faster build times.

Regarding the ITK 4.8 archive sizes, the smaller library source code
is intentional; the majority of the content was test data, which was
moved to a separate archive, InsightData-4.8.0.

Thanks,
Matt

On Tue, Nov 10, 2015 at 9:21 AM, Yi Gao <gaoyi.cn at gmail.com> wrote:
> Dear Alfonso and All,
>
> 1. I got the same error with ITK 4.8.1 gcc 4.8.5 under CentOS 6.5 with cmake
> binary 3.3 and 3.4rc3.
>
> 2. On another machine with Mint 17.2, ITK 4.8.1, gcc 4.8.4, cmake 3.3,
> everything is fine.
>
> I made a minimal test cmakelists to run the testBigEndian function in cmake
> and that works, but when that's in the ITK cmakelists somewhere goes wrong.
>
> After trying different things for several hours, my solution to the 1st
> problem was: use ITK 4.7.2 and everything is fine (going back to ITK 4.6
> works for me too).
>
> I also noticed that ITK 4.8.1 is much smaller than 4.7 (>200M down to 16M).
> This a dramatic change in size.
>
> Best,
> yi
>
> On Tue, Oct 6, 2015 at 10:20 AM, Alfonso Castro <alfonso.castro at udc.es>
> wrote:
>>
>> Hi.
>>
>> I tried to compiled in OpenSuSE Tumbleweed ITK 4.8.1 but I obtained an
>> error
>> in configure:
>>
>>  CMake Error at /usr/share/cmake/Modules/TestBigEndian.cmake:51 (message):
>>    no suitable type found
>>  Call Stack (most recent call first):
>>    Modules/ThirdParty/VNL/src/vxl/config/cmake/config/CMakeLists.txt:285
>> (TEST_BIG_ENDIAN)
>>
>> However, the configuration and compile are without a problem using clang.
>>
>> The info of gcc version is:
>>
>> Using built-in specs.
>> COLLECT_GCC=gcc
>> COLLECT_LTO_WRAPPER=/usr/lib64/gcc/x86_64-suse-linux/5/lto-wrapper
>> Target: x86_64-suse-linux
>> Configured with: ../configure --prefix=/usr --infodir=/usr/share/info --
>> mandir=/usr/share/man --libdir=/usr/lib64 --libexecdir=/usr/lib64
>> --enable-
>> languages=c,c++,objc,fortran,obj-c++,java,ada,go --enable-checking=release
>> --
>> with-gxx-include-dir=/usr/include/c++/5 --enable-ssp --disable-libssp --
>> disable-libvtv --enable-libmpx --disable-plugin --with-bugurl=http://
>> bugs.opensuse.org/ --with-pkgversion='SUSE Linux' --disable-libgcj --with-
>> slibdir=/lib64 --with-system-zlib --enable-__cxa_atexit
>> --enable-libstdcxx-
>> allocator=new --disable-libstdcxx-pch
>> --enable-version-specific-runtime-libs
>> --enable-linker-build-id --enable-linux-futex --program-suffix=-5
>> --without-
>> system-libunwind --enable-multilib --with-arch-32=i586 --with-tune=generic
>> --
>> build=x86_64-suse-linux --host=x86_64-suse-linux
>> Thread model: posix
>> gcc version 5.1.1 20150713 [gcc-5-branch revision 225736] (SUSE Linux)
>>
>> VTK 6.3 compile without a problem using gcc 5.
>>
>> The info of clang version is:
>>
>> clang version 3.7.0 (tags/RELEASE_370/final 246586)
>> Target: x86_64-suse-linux
>> Thread model: posix
>> Found candidate GCC installation:
>> /usr/bin/../lib64/gcc/x86_64-suse-linux/4.8
>> Found candidate GCC installation:
>> /usr/bin/../lib64/gcc/x86_64-suse-linux/5
>> Found candidate GCC installation: /usr/lib64/gcc/x86_64-suse-linux/4.8
>> Found candidate GCC installation: /usr/lib64/gcc/x86_64-suse-linux/5
>> Selected GCC installation: /usr/bin/../lib64/gcc/x86_64-suse-linux/5
>> Candidate multilib: .;@m64
>> Selected multilib: .;@m64
>>
>> Thanks in advance.
>>
>> Alfonso Castro
>> Faculty of Computer Science
>> University of A Coruna
>>
>>
>>
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://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
>
>
>
>
>
>
> --
> Yi Gao, Ph.D.
> Assistant Professor
> Department of Biomedical Informatics
> Departments of Computer Science and Applied Mathematics & Statistics
> Stony Brook University | The  State University of New York
> Stony Brook, New York, 11794
> 631-632-9540
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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 mlt.khawla at gmail.com  Wed Nov 11 03:33:17 2015
From: mlt.khawla at gmail.com (Daoued23)
Date: Wed, 11 Nov 2015 01:33:17 -0700 (MST)
Subject: [ITK-users] itk::BinaryThinningImageFilter3D
Message-ID: <1447230797460-36449.post@n7.nabble.com>

Hello everyone,

I want to get an Hybrid Skeleton. So I started by testing itk's filter
"itk::BinaryThinningImageFilter3D" to obtain the curve skeleton, but it
doesn't seem to work. Here is my code.

#include "itkImage.h"
#include "itkImageFileReader.h"
#include "itkImageFileWriter.h"

#include "itkConnectedThresholdImageFilter.h"
#include "itkImageRegionIterator.h"
#include "itkBinaryThinningImageFilter3D.h"

#include <iostream>
#include <stdlib.h>  
using namespace std;

int main(int argc, char* argv[])
{
  // Verify the number of parameters in the command line
  if( argc <= 2 )
  {
    std::cerr << "Usage: " << std::endl;
    std::cerr << argv[0] << " inputImageFile outputImageFile" << std::endl;
    return EXIT_FAILURE;
  }
  char* infilename  = argv[1];
  char* outfilename = argv[2];

  const   unsigned int Dimension = 3;
  typedef signed short PixelType;   
  typedef itk::Image< PixelType, Dimension > ImageType;

  // Read image
  typedef itk::ImageFileReader< ImageType > ReaderType;
  ReaderType::Pointer reader = ReaderType::New();
  reader->SetFileName( infilename );
  try
  {
    reader->Update();
  }
  catch (itk::ExceptionObject &ex)
  {
    std::cout << ex << std::endl;
    return EXIT_FAILURE;
  }
  cout << infilename << " sucessfully read." << endl;

  // Define the thinning filter
  typedef itk::BinaryThinningImageFilter3D< ImageType, ImageType >
ThinningFilterType;
  ThinningFilterType::Pointer thinningFilter = ThinningFilterType::New();
  thinningFilter->SetInput( reader->GetOutput() );
  thinningFilter->Update();

  // output to file
  typedef itk::ImageFileWriter< ImageType > WriterType;
  WriterType::Pointer writer = WriterType::New();
  writer->SetInput( thinningFilter->GetOutput() );
  writer->SetFileName( outfilename );

  try
  {
    writer->Update();
  }
  catch (itk::ExceptionObject &ex)
  {
    std::cout << ex << std::endl;
    return EXIT_FAILURE;
  }
  cout << outfilename << " sucessfully written." << endl;

  cout << "Program terminated normally." << endl;
  return EXIT_SUCCESS;
}


And here is the volume I get in return, the initial volume is a region of
trabecular bone of size 30x30x30 voxels.
<http://itk-users.7.n7.nabble.com/file/n36449/thinningitk.png> 



--
View this message in context: http://itk-users.7.n7.nabble.com/itk-BinaryThinningImageFilter3D-tp36449.html
Sent from the ITK - Users mailing list archive at Nabble.com.

From matt.mccormick at kitware.com  Wed Nov 11 07:45:28 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Wed, 11 Nov 2015 07:45:28 -0500
Subject: [ITK-users] itk::BinaryThinningImageFilter3D
In-Reply-To: <1447230797460-36449.post@n7.nabble.com>
References: <1447230797460-36449.post@n7.nabble.com>
Message-ID: <CALzTN-QBNy-rhwcK==3ZMJZcLRvRtWnvfJmGu8KLgLn-cFuBEQ@mail.gmail.com>

Hello,

>From the screenshot, it is unclear whether the thinning worked or not
-- it would be better to visualize in 3D instead of 2D planes.

HTH,
Matt

On Wed, Nov 11, 2015 at 3:33 AM, Daoued23 <mlt.khawla at gmail.com> wrote:
> Hello everyone,
>
> I want to get an Hybrid Skeleton. So I started by testing itk's filter
> "itk::BinaryThinningImageFilter3D" to obtain the curve skeleton, but it
> doesn't seem to work. Here is my code.
>
> #include "itkImage.h"
> #include "itkImageFileReader.h"
> #include "itkImageFileWriter.h"
>
> #include "itkConnectedThresholdImageFilter.h"
> #include "itkImageRegionIterator.h"
> #include "itkBinaryThinningImageFilter3D.h"
>
> #include <iostream>
> #include <stdlib.h>
> using namespace std;
>
> int main(int argc, char* argv[])
> {
>   // Verify the number of parameters in the command line
>   if( argc <= 2 )
>   {
>     std::cerr << "Usage: " << std::endl;
>     std::cerr << argv[0] << " inputImageFile outputImageFile" << std::endl;
>     return EXIT_FAILURE;
>   }
>   char* infilename  = argv[1];
>   char* outfilename = argv[2];
>
>   const   unsigned int Dimension = 3;
>   typedef signed short PixelType;
>   typedef itk::Image< PixelType, Dimension > ImageType;
>
>   // Read image
>   typedef itk::ImageFileReader< ImageType > ReaderType;
>   ReaderType::Pointer reader = ReaderType::New();
>   reader->SetFileName( infilename );
>   try
>   {
>     reader->Update();
>   }
>   catch (itk::ExceptionObject &ex)
>   {
>     std::cout << ex << std::endl;
>     return EXIT_FAILURE;
>   }
>   cout << infilename << " sucessfully read." << endl;
>
>   // Define the thinning filter
>   typedef itk::BinaryThinningImageFilter3D< ImageType, ImageType >
> ThinningFilterType;
>   ThinningFilterType::Pointer thinningFilter = ThinningFilterType::New();
>   thinningFilter->SetInput( reader->GetOutput() );
>   thinningFilter->Update();
>
>   // output to file
>   typedef itk::ImageFileWriter< ImageType > WriterType;
>   WriterType::Pointer writer = WriterType::New();
>   writer->SetInput( thinningFilter->GetOutput() );
>   writer->SetFileName( outfilename );
>
>   try
>   {
>     writer->Update();
>   }
>   catch (itk::ExceptionObject &ex)
>   {
>     std::cout << ex << std::endl;
>     return EXIT_FAILURE;
>   }
>   cout << outfilename << " sucessfully written." << endl;
>
>   cout << "Program terminated normally." << endl;
>   return EXIT_SUCCESS;
> }
>
>
> And here is the volume I get in return, the initial volume is a region of
> trabecular bone of size 30x30x30 voxels.
> <http://itk-users.7.n7.nabble.com/file/n36449/thinningitk.png>
>
>
>
> --
> View this message in context: http://itk-users.7.n7.nabble.com/itk-BinaryThinningImageFilter3D-tp36449.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  Wed Nov 11 08:01:40 2015
From: franciscolopezdelafranca at gmail.com (Francisco Lopez de la Franca)
Date: Wed, 11 Nov 2015 14:01:40 +0100
Subject: [ITK-users] itk::BinaryThinningImageFilter3D
In-Reply-To: <CALzTN-QBNy-rhwcK==3ZMJZcLRvRtWnvfJmGu8KLgLn-cFuBEQ@mail.gmail.com>
References: <1447230797460-36449.post@n7.nabble.com>
 <CALzTN-QBNy-rhwcK==3ZMJZcLRvRtWnvfJmGu8KLgLn-cFuBEQ@mail.gmail.com>
Message-ID: <CAJqi3E+kKumx7P97cu5bZb2Xav=E2cMiUz-UM-ufSDnW67PeYQ@mail.gmail.com>

Hi,
I've used this filter with 3D MRI images with more resolution that
daoud23's, and my results were correct. I used 3D Slicer to visualize the
3D images and the result were interesting.
I hope this helps.
Regards.

2015-11-11 13:45 GMT+01:00 Matt McCormick <matt.mccormick at kitware.com>:

> Hello,
>
> From the screenshot, it is unclear whether the thinning worked or not
> -- it would be better to visualize in 3D instead of 2D planes.
>
> HTH,
> Matt
>
> On Wed, Nov 11, 2015 at 3:33 AM, Daoued23 <mlt.khawla at gmail.com> wrote:
> > Hello everyone,
> >
> > I want to get an Hybrid Skeleton. So I started by testing itk's filter
> > "itk::BinaryThinningImageFilter3D" to obtain the curve skeleton, but it
> > doesn't seem to work. Here is my code.
> >
> > #include "itkImage.h"
> > #include "itkImageFileReader.h"
> > #include "itkImageFileWriter.h"
> >
> > #include "itkConnectedThresholdImageFilter.h"
> > #include "itkImageRegionIterator.h"
> > #include "itkBinaryThinningImageFilter3D.h"
> >
> > #include <iostream>
> > #include <stdlib.h>
> > using namespace std;
> >
> > int main(int argc, char* argv[])
> > {
> >   // Verify the number of parameters in the command line
> >   if( argc <= 2 )
> >   {
> >     std::cerr << "Usage: " << std::endl;
> >     std::cerr << argv[0] << " inputImageFile outputImageFile" <<
> std::endl;
> >     return EXIT_FAILURE;
> >   }
> >   char* infilename  = argv[1];
> >   char* outfilename = argv[2];
> >
> >   const   unsigned int Dimension = 3;
> >   typedef signed short PixelType;
> >   typedef itk::Image< PixelType, Dimension > ImageType;
> >
> >   // Read image
> >   typedef itk::ImageFileReader< ImageType > ReaderType;
> >   ReaderType::Pointer reader = ReaderType::New();
> >   reader->SetFileName( infilename );
> >   try
> >   {
> >     reader->Update();
> >   }
> >   catch (itk::ExceptionObject &ex)
> >   {
> >     std::cout << ex << std::endl;
> >     return EXIT_FAILURE;
> >   }
> >   cout << infilename << " sucessfully read." << endl;
> >
> >   // Define the thinning filter
> >   typedef itk::BinaryThinningImageFilter3D< ImageType, ImageType >
> > ThinningFilterType;
> >   ThinningFilterType::Pointer thinningFilter = ThinningFilterType::New();
> >   thinningFilter->SetInput( reader->GetOutput() );
> >   thinningFilter->Update();
> >
> >   // output to file
> >   typedef itk::ImageFileWriter< ImageType > WriterType;
> >   WriterType::Pointer writer = WriterType::New();
> >   writer->SetInput( thinningFilter->GetOutput() );
> >   writer->SetFileName( outfilename );
> >
> >   try
> >   {
> >     writer->Update();
> >   }
> >   catch (itk::ExceptionObject &ex)
> >   {
> >     std::cout << ex << std::endl;
> >     return EXIT_FAILURE;
> >   }
> >   cout << outfilename << " sucessfully written." << endl;
> >
> >   cout << "Program terminated normally." << endl;
> >   return EXIT_SUCCESS;
> > }
> >
> >
> > And here is the volume I get in return, the initial volume is a region of
> > trabecular bone of size 30x30x30 voxels.
> > <http://itk-users.7.n7.nabble.com/file/n36449/thinningitk.png>
> >
> >
> >
> > --
> > View this message in context:
> http://itk-users.7.n7.nabble.com/itk-BinaryThinningImageFilter3D-tp36449.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
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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 matimontg at gmail.com  Wed Nov 11 14:51:58 2015
From: matimontg at gmail.com (Matias Montroull)
Date: Wed, 11 Nov 2015 19:51:58 +0000
Subject: [ITK-users] Pointset registration
In-Reply-To: <CAPf2UMRbSffEF0GFYs6n9nmgMOShCnbMAksXDWrYBGKFHnuSmQ@mail.gmail.com>
References: <CAKKNfuLX=6ntsiFc_iXTpHGr2cGdOfNpjZZMacMjF6BuYoy-7Q@mail.gmail.com>
 <CAPf2UMRbSffEF0GFYs6n9nmgMOShCnbMAksXDWrYBGKFHnuSmQ@mail.gmail.com>
Message-ID: <CAKKNfu+NXaRcAWJOgJUA+1GEiaG_whSRAFqYhB26O2m2LLqsVg@mail.gmail.com>

Hi D?enan, thanks for the suggestion, I tried that example and I think I'm
missign something as my disk drive became crazy.
I basically created 2 txt files with a set of 4 points each in this format:
-0.585938;92.406328;38.200
44.7654;52.73442;61.000
-53.5;49.218792;68.200
-1.757814;81.445382;70.600

second file has the same format but different numbers of course.

Is there anything wrong with how I entered the point sets in both files?

As you can see it is 3 points per line separated by this character ";"

Thanks,

Matias.


El mar., 10 de nov. de 2015 a la(s) 6:16 p. m., D?enan Zuki? <
dzenanz at gmail.com> escribi?:

> Have you seen these two examples:
>
> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv3_2IterativeClosestPoint3_8cxx-example.html
>
> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv4_2IterativeClosestPoint3_8cxx-example.html
>
> HTH
>
> On Tue, Nov 10, 2015 at 3:18 PM, Matias Montroull <matimontg at gmail.com>
> wrote:
>
>> Hi,
>>
>> I have 2 sets of points (one is points on an image and another one is
>> points on a NDI tracker) and I need to obtain the transformation matrix.
>> What would be the best method? I'm currently using a Solver but I'd like to
>> implement this using ITK and better if it is SimpleITK.
>>
>> Thank you!
>>
>> Matias.
>> --
>> Matias
>>
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://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
>>
>>
> --
Matias
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From dzenanz at gmail.com  Wed Nov 11 14:59:47 2015
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Wed, 11 Nov 2015 14:59:47 -0500
Subject: [ITK-users] Pointset registration
In-Reply-To: <CAKKNfu+NXaRcAWJOgJUA+1GEiaG_whSRAFqYhB26O2m2LLqsVg@mail.gmail.com>
References: <CAKKNfuLX=6ntsiFc_iXTpHGr2cGdOfNpjZZMacMjF6BuYoy-7Q@mail.gmail.com>
 <CAPf2UMRbSffEF0GFYs6n9nmgMOShCnbMAksXDWrYBGKFHnuSmQ@mail.gmail.com>
 <CAKKNfu+NXaRcAWJOgJUA+1GEiaG_whSRAFqYhB26O2m2LLqsVg@mail.gmail.com>
Message-ID: <CAPf2UMQEx0O=Wk2FU0SvZzThHQDC0L-E5O1kng6Kf+G1+JVfKw@mail.gmail.com>

By looking at the code, the numbers should be separated by space, not
semicolon. Can you try that?

HTH

On Wed, Nov 11, 2015 at 2:51 PM, Matias Montroull <matimontg at gmail.com>
wrote:

> Hi D?enan, thanks for the suggestion, I tried that example and I think
> I'm missign something as my disk drive became crazy.
> I basically created 2 txt files with a set of 4 points each in this format:
> -0.585938;92.406328;38.200
> 44.7654;52.73442;61.000
> -53.5;49.218792;68.200
> -1.757814;81.445382;70.600
>
> second file has the same format but different numbers of course.
>
> Is there anything wrong with how I entered the point sets in both files?
>
> As you can see it is 3 points per line separated by this character ";"
>
> Thanks,
>
> Matias.
>
>
> El mar., 10 de nov. de 2015 a la(s) 6:16 p. m., D?enan Zuki? <
> dzenanz at gmail.com> escribi?:
>
>> Have you seen these two examples:
>>
>> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv3_2IterativeClosestPoint3_8cxx-example.html
>>
>> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv4_2IterativeClosestPoint3_8cxx-example.html
>>
>> HTH
>>
>> On Tue, Nov 10, 2015 at 3:18 PM, Matias Montroull <matimontg at gmail.com>
>> wrote:
>>
>>> Hi,
>>>
>>> I have 2 sets of points (one is points on an image and another one is
>>> points on a NDI tracker) and I need to obtain the transformation matrix.
>>> What would be the best method? I'm currently using a Solver but I'd like to
>>> implement this using ITK and better if it is SimpleITK.
>>>
>>> Thank you!
>>>
>>> Matias.
>>> --
>>> Matias
>>>
>>> _____________________________________
>>> Powered by www.kitware.com
>>>
>>> Visit other Kitware open-source projects at
>>> http://www.kitware.com/opensource/opensource.html
>>>
>>> Kitware offers ITK Training Courses, for more information visit:
>>> http://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
>>>
>>>
>> --
> Matias
>
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From matimontg at gmail.com  Wed Nov 11 15:02:43 2015
From: matimontg at gmail.com (Matias Montroull)
Date: Wed, 11 Nov 2015 20:02:43 +0000
Subject: [ITK-users] Pointset registration
In-Reply-To: <CAPf2UMQEx0O=Wk2FU0SvZzThHQDC0L-E5O1kng6Kf+G1+JVfKw@mail.gmail.com>
References: <CAKKNfuLX=6ntsiFc_iXTpHGr2cGdOfNpjZZMacMjF6BuYoy-7Q@mail.gmail.com>
 <CAPf2UMRbSffEF0GFYs6n9nmgMOShCnbMAksXDWrYBGKFHnuSmQ@mail.gmail.com>
 <CAKKNfu+NXaRcAWJOgJUA+1GEiaG_whSRAFqYhB26O2m2LLqsVg@mail.gmail.com>
 <CAPf2UMQEx0O=Wk2FU0SvZzThHQDC0L-E5O1kng6Kf+G1+JVfKw@mail.gmail.com>
Message-ID: <CAKKNfuL7Qp+3PEpXYp1G9Bqzp==WXTJG+Dzw5z0yTHYbFyeOgQ@mail.gmail.com>

that worked! Thanks for the advise, I was under the impression that points
needed to be separated by ";"
Thanks again

El mi?., 11 de nov. de 2015 a la(s) 5:00 p. m., D?enan Zuki? <
dzenanz at gmail.com> escribi?:

> By looking at the code, the numbers should be separated by space, not
> semicolon. Can you try that?
>
> HTH
>
> On Wed, Nov 11, 2015 at 2:51 PM, Matias Montroull <matimontg at gmail.com>
> wrote:
>
>> Hi D?enan, thanks for the suggestion, I tried that example and I think
>> I'm missign something as my disk drive became crazy.
>> I basically created 2 txt files with a set of 4 points each in this
>> format:
>> -0.585938;92.406328;38.200
>> 44.7654;52.73442;61.000
>> -53.5;49.218792;68.200
>> -1.757814;81.445382;70.600
>>
>> second file has the same format but different numbers of course.
>>
>> Is there anything wrong with how I entered the point sets in both files?
>>
>> As you can see it is 3 points per line separated by this character ";"
>>
>> Thanks,
>>
>> Matias.
>>
>>
>> El mar., 10 de nov. de 2015 a la(s) 6:16 p. m., D?enan Zuki? <
>> dzenanz at gmail.com> escribi?:
>>
>>> Have you seen these two examples:
>>>
>>> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv3_2IterativeClosestPoint3_8cxx-example.html
>>>
>>> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv4_2IterativeClosestPoint3_8cxx-example.html
>>>
>>> HTH
>>>
>>> On Tue, Nov 10, 2015 at 3:18 PM, Matias Montroull <matimontg at gmail.com>
>>> wrote:
>>>
>>>> Hi,
>>>>
>>>> I have 2 sets of points (one is points on an image and another one is
>>>> points on a NDI tracker) and I need to obtain the transformation matrix.
>>>> What would be the best method? I'm currently using a Solver but I'd like to
>>>> implement this using ITK and better if it is SimpleITK.
>>>>
>>>> Thank you!
>>>>
>>>> Matias.
>>>> --
>>>> Matias
>>>>
>>>> _____________________________________
>>>> Powered by www.kitware.com
>>>>
>>>> Visit other Kitware open-source projects at
>>>> http://www.kitware.com/opensource/opensource.html
>>>>
>>>> Kitware offers ITK Training Courses, for more information visit:
>>>> http://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
>>>>
>>>>
>>> --
>> Matias
>>
>
> --
Matias
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From matimontg at gmail.com  Wed Nov 11 15:03:59 2015
From: matimontg at gmail.com (Matias Montroull)
Date: Wed, 11 Nov 2015 20:03:59 +0000
Subject: [ITK-users] Pointset registration
In-Reply-To: <CAKKNfuL7Qp+3PEpXYp1G9Bqzp==WXTJG+Dzw5z0yTHYbFyeOgQ@mail.gmail.com>
References: <CAKKNfuLX=6ntsiFc_iXTpHGr2cGdOfNpjZZMacMjF6BuYoy-7Q@mail.gmail.com>
 <CAPf2UMRbSffEF0GFYs6n9nmgMOShCnbMAksXDWrYBGKFHnuSmQ@mail.gmail.com>
 <CAKKNfu+NXaRcAWJOgJUA+1GEiaG_whSRAFqYhB26O2m2LLqsVg@mail.gmail.com>
 <CAPf2UMQEx0O=Wk2FU0SvZzThHQDC0L-E5O1kng6Kf+G1+JVfKw@mail.gmail.com>
 <CAKKNfuL7Qp+3PEpXYp1G9Bqzp==WXTJG+Dzw5z0yTHYbFyeOgQ@mail.gmail.com>
Message-ID: <CAKKNfuKUH1vXq0UGSQ0a1sYWeQx=hcZnELvbvBeMpoDp2gCb-w@mail.gmail.com>

by the way, where in the code is the space separator specified?

El mi?., 11 de nov. de 2015 a la(s) 5:02 p. m., Matias Montroull <
matimontg at gmail.com> escribi?:

> that worked! Thanks for the advise, I was under the impression that points
> needed to be separated by ";"
> Thanks again
>
> El mi?., 11 de nov. de 2015 a la(s) 5:00 p. m., D?enan Zuki? <
> dzenanz at gmail.com> escribi?:
>
>> By looking at the code, the numbers should be separated by space, not
>> semicolon. Can you try that?
>>
>> HTH
>>
>> On Wed, Nov 11, 2015 at 2:51 PM, Matias Montroull <matimontg at gmail.com>
>> wrote:
>>
>>> Hi D?enan, thanks for the suggestion, I tried that example and I think
>>> I'm missign something as my disk drive became crazy.
>>> I basically created 2 txt files with a set of 4 points each in this
>>> format:
>>> -0.585938;92.406328;38.200
>>> 44.7654;52.73442;61.000
>>> -53.5;49.218792;68.200
>>> -1.757814;81.445382;70.600
>>>
>>> second file has the same format but different numbers of course.
>>>
>>> Is there anything wrong with how I entered the point sets in both files?
>>>
>>> As you can see it is 3 points per line separated by this character ";"
>>>
>>> Thanks,
>>>
>>> Matias.
>>>
>>>
>>> El mar., 10 de nov. de 2015 a la(s) 6:16 p. m., D?enan Zuki? <
>>> dzenanz at gmail.com> escribi?:
>>>
>>>> Have you seen these two examples:
>>>>
>>>> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv3_2IterativeClosestPoint3_8cxx-example.html
>>>>
>>>> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv4_2IterativeClosestPoint3_8cxx-example.html
>>>>
>>>> HTH
>>>>
>>>> On Tue, Nov 10, 2015 at 3:18 PM, Matias Montroull <matimontg at gmail.com>
>>>> wrote:
>>>>
>>>>> Hi,
>>>>>
>>>>> I have 2 sets of points (one is points on an image and another one is
>>>>> points on a NDI tracker) and I need to obtain the transformation matrix.
>>>>> What would be the best method? I'm currently using a Solver but I'd like to
>>>>> implement this using ITK and better if it is SimpleITK.
>>>>>
>>>>> Thank you!
>>>>>
>>>>> Matias.
>>>>> --
>>>>> Matias
>>>>>
>>>>> _____________________________________
>>>>> Powered by www.kitware.com
>>>>>
>>>>> Visit other Kitware open-source projects at
>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>
>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>> http://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
>>>>>
>>>>>
>>>> --
>>> Matias
>>>
>>
>> --
> Matias
>
-- 
Matias
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From dzenanz at gmail.com  Wed Nov 11 15:51:33 2015
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Wed, 11 Nov 2015 15:51:33 -0500
Subject: [ITK-users] Pointset registration
In-Reply-To: <CAKKNfuKUH1vXq0UGSQ0a1sYWeQx=hcZnELvbvBeMpoDp2gCb-w@mail.gmail.com>
References: <CAKKNfuLX=6ntsiFc_iXTpHGr2cGdOfNpjZZMacMjF6BuYoy-7Q@mail.gmail.com>
 <CAPf2UMRbSffEF0GFYs6n9nmgMOShCnbMAksXDWrYBGKFHnuSmQ@mail.gmail.com>
 <CAKKNfu+NXaRcAWJOgJUA+1GEiaG_whSRAFqYhB26O2m2LLqsVg@mail.gmail.com>
 <CAPf2UMQEx0O=Wk2FU0SvZzThHQDC0L-E5O1kng6Kf+G1+JVfKw@mail.gmail.com>
 <CAKKNfuL7Qp+3PEpXYp1G9Bqzp==WXTJG+Dzw5z0yTHYbFyeOgQ@mail.gmail.com>
 <CAKKNfuKUH1vXq0UGSQ0a1sYWeQx=hcZnELvbvBeMpoDp2gCb-w@mail.gmail.com>
Message-ID: <CAPf2UMQT8Ni8rOUD8JpsyN6c5B0p58trT_GfHD2kjBHcohb5Gg@mail.gmail.com>

Nowhere, which means it's the >> operator's standard white-space separators
(spaces, tabs, newlines).

On Wed, Nov 11, 2015 at 3:03 PM, Matias Montroull <matimontg at gmail.com>
wrote:

> by the way, where in the code is the space separator specified?
>
> El mi?., 11 de nov. de 2015 a la(s) 5:02 p. m., Matias Montroull <
> matimontg at gmail.com> escribi?:
>
>> that worked! Thanks for the advise, I was under the impression that
>> points needed to be separated by ";"
>> Thanks again
>>
>> El mi?., 11 de nov. de 2015 a la(s) 5:00 p. m., D?enan Zuki? <
>> dzenanz at gmail.com> escribi?:
>>
>>> By looking at the code, the numbers should be separated by space, not
>>> semicolon. Can you try that?
>>>
>>> HTH
>>>
>>> On Wed, Nov 11, 2015 at 2:51 PM, Matias Montroull <matimontg at gmail.com>
>>> wrote:
>>>
>>>> Hi D?enan, thanks for the suggestion, I tried that example and I think
>>>> I'm missign something as my disk drive became crazy.
>>>> I basically created 2 txt files with a set of 4 points each in this
>>>> format:
>>>> -0.585938;92.406328;38.200
>>>> 44.7654;52.73442;61.000
>>>> -53.5;49.218792;68.200
>>>> -1.757814;81.445382;70.600
>>>>
>>>> second file has the same format but different numbers of course.
>>>>
>>>> Is there anything wrong with how I entered the point sets in both files?
>>>>
>>>> As you can see it is 3 points per line separated by this character ";"
>>>>
>>>> Thanks,
>>>>
>>>> Matias.
>>>>
>>>>
>>>> El mar., 10 de nov. de 2015 a la(s) 6:16 p. m., D?enan Zuki? <
>>>> dzenanz at gmail.com> escribi?:
>>>>
>>>>> Have you seen these two examples:
>>>>>
>>>>> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv3_2IterativeClosestPoint3_8cxx-example.html
>>>>>
>>>>> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv4_2IterativeClosestPoint3_8cxx-example.html
>>>>>
>>>>> HTH
>>>>>
>>>>> On Tue, Nov 10, 2015 at 3:18 PM, Matias Montroull <matimontg at gmail.com
>>>>> > wrote:
>>>>>
>>>>>> Hi,
>>>>>>
>>>>>> I have 2 sets of points (one is points on an image and another one is
>>>>>> points on a NDI tracker) and I need to obtain the transformation matrix.
>>>>>> What would be the best method? I'm currently using a Solver but I'd like to
>>>>>> implement this using ITK and better if it is SimpleITK.
>>>>>>
>>>>>> Thank you!
>>>>>>
>>>>>> Matias.
>>>>>> --
>>>>>> Matias
>>>>>>
>>>>>> _____________________________________
>>>>>> Powered by www.kitware.com
>>>>>>
>>>>>> Visit other Kitware open-source projects at
>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>
>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>> http://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
>>>>>>
>>>>>>
>>>>> --
>>>> Matias
>>>>
>>>
>>> --
>> Matias
>>
> --
> Matias
>
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From matimontg at gmail.com  Wed Nov 11 16:38:20 2015
From: matimontg at gmail.com (Matias Montroull)
Date: Wed, 11 Nov 2015 21:38:20 +0000
Subject: [ITK-users] Pointset registration
In-Reply-To: <CAPf2UMQT8Ni8rOUD8JpsyN6c5B0p58trT_GfHD2kjBHcohb5Gg@mail.gmail.com>
References: <CAKKNfuLX=6ntsiFc_iXTpHGr2cGdOfNpjZZMacMjF6BuYoy-7Q@mail.gmail.com>
 <CAPf2UMRbSffEF0GFYs6n9nmgMOShCnbMAksXDWrYBGKFHnuSmQ@mail.gmail.com>
 <CAKKNfu+NXaRcAWJOgJUA+1GEiaG_whSRAFqYhB26O2m2LLqsVg@mail.gmail.com>
 <CAPf2UMQEx0O=Wk2FU0SvZzThHQDC0L-E5O1kng6Kf+G1+JVfKw@mail.gmail.com>
 <CAKKNfuL7Qp+3PEpXYp1G9Bqzp==WXTJG+Dzw5z0yTHYbFyeOgQ@mail.gmail.com>
 <CAKKNfuKUH1vXq0UGSQ0a1sYWeQx=hcZnELvbvBeMpoDp2gCb-w@mail.gmail.com>
 <CAPf2UMQT8Ni8rOUD8JpsyN6c5B0p58trT_GfHD2kjBHcohb5Gg@mail.gmail.com>
Message-ID: <CAKKNfu+EsosxWk7OOH_MZ1rM9XgoK0ntXnjZgmDV2KDJYQf+cA@mail.gmail.com>

Thanks.

Here's another question, it seems I need 12 points to perform the
registration and obtain the matrix, now, the results I'm getting are not
very good. We have the algorithm programmed manually (not using ITK) and
when we compare the results are different (way too different).
I just pulled the example and modified to 3 dimensions and changed the
translationtransform to an affine transform. Is there an example using
Affine that I can check? I'm thinking is not just changing the transform,
there may be other variables I need to tweak..
Matias.

El mi?., 11 de nov. de 2015 a la(s) 5:51 p. m., D?enan Zuki? <
dzenanz at gmail.com> escribi?:

> Nowhere, which means it's the >> operator's standard white-space
> separators (spaces, tabs, newlines).
>
> On Wed, Nov 11, 2015 at 3:03 PM, Matias Montroull <matimontg at gmail.com>
> wrote:
>
>> by the way, where in the code is the space separator specified?
>>
>> El mi?., 11 de nov. de 2015 a la(s) 5:02 p. m., Matias Montroull <
>> matimontg at gmail.com> escribi?:
>>
>>> that worked! Thanks for the advise, I was under the impression that
>>> points needed to be separated by ";"
>>> Thanks again
>>>
>>> El mi?., 11 de nov. de 2015 a la(s) 5:00 p. m., D?enan Zuki? <
>>> dzenanz at gmail.com> escribi?:
>>>
>>>> By looking at the code, the numbers should be separated by space, not
>>>> semicolon. Can you try that?
>>>>
>>>> HTH
>>>>
>>>> On Wed, Nov 11, 2015 at 2:51 PM, Matias Montroull <matimontg at gmail.com>
>>>> wrote:
>>>>
>>>>> Hi D?enan, thanks for the suggestion, I tried that example and I
>>>>> think I'm missign something as my disk drive became crazy.
>>>>> I basically created 2 txt files with a set of 4 points each in this
>>>>> format:
>>>>> -0.585938;92.406328;38.200
>>>>> 44.7654;52.73442;61.000
>>>>> -53.5;49.218792;68.200
>>>>> -1.757814;81.445382;70.600
>>>>>
>>>>> second file has the same format but different numbers of course.
>>>>>
>>>>> Is there anything wrong with how I entered the point sets in both
>>>>> files?
>>>>>
>>>>> As you can see it is 3 points per line separated by this character ";"
>>>>>
>>>>> Thanks,
>>>>>
>>>>> Matias.
>>>>>
>>>>>
>>>>> El mar., 10 de nov. de 2015 a la(s) 6:16 p. m., D?enan Zuki? <
>>>>> dzenanz at gmail.com> escribi?:
>>>>>
>>>>>> Have you seen these two examples:
>>>>>>
>>>>>> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv3_2IterativeClosestPoint3_8cxx-example.html
>>>>>>
>>>>>> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv4_2IterativeClosestPoint3_8cxx-example.html
>>>>>>
>>>>>> HTH
>>>>>>
>>>>>> On Tue, Nov 10, 2015 at 3:18 PM, Matias Montroull <
>>>>>> matimontg at gmail.com> wrote:
>>>>>>
>>>>>>> Hi,
>>>>>>>
>>>>>>> I have 2 sets of points (one is points on an image and another one
>>>>>>> is points on a NDI tracker) and I need to obtain the transformation matrix.
>>>>>>> What would be the best method? I'm currently using a Solver but I'd like to
>>>>>>> implement this using ITK and better if it is SimpleITK.
>>>>>>>
>>>>>>> Thank you!
>>>>>>>
>>>>>>> Matias.
>>>>>>> --
>>>>>>> Matias
>>>>>>>
>>>>>>> _____________________________________
>>>>>>> Powered by www.kitware.com
>>>>>>>
>>>>>>> Visit other Kitware open-source projects at
>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>
>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>> http://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
>>>>>>>
>>>>>>>
>>>>>> --
>>>>> Matias
>>>>>
>>>>
>>>> --
>>> Matias
>>>
>> --
>> Matias
>>
>
> --
Matias
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From matt.mccormick at kitware.com  Wed Nov 11 16:43:11 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Wed, 11 Nov 2015 16:43:11 -0500
Subject: [ITK-users] Pointset registration
In-Reply-To: <CAKKNfu+EsosxWk7OOH_MZ1rM9XgoK0ntXnjZgmDV2KDJYQf+cA@mail.gmail.com>
References: <CAKKNfuLX=6ntsiFc_iXTpHGr2cGdOfNpjZZMacMjF6BuYoy-7Q@mail.gmail.com>
 <CAPf2UMRbSffEF0GFYs6n9nmgMOShCnbMAksXDWrYBGKFHnuSmQ@mail.gmail.com>
 <CAKKNfu+NXaRcAWJOgJUA+1GEiaG_whSRAFqYhB26O2m2LLqsVg@mail.gmail.com>
 <CAPf2UMQEx0O=Wk2FU0SvZzThHQDC0L-E5O1kng6Kf+G1+JVfKw@mail.gmail.com>
 <CAKKNfuL7Qp+3PEpXYp1G9Bqzp==WXTJG+Dzw5z0yTHYbFyeOgQ@mail.gmail.com>
 <CAKKNfuKUH1vXq0UGSQ0a1sYWeQx=hcZnELvbvBeMpoDp2gCb-w@mail.gmail.com>
 <CAPf2UMQT8Ni8rOUD8JpsyN6c5B0p58trT_GfHD2kjBHcohb5Gg@mail.gmail.com>
 <CAKKNfu+EsosxWk7OOH_MZ1rM9XgoK0ntXnjZgmDV2KDJYQf+cA@mail.gmail.com>
Message-ID: <CALzTN-Te0orET64uAAg9nfx8Nv4doyimQVowSbE31S89E+5WuA@mail.gmail.com>

Hi Matias,

Can the datasets be shared?

Thanks,
Matt

On Wed, Nov 11, 2015 at 4:38 PM, Matias Montroull <matimontg at gmail.com> wrote:
> Thanks.
>
> Here's another question, it seems I need 12 points to perform the
> registration and obtain the matrix, now, the results I'm getting are not
> very good. We have the algorithm programmed manually (not using ITK) and
> when we compare the results are different (way too different).
> I just pulled the example and modified to 3 dimensions and changed the
> translationtransform to an affine transform. Is there an example using
> Affine that I can check? I'm thinking is not just changing the transform,
> there may be other variables I need to tweak..
> Matias.
>
> El mi?., 11 de nov. de 2015 a la(s) 5:51 p. m., D?enan Zuki?
> <dzenanz at gmail.com> escribi?:
>>
>> Nowhere, which means it's the >> operator's standard white-space
>> separators (spaces, tabs, newlines).
>>
>> On Wed, Nov 11, 2015 at 3:03 PM, Matias Montroull <matimontg at gmail.com>
>> wrote:
>>>
>>> by the way, where in the code is the space separator specified?
>>>
>>> El mi?., 11 de nov. de 2015 a la(s) 5:02 p. m., Matias Montroull
>>> <matimontg at gmail.com> escribi?:
>>>>
>>>> that worked! Thanks for the advise, I was under the impression that
>>>> points needed to be separated by ";"
>>>> Thanks again
>>>>
>>>> El mi?., 11 de nov. de 2015 a la(s) 5:00 p. m., D?enan Zuki?
>>>> <dzenanz at gmail.com> escribi?:
>>>>>
>>>>> By looking at the code, the numbers should be separated by space, not
>>>>> semicolon. Can you try that?
>>>>>
>>>>> HTH
>>>>>
>>>>> On Wed, Nov 11, 2015 at 2:51 PM, Matias Montroull <matimontg at gmail.com>
>>>>> wrote:
>>>>>>
>>>>>> Hi D?enan, thanks for the suggestion, I tried that example and I think
>>>>>> I'm missign something as my disk drive became crazy.
>>>>>> I basically created 2 txt files with a set of 4 points each in this
>>>>>> format:
>>>>>> -0.585938;92.406328;38.200
>>>>>> 44.7654;52.73442;61.000
>>>>>> -53.5;49.218792;68.200
>>>>>> -1.757814;81.445382;70.600
>>>>>>
>>>>>> second file has the same format but different numbers of course.
>>>>>>
>>>>>> Is there anything wrong with how I entered the point sets in both
>>>>>> files?
>>>>>>
>>>>>> As you can see it is 3 points per line separated by this character ";"
>>>>>>
>>>>>> Thanks,
>>>>>>
>>>>>> Matias.
>>>>>>
>>>>>>
>>>>>> El mar., 10 de nov. de 2015 a la(s) 6:16 p. m., D?enan Zuki?
>>>>>> <dzenanz at gmail.com> escribi?:
>>>>>>>
>>>>>>> Have you seen these two examples:
>>>>>>>
>>>>>>> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv3_2IterativeClosestPoint3_8cxx-example.html
>>>>>>>
>>>>>>> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv4_2IterativeClosestPoint3_8cxx-example.html
>>>>>>>
>>>>>>> HTH
>>>>>>>
>>>>>>> On Tue, Nov 10, 2015 at 3:18 PM, Matias Montroull
>>>>>>> <matimontg at gmail.com> wrote:
>>>>>>>>
>>>>>>>> Hi,
>>>>>>>>
>>>>>>>> I have 2 sets of points (one is points on an image and another one
>>>>>>>> is points on a NDI tracker) and I need to obtain the transformation matrix.
>>>>>>>> What would be the best method? I'm currently using a Solver but I'd like to
>>>>>>>> implement this using ITK and better if it is SimpleITK.
>>>>>>>>
>>>>>>>> Thank you!
>>>>>>>>
>>>>>>>> Matias.
>>>>>>>> --
>>>>>>>> Matias
>>>>>>>>
>>>>>>>> _____________________________________
>>>>>>>> Powered by www.kitware.com
>>>>>>>>
>>>>>>>> Visit other Kitware open-source projects at
>>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>>
>>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>>> http://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
>>>>>>>>
>>>>>>>
>>>>>> --
>>>>>> Matias
>>>>>
>>>>>
>>>> --
>>>> Matias
>>>
>>> --
>>> Matias
>>
>>
> --
> Matias
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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 matimontg at gmail.com  Wed Nov 11 16:57:50 2015
From: matimontg at gmail.com (Matias Montroull)
Date: Wed, 11 Nov 2015 21:57:50 +0000
Subject: [ITK-users] Pointset registration
In-Reply-To: <CALzTN-Te0orET64uAAg9nfx8Nv4doyimQVowSbE31S89E+5WuA@mail.gmail.com>
References: <CAKKNfuLX=6ntsiFc_iXTpHGr2cGdOfNpjZZMacMjF6BuYoy-7Q@mail.gmail.com>
 <CAPf2UMRbSffEF0GFYs6n9nmgMOShCnbMAksXDWrYBGKFHnuSmQ@mail.gmail.com>
 <CAKKNfu+NXaRcAWJOgJUA+1GEiaG_whSRAFqYhB26O2m2LLqsVg@mail.gmail.com>
 <CAPf2UMQEx0O=Wk2FU0SvZzThHQDC0L-E5O1kng6Kf+G1+JVfKw@mail.gmail.com>
 <CAKKNfuL7Qp+3PEpXYp1G9Bqzp==WXTJG+Dzw5z0yTHYbFyeOgQ@mail.gmail.com>
 <CAKKNfuKUH1vXq0UGSQ0a1sYWeQx=hcZnELvbvBeMpoDp2gCb-w@mail.gmail.com>
 <CAPf2UMQT8Ni8rOUD8JpsyN6c5B0p58trT_GfHD2kjBHcohb5Gg@mail.gmail.com>
 <CAKKNfu+EsosxWk7OOH_MZ1rM9XgoK0ntXnjZgmDV2KDJYQf+cA@mail.gmail.com>
 <CALzTN-Te0orET64uAAg9nfx8Nv4doyimQVowSbE31S89E+5WuA@mail.gmail.com>
Message-ID: <CAKKNfuKpVkNxqezooafd96sZvAwz8pkebGNJ=WJ3N5Q6igTfEg@mail.gmail.com>

Yes, here it goes..

you will notice there are points that I had to repeat, the original dataset
was 4 points on each file and I was getting warnings: * Number of
unknowns(12) greater than number of data (4)*

"puntosfijos.txt" is the fixed pointsets
"puntosflotantes.txt" is the moving pointset..

Thanks for your help.

Matias.

El mi?., 11 de nov. de 2015 a la(s) 6:43 p. m., Matt McCormick <
matt.mccormick at kitware.com> escribi?:

> Hi Matias,
>
> Can the datasets be shared?
>
> Thanks,
> Matt
>
> On Wed, Nov 11, 2015 at 4:38 PM, Matias Montroull <matimontg at gmail.com>
> wrote:
> > Thanks.
> >
> > Here's another question, it seems I need 12 points to perform the
> > registration and obtain the matrix, now, the results I'm getting are not
> > very good. We have the algorithm programmed manually (not using ITK) and
> > when we compare the results are different (way too different).
> > I just pulled the example and modified to 3 dimensions and changed the
> > translationtransform to an affine transform. Is there an example using
> > Affine that I can check? I'm thinking is not just changing the transform,
> > there may be other variables I need to tweak..
> > Matias.
> >
> > El mi?., 11 de nov. de 2015 a la(s) 5:51 p. m., D?enan Zuki?
> > <dzenanz at gmail.com> escribi?:
> >>
> >> Nowhere, which means it's the >> operator's standard white-space
> >> separators (spaces, tabs, newlines).
> >>
> >> On Wed, Nov 11, 2015 at 3:03 PM, Matias Montroull <matimontg at gmail.com>
> >> wrote:
> >>>
> >>> by the way, where in the code is the space separator specified?
> >>>
> >>> El mi?., 11 de nov. de 2015 a la(s) 5:02 p. m., Matias Montroull
> >>> <matimontg at gmail.com> escribi?:
> >>>>
> >>>> that worked! Thanks for the advise, I was under the impression that
> >>>> points needed to be separated by ";"
> >>>> Thanks again
> >>>>
> >>>> El mi?., 11 de nov. de 2015 a la(s) 5:00 p. m., D?enan Zuki?
> >>>> <dzenanz at gmail.com> escribi?:
> >>>>>
> >>>>> By looking at the code, the numbers should be separated by space, not
> >>>>> semicolon. Can you try that?
> >>>>>
> >>>>> HTH
> >>>>>
> >>>>> On Wed, Nov 11, 2015 at 2:51 PM, Matias Montroull <
> matimontg at gmail.com>
> >>>>> wrote:
> >>>>>>
> >>>>>> Hi D?enan, thanks for the suggestion, I tried that example and I
> think
> >>>>>> I'm missign something as my disk drive became crazy.
> >>>>>> I basically created 2 txt files with a set of 4 points each in this
> >>>>>> format:
> >>>>>> -0.585938;92.406328;38.200
> >>>>>> 44.7654;52.73442;61.000
> >>>>>> -53.5;49.218792;68.200
> >>>>>> -1.757814;81.445382;70.600
> >>>>>>
> >>>>>> second file has the same format but different numbers of course.
> >>>>>>
> >>>>>> Is there anything wrong with how I entered the point sets in both
> >>>>>> files?
> >>>>>>
> >>>>>> As you can see it is 3 points per line separated by this character
> ";"
> >>>>>>
> >>>>>> Thanks,
> >>>>>>
> >>>>>> Matias.
> >>>>>>
> >>>>>>
> >>>>>> El mar., 10 de nov. de 2015 a la(s) 6:16 p. m., D?enan Zuki?
> >>>>>> <dzenanz at gmail.com> escribi?:
> >>>>>>>
> >>>>>>> Have you seen these two examples:
> >>>>>>>
> >>>>>>>
> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv3_2IterativeClosestPoint3_8cxx-example.html
> >>>>>>>
> >>>>>>>
> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv4_2IterativeClosestPoint3_8cxx-example.html
> >>>>>>>
> >>>>>>> HTH
> >>>>>>>
> >>>>>>> On Tue, Nov 10, 2015 at 3:18 PM, Matias Montroull
> >>>>>>> <matimontg at gmail.com> wrote:
> >>>>>>>>
> >>>>>>>> Hi,
> >>>>>>>>
> >>>>>>>> I have 2 sets of points (one is points on an image and another one
> >>>>>>>> is points on a NDI tracker) and I need to obtain the
> transformation matrix.
> >>>>>>>> What would be the best method? I'm currently using a Solver but
> I'd like to
> >>>>>>>> implement this using ITK and better if it is SimpleITK.
> >>>>>>>>
> >>>>>>>> Thank you!
> >>>>>>>>
> >>>>>>>> Matias.
> >>>>>>>> --
> >>>>>>>> Matias
> >>>>>>>>
> >>>>>>>> _____________________________________
> >>>>>>>> Powered by www.kitware.com
> >>>>>>>>
> >>>>>>>> Visit other Kitware open-source projects at
> >>>>>>>> http://www.kitware.com/opensource/opensource.html
> >>>>>>>>
> >>>>>>>> Kitware offers ITK Training Courses, for more information visit:
> >>>>>>>> http://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
> >>>>>>>>
> >>>>>>>
> >>>>>> --
> >>>>>> Matias
> >>>>>
> >>>>>
> >>>> --
> >>>> Matias
> >>>
> >>> --
> >>> Matias
> >>
> >>
> > --
> > Matias
> >
> > _____________________________________
> > Powered by www.kitware.com
> >
> > Visit other Kitware open-source projects at
> > http://www.kitware.com/opensource/opensource.html
> >
> > Kitware offers ITK Training Courses, for more information visit:
> > http://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
> >
>
-- 
Matias
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98.76754713842602 -256.97936380336666 101.46049315138942
105.01858859113306 -252.46016294961202 71.16100389714318
82.61727929896919 -202.51250681287785 49.81482122398683
73.36814616883537 -306.35996767973201 54.41328717734619
98.76754713842602 -256.97936380336666 101.46049315138942
105.01858859113306 -252.46016294961202 71.16100389714318
82.61727929896919 -202.51250681287785 49.81482122398683
73.36814616883537 -306.35996767973201 54.41328717734619
98.76754713842602 -256.97936380336666 101.46049315138942
105.01858859113306 -252.46016294961202 71.16100389714318
82.61727929896919 -202.51250681287785 49.81482122398683
73.36814616883537 -306.35996767973201 54.41328717734619
-------------- next part --------------
-0.585938 92.406328 38.200
44.7654 52.73442 61.000
-53.5 49.218792 68.200
-1.757814 81.445382 70.600
-0.585938 92.406328 38.200
44.7654 52.73442 61.000
-53.5 49.218792 68.200
-1.757814 81.445382 70.600
-0.585938 92.406328 38.200
44.7654 52.73442 61.000
-53.5 49.218792 68.200
-1.757814 81.445382 70.600

From dzenanz at gmail.com  Wed Nov 11 17:02:56 2015
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Wed, 11 Nov 2015 17:02:56 -0500
Subject: [ITK-users] Pointset registration
In-Reply-To: <CAKKNfuKpVkNxqezooafd96sZvAwz8pkebGNJ=WJ3N5Q6igTfEg@mail.gmail.com>
References: <CAKKNfuLX=6ntsiFc_iXTpHGr2cGdOfNpjZZMacMjF6BuYoy-7Q@mail.gmail.com>
 <CAPf2UMRbSffEF0GFYs6n9nmgMOShCnbMAksXDWrYBGKFHnuSmQ@mail.gmail.com>
 <CAKKNfu+NXaRcAWJOgJUA+1GEiaG_whSRAFqYhB26O2m2LLqsVg@mail.gmail.com>
 <CAPf2UMQEx0O=Wk2FU0SvZzThHQDC0L-E5O1kng6Kf+G1+JVfKw@mail.gmail.com>
 <CAKKNfuL7Qp+3PEpXYp1G9Bqzp==WXTJG+Dzw5z0yTHYbFyeOgQ@mail.gmail.com>
 <CAKKNfuKUH1vXq0UGSQ0a1sYWeQx=hcZnELvbvBeMpoDp2gCb-w@mail.gmail.com>
 <CAPf2UMQT8Ni8rOUD8JpsyN6c5B0p58trT_GfHD2kjBHcohb5Gg@mail.gmail.com>
 <CAKKNfu+EsosxWk7OOH_MZ1rM9XgoK0ntXnjZgmDV2KDJYQf+cA@mail.gmail.com>
 <CALzTN-Te0orET64uAAg9nfx8Nv4doyimQVowSbE31S89E+5WuA@mail.gmail.com>
 <CAKKNfuKpVkNxqezooafd96sZvAwz8pkebGNJ=WJ3N5Q6igTfEg@mail.gmail.com>
Message-ID: <CAPf2UMRjEyF2JzHwF_XR+WsrTSmXtKx8TzFVKwUkuoVO+jpg+A@mail.gmail.com>

One possible reason for lousy result are duplicate points. Can you replace
all this duplication with one more good point (so you have 5)?

On Wed, Nov 11, 2015 at 4:57 PM, Matias Montroull <matimontg at gmail.com>
wrote:

> Yes, here it goes..
>
> you will notice there are points that I had to repeat, the original
> dataset was 4 points on each file and I was getting warnings: * Number of
> unknowns(12) greater than number of data (4)*
>
> "puntosfijos.txt" is the fixed pointsets
> "puntosflotantes.txt" is the moving pointset..
>
> Thanks for your help.
>
> Matias.
>
> El mi?., 11 de nov. de 2015 a la(s) 6:43 p. m., Matt McCormick <
> matt.mccormick at kitware.com> escribi?:
>
>> Hi Matias,
>>
>> Can the datasets be shared?
>>
>> Thanks,
>> Matt
>>
>> On Wed, Nov 11, 2015 at 4:38 PM, Matias Montroull <matimontg at gmail.com>
>> wrote:
>> > Thanks.
>> >
>> > Here's another question, it seems I need 12 points to perform the
>> > registration and obtain the matrix, now, the results I'm getting are not
>> > very good. We have the algorithm programmed manually (not using ITK) and
>> > when we compare the results are different (way too different).
>> > I just pulled the example and modified to 3 dimensions and changed the
>> > translationtransform to an affine transform. Is there an example using
>> > Affine that I can check? I'm thinking is not just changing the
>> transform,
>> > there may be other variables I need to tweak..
>> > Matias.
>> >
>> > El mi?., 11 de nov. de 2015 a la(s) 5:51 p. m., D?enan Zuki?
>> > <dzenanz at gmail.com> escribi?:
>> >>
>> >> Nowhere, which means it's the >> operator's standard white-space
>> >> separators (spaces, tabs, newlines).
>> >>
>> >> On Wed, Nov 11, 2015 at 3:03 PM, Matias Montroull <matimontg at gmail.com
>> >
>> >> wrote:
>> >>>
>> >>> by the way, where in the code is the space separator specified?
>> >>>
>> >>> El mi?., 11 de nov. de 2015 a la(s) 5:02 p. m., Matias Montroull
>> >>> <matimontg at gmail.com> escribi?:
>> >>>>
>> >>>> that worked! Thanks for the advise, I was under the impression that
>> >>>> points needed to be separated by ";"
>> >>>> Thanks again
>> >>>>
>> >>>> El mi?., 11 de nov. de 2015 a la(s) 5:00 p. m., D?enan Zuki?
>> >>>> <dzenanz at gmail.com> escribi?:
>> >>>>>
>> >>>>> By looking at the code, the numbers should be separated by space,
>> not
>> >>>>> semicolon. Can you try that?
>> >>>>>
>> >>>>> HTH
>> >>>>>
>> >>>>> On Wed, Nov 11, 2015 at 2:51 PM, Matias Montroull <
>> matimontg at gmail.com>
>> >>>>> wrote:
>> >>>>>>
>> >>>>>> Hi D?enan, thanks for the suggestion, I tried that example and I
>> think
>> >>>>>> I'm missign something as my disk drive became crazy.
>> >>>>>> I basically created 2 txt files with a set of 4 points each in this
>> >>>>>> format:
>> >>>>>> -0.585938;92.406328;38.200
>> >>>>>> 44.7654;52.73442;61.000
>> >>>>>> -53.5;49.218792;68.200
>> >>>>>> -1.757814;81.445382;70.600
>> >>>>>>
>> >>>>>> second file has the same format but different numbers of course.
>> >>>>>>
>> >>>>>> Is there anything wrong with how I entered the point sets in both
>> >>>>>> files?
>> >>>>>>
>> >>>>>> As you can see it is 3 points per line separated by this character
>> ";"
>> >>>>>>
>> >>>>>> Thanks,
>> >>>>>>
>> >>>>>> Matias.
>> >>>>>>
>> >>>>>>
>> >>>>>> El mar., 10 de nov. de 2015 a la(s) 6:16 p. m., D?enan Zuki?
>> >>>>>> <dzenanz at gmail.com> escribi?:
>> >>>>>>>
>> >>>>>>> Have you seen these two examples:
>> >>>>>>>
>> >>>>>>>
>> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv3_2IterativeClosestPoint3_8cxx-example.html
>> >>>>>>>
>> >>>>>>>
>> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv4_2IterativeClosestPoint3_8cxx-example.html
>> >>>>>>>
>> >>>>>>> HTH
>> >>>>>>>
>> >>>>>>> On Tue, Nov 10, 2015 at 3:18 PM, Matias Montroull
>> >>>>>>> <matimontg at gmail.com> wrote:
>> >>>>>>>>
>> >>>>>>>> Hi,
>> >>>>>>>>
>> >>>>>>>> I have 2 sets of points (one is points on an image and another
>> one
>> >>>>>>>> is points on a NDI tracker) and I need to obtain the
>> transformation matrix.
>> >>>>>>>> What would be the best method? I'm currently using a Solver but
>> I'd like to
>> >>>>>>>> implement this using ITK and better if it is SimpleITK.
>> >>>>>>>>
>> >>>>>>>> Thank you!
>> >>>>>>>>
>> >>>>>>>> Matias.
>> >>>>>>>> --
>> >>>>>>>> Matias
>> >>>>>>>>
>> >>>>>>>> _____________________________________
>> >>>>>>>> Powered by www.kitware.com
>> >>>>>>>>
>> >>>>>>>> Visit other Kitware open-source projects at
>> >>>>>>>> http://www.kitware.com/opensource/opensource.html
>> >>>>>>>>
>> >>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>> >>>>>>>> http://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
>> >>>>>>>>
>> >>>>>>>
>> >>>>>> --
>> >>>>>> Matias
>> >>>>>
>> >>>>>
>> >>>> --
>> >>>> Matias
>> >>>
>> >>> --
>> >>> Matias
>> >>
>> >>
>> > --
>> > Matias
>> >
>> > _____________________________________
>> > Powered by www.kitware.com
>> >
>> > Visit other Kitware open-source projects at
>> > http://www.kitware.com/opensource/opensource.html
>> >
>> > Kitware offers ITK Training Courses, for more information visit:
>> > http://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
>> >
>>
> --
> Matias
>
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From matimontg at gmail.com  Wed Nov 11 17:15:39 2015
From: matimontg at gmail.com (Matias Montroull)
Date: Wed, 11 Nov 2015 22:15:39 +0000
Subject: [ITK-users] [ITK]  Pointset registration
In-Reply-To: <DM2PR07MB3500C847ED01886EB7FBE7BD8130@DM2PR07MB350.namprd07.prod.outlook.com>
References: <CAKKNfuLX=6ntsiFc_iXTpHGr2cGdOfNpjZZMacMjF6BuYoy-7Q@mail.gmail.com>
 <CAPf2UMRbSffEF0GFYs6n9nmgMOShCnbMAksXDWrYBGKFHnuSmQ@mail.gmail.com>
 <CAKKNfu+NXaRcAWJOgJUA+1GEiaG_whSRAFqYhB26O2m2LLqsVg@mail.gmail.com>
 <CAPf2UMQEx0O=Wk2FU0SvZzThHQDC0L-E5O1kng6Kf+G1+JVfKw@mail.gmail.com>
 <CAKKNfuL7Qp+3PEpXYp1G9Bqzp==WXTJG+Dzw5z0yTHYbFyeOgQ@mail.gmail.com>
 <CAKKNfuKUH1vXq0UGSQ0a1sYWeQx=hcZnELvbvBeMpoDp2gCb-w@mail.gmail.com>
 <CAPf2UMQT8Ni8rOUD8JpsyN6c5B0p58trT_GfHD2kjBHcohb5Gg@mail.gmail.com>
 <CAKKNfu+EsosxWk7OOH_MZ1rM9XgoK0ntXnjZgmDV2KDJYQf+cA@mail.gmail.com>
 <CALzTN-Te0orET64uAAg9nfx8Nv4doyimQVowSbE31S89E+5WuA@mail.gmail.com>
 <CAKKNfuKpVkNxqezooafd96sZvAwz8pkebGNJ=WJ3N5Q6igTfEg@mail.gmail.com>
 <DM2PR07MB3500C847ED01886EB7FBE7BD8130@DM2PR07MB350.namprd07.prod.outlook.com>
Message-ID: <CAKKNfuKcdzgszyt2Q0Vw3=_8f06nn0At9rsbtCf3M_nsoJ0F-g@mail.gmail.com>

Thanks, it is indeed the case you describe.. Is there an ITK example I can
use as reference to implement the landmarkbasedtransform?
Matias.

El mi?., 11 de nov. de 2015 a la(s) 7:09 p. m., Andras Lasso <
lasso at queensu.ca> escribi?:

> It seems that you want to do a simple landmark registration (you touch
> exactly the same points with the stylus, in the same order, as you defined
> in the image). If this is the case, then you should not use ICP but
> itk::LandmarkBasedTransformInitializer (with optional preprocessing step
> to determine the scale), as it is done in this Slicer module:
>
>
> https://github.com/Slicer/Slicer/blob/master/Modules/CLI/FiducialRegistration/FiducialRegistration.cxx
>
>
>
> Andras
>
>
>
>
>
> *From:* Community [mailto:community-bounces at itk.org] *On Behalf Of *Matias
> Montroull
> *Sent:* Wednesday, November 11, 2015 4:58 PM
> *To:* Matt McCormick <matt.mccormick at kitware.com>
> *Cc:* insight-users at itk.org Users <insight-users at itk.org>
> *Subject:* Re: [ITK] [ITK-users] Pointset registration
>
>
>
> Yes, here it goes..
>
>
>
> you will notice there are points that I had to repeat, the original
> dataset was 4 points on each file and I was getting warnings: * Number of
> unknowns(12) greater than number of data (4)*
>
>
>
> "puntosfijos.txt" is the fixed pointsets
>
> "puntosflotantes.txt" is the moving pointset..
>
>
>
> Thanks for your help.
>
>
>
> Matias.
>
>
>
> El mi?., 11 de nov. de 2015 a la(s) 6:43 p. m., Matt McCormick <
> matt.mccormick at kitware.com> escribi?:
>
> Hi Matias,
>
> Can the datasets be shared?
>
> Thanks,
> Matt
>
> On Wed, Nov 11, 2015 at 4:38 PM, Matias Montroull <matimontg at gmail.com>
> wrote:
> > Thanks.
> >
> > Here's another question, it seems I need 12 points to perform the
> > registration and obtain the matrix, now, the results I'm getting are not
> > very good. We have the algorithm programmed manually (not using ITK) and
> > when we compare the results are different (way too different).
> > I just pulled the example and modified to 3 dimensions and changed the
> > translationtransform to an affine transform. Is there an example using
> > Affine that I can check? I'm thinking is not just changing the transform,
> > there may be other variables I need to tweak..
> > Matias.
> >
> > El mi?., 11 de nov. de 2015 a la(s) 5:51 p. m., D?enan Zuki?
> > <dzenanz at gmail.com> escribi?:
> >>
> >> Nowhere, which means it's the >> operator's standard white-space
> >> separators (spaces, tabs, newlines).
> >>
> >> On Wed, Nov 11, 2015 at 3:03 PM, Matias Montroull <matimontg at gmail.com>
> >> wrote:
> >>>
> >>> by the way, where in the code is the space separator specified?
> >>>
> >>> El mi?., 11 de nov. de 2015 a la(s) 5:02 p. m., Matias Montroull
> >>> <matimontg at gmail.com> escribi?:
> >>>>
> >>>> that worked! Thanks for the advise, I was under the impression that
> >>>> points needed to be separated by ";"
> >>>> Thanks again
> >>>>
> >>>> El mi?., 11 de nov. de 2015 a la(s) 5:00 p. m., D?enan Zuki?
> >>>> <dzenanz at gmail.com> escribi?:
> >>>>>
> >>>>> By looking at the code, the numbers should be separated by space, not
> >>>>> semicolon. Can you try that?
> >>>>>
> >>>>> HTH
> >>>>>
> >>>>> On Wed, Nov 11, 2015 at 2:51 PM, Matias Montroull <
> matimontg at gmail.com>
> >>>>> wrote:
> >>>>>>
> >>>>>> Hi D?enan, thanks for the suggestion, I tried that example and I
> think
> >>>>>> I'm missign something as my disk drive became crazy.
> >>>>>> I basically created 2 txt files with a set of 4 points each in this
> >>>>>> format:
> >>>>>> -0.585938;92.406328;38.200
> >>>>>> 44.7654;52.73442;61.000
> >>>>>> -53.5;49.218792;68.200
> >>>>>> -1.757814;81.445382;70.600
> >>>>>>
> >>>>>> second file has the same format but different numbers of course.
> >>>>>>
> >>>>>> Is there anything wrong with how I entered the point sets in both
> >>>>>> files?
> >>>>>>
> >>>>>> As you can see it is 3 points per line separated by this character
> ";"
> >>>>>>
> >>>>>> Thanks,
> >>>>>>
> >>>>>> Matias.
> >>>>>>
> >>>>>>
> >>>>>> El mar., 10 de nov. de 2015 a la(s) 6:16 p. m., D?enan Zuki?
> >>>>>> <dzenanz at gmail.com> escribi?:
> >>>>>>>
> >>>>>>> Have you seen these two examples:
> >>>>>>>
> >>>>>>>
> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv3_2IterativeClosestPoint3_8cxx-example.html
> >>>>>>>
> >>>>>>>
> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv4_2IterativeClosestPoint3_8cxx-example.html
> >>>>>>>
> >>>>>>> HTH
> >>>>>>>
> >>>>>>> On Tue, Nov 10, 2015 at 3:18 PM, Matias Montroull
> >>>>>>> <matimontg at gmail.com> wrote:
> >>>>>>>>
> >>>>>>>> Hi,
> >>>>>>>>
> >>>>>>>> I have 2 sets of points (one is points on an image and another one
> >>>>>>>> is points on a NDI tracker) and I need to obtain the
> transformation matrix.
> >>>>>>>> What would be the best method? I'm currently using a Solver but
> I'd like to
> >>>>>>>> implement this using ITK and better if it is SimpleITK.
> >>>>>>>>
> >>>>>>>> Thank you!
> >>>>>>>>
> >>>>>>>> Matias.
> >>>>>>>> --
> >>>>>>>> Matias
> >>>>>>>>
> >>>>>>>> _____________________________________
> >>>>>>>> Powered by www.kitware.com
> >>>>>>>>
> >>>>>>>> Visit other Kitware open-source projects at
> >>>>>>>> http://www.kitware.com/opensource/opensource.html
> >>>>>>>>
> >>>>>>>> Kitware offers ITK Training Courses, for more information visit:
> >>>>>>>> http://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
> >>>>>>>>
> >>>>>>>
> >>>>>> --
> >>>>>> Matias
> >>>>>
> >>>>>
> >>>> --
> >>>> Matias
> >>>
> >>> --
> >>> Matias
> >>
> >>
> > --
> > Matias
> >
> > _____________________________________
> > Powered by www.kitware.com
> >
> > Visit other Kitware open-source projects at
> > http://www.kitware.com/opensource/opensource.html
> >
> > Kitware offers ITK Training Courses, for more information visit:
> > http://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
> >
>
> --
>
> Matias
>
-- 
Matias
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From matt.mccormick at kitware.com  Wed Nov 11 17:23:25 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Wed, 11 Nov 2015 17:23:25 -0500
Subject: [ITK-users] [ITK]  Pointset registration
In-Reply-To: <CAKKNfuKcdzgszyt2Q0Vw3=_8f06nn0At9rsbtCf3M_nsoJ0F-g@mail.gmail.com>
References: <CAKKNfuLX=6ntsiFc_iXTpHGr2cGdOfNpjZZMacMjF6BuYoy-7Q@mail.gmail.com>
 <CAPf2UMRbSffEF0GFYs6n9nmgMOShCnbMAksXDWrYBGKFHnuSmQ@mail.gmail.com>
 <CAKKNfu+NXaRcAWJOgJUA+1GEiaG_whSRAFqYhB26O2m2LLqsVg@mail.gmail.com>
 <CAPf2UMQEx0O=Wk2FU0SvZzThHQDC0L-E5O1kng6Kf+G1+JVfKw@mail.gmail.com>
 <CAKKNfuL7Qp+3PEpXYp1G9Bqzp==WXTJG+Dzw5z0yTHYbFyeOgQ@mail.gmail.com>
 <CAKKNfuKUH1vXq0UGSQ0a1sYWeQx=hcZnELvbvBeMpoDp2gCb-w@mail.gmail.com>
 <CAPf2UMQT8Ni8rOUD8JpsyN6c5B0p58trT_GfHD2kjBHcohb5Gg@mail.gmail.com>
 <CAKKNfu+EsosxWk7OOH_MZ1rM9XgoK0ntXnjZgmDV2KDJYQf+cA@mail.gmail.com>
 <CALzTN-Te0orET64uAAg9nfx8Nv4doyimQVowSbE31S89E+5WuA@mail.gmail.com>
 <CAKKNfuKpVkNxqezooafd96sZvAwz8pkebGNJ=WJ3N5Q6igTfEg@mail.gmail.com>
 <DM2PR07MB3500C847ED01886EB7FBE7BD8130@DM2PR07MB350.namprd07.prod.outlook.com>
 <CAKKNfuKcdzgszyt2Q0Vw3=_8f06nn0At9rsbtCf3M_nsoJ0F-g@mail.gmail.com>
Message-ID: <CALzTN-SjMQsPF2utyd-pJ7Sy9ZC+eL_OtHhwO86XVAd=YdC5Lg@mail.gmail.com>

Hi Matias,

The examples for each class are linked in the class doxygen page [1].
There is a Wiki example for the LandmarkBasedTransformInitializer [2].

HTH,
Matt

[1] http://www.itk.org/Insight/Doxygen/html/classitk_1_1LandmarkBasedTransformInitializer.html

[2] http://www.itk.org/Insight/Doxygen/html/WikiExamples_2Registration_2LandmarkBasedTransformInitializer_8cxx-example.html#_a3

On Wed, Nov 11, 2015 at 5:15 PM, Matias Montroull <matimontg at gmail.com> wrote:
> Thanks, it is indeed the case you describe.. Is there an ITK example I can
> use as reference to implement the landmarkbasedtransform?
> Matias.
>
> El mi?., 11 de nov. de 2015 a la(s) 7:09 p. m., Andras Lasso
> <lasso at queensu.ca> escribi?:
>>
>> It seems that you want to do a simple landmark registration (you touch
>> exactly the same points with the stylus, in the same order, as you defined
>> in the image). If this is the case, then you should not use ICP but
>> itk::LandmarkBasedTransformInitializer (with optional preprocessing step to
>> determine the scale), as it is done in this Slicer module:
>>
>>
>> https://github.com/Slicer/Slicer/blob/master/Modules/CLI/FiducialRegistration/FiducialRegistration.cxx
>>
>>
>>
>> Andras
>>
>>
>>
>>
>>
>> From: Community [mailto:community-bounces at itk.org] On Behalf Of Matias
>> Montroull
>> Sent: Wednesday, November 11, 2015 4:58 PM
>> To: Matt McCormick <matt.mccormick at kitware.com>
>> Cc: insight-users at itk.org Users <insight-users at itk.org>
>> Subject: Re: [ITK] [ITK-users] Pointset registration
>>
>>
>>
>> Yes, here it goes..
>>
>>
>>
>> you will notice there are points that I had to repeat, the original
>> dataset was 4 points on each file and I was getting warnings:  Number of
>> unknowns(12) greater than number of data (4)
>>
>>
>>
>> "puntosfijos.txt" is the fixed pointsets
>>
>> "puntosflotantes.txt" is the moving pointset..
>>
>>
>>
>> Thanks for your help.
>>
>>
>>
>> Matias.
>>
>>
>>
>> El mi?., 11 de nov. de 2015 a la(s) 6:43 p. m., Matt McCormick
>> <matt.mccormick at kitware.com> escribi?:
>>
>> Hi Matias,
>>
>> Can the datasets be shared?
>>
>> Thanks,
>> Matt
>>
>> On Wed, Nov 11, 2015 at 4:38 PM, Matias Montroull <matimontg at gmail.com>
>> wrote:
>> > Thanks.
>> >
>> > Here's another question, it seems I need 12 points to perform the
>> > registration and obtain the matrix, now, the results I'm getting are not
>> > very good. We have the algorithm programmed manually (not using ITK) and
>> > when we compare the results are different (way too different).
>> > I just pulled the example and modified to 3 dimensions and changed the
>> > translationtransform to an affine transform. Is there an example using
>> > Affine that I can check? I'm thinking is not just changing the
>> > transform,
>> > there may be other variables I need to tweak..
>> > Matias.
>> >
>> > El mi?., 11 de nov. de 2015 a la(s) 5:51 p. m., D?enan Zuki?
>> > <dzenanz at gmail.com> escribi?:
>> >>
>> >> Nowhere, which means it's the >> operator's standard white-space
>> >> separators (spaces, tabs, newlines).
>> >>
>> >> On Wed, Nov 11, 2015 at 3:03 PM, Matias Montroull <matimontg at gmail.com>
>> >> wrote:
>> >>>
>> >>> by the way, where in the code is the space separator specified?
>> >>>
>> >>> El mi?., 11 de nov. de 2015 a la(s) 5:02 p. m., Matias Montroull
>> >>> <matimontg at gmail.com> escribi?:
>> >>>>
>> >>>> that worked! Thanks for the advise, I was under the impression that
>> >>>> points needed to be separated by ";"
>> >>>> Thanks again
>> >>>>
>> >>>> El mi?., 11 de nov. de 2015 a la(s) 5:00 p. m., D?enan Zuki?
>> >>>> <dzenanz at gmail.com> escribi?:
>> >>>>>
>> >>>>> By looking at the code, the numbers should be separated by space,
>> >>>>> not
>> >>>>> semicolon. Can you try that?
>> >>>>>
>> >>>>> HTH
>> >>>>>
>> >>>>> On Wed, Nov 11, 2015 at 2:51 PM, Matias Montroull
>> >>>>> <matimontg at gmail.com>
>> >>>>> wrote:
>> >>>>>>
>> >>>>>> Hi D?enan, thanks for the suggestion, I tried that example and I
>> >>>>>> think
>> >>>>>> I'm missign something as my disk drive became crazy.
>> >>>>>> I basically created 2 txt files with a set of 4 points each in this
>> >>>>>> format:
>> >>>>>> -0.585938;92.406328;38.200
>> >>>>>> 44.7654;52.73442;61.000
>> >>>>>> -53.5;49.218792;68.200
>> >>>>>> -1.757814;81.445382;70.600
>> >>>>>>
>> >>>>>> second file has the same format but different numbers of course.
>> >>>>>>
>> >>>>>> Is there anything wrong with how I entered the point sets in both
>> >>>>>> files?
>> >>>>>>
>> >>>>>> As you can see it is 3 points per line separated by this character
>> >>>>>> ";"
>> >>>>>>
>> >>>>>> Thanks,
>> >>>>>>
>> >>>>>> Matias.
>> >>>>>>
>> >>>>>>
>> >>>>>> El mar., 10 de nov. de 2015 a la(s) 6:16 p. m., D?enan Zuki?
>> >>>>>> <dzenanz at gmail.com> escribi?:
>> >>>>>>>
>> >>>>>>> Have you seen these two examples:
>> >>>>>>>
>> >>>>>>>
>> >>>>>>> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv3_2IterativeClosestPoint3_8cxx-example.html
>> >>>>>>>
>> >>>>>>>
>> >>>>>>> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv4_2IterativeClosestPoint3_8cxx-example.html
>> >>>>>>>
>> >>>>>>> HTH
>> >>>>>>>
>> >>>>>>> On Tue, Nov 10, 2015 at 3:18 PM, Matias Montroull
>> >>>>>>> <matimontg at gmail.com> wrote:
>> >>>>>>>>
>> >>>>>>>> Hi,
>> >>>>>>>>
>> >>>>>>>> I have 2 sets of points (one is points on an image and another
>> >>>>>>>> one
>> >>>>>>>> is points on a NDI tracker) and I need to obtain the
>> >>>>>>>> transformation matrix.
>> >>>>>>>> What would be the best method? I'm currently using a Solver but
>> >>>>>>>> I'd like to
>> >>>>>>>> implement this using ITK and better if it is SimpleITK.
>> >>>>>>>>
>> >>>>>>>> Thank you!
>> >>>>>>>>
>> >>>>>>>> Matias.
>> >>>>>>>> --
>> >>>>>>>> Matias
>> >>>>>>>>
>> >>>>>>>> _____________________________________
>> >>>>>>>> Powered by www.kitware.com
>> >>>>>>>>
>> >>>>>>>> Visit other Kitware open-source projects at
>> >>>>>>>> http://www.kitware.com/opensource/opensource.html
>> >>>>>>>>
>> >>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>> >>>>>>>> http://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
>> >>>>>>>>
>> >>>>>>>
>> >>>>>> --
>> >>>>>> Matias
>> >>>>>
>> >>>>>
>> >>>> --
>> >>>> Matias
>> >>>
>> >>> --
>> >>> Matias
>> >>
>> >>
>> > --
>> > Matias
>> >
>> > _____________________________________
>> > Powered by www.kitware.com
>> >
>> > Visit other Kitware open-source projects at
>> > http://www.kitware.com/opensource/opensource.html
>> >
>> > Kitware offers ITK Training Courses, for more information visit:
>> > http://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
>> >
>>
>> --
>>
>> Matias
>
> --
> Matias

From dzenanz at gmail.com  Wed Nov 11 17:26:52 2015
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Wed, 11 Nov 2015 17:26:52 -0500
Subject: [ITK-users] [ITK]  Pointset registration
In-Reply-To: <CALzTN-SjMQsPF2utyd-pJ7Sy9ZC+eL_OtHhwO86XVAd=YdC5Lg@mail.gmail.com>
References: <CAKKNfuLX=6ntsiFc_iXTpHGr2cGdOfNpjZZMacMjF6BuYoy-7Q@mail.gmail.com>
 <CAPf2UMRbSffEF0GFYs6n9nmgMOShCnbMAksXDWrYBGKFHnuSmQ@mail.gmail.com>
 <CAKKNfu+NXaRcAWJOgJUA+1GEiaG_whSRAFqYhB26O2m2LLqsVg@mail.gmail.com>
 <CAPf2UMQEx0O=Wk2FU0SvZzThHQDC0L-E5O1kng6Kf+G1+JVfKw@mail.gmail.com>
 <CAKKNfuL7Qp+3PEpXYp1G9Bqzp==WXTJG+Dzw5z0yTHYbFyeOgQ@mail.gmail.com>
 <CAKKNfuKUH1vXq0UGSQ0a1sYWeQx=hcZnELvbvBeMpoDp2gCb-w@mail.gmail.com>
 <CAPf2UMQT8Ni8rOUD8JpsyN6c5B0p58trT_GfHD2kjBHcohb5Gg@mail.gmail.com>
 <CAKKNfu+EsosxWk7OOH_MZ1rM9XgoK0ntXnjZgmDV2KDJYQf+cA@mail.gmail.com>
 <CALzTN-Te0orET64uAAg9nfx8Nv4doyimQVowSbE31S89E+5WuA@mail.gmail.com>
 <CAKKNfuKpVkNxqezooafd96sZvAwz8pkebGNJ=WJ3N5Q6igTfEg@mail.gmail.com>
 <DM2PR07MB3500C847ED01886EB7FBE7BD8130@DM2PR07MB350.namprd07.prod.outlook.com>
 <CAKKNfuKcdzgszyt2Q0Vw3=_8f06nn0At9rsbtCf3M_nsoJ0F-g@mail.gmail.com>
 <CALzTN-SjMQsPF2utyd-pJ7Sy9ZC+eL_OtHhwO86XVAd=YdC5Lg@mail.gmail.com>
Message-ID: <CAPf2UMQJDaeKLHTDiPiw=zQPT-2XccULuiv3HCTrJygeXkgxYw@mail.gmail.com>

You could also try going straight to a numeric library, using singular
value decomposition
<http://eigen.tuxfamily.org/dox/classEigen_1_1JacobiSVD.html> to find your
3x4 transformation matrix. PointsVector*Matrix=AnotherPointsVector. It
could hardly get any simpler for a numeric library.

HTH

On Wed, Nov 11, 2015 at 5:23 PM, Matt McCormick <matt.mccormick at kitware.com>
wrote:

> Hi Matias,
>
> The examples for each class are linked in the class doxygen page [1].
> There is a Wiki example for the LandmarkBasedTransformInitializer [2].
>
> HTH,
> Matt
>
> [1]
> http://www.itk.org/Insight/Doxygen/html/classitk_1_1LandmarkBasedTransformInitializer.html
>
> [2]
> http://www.itk.org/Insight/Doxygen/html/WikiExamples_2Registration_2LandmarkBasedTransformInitializer_8cxx-example.html#_a3
>
> On Wed, Nov 11, 2015 at 5:15 PM, Matias Montroull <matimontg at gmail.com>
> wrote:
> > Thanks, it is indeed the case you describe.. Is there an ITK example I
> can
> > use as reference to implement the landmarkbasedtransform?
> > Matias.
> >
> > El mi?., 11 de nov. de 2015 a la(s) 7:09 p. m., Andras Lasso
> > <lasso at queensu.ca> escribi?:
> >>
> >> It seems that you want to do a simple landmark registration (you touch
> >> exactly the same points with the stylus, in the same order, as you
> defined
> >> in the image). If this is the case, then you should not use ICP but
> >> itk::LandmarkBasedTransformInitializer (with optional preprocessing
> step to
> >> determine the scale), as it is done in this Slicer module:
> >>
> >>
> >>
> https://github.com/Slicer/Slicer/blob/master/Modules/CLI/FiducialRegistration/FiducialRegistration.cxx
> >>
> >>
> >>
> >> Andras
> >>
> >>
> >>
> >>
> >>
> >> From: Community [mailto:community-bounces at itk.org] On Behalf Of Matias
> >> Montroull
> >> Sent: Wednesday, November 11, 2015 4:58 PM
> >> To: Matt McCormick <matt.mccormick at kitware.com>
> >> Cc: insight-users at itk.org Users <insight-users at itk.org>
> >> Subject: Re: [ITK] [ITK-users] Pointset registration
> >>
> >>
> >>
> >> Yes, here it goes..
> >>
> >>
> >>
> >> you will notice there are points that I had to repeat, the original
> >> dataset was 4 points on each file and I was getting warnings:  Number of
> >> unknowns(12) greater than number of data (4)
> >>
> >>
> >>
> >> "puntosfijos.txt" is the fixed pointsets
> >>
> >> "puntosflotantes.txt" is the moving pointset..
> >>
> >>
> >>
> >> Thanks for your help.
> >>
> >>
> >>
> >> Matias.
> >>
> >>
> >>
> >> El mi?., 11 de nov. de 2015 a la(s) 6:43 p. m., Matt McCormick
> >> <matt.mccormick at kitware.com> escribi?:
> >>
> >> Hi Matias,
> >>
> >> Can the datasets be shared?
> >>
> >> Thanks,
> >> Matt
> >>
> >> On Wed, Nov 11, 2015 at 4:38 PM, Matias Montroull <matimontg at gmail.com>
> >> wrote:
> >> > Thanks.
> >> >
> >> > Here's another question, it seems I need 12 points to perform the
> >> > registration and obtain the matrix, now, the results I'm getting are
> not
> >> > very good. We have the algorithm programmed manually (not using ITK)
> and
> >> > when we compare the results are different (way too different).
> >> > I just pulled the example and modified to 3 dimensions and changed the
> >> > translationtransform to an affine transform. Is there an example using
> >> > Affine that I can check? I'm thinking is not just changing the
> >> > transform,
> >> > there may be other variables I need to tweak..
> >> > Matias.
> >> >
> >> > El mi?., 11 de nov. de 2015 a la(s) 5:51 p. m., D?enan Zuki?
> >> > <dzenanz at gmail.com> escribi?:
> >> >>
> >> >> Nowhere, which means it's the >> operator's standard white-space
> >> >> separators (spaces, tabs, newlines).
> >> >>
> >> >> On Wed, Nov 11, 2015 at 3:03 PM, Matias Montroull <
> matimontg at gmail.com>
> >> >> wrote:
> >> >>>
> >> >>> by the way, where in the code is the space separator specified?
> >> >>>
> >> >>> El mi?., 11 de nov. de 2015 a la(s) 5:02 p. m., Matias Montroull
> >> >>> <matimontg at gmail.com> escribi?:
> >> >>>>
> >> >>>> that worked! Thanks for the advise, I was under the impression that
> >> >>>> points needed to be separated by ";"
> >> >>>> Thanks again
> >> >>>>
> >> >>>> El mi?., 11 de nov. de 2015 a la(s) 5:00 p. m., D?enan Zuki?
> >> >>>> <dzenanz at gmail.com> escribi?:
> >> >>>>>
> >> >>>>> By looking at the code, the numbers should be separated by space,
> >> >>>>> not
> >> >>>>> semicolon. Can you try that?
> >> >>>>>
> >> >>>>> HTH
> >> >>>>>
> >> >>>>> On Wed, Nov 11, 2015 at 2:51 PM, Matias Montroull
> >> >>>>> <matimontg at gmail.com>
> >> >>>>> wrote:
> >> >>>>>>
> >> >>>>>> Hi D?enan, thanks for the suggestion, I tried that example and I
> >> >>>>>> think
> >> >>>>>> I'm missign something as my disk drive became crazy.
> >> >>>>>> I basically created 2 txt files with a set of 4 points each in
> this
> >> >>>>>> format:
> >> >>>>>> -0.585938;92.406328;38.200
> >> >>>>>> 44.7654;52.73442;61.000
> >> >>>>>> -53.5;49.218792;68.200
> >> >>>>>> -1.757814;81.445382;70.600
> >> >>>>>>
> >> >>>>>> second file has the same format but different numbers of course.
> >> >>>>>>
> >> >>>>>> Is there anything wrong with how I entered the point sets in both
> >> >>>>>> files?
> >> >>>>>>
> >> >>>>>> As you can see it is 3 points per line separated by this
> character
> >> >>>>>> ";"
> >> >>>>>>
> >> >>>>>> Thanks,
> >> >>>>>>
> >> >>>>>> Matias.
> >> >>>>>>
> >> >>>>>>
> >> >>>>>> El mar., 10 de nov. de 2015 a la(s) 6:16 p. m., D?enan Zuki?
> >> >>>>>> <dzenanz at gmail.com> escribi?:
> >> >>>>>>>
> >> >>>>>>> Have you seen these two examples:
> >> >>>>>>>
> >> >>>>>>>
> >> >>>>>>>
> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv3_2IterativeClosestPoint3_8cxx-example.html
> >> >>>>>>>
> >> >>>>>>>
> >> >>>>>>>
> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv4_2IterativeClosestPoint3_8cxx-example.html
> >> >>>>>>>
> >> >>>>>>> HTH
> >> >>>>>>>
> >> >>>>>>> On Tue, Nov 10, 2015 at 3:18 PM, Matias Montroull
> >> >>>>>>> <matimontg at gmail.com> wrote:
> >> >>>>>>>>
> >> >>>>>>>> Hi,
> >> >>>>>>>>
> >> >>>>>>>> I have 2 sets of points (one is points on an image and another
> >> >>>>>>>> one
> >> >>>>>>>> is points on a NDI tracker) and I need to obtain the
> >> >>>>>>>> transformation matrix.
> >> >>>>>>>> What would be the best method? I'm currently using a Solver but
> >> >>>>>>>> I'd like to
> >> >>>>>>>> implement this using ITK and better if it is SimpleITK.
> >> >>>>>>>>
> >> >>>>>>>> Thank you!
> >> >>>>>>>>
> >> >>>>>>>> Matias.
> >> >>>>>>>> --
> >> >>>>>>>> Matias
> >> >>>>>>>>
> >> >>>>>>>> _____________________________________
> >> >>>>>>>> Powered by www.kitware.com
> >> >>>>>>>>
> >> >>>>>>>> Visit other Kitware open-source projects at
> >> >>>>>>>> http://www.kitware.com/opensource/opensource.html
> >> >>>>>>>>
> >> >>>>>>>> Kitware offers ITK Training Courses, for more information
> visit:
> >> >>>>>>>> http://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
> >> >>>>>>>>
> >> >>>>>>>
> >> >>>>>> --
> >> >>>>>> Matias
> >> >>>>>
> >> >>>>>
> >> >>>> --
> >> >>>> Matias
> >> >>>
> >> >>> --
> >> >>> Matias
> >> >>
> >> >>
> >> > --
> >> > Matias
> >> >
> >> > _____________________________________
> >> > Powered by www.kitware.com
> >> >
> >> > Visit other Kitware open-source projects at
> >> > http://www.kitware.com/opensource/opensource.html
> >> >
> >> > Kitware offers ITK Training Courses, for more information visit:
> >> > http://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
> >> >
> >>
> >> --
> >>
> >> Matias
> >
> > --
> > Matias
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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
>
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From lasso at queensu.ca  Wed Nov 11 17:09:01 2015
From: lasso at queensu.ca (Andras Lasso)
Date: Wed, 11 Nov 2015 22:09:01 +0000
Subject: [ITK-users] [ITK]  Pointset registration
In-Reply-To: <CAKKNfuKpVkNxqezooafd96sZvAwz8pkebGNJ=WJ3N5Q6igTfEg@mail.gmail.com>
References: <CAKKNfuLX=6ntsiFc_iXTpHGr2cGdOfNpjZZMacMjF6BuYoy-7Q@mail.gmail.com>
 <CAPf2UMRbSffEF0GFYs6n9nmgMOShCnbMAksXDWrYBGKFHnuSmQ@mail.gmail.com>
 <CAKKNfu+NXaRcAWJOgJUA+1GEiaG_whSRAFqYhB26O2m2LLqsVg@mail.gmail.com>
 <CAPf2UMQEx0O=Wk2FU0SvZzThHQDC0L-E5O1kng6Kf+G1+JVfKw@mail.gmail.com>
 <CAKKNfuL7Qp+3PEpXYp1G9Bqzp==WXTJG+Dzw5z0yTHYbFyeOgQ@mail.gmail.com>
 <CAKKNfuKUH1vXq0UGSQ0a1sYWeQx=hcZnELvbvBeMpoDp2gCb-w@mail.gmail.com>
 <CAPf2UMQT8Ni8rOUD8JpsyN6c5B0p58trT_GfHD2kjBHcohb5Gg@mail.gmail.com>
 <CAKKNfu+EsosxWk7OOH_MZ1rM9XgoK0ntXnjZgmDV2KDJYQf+cA@mail.gmail.com>
 <CALzTN-Te0orET64uAAg9nfx8Nv4doyimQVowSbE31S89E+5WuA@mail.gmail.com>
 <CAKKNfuKpVkNxqezooafd96sZvAwz8pkebGNJ=WJ3N5Q6igTfEg@mail.gmail.com>
Message-ID: <DM2PR07MB3500C847ED01886EB7FBE7BD8130@DM2PR07MB350.namprd07.prod.outlook.com>

It seems that you want to do a simple landmark registration (you touch exactly the same points with the stylus, in the same order, as you defined in the image). If this is the case, then you should not use ICP but itk::LandmarkBasedTransformInitializer (with optional preprocessing step to determine the scale), as it is done in this Slicer module:
https://github.com/Slicer/Slicer/blob/master/Modules/CLI/FiducialRegistration/FiducialRegistration.cxx

Andras


From: Community [mailto:community-bounces at itk.org] On Behalf Of Matias Montroull
Sent: Wednesday, November 11, 2015 4:58 PM
To: Matt McCormick <matt.mccormick at kitware.com>
Cc: insight-users at itk.org Users <insight-users at itk.org>
Subject: Re: [ITK] [ITK-users] Pointset registration

Yes, here it goes..

you will notice there are points that I had to repeat, the original dataset was 4 points on each file and I was getting warnings:  Number of unknowns(12) greater than number of data (4)

"puntosfijos.txt" is the fixed pointsets
"puntosflotantes.txt" is the moving pointset..

Thanks for your help.

Matias.

El mi?., 11 de nov. de 2015 a la(s) 6:43 p. m., Matt McCormick <matt.mccormick at kitware.com<mailto:matt.mccormick at kitware.com>> escribi?:
Hi Matias,

Can the datasets be shared?

Thanks,
Matt

On Wed, Nov 11, 2015 at 4:38 PM, Matias Montroull <matimontg at gmail.com<mailto:matimontg at gmail.com>> wrote:
> Thanks.
>
> Here's another question, it seems I need 12 points to perform the
> registration and obtain the matrix, now, the results I'm getting are not
> very good. We have the algorithm programmed manually (not using ITK) and
> when we compare the results are different (way too different).
> I just pulled the example and modified to 3 dimensions and changed the
> translationtransform to an affine transform. Is there an example using
> Affine that I can check? I'm thinking is not just changing the transform,
> there may be other variables I need to tweak..
> Matias.
>
> El mi?., 11 de nov. de 2015 a la(s) 5:51 p. m., D?enan Zuki?
> <dzenanz at gmail.com<mailto:dzenanz at gmail.com>> escribi?:
>>
>> Nowhere, which means it's the >> operator's standard white-space
>> separators (spaces, tabs, newlines).
>>
>> On Wed, Nov 11, 2015 at 3:03 PM, Matias Montroull <matimontg at gmail.com<mailto:matimontg at gmail.com>>
>> wrote:
>>>
>>> by the way, where in the code is the space separator specified?
>>>
>>> El mi?., 11 de nov. de 2015 a la(s) 5:02 p. m., Matias Montroull
>>> <matimontg at gmail.com<mailto:matimontg at gmail.com>> escribi?:
>>>>
>>>> that worked! Thanks for the advise, I was under the impression that
>>>> points needed to be separated by ";"
>>>> Thanks again
>>>>
>>>> El mi?., 11 de nov. de 2015 a la(s) 5:00 p. m., D?enan Zuki?
>>>> <dzenanz at gmail.com<mailto:dzenanz at gmail.com>> escribi?:
>>>>>
>>>>> By looking at the code, the numbers should be separated by space, not
>>>>> semicolon. Can you try that?
>>>>>
>>>>> HTH
>>>>>
>>>>> On Wed, Nov 11, 2015 at 2:51 PM, Matias Montroull <matimontg at gmail.com<mailto:matimontg at gmail.com>>
>>>>> wrote:
>>>>>>
>>>>>> Hi D?enan, thanks for the suggestion, I tried that example and I think
>>>>>> I'm missign something as my disk drive became crazy.
>>>>>> I basically created 2 txt files with a set of 4 points each in this
>>>>>> format:
>>>>>> -0.585938;92.406328;38.200
>>>>>> 44.7654;52.73442;61.000
>>>>>> -53.5;49.218792;68.200
>>>>>> -1.757814;81.445382;70.600
>>>>>>
>>>>>> second file has the same format but different numbers of course.
>>>>>>
>>>>>> Is there anything wrong with how I entered the point sets in both
>>>>>> files?
>>>>>>
>>>>>> As you can see it is 3 points per line separated by this character ";"
>>>>>>
>>>>>> Thanks,
>>>>>>
>>>>>> Matias.
>>>>>>
>>>>>>
>>>>>> El mar., 10 de nov. de 2015 a la(s) 6:16 p. m., D?enan Zuki?
>>>>>> <dzenanz at gmail.com<mailto:dzenanz at gmail.com>> escribi?:
>>>>>>>
>>>>>>> Have you seen these two examples:
>>>>>>>
>>>>>>> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv3_2IterativeClosestPoint3_8cxx-example.html
>>>>>>>
>>>>>>> http://www.itk.org/Doxygen/html/Examples_2RegistrationITKv4_2IterativeClosestPoint3_8cxx-example.html
>>>>>>>
>>>>>>> HTH
>>>>>>>
>>>>>>> On Tue, Nov 10, 2015 at 3:18 PM, Matias Montroull
>>>>>>> <matimontg at gmail.com<mailto:matimontg at gmail.com>> wrote:
>>>>>>>>
>>>>>>>> Hi,
>>>>>>>>
>>>>>>>> I have 2 sets of points (one is points on an image and another one
>>>>>>>> is points on a NDI tracker) and I need to obtain the transformation matrix.
>>>>>>>> What would be the best method? I'm currently using a Solver but I'd like to
>>>>>>>> implement this using ITK and better if it is SimpleITK.
>>>>>>>>
>>>>>>>> Thank you!
>>>>>>>>
>>>>>>>> Matias.
>>>>>>>> --
>>>>>>>> Matias
>>>>>>>>
>>>>>>>> _____________________________________
>>>>>>>> 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
>>>>>>>>
>>>>>>>
>>>>>> --
>>>>>> Matias
>>>>>
>>>>>
>>>> --
>>>> Matias
>>>
>>> --
>>> Matias
>>
>>
> --
> Matias
>
> _____________________________________
> 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
>
--
Matias
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From mlt.khawla at gmail.com  Thu Nov 12 07:39:46 2015
From: mlt.khawla at gmail.com (Daoued23)
Date: Thu, 12 Nov 2015 05:39:46 -0700 (MST)
Subject: [ITK-users] itk::BinaryThinningImageFilter3D
In-Reply-To: <CAJqi3E+kKumx7P97cu5bZb2Xav=E2cMiUz-UM-ufSDnW67PeYQ@mail.gmail.com>
References: <1447230797460-36449.post@n7.nabble.com>
 <CALzTN-QBNy-rhwcK==3ZMJZcLRvRtWnvfJmGu8KLgLn-cFuBEQ@mail.gmail.com>
 <CAJqi3E+kKumx7P97cu5bZb2Xav=E2cMiUz-UM-ufSDnW67PeYQ@mail.gmail.com>
Message-ID: <1447331986256-36465.post@n7.nabble.com>

Well, i tried it on a volume with more resolution, but I don't seem to get
the correct results.
Here is the input volume 
<http://itk-users.7.n7.nabble.com/file/n36465/8585.png> 


And here is the slice visualisation (in 3D we can see anything of the
thinned volume), the first image is the input volume, the second is the
thinned one.

<http://itk-users.7.n7.nabble.com/file/n36465/212121.png> 

<http://itk-users.7.n7.nabble.com/file/n36465/2121.png> 

Francisco can you walk me through what you did to get the correct skeleton?



--
View this message in context: http://itk-users.7.n7.nabble.com/itk-BinaryThinningImageFilter3D-tp36449p36465.html
Sent from the ITK - Users mailing list archive at Nabble.com.

From mlt.khawla at gmail.com  Thu Nov 12 07:42:44 2015
From: mlt.khawla at gmail.com (Daoued23)
Date: Thu, 12 Nov 2015 05:42:44 -0700 (MST)
Subject: [ITK-users] Euler Number of 3D object
In-Reply-To: <CAPf2UMQ-r4o7oK2K6yShi3uF8TH9FGyjkPH3PssHpER+ayFu_w@mail.gmail.com>
References: <1446734359688-36432.post@n7.nabble.com>
 <CAPf2UMQ-r4o7oK2K6yShi3uF8TH9FGyjkPH3PssHpER+ayFu_w@mail.gmail.com>
Message-ID: <1447332164660-36466.post@n7.nabble.com>

Thanks a lot D?enan.



--
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From dzenanz at gmail.com  Thu Nov 12 08:37:57 2015
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Thu, 12 Nov 2015 08:37:57 -0500
Subject: [ITK-users] itk::BinaryThinningImageFilter3D
In-Reply-To: <1447331986256-36465.post@n7.nabble.com>
References: <1447230797460-36449.post@n7.nabble.com>
 <CALzTN-QBNy-rhwcK==3ZMJZcLRvRtWnvfJmGu8KLgLn-cFuBEQ@mail.gmail.com>
 <CAJqi3E+kKumx7P97cu5bZb2Xav=E2cMiUz-UM-ufSDnW67PeYQ@mail.gmail.com>
 <1447331986256-36465.post@n7.nabble.com>
Message-ID: <CAPf2UMTim2=_LvRn0iV==36Zyjh+CP7iRv5cCE=sGaSr01RW5w@mail.gmail.com>

Hi Daoued,

It seems to me that the image you are using is not very amenable to
skeletonization. Have you tried applying it to something like airways in
the lung or branches of a tree? Or in fact anything which does not have a
lot of holes in it like that sponge you are trying to skeletonize?

Regards

On Thu, Nov 12, 2015 at 7:39 AM, Daoued23 <mlt.khawla at gmail.com> wrote:

> Well, i tried it on a volume with more resolution, but I don't seem to get
> the correct results.
> Here is the input volume
> <http://itk-users.7.n7.nabble.com/file/n36465/8585.png>
>
>
> And here is the slice visualisation (in 3D we can see anything of the
> thinned volume), the first image is the input volume, the second is the
> thinned one.
>
> <http://itk-users.7.n7.nabble.com/file/n36465/212121.png>
>
> <http://itk-users.7.n7.nabble.com/file/n36465/2121.png>
>
> Francisco can you walk me through what you did to get the correct skeleton?
>
>
>
> --
> View this message in context:
> http://itk-users.7.n7.nabble.com/itk-BinaryThinningImageFilter3D-tp36449p36465.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 mlt.khawla at gmail.com  Thu Nov 12 08:11:45 2015
From: mlt.khawla at gmail.com (Daoued23)
Date: Thu, 12 Nov 2015 06:11:45 -0700 (MST)
Subject: [ITK-users] itk::BinaryThinningImageFilter3D
In-Reply-To: <CAPf2UMTim2=_LvRn0iV==36Zyjh+CP7iRv5cCE=sGaSr01RW5w@mail.gmail.com>
References: <1447230797460-36449.post@n7.nabble.com>
 <CALzTN-QBNy-rhwcK==3ZMJZcLRvRtWnvfJmGu8KLgLn-cFuBEQ@mail.gmail.com>
 <CAJqi3E+kKumx7P97cu5bZb2Xav=E2cMiUz-UM-ufSDnW67PeYQ@mail.gmail.com>
 <1447331986256-36465.post@n7.nabble.com>
 <CAPf2UMTim2=_LvRn0iV==36Zyjh+CP7iRv5cCE=sGaSr01RW5w@mail.gmail.com>
Message-ID: <1447333905475-36468.post@n7.nabble.com>

I tried it on a simple rectangular parallelepiped 
<http://itk-users.7.n7.nabble.com/file/n36468/14.png> , I am supposed to get
this skeleton  <http://itk-users.7.n7.nabble.com/file/n36468/16.png> , but
when I apply itk::BinaryThinningImageFilter3D I only get this 
<http://itk-users.7.n7.nabble.com/file/n36468/13.png> .



--
View this message in context: http://itk-users.7.n7.nabble.com/itk-BinaryThinningImageFilter3D-tp36449p36468.html
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From franciscolopezdelafranca at gmail.com  Thu Nov 12 09:00:43 2015
From: franciscolopezdelafranca at gmail.com (Francisco Lopez de la Franca)
Date: Thu, 12 Nov 2015 15:00:43 +0100
Subject: [ITK-users] itk::BinaryThinningImageFilter3D
In-Reply-To: <1447331986256-36465.post@n7.nabble.com>
References: <1447230797460-36449.post@n7.nabble.com>
 <CALzTN-QBNy-rhwcK==3ZMJZcLRvRtWnvfJmGu8KLgLn-cFuBEQ@mail.gmail.com>
 <CAJqi3E+kKumx7P97cu5bZb2Xav=E2cMiUz-UM-ufSDnW67PeYQ@mail.gmail.com>
 <1447331986256-36465.post@n7.nabble.com>
Message-ID: <CAJqi3EJ8DCsPp3qTzK5JOvtTsQioH5fLUiy=DEH-6Xmp0X5-JQ@mail.gmail.com>

Looking at your code, everything seems to be ok. I coded the same
instructions.
My image was a T1 or FLAIR MRI image in NIFTI format.
Anyway, what is the result you are expecting, because maybe your result is
correct?

2015-11-12 13:39 GMT+01:00 Daoued23 <mlt.khawla at gmail.com>:

> Well, i tried it on a volume with more resolution, but I don't seem to get
> the correct results.
> Here is the input volume
> <http://itk-users.7.n7.nabble.com/file/n36465/8585.png>
>
>
> And here is the slice visualisation (in 3D we can see anything of the
> thinned volume), the first image is the input volume, the second is the
> thinned one.
>
> <http://itk-users.7.n7.nabble.com/file/n36465/212121.png>
>
> <http://itk-users.7.n7.nabble.com/file/n36465/2121.png>
>
> Francisco can you walk me through what you did to get the correct skeleton?
>
>
>
> --
> View this message in context:
> http://itk-users.7.n7.nabble.com/itk-BinaryThinningImageFilter3D-tp36449p36465.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 mlt.khawla at gmail.com  Thu Nov 12 08:36:46 2015
From: mlt.khawla at gmail.com (Daoued23)
Date: Thu, 12 Nov 2015 06:36:46 -0700 (MST)
Subject: [ITK-users] itk::BinaryThinningImageFilter3D
In-Reply-To: <CAJqi3EJ8DCsPp3qTzK5JOvtTsQioH5fLUiy=DEH-6Xmp0X5-JQ@mail.gmail.com>
References: <1447230797460-36449.post@n7.nabble.com>
 <CALzTN-QBNy-rhwcK==3ZMJZcLRvRtWnvfJmGu8KLgLn-cFuBEQ@mail.gmail.com>
 <CAJqi3E+kKumx7P97cu5bZb2Xav=E2cMiUz-UM-ufSDnW67PeYQ@mail.gmail.com>
 <1447331986256-36465.post@n7.nabble.com>
 <CAJqi3EJ8DCsPp3qTzK5JOvtTsQioH5fLUiy=DEH-6Xmp0X5-JQ@mail.gmail.com>
Message-ID: <1447335406758-36470.post@n7.nabble.com>

I want to get a thinned volume with the same topology as the input volume. It
is mentioned that the "connectivity is preserved" when applying this filter,
but you can see (through my example) that it is not.



--
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Sent from the ITK - Users mailing list archive at Nabble.com.

From mihail.isakov at googlemail.com  Thu Nov 12 09:45:59 2015
From: mihail.isakov at googlemail.com (Mihail Isakov)
Date: Thu, 12 Nov 2015 15:45:59 +0100
Subject: [ITK-users] Definition of ITK orientation code
Message-ID: <CAJYHnFKoE5GCKyzR6ot1UdLJNGq2uFQMTfKrmGBafTdZHhfsgQ@mail.gmail.com>

Is the definition of ITK orientation code below correct?

"The orientation code maps the voxel coordinate system I (column) J
(row) K (slice) to patient's right-handed coordinate system X Y Z.
Minor rank notation is used, characters R, L, A, P, I, S identify
'from' direction.

RAI means:
X: Right to left
Y: Anterior to  posterior
Z: Inferior to superior

Note: sometimes major rank notation ('to') is used, the same
coordinate system may be called DICOM LPS or Nrrd
left-posterior-superior (right to Left, anterior to Posterior,
inferior to Superior)."

From chinander at gmail.com  Thu Nov 12 10:07:24 2015
From: chinander at gmail.com (Mike Chinander)
Date: Thu, 12 Nov 2015 09:07:24 -0600
Subject: [ITK-users] Definition of ITK orientation code
In-Reply-To: <CAJYHnFKoE5GCKyzR6ot1UdLJNGq2uFQMTfKrmGBafTdZHhfsgQ@mail.gmail.com>
References: <CAJYHnFKoE5GCKyzR6ot1UdLJNGq2uFQMTfKrmGBafTdZHhfsgQ@mail.gmail.com>
Message-ID: <CAEb_q0co=J8ditrhK=yyj4FD=r2jK6o6Thij7yaG0eOgaM8n7w@mail.gmail.com>

Which part do you think is incorrect? Be aware that 'right to left' in this
sense is the patient's right and left.

On Thu, Nov 12, 2015 at 8:45 AM, Mihail Isakov via Insight-users <
insight-users at itk.org> wrote:

> Is the definition of ITK orientation code below correct?
>
> "The orientation code maps the voxel coordinate system I (column) J
> (row) K (slice) to patient's right-handed coordinate system X Y Z.
> Minor rank notation is used, characters R, L, A, P, I, S identify
> 'from' direction.
>
> RAI means:
> X: Right to left
> Y: Anterior to  posterior
> Z: Inferior to superior
>
> Note: sometimes major rank notation ('to') is used, the same
> coordinate system may be called DICOM LPS or Nrrd
> left-posterior-superior (right to Left, anterior to Posterior,
> inferior to Superior)."
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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 mihail.isakov at googlemail.com  Thu Nov 12 10:37:15 2015
From: mihail.isakov at googlemail.com (Mihail Isakov)
Date: Thu, 12 Nov 2015 16:37:15 +0100
Subject: [ITK-users] Definition of ITK orientation code
In-Reply-To: <CAEb_q0co=J8ditrhK=yyj4FD=r2jK6o6Thij7yaG0eOgaM8n7w@mail.gmail.com>
References: <CAJYHnFKoE5GCKyzR6ot1UdLJNGq2uFQMTfKrmGBafTdZHhfsgQ@mail.gmail.com>
 <CAEb_q0co=J8ditrhK=yyj4FD=r2jK6o6Thij7yaG0eOgaM8n7w@mail.gmail.com>
Message-ID: <CAJYHnFJgW3kE3z=kDZhWzc0wdDCUz9z+nAdo4Dg3XgsN+L=yJQ@mail.gmail.com>

> Be aware that 'right to left' in this sense is the patient's right and left.

 yes, thank you, changed a little to clarify this

"The orientation code maps the voxel coordinate system I (column) J
(row) K (slice) to right-handed coordinate system X Y Z.
Minor rank notation is used, characters R, L, A, P, I, S identify
'from' direction.

RAI means:
X: patient Right to left
Y: patient Anterior to  posterior
Z: patient Inferior to superior

Note: sometimes major rank notation ('to') is used, the same
coordinate system may be called DICOM LPS or Nrrd
left-posterior-superior (right to Left, anterior to Posterior,
inferior to Superior)."

Regards,

Mihail

From marcospuenteblanco at hotmail.com  Sat Nov 14 06:54:07 2015
From: marcospuenteblanco at hotmail.com (Marcos Puente Blanco)
Date: Sat, 14 Nov 2015 12:54:07 +0100
Subject: [ITK-users] How can I read a dicom from database with SimpleITK
In-Reply-To: <DUB121-W45AF3D353EB9BEBC5CDE48DC110@phx.gbl>
References: <DUB121-W45AF3D353EB9BEBC5CDE48DC110@phx.gbl>
Message-ID: <DUB121-W168FEE64489D2FB765241FDC100@phx.gbl>



From: marcospuenteblanco at hotmail.com
To: insight-users at itk.org
Subject: How can I read a dicom from database with SimpleITK
Date: Fri, 13 Nov 2015 19:35:58 +0100




How can I do to read a dicom from database?
The methods I found only could read a file from a directory but how can I do to read from a MongoDB database for example.I need to retrieve it from the database save it as a file and then read it ? 		 	   		   		 	   		  
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From matt.mccormick at kitware.com  Mon Nov 16 10:11:11 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Mon, 16 Nov 2015 10:11:11 -0500
Subject: [ITK-users] Compile ITK for iPhone
In-Reply-To: <1446880952822-7588149.post@n2.nabble.com>
References: <1446685276695-7588136.post@n2.nabble.com>
 <1446819343470-7588145.post@n2.nabble.com>
 <CALzTN-RRRvu0yPGVCvBFXpcaTWdA8u0DsTQmrGbSU-42NNiDaA@mail.gmail.com>
 <1446880952822-7588149.post@n2.nabble.com>
Message-ID: <CALzTN-SYR1crYUMPFte3PO8aLR1UcCtcaP4P76iijKhm2x4d8A@mail.gmail.com>

Hi Yassin,

> The CMake warning about MacOSX10.10.sdk does not exist solved by,
>
> -First go to
> "/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs"
> to find out if the SDK is there or not, i found elder version
> MacOSX10.9.sdk. So after run "cmake -GXcode ITK-Source_Dir" and generate the
> build files you have to change the CMakeCache.txt  "CMAKE_OSX_SYSROOT:PATH="
> to your current SDK version and then run "cmake -GXcode ITK-Source_Dir"
> again and the warning won't show.

This could be set by passing
-DCMAKE_OSX_SYSROOT=/your/current/sdk/path on the command line when
configuring with CMake.


> -The "vnl_math.cxx" generated in the build.

What is the issue here?


> -- But I face another problem with "vnl_math.cxx" when i added the "#define
> finite(x) ? ? __inline_isfinited((double)x)" line as mention in the
> tutorial,  error with "Expected expression" found and i can't run the
> project.

Which tutorial are you referring to?


Thanks,
Matt

From bakkari.abdelkhalek at hotmail.fr  Tue Nov 17 07:38:06 2015
From: bakkari.abdelkhalek at hotmail.fr (Abdelkhalek Bakkari)
Date: Tue, 17 Nov 2015 13:38:06 +0100
Subject: [ITK-users] VTK edge Paint Brush
Message-ID: <DUB129-W641561D572DE99247A9E3E831D0@phx.gbl>

Dear ITK users,
I am trying to include the VTK edge -Paint Brush- to my interface.Could you tell me the steps of using VTK edge like in the test 1 of the following link :
http://vtkedge.sourcearchive.com/documentation/0.1.0-3/PaintbrushTest1_8cxx-source.html

Best regards, 		 	   		  
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From matt.mccormick at kitware.com  Tue Nov 17 10:23:59 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Tue, 17 Nov 2015 10:23:59 -0500
Subject: [ITK-users] [ANN] ITK 4.8.2 has been released!
Message-ID: <CALzTN-T7WTcLwTrpfTJZ_F7DN5dJHeDN5zRTcxWLKdcz+jb4bA@mail.gmail.com>

On behalf of the Insight Toolkit Community, we are happy to announce
the release of ITK 4.8.2!

Release files can be downloaded from:

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

This is a patch release that fixes critical issues, regressions,
documentation, and compiler support. For compiler support, this
release adds support for Visual Studio 2015 and addresses CMake
configuration on some newer Linux distributions with separate
packaging of the gold linker. There are also a number of other various
fixes, described in the log below. Thanks to all the contributors.

The next feature release, 4.9.0, is scheduled for December, and it
will feature many exciting enhancements!


Enjoy ITK!


Changes from v4.8.1 to v4.8.2:

Bradley Lowekamp (5):
      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
      BUG: Fix segfault when with empty IsolatedWatershed Threshold range
      BUG: Reduce number of targets with MSVC

Davis Vigneault (3):
      COMP: Warnings in itkVTKImageExport when compiling with c++11
      DOC: Expanded Canny Edge Detection Example
      COMP: Warnings in FFTW Classes when compiling with c++11

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

Hans Johnson (5):
      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

Hyun Jae Kang (5):
      BUG: Fix HDF5 CMake configuration with VS2015
      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
      COMP: Fix data-conversion warning messages on Windows

Matthew McCormick (10):
      COMP: Do not use C++11 alignas in itkAlignedTypedef.
      COMP: Remove unused argument in ConditionVariableNoThreads.
      DOC: Correct spelling of Continuous.
      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
      COMP: Set CMP0054 to new.
      BUG: Remove duplicate inclusion of wrapping submodules.
      BUG: Fix detection of the gold linker.
      ENH: Bump CMakeLists.txt version to 4.8.2.

Michka Popoff (1):
      COMP: Disable incompatible modules when using Python 3 wrapping

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

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

From yassminabdallah at gmail.com  Wed Nov 18 02:16:39 2015
From: yassminabdallah at gmail.com (Yassmin)
Date: Wed, 18 Nov 2015 00:16:39 -0700 (MST)
Subject: [ITK-users] Compile ITK for iPhone
In-Reply-To: <CALzTN-SYR1crYUMPFte3PO8aLR1UcCtcaP4P76iijKhm2x4d8A@mail.gmail.com>
References: <1446685276695-7588136.post@n2.nabble.com>
 <1446819343470-7588145.post@n2.nabble.com>
 <CALzTN-RRRvu0yPGVCvBFXpcaTWdA8u0DsTQmrGbSU-42NNiDaA@mail.gmail.com>
 <1446880952822-7588149.post@n2.nabble.com>
 <CALzTN-SYR1crYUMPFte3PO8aLR1UcCtcaP4P76iijKhm2x4d8A@mail.gmail.com>
Message-ID: <1447830999958-7588183.post@n2.nabble.com>

Hello Matt,

i'm sorry for all these confused mails, i have a different result each time
i built ITK that made me not certain about anything,

Recently i use Xcode 7 on OS X el captain and the latest release from ITK
4.8.2. i follow this tutorial 
http://www.cs.sfu.ca/~hamarneh/ecopy/ij2010a.pdf

1- build itk using cmake through Xcode command GXcode and the build was
successfully.
2- build the Xcode project on OS X under "Release" option and it was
successfully.
3- error appear in vl_math when built the project under "iOS architecture",
add this line "#define finite(x) ??inline?isfinited((double)x)" solve the
problem, i didn't remove any dependance target as by remove them like the
tutorial said i face some errors so i just left them.
4- the library files didn't appear in this path "ITK BINARY
DIR/bin/Release", i found them in /ITKBin/ITKBuild/lib/Debug.


i now face the problem of add these paths to Header Search as they didn't
exists, 
? ITK SOURCE DIR/Code/Common
? ITK SOURCE DIR/Utilities/vxl/vcl
? ITK SOURCE DIR/Utilities/vxl/core
? ITK BINARY DIR/Utilities/vxl/vcl
? ITK BINARY DIR/Utilities/vxl/core
? ITK BINARY DIR


unfortunately i didn't know if i walk through the correct path or not for
build ITK.





--
View this message in context: http://itk-insight-users.2283740.n2.nabble.com/Compile-ITK-for-iPhone-tp7588136p7588183.html
Sent from the ITK Insight Users mailing list archive at Nabble.com.

From matt.mccormick at kitware.com  Wed Nov 18 17:13:58 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Wed, 18 Nov 2015 17:13:58 -0500
Subject: [ITK-users] Compile ITK for iPhone
In-Reply-To: <1447830999958-7588183.post@n2.nabble.com>
References: <1446685276695-7588136.post@n2.nabble.com>
 <1446819343470-7588145.post@n2.nabble.com>
 <CALzTN-RRRvu0yPGVCvBFXpcaTWdA8u0DsTQmrGbSU-42NNiDaA@mail.gmail.com>
 <1446880952822-7588149.post@n2.nabble.com>
 <CALzTN-SYR1crYUMPFte3PO8aLR1UcCtcaP4P76iijKhm2x4d8A@mail.gmail.com>
 <1447830999958-7588183.post@n2.nabble.com>
Message-ID: <CALzTN-Skf7SmOtbrxniqxnwC5QvyiArZT+DngQhgx-85CBWSGA@mail.gmail.com>

Hi Yassmin,

> Recently i use Xcode 7 on OS X el captain and the latest release from ITK
> 4.8.2. i follow this tutorial
> http://www.cs.sfu.ca/~hamarneh/ecopy/ij2010a.pdf
>
> 1- build itk using cmake through Xcode command GXcode and the build was
> successfully.
> 2- build the Xcode project on OS X under "Release" option and it was
> successfully.
> 3- error appear in vl_math when built the project under "iOS architecture",
> add this line "#define finite(x) ??inline?isfinited((double)x)" solve the
> problem, i didn't remove any dependance target as by remove them like the
> tutorial said i face some errors so i just left them.

It looks like this should be handled similarly to "isnan" in
vnl_math.cxx and in the VNL CMake configuration.


> 4- the library files didn't appear in this path "ITK BINARY
> DIR/bin/Release", i found them in /ITKBin/ITKBuild/lib/Debug.
>
>
> i now face the problem of add these paths to Header Search as they didn't
> exists,
> ? ITK SOURCE DIR/Code/Common
> ? ITK SOURCE DIR/Utilities/vxl/vcl
> ? ITK SOURCE DIR/Utilities/vxl/core
> ? ITK BINARY DIR/Utilities/vxl/vcl
> ? ITK BINARY DIR/Utilities/vxl/core
> ? ITK BINARY DIR

These are paths related to ITKv3.  There are many more and different
paths for ITKv4.  If you use CMake to configure your project, they
will automatically be populated.


HTH,
Matt

From cervellone at gmail.com  Fri Nov 20 09:42:28 2015
From: cervellone at gmail.com (cervellone at gmail.com)
Date: Fri, 20 Nov 2015 15:42:28 +0100
Subject: [ITK-users] image spacing and structuring element sizes
Message-ID: <CAO8H67Mo48ym-iMNZ4-bemnKVZOz_LbwQ1Wuw3aTassW77-Zww@mail.gmail.com>

Dear all

I was wondering if structuring element operations take the image spacing
into account.

For example that a ball structuring element gets transformed accordingly to
image spacing in order to give a correct result specified by the radius. If
not, is there a possibility to use an elipsoid ?


Thanks

Jp
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From matt.mccormick at kitware.com  Fri Nov 20 11:15:31 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Fri, 20 Nov 2015 11:15:31 -0500
Subject: [ITK-users] image spacing and structuring element sizes
In-Reply-To: <CAO8H67Mo48ym-iMNZ4-bemnKVZOz_LbwQ1Wuw3aTassW77-Zww@mail.gmail.com>
References: <CAO8H67Mo48ym-iMNZ4-bemnKVZOz_LbwQ1Wuw3aTassW77-Zww@mail.gmail.com>
Message-ID: <CALzTN-Q1jKkeqqAfG1mz7MDLoDdzA_BAkRYL8rMeuMYbWDv7HA@mail.gmail.com>

Dear Jp,

Since the operations occur pixel-wise, the sizes are given in pixels
that do not take into account image spacing.  However, the size can be
specified differently in each direction.  More details can be found in
the FlatStructuringElement documentation. [1].

HTH,
Matt

[1] http://www.itk.org/Doxygen/html/classitk_1_1FlatStructuringElement.html

On Fri, Nov 20, 2015 at 9:42 AM,  <cervellone at gmail.com> wrote:
> Dear all
>
> I was wondering if structuring element operations take the image spacing
> into account.
>
> For example that a ball structuring element gets transformed accordingly to
> image spacing in order to give a correct result specified by the radius. If
> not, is there a possibility to use an elipsoid ?
>
>
> Thanks
>
> Jp
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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 sepideh.movaghati at gmail.com  Sat Nov 21 20:47:06 2015
From: sepideh.movaghati at gmail.com (Sepideh's Gmail)
Date: Sat, 21 Nov 2015 20:47:06 -0500
Subject: [ITK-users] Error in itk::BinaryMask3DMeshSource when using Mesh
	with arbitrary CellDataType
Message-ID: <8BA343D7-D6C1-4616-8D75-5830A335FC84@gmail.com>

Hello, 

I am facing a problem working with itk::Mesh objects. This class is templated on the TMeshTrait which itself is templated on TCellPixelType. 
Since I can define an arbitrary Cell/PointDataType for my mesh, I created an itk::Mesh with CellDataType being std::pair<int,int> without any problem.
However, when I tried to use my mesh type as the OutputMeshType of itk::BinaryMask3DMeshSource filter I got type-casting error. Looking at itkBinaryMask3DMeshSource.hxx source code, I noticed that this filter is initializing Cell data to 0.0, meaning it assumes the CellDataType to always be castable to double (which my std::pair<> type was obviously not>. 

I wonder why this filter is written in away that constrains the available flexibility in itk::Mesh type. 

Thanks for your help in advance.
Regards,
Sepide

From arnaudgelas at gmail.com  Mon Nov 23 04:03:07 2015
From: arnaudgelas at gmail.com (Arnaud Gelas)
Date: Mon, 23 Nov 2015 10:03:07 +0100
Subject: [ITK-users] Error in itk::BinaryMask3DMeshSource when using
 Mesh with arbitrary CellDataType
In-Reply-To: <8BA343D7-D6C1-4616-8D75-5830A335FC84@gmail.com>
References: <8BA343D7-D6C1-4616-8D75-5830A335FC84@gmail.com>
Message-ID: <5652D64B.4060307@gmail.com>

Hi Sepide,

You are right, there is no need for this filter to call SetCellData, it 
would be great if you could submit a patch to fix it!

Have a look at

     http://www.itk.org/Wiki/ITK/Git/Develop

Best,
Arnaud

On 22.11.2015 02:47, Sepideh's Gmail wrote:
> Hello,
>
> I am facing a problem working with itk::Mesh objects. This class is templated on the TMeshTrait which itself is templated on TCellPixelType.
> Since I can define an arbitrary Cell/PointDataType for my mesh, I created an itk::Mesh with CellDataType being std::pair<int,int> without any problem.
> However, when I tried to use my mesh type as the OutputMeshType of itk::BinaryMask3DMeshSource filter I got type-casting error. Looking at itkBinaryMask3DMeshSource.hxx source code, I noticed that this filter is initializing Cell data to 0.0, meaning it assumes the CellDataType to always be castable to double (which my std::pair<> type was obviously not>.
>
> I wonder why this filter is written in away that constrains the available flexibility in itk::Mesh type.
>
> Thanks for your help in advance.
> Regards,
> Sepide
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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 fisidoro at ethz.ch  Mon Nov 23 15:38:39 2015
From: fisidoro at ethz.ch (D'Isidoro  Fabio)
Date: Mon, 23 Nov 2015 20:38:39 +0000
Subject: [ITK-users] FW:  ITK Python wrapping
In-Reply-To: <50B858FB5F53124F9E32314E5C1B409435ACEE97@MBX212.d.ethz.ch>
References: <50B858FB5F53124F9E32314E5C1B409435ACEA2D@MBX212.d.ethz.ch>
 <CALzTN-R2_viV6Y0-AkNpmicZTOaaA98E99ReZSoWkU6tb_xuYQ@mail.gmail.com>
 <50B858FB5F53124F9E32314E5C1B409435ACEB17@MBX212.d.ethz.ch>
 <CALzTN-R3f+fi5pRze+a68d14YgLcYJPCnwwjPnz5Fm9W4hBV8A@mail.gmail.com>
 <50B858FB5F53124F9E32314E5C1B409435ACECAC@MBX212.d.ethz.ch>
 <CALzTN-SX9vduwxUSTi-XFVStWLCTYCdGccjEPy6a+XiEtH1Ryg@mail.gmail.com>
 <50B858FB5F53124F9E32314E5C1B409435ACED36@MBX212.d.ethz.ch>
 <CALzTN-SH7qnfGH_qHoXib6iVOf_W0kHnDDtVsC3oHhp7j5YEcg@mail.gmail.com>
 <50B858FB5F53124F9E32314E5C1B409435ACEE97@MBX212.d.ethz.ch>
Message-ID: <50B858FB5F53124F9E32314E5C1B409435AFE854@MBX112.d.ethz.ch>

Hi Matt,

Since my ITK with Python wrapping build on Visual Studio 2012 worked only in RELEASE mode (while not in Debug), my projects succeed to build only in Release mode (because there is no Debug folder with all the necessary compiled libraries and pyd files). That means that I cannot Debug step by step my codes with breakpoints (that works only in Debug mode in Visual Studio), and makes it impossible programming.

What's your solution?

Thank you!

----------------------------------------------------------------------
Fabio D?Isidoro
PhD Student ? Institute for Biomechanics, ETH Z?rich 
HPP O 14, Schafmattstrasse 30, 8093 Zuerich, Switzerland
Tel: +41 44 633 40 60

-----Original Message-----
From: Insight-users [mailto:insight-users-bounces at itk.org] On Behalf Of D'Isidoro Fabio
Sent: Mittwoch, 26. August 2015 16:42
To: Matt McCormick
Cc: insight-users at itk.org
Subject: Re: [ITK-users] FW: ITK Python wrapping

Hi Matt,

I did the build again and this time everything is working properly :)

As a summary of my issue: the key factor is that building ITK with Python Wrapping on Visual Studio on DEBUG mode did not produced the required *.pyd files. So in the guide you may want to remind an unexperienced Windows user that the build should be performed on RELEADE mode. My second problem was that the build did not work the first time for one of the modules.

Just to figure out how to write in python with itk: I was trying to be lucky and to run an example similar to the example ImageRegistration3.py in the Examples folder of InsightToolkit-4.8.0 (in attachment). I start the code with 'import itk'. However fixedImageReader  = itk.ImageFileReaderF2.New()' returns an error. Is this an old version and should I just write ' fixedImageReader  = itk.ImageFileReader[ImageType].New()' instead? 

Which guide should I look for figuring these things out?

Thank you for your valuable support.

-----Original Message-----
From: Matt McCormick [mailto:matt.mccormick at kitware.com] 
Sent: Dienstag, 25. August 2015 18:38
To: D'Isidoro Fabio
Cc: insight-users at itk.org
Subject: Re: FW: [ITK-users] ITK Python wrapping

Hi Fabio,

We are making good progress :-).

The build log indicates that the build did not complete correctly:

           Traceback (most recent call last):
           File
"C:/Users/difabio/ITK/InsightToolkit-4.8.0/Wrapping/Generators/SwigInterface/igenerator.py",
line 923, in <module>
             with open(options.typedef_output, "w") as f:
         IOError: [Errno 13] Permission denied:
'E:/ITK/ITK_bin_Win64_Python_Wrap/Wrapping/Typedefs/itkAffineTransformSwigInterface.h'
     1>C:\Program Files
(x86)\MSBuild\Microsoft.Cpp\v4.0\V110\Microsoft.CppCommon.targets(172,5):
error MSB6006: "cmd.exe" exited with code 1.
     1>Done Building Project
"E:\ITK\ITK_bin_Win64_Python_Wrap\Wrapping\Modules\ITKTransform\ITKTransformPython.vcxproj"
(Build target(s)) -- FAILED.

Please make sure the directory is writable, and run the build again.
Sometimes, for example, anti-virus software can interfere with a build, and it should be disabled on a build directory.

Hope this helps,
Matt

On Tue, Aug 25, 2015 at 11:25 AM, D'Isidoro  Fabio <fisidoro at ethz.ch> wrote:
> Hi Matt,
>
> Thank you. Actually I have the .dll in the bin/release.
>
> Shortly, I (redundantly) added then ITKbuild/bin, ITKbuild/bin/release, ITKbuild/lib, ITKbuild/lib/release to BOTH my PATH environmental variable and the WrapITK.pth. Still not working, however I have a new error (see attachment 'error').
>
> Therefore I went to check the ITKTransformPython module but it's not there in lib/Release where all other .lib files relative to the other modules are. I went in the directory shown in attachment 'directory' (it's in the Wrapping/Module/.. directory) and found a  log file (attachment): the build of this module failed (I check other modules and there build there did not fail). Could you please read the log? Why did just this module fail?
>
> Thank you again!
>
> -----Original Message-----
> From: Matt McCormick [mailto:matt.mccormick at kitware.com]
> Sent: Dienstag, 25. August 2015 16:31
> To: D'Isidoro Fabio; insight-users at itk.org
> Subject: Re: FW: [ITK-users] ITK Python wrapping
>
> Hi Fabio,
>
> Thanks for the updates.
>
> The apparent errors are not actual errors.  These result when CMake configuration runs (indicated by the preceding "--"), and CMake tests the availability of compiler features with try_compiles [1].  If an error occurs, then that feature is not used in the build.
>
> It is good to see that the *.pyd files are there and your Python path.
> There should still be *.dll files whose folder needs to be added to the PATH system environmental variable.  These are usually in the "bin" instead of "lib" directory. Search for a file "ITKCommon-4.8.dll" if you built ITK 4.8.
>
> Hope this helps,
> Matt
>
> PS. Please reply-to-all so conversations remain on the mailing lists.
>
> [1] http://www.cmake.org/cmake/help/v3.3/command/try_compile.html
>
> On Tue, Aug 25, 2015 at 3:02 AM, D'Isidoro  Fabio <fisidoro at ethz.ch> wrote:
>> Sorry forgot the attachments
>>
>> -----Original Message-----
>> From: D'Isidoro Fabio
>> Sent: Dienstag, 25. August 2015 09:01
>> To: 'Matt McCormick'
>> Subject: RE: [ITK-users] ITK Python wrapping
>>
>> One more thing: in the guide it's written to add to the PATH the directories containing the .dll files, suggesting ITKbuild, ITKbuild/bin and ITKbuild/bin/Release.
>>
>> However as you can see from the attachments the suggested directory has only executables, while the .lib files (I don't have .dll files) are in the ITKbuild/lib/Release (second attachment)...
>>
>> Anyway I tried to add the the ITKbuild/lib/Release directory to the PATH but it did not work either.
>>
>>
>> -----Original Message-----
>> From: Matt McCormick [mailto:matt.mccormick at kitware.com]
>> Sent: Montag, 24. August 2015 17:08
>> To: D'Isidoro Fabio
>> Cc: insight-users at itk.org
>> Subject: Re: [ITK-users] ITK Python wrapping
>>
>> Hi Fabio,
>>
>>> - Well, I have a ITKPyBasePython.pyc file in the ITK lib (and the things you told me to check are allright). So the difference is that the name has no underscore _ITKPyBasePython (as reported in the error) and the extension is pyc rather than pyd (although I have read it should not make the difference). Are those things relevant? If yes, how to correct for them? Maybe the dlls were not properly compiled so the underscore is missing?
>>
>> Both the .pyc and the .pyd files are required.
>>
>>
>>> Depending on your reply to this email, I will then try to build ITK with Python wrapping again so that I can report the compilation failures I got regarding CastXML.
>>
>> Great, thank you.  A Release build instead of a Debug build is recommended -- build size and runtime performance are greatly improved.  There is on going work to substantially decrease the wrapping build time in ITK Git master, but it is currently unstable.
>> The 4.8.0 release is recommended until that is resolved.
>>
>>
>>> About the symbolic link, I just read on the guide "ln -s /path/to/ITK-Wrapped/Wrapping/Generators/Python/WrapITK.pth" and went to find out what ln -s was ... but you are right, the guide says to copy the file, so I guess you don't have improve this part. Maybe just specifiy that there is no need to download Swig.
>>
>> Thanks for the feedback.  We will improve the wrapping process description.
>>
>>
>>> Thank you, I have spent 5 long days already with no success on this issue (which seems to me a very common issue for users willing to use the Python wrapping, from my extensive google search).
>>
>> Yes, wrapping has been difficult in the past, but things are changing.
>> With your help, it will improve even quicker :-).
>>
>>
>> Thanks,
>> Matt

From matt.mccormick at kitware.com  Mon Nov 23 16:22:42 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Mon, 23 Nov 2015 16:22:42 -0500
Subject: [ITK-users] FW: ITK Python wrapping
In-Reply-To: <50B858FB5F53124F9E32314E5C1B409435AFE854@MBX112.d.ethz.ch>
References: <50B858FB5F53124F9E32314E5C1B409435ACEA2D@MBX212.d.ethz.ch>
 <CALzTN-R2_viV6Y0-AkNpmicZTOaaA98E99ReZSoWkU6tb_xuYQ@mail.gmail.com>
 <50B858FB5F53124F9E32314E5C1B409435ACEB17@MBX212.d.ethz.ch>
 <CALzTN-R3f+fi5pRze+a68d14YgLcYJPCnwwjPnz5Fm9W4hBV8A@mail.gmail.com>
 <50B858FB5F53124F9E32314E5C1B409435ACECAC@MBX212.d.ethz.ch>
 <CALzTN-SX9vduwxUSTi-XFVStWLCTYCdGccjEPy6a+XiEtH1Ryg@mail.gmail.com>
 <50B858FB5F53124F9E32314E5C1B409435ACED36@MBX212.d.ethz.ch>
 <CALzTN-SH7qnfGH_qHoXib6iVOf_W0kHnDDtVsC3oHhp7j5YEcg@mail.gmail.com>
 <50B858FB5F53124F9E32314E5C1B409435ACEE97@MBX212.d.ethz.ch>
 <50B858FB5F53124F9E32314E5C1B409435AFE854@MBX112.d.ethz.ch>
Message-ID: <CALzTN-SLOrgf=EsFwgL1jK5_3JzasbwjCKr5_jCY97ot=c4+Kg@mail.gmail.com>

Dear Fabio,

To debug an ITK Python script, the ITK Python wrappings do not need to
be built with a Debug CMake build type -- any Python interpreter or
IDE can be used for debugging. At a basic level, the pdb Python module
gives gdb like functionality [1]. Newer versions of Visual Studio also
have better Python integration. Or, there are many other very nice
Python IDE's out there.  My personal favorite Python development and
debugging tool is IPython [2].


For ITK 4.9, the Python development guidelines in the ITK Software
Guide were improved based on your feedback in addition to other
improvements [3].  Also, the registration examples in the source tree
were updated [4] [5] [6] along with a new Sphinx example [7].

Python wrapping also builds more quickly in ITK 4.9.

The first ITK 4.9 release candidate will be announced soon, and your
testing and feedback will be appreciated.

Thanks,
Matt


[1] https://docs.python.org/3.5/library/pdb.html

[2] http://ipython.org/

[3] http://itk.org/ITKSoftwareGuide/html/Book1/ITKSoftwareGuide-Book1ch3.html#x34-410003.7

[4] https://github.com/InsightSoftwareConsortium/ITK/blob/547729e58d25692877f29938d19b2b1a8530ca86/Examples/RegistrationITKv4/ImageRegistration3.py

[5] https://github.com/InsightSoftwareConsortium/ITK/blob/547729e58d25692877f29938d19b2b1a8530ca86/Examples/RegistrationITKv4/ImageRegistration4.py

[6] https://github.com/InsightSoftwareConsortium/ITK/blob/547729e58d25692877f29938d19b2b1a8530ca86/Examples/RegistrationITKv4/ImageRegistration5.py

[7] http://itk.org/ITKExamples/src/Registration/Common/Perform2DTranslationRegistrationWithMeanSquares/Documentation.html

On Mon, Nov 23, 2015 at 3:38 PM, D'Isidoro  Fabio <fisidoro at ethz.ch> wrote:
> Hi Matt,
>
> Since my ITK with Python wrapping build on Visual Studio 2012 worked only in RELEASE mode (while not in Debug), my projects succeed to build only in Release mode (because there is no Debug folder with all the necessary compiled libraries and pyd files). That means that I cannot Debug step by step my codes with breakpoints (that works only in Debug mode in Visual Studio), and makes it impossible programming.
>
> What's your solution?
>
> Thank you!
>
> ----------------------------------------------------------------------
> Fabio D?Isidoro
> PhD Student ? Institute for Biomechanics, ETH Z?rich
> HPP O 14, Schafmattstrasse 30, 8093 Zuerich, Switzerland
> Tel: +41 44 633 40 60
>
> -----Original Message-----
> From: Insight-users [mailto:insight-users-bounces at itk.org] On Behalf Of D'Isidoro Fabio
> Sent: Mittwoch, 26. August 2015 16:42
> To: Matt McCormick
> Cc: insight-users at itk.org
> Subject: Re: [ITK-users] FW: ITK Python wrapping
>
> Hi Matt,
>
> I did the build again and this time everything is working properly :)
>
> As a summary of my issue: the key factor is that building ITK with Python Wrapping on Visual Studio on DEBUG mode did not produced the required *.pyd files. So in the guide you may want to remind an unexperienced Windows user that the build should be performed on RELEADE mode. My second problem was that the build did not work the first time for one of the modules.
>
> Just to figure out how to write in python with itk: I was trying to be lucky and to run an example similar to the example ImageRegistration3.py in the Examples folder of InsightToolkit-4.8.0 (in attachment). I start the code with 'import itk'. However fixedImageReader  = itk.ImageFileReaderF2.New()' returns an error. Is this an old version and should I just write ' fixedImageReader  = itk.ImageFileReader[ImageType].New()' instead?
>
> Which guide should I look for figuring these things out?
>
> Thank you for your valuable support.
>
> -----Original Message-----
> From: Matt McCormick [mailto:matt.mccormick at kitware.com]
> Sent: Dienstag, 25. August 2015 18:38
> To: D'Isidoro Fabio
> Cc: insight-users at itk.org
> Subject: Re: FW: [ITK-users] ITK Python wrapping
>
> Hi Fabio,
>
> We are making good progress :-).
>
> The build log indicates that the build did not complete correctly:
>
>            Traceback (most recent call last):
>            File
> "C:/Users/difabio/ITK/InsightToolkit-4.8.0/Wrapping/Generators/SwigInterface/igenerator.py",
> line 923, in <module>
>              with open(options.typedef_output, "w") as f:
>          IOError: [Errno 13] Permission denied:
> 'E:/ITK/ITK_bin_Win64_Python_Wrap/Wrapping/Typedefs/itkAffineTransformSwigInterface.h'
>      1>C:\Program Files
> (x86)\MSBuild\Microsoft.Cpp\v4.0\V110\Microsoft.CppCommon.targets(172,5):
> error MSB6006: "cmd.exe" exited with code 1.
>      1>Done Building Project
> "E:\ITK\ITK_bin_Win64_Python_Wrap\Wrapping\Modules\ITKTransform\ITKTransformPython.vcxproj"
> (Build target(s)) -- FAILED.
>
> Please make sure the directory is writable, and run the build again.
> Sometimes, for example, anti-virus software can interfere with a build, and it should be disabled on a build directory.
>
> Hope this helps,
> Matt
>
> On Tue, Aug 25, 2015 at 11:25 AM, D'Isidoro  Fabio <fisidoro at ethz.ch> wrote:
>> Hi Matt,
>>
>> Thank you. Actually I have the .dll in the bin/release.
>>
>> Shortly, I (redundantly) added then ITKbuild/bin, ITKbuild/bin/release, ITKbuild/lib, ITKbuild/lib/release to BOTH my PATH environmental variable and the WrapITK.pth. Still not working, however I have a new error (see attachment 'error').
>>
>> Therefore I went to check the ITKTransformPython module but it's not there in lib/Release where all other .lib files relative to the other modules are. I went in the directory shown in attachment 'directory' (it's in the Wrapping/Module/.. directory) and found a  log file (attachment): the build of this module failed (I check other modules and there build there did not fail). Could you please read the log? Why did just this module fail?
>>
>> Thank you again!
>>
>> -----Original Message-----
>> From: Matt McCormick [mailto:matt.mccormick at kitware.com]
>> Sent: Dienstag, 25. August 2015 16:31
>> To: D'Isidoro Fabio; insight-users at itk.org
>> Subject: Re: FW: [ITK-users] ITK Python wrapping
>>
>> Hi Fabio,
>>
>> Thanks for the updates.
>>
>> The apparent errors are not actual errors.  These result when CMake configuration runs (indicated by the preceding "--"), and CMake tests the availability of compiler features with try_compiles [1].  If an error occurs, then that feature is not used in the build.
>>
>> It is good to see that the *.pyd files are there and your Python path.
>> There should still be *.dll files whose folder needs to be added to the PATH system environmental variable.  These are usually in the "bin" instead of "lib" directory. Search for a file "ITKCommon-4.8.dll" if you built ITK 4.8.
>>
>> Hope this helps,
>> Matt
>>
>> PS. Please reply-to-all so conversations remain on the mailing lists.
>>
>> [1] http://www.cmake.org/cmake/help/v3.3/command/try_compile.html
>>
>> On Tue, Aug 25, 2015 at 3:02 AM, D'Isidoro  Fabio <fisidoro at ethz.ch> wrote:
>>> Sorry forgot the attachments
>>>
>>> -----Original Message-----
>>> From: D'Isidoro Fabio
>>> Sent: Dienstag, 25. August 2015 09:01
>>> To: 'Matt McCormick'
>>> Subject: RE: [ITK-users] ITK Python wrapping
>>>
>>> One more thing: in the guide it's written to add to the PATH the directories containing the .dll files, suggesting ITKbuild, ITKbuild/bin and ITKbuild/bin/Release.
>>>
>>> However as you can see from the attachments the suggested directory has only executables, while the .lib files (I don't have .dll files) are in the ITKbuild/lib/Release (second attachment)...
>>>
>>> Anyway I tried to add the the ITKbuild/lib/Release directory to the PATH but it did not work either.
>>>
>>>
>>> -----Original Message-----
>>> From: Matt McCormick [mailto:matt.mccormick at kitware.com]
>>> Sent: Montag, 24. August 2015 17:08
>>> To: D'Isidoro Fabio
>>> Cc: insight-users at itk.org
>>> Subject: Re: [ITK-users] ITK Python wrapping
>>>
>>> Hi Fabio,
>>>
>>>> - Well, I have a ITKPyBasePython.pyc file in the ITK lib (and the things you told me to check are allright). So the difference is that the name has no underscore _ITKPyBasePython (as reported in the error) and the extension is pyc rather than pyd (although I have read it should not make the difference). Are those things relevant? If yes, how to correct for them? Maybe the dlls were not properly compiled so the underscore is missing?
>>>
>>> Both the .pyc and the .pyd files are required.
>>>
>>>
>>>> Depending on your reply to this email, I will then try to build ITK with Python wrapping again so that I can report the compilation failures I got regarding CastXML.
>>>
>>> Great, thank you.  A Release build instead of a Debug build is recommended -- build size and runtime performance are greatly improved.  There is on going work to substantially decrease the wrapping build time in ITK Git master, but it is currently unstable.
>>> The 4.8.0 release is recommended until that is resolved.
>>>
>>>
>>>> About the symbolic link, I just read on the guide "ln -s /path/to/ITK-Wrapped/Wrapping/Generators/Python/WrapITK.pth" and went to find out what ln -s was ... but you are right, the guide says to copy the file, so I guess you don't have improve this part. Maybe just specifiy that there is no need to download Swig.
>>>
>>> Thanks for the feedback.  We will improve the wrapping process description.
>>>
>>>
>>>> Thank you, I have spent 5 long days already with no success on this issue (which seems to me a very common issue for users willing to use the Python wrapping, from my extensive google search).
>>>
>>> Yes, wrapping has been difficult in the past, but things are changing.
>>> With your help, it will improve even quicker :-).
>>>
>>>
>>> Thanks,
>>> Matt

From matt.mccormick at kitware.com  Mon Nov 23 17:53:15 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Mon, 23 Nov 2015 17:53:15 -0500
Subject: [ITK-users] [ANN] ITK 4.9 Release Candidate 1 is ready for testing!
Message-ID: <CALzTN-QFzWXhwYCUukD-vtDFjZWyA-C27-5-D0CCrvFgK8OsfQ@mail.gmail.com>

On behalf of the Insight Toolkit community, we are proud to announce that
ITK 4.9 release candidate 1 has been tagged and is available for testing!

Please take this opportunity to test the new features in the release
candidate.


To obtain the source code,

  git clone http://itk.org/ITK.git
 cd ITK
 git checkout -q --detach v4.9rc01

For more details, please see the Git documentation [1].


A few selected highlights for this release:
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^

* New Remote modules: the Cuberille module for smooth generation of meshes
from binary segmentation images, and the AnisotropicDiffusionLBR module
improved edge-preserving smoothing.
* Build your own ITK module outside the source tree, add continuous
integration testing on GitHub, and easily add Python wrapping for your C++
algorithms.
* Python wrapping, including Python 3, builds faster with a more standard
installation
* Improved performance of itk::Image::GetPixel and operations on
itk::VariableLengthVector?s
* Generate a FlatStructuringElement from an image
* Point-set registration with time-varying B-splines
* Module dependencies can now be specified as public / private / compile /
test


Please test the release candidate and share your experiences on the mailing
list, issue tracker, and Gerrit Code Review. The new module dependency
specification mechanism may unearth missing dependencies for projects that
use ITK COMPONENTS with the CMake find_package command.


An Experimental build, which demonstrates how the test suite performs on
your local build system, can be submitted to the dashboard [2] with:

  mkdir ../ITK-build
  cd ../ITK-build
  cmake ../ITK
  ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T Submit

Visual Studio builds must also add ?-C Release? to the ctest command.

Notify the mailing list if there are any unexpected failures.  Testing your
own applications against the RC is also appreciated.


Congratulations and well done to the 35 contributors to this release. We
would especially like to recognize the new contributors: Mikhail Isakov,
Betsy McPhail, Alexander Leinoff, Shawn Waldon, Tobias Wood, Seun Odutola,
Hyun Jae Kang, Lucas Gandel, Adam Snyder, Junjie Bai, Pablo
Hernandez-Cerdan, Abhishek Tiwari, Eugene Prilepin, Zach Williamson, Luc
Hermitte, Laurentiu Nicola, and Floris Berendsen.


The final release is scheduled for mid-December.


[1] http://www.itk.org/Wiki/ITK/Git

[2] http://open.cdash.org/index.php?project=Insight



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

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

* Python 3 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::)


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
   * 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


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
* GDCM updated 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
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^


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



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



-----------------------------------------------------
Errors or omissions? Please fix them here:

https://docs.google.com/document/d/1j3IAZFfi0ToO8N6hTr0fVTTMmHIMkXAxx0AsAajsYuM/edit
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From zeinsalah at gmail.com  Tue Nov 24 04:49:40 2015
From: zeinsalah at gmail.com (Zein Salah)
Date: Tue, 24 Nov 2015 10:49:40 +0100
Subject: [ITK-users] PET-CT importing in ITK
Message-ID: <CADiSopPMjYMKXStb6hw83N0gD=u8O1PFkwk3dpxZ7e6wF3TA=Q@mail.gmail.com>

Hi,

I have some PET-CT datasets that I can open, e.g., using DicomWorks.
Is is actually possible to import such data in ITK? I would like to be able
to load PET and CT data separately. Is there an example
for this?

Much thanks,
Zien

From lsustc at mail.ustc.edu.cn  Tue Nov 24 04:17:53 2015
From: lsustc at mail.ustc.edu.cn (Ais)
Date: Tue, 24 Nov 2015 02:17:53 -0700 (MST)
Subject: [ITK-users] DicomSeriesReadImageWrite2.cxx
Message-ID: <1448356673777-36489.post@n7.nabble.com>

 Dear Users,
       I have built the project
InsightToolkit-4.8.0\Examples\IODicomSeriesReadImageWrite2.cxx, I read a 
dicom series and generate a .img/hdr format 3D image,   but the 3D image is
flipped, what's the reason? 



--
View this message in context: http://itk-users.7.n7.nabble.com/ITK-users-DicomSeriesReadImageWrite2-cxx-tp36489.html
Sent from the ITK - Users mailing list archive at Nabble.com.

From matt.mccormick at kitware.com  Tue Nov 24 05:47:07 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Tue, 24 Nov 2015 05:47:07 -0500
Subject: [ITK-users] PET-CT importing in ITK
In-Reply-To: <CADiSopPMjYMKXStb6hw83N0gD=u8O1PFkwk3dpxZ7e6wF3TA=Q@mail.gmail.com>
References: <CADiSopPMjYMKXStb6hw83N0gD=u8O1PFkwk3dpxZ7e6wF3TA=Q@mail.gmail.com>
Message-ID: <CALzTN-SorAJj0pEg5+OT+vyg=uXUmBq1bLBFtf++6_SKmooUMg@mail.gmail.com>

Hi Zein,

Yes, ITK can read DICOM files.  See this example:


http://www.itk.org/Doxygen/html/Examples_2IO_2DicomSeriesReadImageWrite2_8cxx-example.html

HTH,
Matt

On Tue, Nov 24, 2015 at 4:49 AM, Zein Salah <zeinsalah at gmail.com> wrote:

> Hi,
>
> I have some PET-CT datasets that I can open, e.g., using DicomWorks.
> Is is actually possible to import such data in ITK? I would like to be able
> to load PET and CT data separately. Is there an example
> for this?
>
> Much thanks,
> Zien
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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  Tue Nov 24 05:49:24 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Tue, 24 Nov 2015 05:49:24 -0500
Subject: [ITK-users] DicomSeriesReadImageWrite2.cxx
In-Reply-To: <1448356673777-36489.post@n7.nabble.com>
References: <1448356673777-36489.post@n7.nabble.com>
Message-ID: <CALzTN-TV4SYR+PrB8BYqM-=khpz7qCim-zWSU2i+wgjA_98jEg@mail.gmail.com>

Hello,

The effect you may be seeing may be due to the orientation assumed by your
visualization software.  See

  http://www.slicer.org/slicerWiki/index.php/Slicer:VTK_ITK_Coordinates

HTH,
Matt

On Tue, Nov 24, 2015 at 4:17 AM, Ais <lsustc at mail.ustc.edu.cn> wrote:

>  Dear Users,
>        I have built the project
> InsightToolkit-4.8.0\Examples\IODicomSeriesReadImageWrite2.cxx, I read a
> dicom series and generate a .img/hdr format 3D image,   but the 3D image is
> flipped, what's the reason?
>
>
>
> --
> View this message in context:
> http://itk-users.7.n7.nabble.com/ITK-users-DicomSeriesReadImageWrite2-cxx-tp36489.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 zeinsalah at gmail.com  Tue Nov 24 06:47:35 2015
From: zeinsalah at gmail.com (Zein Salah)
Date: Tue, 24 Nov 2015 12:47:35 +0100
Subject: [ITK-users] PET-CT importing in ITK
In-Reply-To: <CALzTN-SorAJj0pEg5+OT+vyg=uXUmBq1bLBFtf++6_SKmooUMg@mail.gmail.com>
References: <CADiSopPMjYMKXStb6hw83N0gD=u8O1PFkwk3dpxZ7e6wF3TA=Q@mail.gmail.com>
 <CALzTN-SorAJj0pEg5+OT+vyg=uXUmBq1bLBFtf++6_SKmooUMg@mail.gmail.com>
Message-ID: <CADiSopO3f1BZLkbX7thTVMPNYP3nmbb=8S4S__Y-vU1wrHOfgg@mail.gmail.com>

Thanks Matt!

This was not exactly the question. I already import dicom into itk. My
question was whether itk can import/extract pet data from pet-ct
slices.


2015-11-24 11:47 GMT+01:00 Matt McCormick <matt.mccormick at kitware.com>:
> Hi Zein,
>
> Yes, ITK can read DICOM files.  See this example:
>
>
> http://www.itk.org/Doxygen/html/Examples_2IO_2DicomSeriesReadImageWrite2_8cxx-example.html
>
> HTH,
> Matt
>
> On Tue, Nov 24, 2015 at 4:49 AM, Zein Salah <zeinsalah at gmail.com> wrote:
>>
>> Hi,
>>
>> I have some PET-CT datasets that I can open, e.g., using DicomWorks.
>> Is is actually possible to import such data in ITK? I would like to be
>> able
>> to load PET and CT data separately. Is there an example
>> for this?
>>
>> Much thanks,
>> Zien
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://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 dzenanz at gmail.com  Tue Nov 24 09:29:07 2015
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Tue, 24 Nov 2015 09:29:07 -0500
Subject: [ITK-users] PET-CT importing in ITK
In-Reply-To: <CADiSopO3f1BZLkbX7thTVMPNYP3nmbb=8S4S__Y-vU1wrHOfgg@mail.gmail.com>
References: <CADiSopPMjYMKXStb6hw83N0gD=u8O1PFkwk3dpxZ7e6wF3TA=Q@mail.gmail.com>
 <CALzTN-SorAJj0pEg5+OT+vyg=uXUmBq1bLBFtf++6_SKmooUMg@mail.gmail.com>
 <CADiSopO3f1BZLkbX7thTVMPNYP3nmbb=8S4S__Y-vU1wrHOfgg@mail.gmail.com>
Message-ID: <CAPf2UMRFn3rThHE9BpXiYQsRHxXUJm-y86dWT=rZmUFmJosxsQ@mail.gmail.com>

Hi Zein,

PET/CT slices are just two DICOM series. Extract PET series and write it as
.mha or .nrrd file, and then do the same for CT series. And then those 2
images are a PET/CT pair. You can also use DicomSeriesReadImageWrite3
<https://github.com/InsightSoftwareConsortium/ITKExamples/blob/master/src/IO/DICOM/DicomSeriesReadImageWrite3/Code.cxx>
.

Regards,
D?enan

On Tue, Nov 24, 2015 at 6:47 AM, Zein Salah <zeinsalah at gmail.com> wrote:

> Thanks Matt!
>
> This was not exactly the question. I already import dicom into itk. My
> question was whether itk can import/extract pet data from pet-ct
> slices.
>
>
> 2015-11-24 11:47 GMT+01:00 Matt McCormick <matt.mccormick at kitware.com>:
> > Hi Zein,
> >
> > Yes, ITK can read DICOM files.  See this example:
> >
> >
> >
> http://www.itk.org/Doxygen/html/Examples_2IO_2DicomSeriesReadImageWrite2_8cxx-example.html
> >
> > HTH,
> > Matt
> >
> > On Tue, Nov 24, 2015 at 4:49 AM, Zein Salah <zeinsalah at gmail.com> wrote:
> >>
> >> Hi,
> >>
> >> I have some PET-CT datasets that I can open, e.g., using DicomWorks.
> >> Is is actually possible to import such data in ITK? I would like to be
> >> able
> >> to load PET and CT data separately. Is there an example
> >> for this?
> >>
> >> Much thanks,
> >> Zien
> >> _____________________________________
> >> Powered by www.kitware.com
> >>
> >> Visit other Kitware open-source projects at
> >> http://www.kitware.com/opensource/opensource.html
> >>
> >> Kitware offers ITK Training Courses, for more information visit:
> >> http://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 skalexander at gmail.com  Wed Nov 25 09:07:13 2015
From: skalexander at gmail.com (Simon Alexander)
Date: Wed, 25 Nov 2015 14:07:13 +0000
Subject: [ITK-users] [ANN] ITK 4.9 Release Candidate 1 is ready for
	testing!
In-Reply-To: <CALzTN-QFzWXhwYCUukD-vtDFjZWyA-C27-5-D0CCrvFgK8OsfQ@mail.gmail.com>
References: <CALzTN-QFzWXhwYCUukD-vtDFjZWyA-C27-5-D0CCrvFgK8OsfQ@mail.gmail.com>
Message-ID: <CAJFNcCT6w880EzKxXsx7oNHEq8zto646PMvJFrpGRJ+w8DorGQ@mail.gmail.com>

Looks like a few problems with x64 build on visual studio 2015 - do you
have a test machine in this configuration?

On Mon, 23 Nov 2015 at 17:53 Matt McCormick <matt.mccormick at kitware.com>
wrote:

> On behalf of the Insight Toolkit community, we are proud to announce that
> ITK 4.9 release candidate 1 has been tagged and is available for testing!
>
> Please take this opportunity to test the new features in the release
> candidate.
>
>
> To obtain the source code,
>
>   git clone http://itk.org/ITK.git
>  cd ITK
>  git checkout -q --detach v4.9rc01
>
> For more details, please see the Git documentation [1].
>
>
> A few selected highlights for this release:
> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>
> * New Remote modules: the Cuberille module for smooth generation of meshes
> from binary segmentation images, and the AnisotropicDiffusionLBR module
> improved edge-preserving smoothing.
> * Build your own ITK module outside the source tree, add continuous
> integration testing on GitHub, and easily add Python wrapping for your C++
> algorithms.
> * Python wrapping, including Python 3, builds faster with a more standard
> installation
> * Improved performance of itk::Image::GetPixel and operations on
> itk::VariableLengthVector?s
> * Generate a FlatStructuringElement from an image
> * Point-set registration with time-varying B-splines
> * Module dependencies can now be specified as public / private / compile /
> test
>
>
> Please test the release candidate and share your experiences on the
> mailing list, issue tracker, and Gerrit Code Review. The new module
> dependency specification mechanism may unearth missing dependencies for
> projects that use ITK COMPONENTS with the CMake find_package command.
>
>
> An Experimental build, which demonstrates how the test suite performs on
> your local build system, can be submitted to the dashboard [2] with:
>
>   mkdir ../ITK-build
>   cd ../ITK-build
>   cmake ../ITK
>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T Submit
>
> Visual Studio builds must also add ?-C Release? to the ctest command.
>
> Notify the mailing list if there are any unexpected failures.  Testing
> your own applications against the RC is also appreciated.
>
>
> Congratulations and well done to the 35 contributors to this release. We
> would especially like to recognize the new contributors: Mikhail Isakov,
> Betsy McPhail, Alexander Leinoff, Shawn Waldon, Tobias Wood, Seun Odutola,
> Hyun Jae Kang, Lucas Gandel, Adam Snyder, Junjie Bai, Pablo
> Hernandez-Cerdan, Abhishek Tiwari, Eugene Prilepin, Zach Williamson, Luc
> Hermitte, Laurentiu Nicola, and Floris Berendsen.
>
>
> The final release is scheduled for mid-December.
>
>
> [1] http://www.itk.org/Wiki/ITK/Git
>
> [2] http://open.cdash.org/index.php?project=Insight
>
>
>
> New Features
> ---------------------
>
> Wrapping improvements
> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>
> * Python 3 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::)
>
>
> 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
>    * 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
>
>
> 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
> * GDCM updated 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
> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>
>
> * And much more! See details in the log below.
> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>
>
>
> 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
>
>
>
> -----------------------------------------------------
> Errors or omissions? Please fix them here:
>
>
> https://docs.google.com/document/d/1j3IAZFfi0ToO8N6hTr0fVTTMmHIMkXAxx0AsAajsYuM/edit
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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 matt.mccormick at kitware.com  Wed Nov 25 10:51:36 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Wed, 25 Nov 2015 10:51:36 -0500
Subject: [ITK-users] [ANN] ITK 4.9 Release Candidate 1 is ready for
	testing!
In-Reply-To: <CAJFNcCT6w880EzKxXsx7oNHEq8zto646PMvJFrpGRJ+w8DorGQ@mail.gmail.com>
References: <CALzTN-QFzWXhwYCUukD-vtDFjZWyA-C27-5-D0CCrvFgK8OsfQ@mail.gmail.com>
 <CAJFNcCT6w880EzKxXsx7oNHEq8zto646PMvJFrpGRJ+w8DorGQ@mail.gmail.com>
Message-ID: <CALzTN-S5oLGFxp20L1t89hfo6fR0MOqZR2vv7LX2p_JaraV_kQ@mail.gmail.com>

Hi Simon,

Thanks for testing.

We have a Visual Studio 2015 build on the dashboard that is green:

  https://open.cdash.org/buildSummary.php?buildid=4117955

Are there any different flags? Could you please submit an Experimental build?

  ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T Submit -C Release

from a fresh build tree.

Thanks,
Matt

On Wed, Nov 25, 2015 at 9:07 AM, Simon Alexander <skalexander at gmail.com> wrote:
> Looks like a few problems with x64 build on visual studio 2015 - do you have
> a test machine in this configuration?
>
> On Mon, 23 Nov 2015 at 17:53 Matt McCormick <matt.mccormick at kitware.com>
> wrote:
>>
>> On behalf of the Insight Toolkit community, we are proud to announce that
>> ITK 4.9 release candidate 1 has been tagged and is available for testing!
>>
>> Please take this opportunity to test the new features in the release
>> candidate.
>>
>>
>> To obtain the source code,
>>
>>   git clone http://itk.org/ITK.git
>>  cd ITK
>>  git checkout -q --detach v4.9rc01
>>
>> For more details, please see the Git documentation [1].
>>
>>
>> A few selected highlights for this release:
>> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>
>> * New Remote modules: the Cuberille module for smooth generation of meshes
>> from binary segmentation images, and the AnisotropicDiffusionLBR module
>> improved edge-preserving smoothing.
>> * Build your own ITK module outside the source tree, add continuous
>> integration testing on GitHub, and easily add Python wrapping for your C++
>> algorithms.
>> * Python wrapping, including Python 3, builds faster with a more standard
>> installation
>> * Improved performance of itk::Image::GetPixel and operations on
>> itk::VariableLengthVector?s
>> * Generate a FlatStructuringElement from an image
>> * Point-set registration with time-varying B-splines
>> * Module dependencies can now be specified as public / private / compile /
>> test
>>
>>
>> Please test the release candidate and share your experiences on the
>> mailing list, issue tracker, and Gerrit Code Review. The new module
>> dependency specification mechanism may unearth missing dependencies for
>> projects that use ITK COMPONENTS with the CMake find_package command.
>>
>>
>> An Experimental build, which demonstrates how the test suite performs on
>> your local build system, can be submitted to the dashboard [2] with:
>>
>>   mkdir ../ITK-build
>>   cd ../ITK-build
>>   cmake ../ITK
>>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T Submit
>>
>> Visual Studio builds must also add ?-C Release? to the ctest command.
>>
>> Notify the mailing list if there are any unexpected failures.  Testing
>> your own applications against the RC is also appreciated.
>>
>>
>> Congratulations and well done to the 35 contributors to this release. We
>> would especially like to recognize the new contributors: Mikhail Isakov,
>> Betsy McPhail, Alexander Leinoff, Shawn Waldon, Tobias Wood, Seun Odutola,
>> Hyun Jae Kang, Lucas Gandel, Adam Snyder, Junjie Bai, Pablo
>> Hernandez-Cerdan, Abhishek Tiwari, Eugene Prilepin, Zach Williamson, Luc
>> Hermitte, Laurentiu Nicola, and Floris Berendsen.
>>
>>
>> The final release is scheduled for mid-December.
>>
>>
>> [1] http://www.itk.org/Wiki/ITK/Git
>>
>> [2] http://open.cdash.org/index.php?project=Insight
>>
>>
>>
>> New Features
>> ---------------------
>>
>> Wrapping improvements
>> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>
>> * Python 3 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::)
>>
>>
>> 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
>>    * 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
>>
>>
>> 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
>> * GDCM updated 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
>> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>
>>
>> * And much more! See details in the log below.
>> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>
>>
>>
>> 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
>>
>>
>>
>> -----------------------------------------------------
>> Errors or omissions? Please fix them here:
>>
>>
>> https://docs.google.com/document/d/1j3IAZFfi0ToO8N6hTr0fVTTMmHIMkXAxx0AsAajsYuM/edit
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://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 skalexander at gmail.com  Wed Nov 25 10:55:10 2015
From: skalexander at gmail.com (Simon Alexander)
Date: Wed, 25 Nov 2015 15:55:10 +0000
Subject: [ITK-users] [ANN] ITK 4.9 Release Candidate 1 is ready for
	testing!
In-Reply-To: <CALzTN-S5oLGFxp20L1t89hfo6fR0MOqZR2vv7LX2p_JaraV_kQ@mail.gmail.com>
References: <CALzTN-QFzWXhwYCUukD-vtDFjZWyA-C27-5-D0CCrvFgK8OsfQ@mail.gmail.com>
 <CAJFNcCT6w880EzKxXsx7oNHEq8zto646PMvJFrpGRJ+w8DorGQ@mail.gmail.com>
 <CALzTN-S5oLGFxp20L1t89hfo6fR0MOqZR2vv7LX2p_JaraV_kQ@mail.gmail.com>
Message-ID: <CAJFNcCQoQJtiCock1g9z9N=+W=TwTYsX62bUHfHnTSPSrozNOg@mail.gmail.com>

Sorry, if I wasn't clear - I submitted two builds yesterday from SIMON-LAP,
(actually 3 as I wasn't sure the config was right on the first one).
VS2013 was green, three failures on VS2015  (and 18 warnings).  Looks like
a truncation problem on the resuts.

On Wed, 25 Nov 2015 at 10:51 Matt McCormick <matt.mccormick at kitware.com>
wrote:

> Hi Simon,
>
> Thanks for testing.
>
> We have a Visual Studio 2015 build on the dashboard that is green:
>
>   https://open.cdash.org/buildSummary.php?buildid=4117955
>
> Are there any different flags? Could you please submit an Experimental
> build?
>
>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T Submit -C
> Release
>
> from a fresh build tree.
>
> Thanks,
> Matt
>
> On Wed, Nov 25, 2015 at 9:07 AM, Simon Alexander <skalexander at gmail.com>
> wrote:
> > Looks like a few problems with x64 build on visual studio 2015 - do you
> have
> > a test machine in this configuration?
> >
> > On Mon, 23 Nov 2015 at 17:53 Matt McCormick <matt.mccormick at kitware.com>
> > wrote:
> >>
> >> On behalf of the Insight Toolkit community, we are proud to announce
> that
> >> ITK 4.9 release candidate 1 has been tagged and is available for
> testing!
> >>
> >> Please take this opportunity to test the new features in the release
> >> candidate.
> >>
> >>
> >> To obtain the source code,
> >>
> >>   git clone http://itk.org/ITK.git
> >>  cd ITK
> >>  git checkout -q --detach v4.9rc01
> >>
> >> For more details, please see the Git documentation [1].
> >>
> >>
> >> A few selected highlights for this release:
> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
> >>
> >> * New Remote modules: the Cuberille module for smooth generation of
> meshes
> >> from binary segmentation images, and the AnisotropicDiffusionLBR module
> >> improved edge-preserving smoothing.
> >> * Build your own ITK module outside the source tree, add continuous
> >> integration testing on GitHub, and easily add Python wrapping for your
> C++
> >> algorithms.
> >> * Python wrapping, including Python 3, builds faster with a more
> standard
> >> installation
> >> * Improved performance of itk::Image::GetPixel and operations on
> >> itk::VariableLengthVector?s
> >> * Generate a FlatStructuringElement from an image
> >> * Point-set registration with time-varying B-splines
> >> * Module dependencies can now be specified as public / private /
> compile /
> >> test
> >>
> >>
> >> Please test the release candidate and share your experiences on the
> >> mailing list, issue tracker, and Gerrit Code Review. The new module
> >> dependency specification mechanism may unearth missing dependencies for
> >> projects that use ITK COMPONENTS with the CMake find_package command.
> >>
> >>
> >> An Experimental build, which demonstrates how the test suite performs on
> >> your local build system, can be submitted to the dashboard [2] with:
> >>
> >>   mkdir ../ITK-build
> >>   cd ../ITK-build
> >>   cmake ../ITK
> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T Submit
> >>
> >> Visual Studio builds must also add ?-C Release? to the ctest command.
> >>
> >> Notify the mailing list if there are any unexpected failures.  Testing
> >> your own applications against the RC is also appreciated.
> >>
> >>
> >> Congratulations and well done to the 35 contributors to this release. We
> >> would especially like to recognize the new contributors: Mikhail Isakov,
> >> Betsy McPhail, Alexander Leinoff, Shawn Waldon, Tobias Wood, Seun
> Odutola,
> >> Hyun Jae Kang, Lucas Gandel, Adam Snyder, Junjie Bai, Pablo
> >> Hernandez-Cerdan, Abhishek Tiwari, Eugene Prilepin, Zach Williamson, Luc
> >> Hermitte, Laurentiu Nicola, and Floris Berendsen.
> >>
> >>
> >> The final release is scheduled for mid-December.
> >>
> >>
> >> [1] http://www.itk.org/Wiki/ITK/Git
> >>
> >> [2] http://open.cdash.org/index.php?project=Insight
> >>
> >>
> >>
> >> New Features
> >> ---------------------
> >>
> >> Wrapping improvements
> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
> >>
> >> * Python 3 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::)
> >>
> >>
> >> 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
> >>    * 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
> >>
> >>
> >> 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
> >> * GDCM updated 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
> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
> >>
> >>
> >> * And much more! See details in the log below.
> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
> >>
> >>
> >>
> >> 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
> >>
> >>
> >>
> >> -----------------------------------------------------
> >> Errors or omissions? Please fix them here:
> >>
> >>
> >>
> https://docs.google.com/document/d/1j3IAZFfi0ToO8N6hTr0fVTTMmHIMkXAxx0AsAajsYuM/edit
> >> _____________________________________
> >> Powered by www.kitware.com
> >>
> >> Visit other Kitware open-source projects at
> >> http://www.kitware.com/opensource/opensource.html
> >>
> >> Kitware offers ITK Training Courses, for more information visit:
> >> http://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  Wed Nov 25 11:01:32 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Wed, 25 Nov 2015 11:01:32 -0500
Subject: [ITK-users] [ANN] ITK 4.9 Release Candidate 1 is ready for
	testing!
In-Reply-To: <CAJFNcCQoQJtiCock1g9z9N=+W=TwTYsX62bUHfHnTSPSrozNOg@mail.gmail.com>
References: <CALzTN-QFzWXhwYCUukD-vtDFjZWyA-C27-5-D0CCrvFgK8OsfQ@mail.gmail.com>
 <CAJFNcCT6w880EzKxXsx7oNHEq8zto646PMvJFrpGRJ+w8DorGQ@mail.gmail.com>
 <CALzTN-S5oLGFxp20L1t89hfo6fR0MOqZR2vv7LX2p_JaraV_kQ@mail.gmail.com>
 <CAJFNcCQoQJtiCock1g9z9N=+W=TwTYsX62bUHfHnTSPSrozNOg@mail.gmail.com>
Message-ID: <CALzTN-Rpg5BvzFkT5SYSfUaLXM0Ap2fuRe+wDw3Td7iZgpcM6g@mail.gmail.com>

Ah, cool!  Here:

 https://open.cdash.org/viewBuildError.php?type=1&buildid=4117158

Could you please look into the test failures?

@Hyun Jae, could you please look into the KWStyle warnings?

Thanks,
Matt


On Wed, Nov 25, 2015 at 10:55 AM, Simon Alexander <skalexander at gmail.com> wrote:
> Sorry, if I wasn't clear - I submitted two builds yesterday from SIMON-LAP,
> (actually 3 as I wasn't sure the config was right on the first one).  VS2013
> was green, three failures on VS2015  (and 18 warnings).  Looks like a
> truncation problem on the resuts.
>
> On Wed, 25 Nov 2015 at 10:51 Matt McCormick <matt.mccormick at kitware.com>
> wrote:
>>
>> Hi Simon,
>>
>> Thanks for testing.
>>
>> We have a Visual Studio 2015 build on the dashboard that is green:
>>
>>   https://open.cdash.org/buildSummary.php?buildid=4117955
>>
>> Are there any different flags? Could you please submit an Experimental
>> build?
>>
>>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T Submit -C
>> Release
>>
>> from a fresh build tree.
>>
>> Thanks,
>> Matt
>>
>> On Wed, Nov 25, 2015 at 9:07 AM, Simon Alexander <skalexander at gmail.com>
>> wrote:
>> > Looks like a few problems with x64 build on visual studio 2015 - do you
>> > have
>> > a test machine in this configuration?
>> >
>> > On Mon, 23 Nov 2015 at 17:53 Matt McCormick <matt.mccormick at kitware.com>
>> > wrote:
>> >>
>> >> On behalf of the Insight Toolkit community, we are proud to announce
>> >> that
>> >> ITK 4.9 release candidate 1 has been tagged and is available for
>> >> testing!
>> >>
>> >> Please take this opportunity to test the new features in the release
>> >> candidate.
>> >>
>> >>
>> >> To obtain the source code,
>> >>
>> >>   git clone http://itk.org/ITK.git
>> >>  cd ITK
>> >>  git checkout -q --detach v4.9rc01
>> >>
>> >> For more details, please see the Git documentation [1].
>> >>
>> >>
>> >> A few selected highlights for this release:
>> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>> >>
>> >> * New Remote modules: the Cuberille module for smooth generation of
>> >> meshes
>> >> from binary segmentation images, and the AnisotropicDiffusionLBR module
>> >> improved edge-preserving smoothing.
>> >> * Build your own ITK module outside the source tree, add continuous
>> >> integration testing on GitHub, and easily add Python wrapping for your
>> >> C++
>> >> algorithms.
>> >> * Python wrapping, including Python 3, builds faster with a more
>> >> standard
>> >> installation
>> >> * Improved performance of itk::Image::GetPixel and operations on
>> >> itk::VariableLengthVector?s
>> >> * Generate a FlatStructuringElement from an image
>> >> * Point-set registration with time-varying B-splines
>> >> * Module dependencies can now be specified as public / private /
>> >> compile /
>> >> test
>> >>
>> >>
>> >> Please test the release candidate and share your experiences on the
>> >> mailing list, issue tracker, and Gerrit Code Review. The new module
>> >> dependency specification mechanism may unearth missing dependencies for
>> >> projects that use ITK COMPONENTS with the CMake find_package command.
>> >>
>> >>
>> >> An Experimental build, which demonstrates how the test suite performs
>> >> on
>> >> your local build system, can be submitted to the dashboard [2] with:
>> >>
>> >>   mkdir ../ITK-build
>> >>   cd ../ITK-build
>> >>   cmake ../ITK
>> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T Submit
>> >>
>> >> Visual Studio builds must also add ?-C Release? to the ctest command.
>> >>
>> >> Notify the mailing list if there are any unexpected failures.  Testing
>> >> your own applications against the RC is also appreciated.
>> >>
>> >>
>> >> Congratulations and well done to the 35 contributors to this release.
>> >> We
>> >> would especially like to recognize the new contributors: Mikhail
>> >> Isakov,
>> >> Betsy McPhail, Alexander Leinoff, Shawn Waldon, Tobias Wood, Seun
>> >> Odutola,
>> >> Hyun Jae Kang, Lucas Gandel, Adam Snyder, Junjie Bai, Pablo
>> >> Hernandez-Cerdan, Abhishek Tiwari, Eugene Prilepin, Zach Williamson,
>> >> Luc
>> >> Hermitte, Laurentiu Nicola, and Floris Berendsen.
>> >>
>> >>
>> >> The final release is scheduled for mid-December.
>> >>
>> >>
>> >> [1] http://www.itk.org/Wiki/ITK/Git
>> >>
>> >> [2] http://open.cdash.org/index.php?project=Insight
>> >>
>> >>
>> >>
>> >> New Features
>> >> ---------------------
>> >>
>> >> Wrapping improvements
>> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>> >>
>> >> * Python 3 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::)
>> >>
>> >>
>> >> 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
>> >>    * 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
>> >>
>> >>
>> >> 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
>> >> * GDCM updated 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
>> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>> >>
>> >>
>> >> * And much more! See details in the log below.
>> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>> >>
>> >>
>> >>
>> >> 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
>> >>
>> >>
>> >>
>> >> -----------------------------------------------------
>> >> Errors or omissions? Please fix them here:
>> >>
>> >>
>> >>
>> >> https://docs.google.com/document/d/1j3IAZFfi0ToO8N6hTr0fVTTMmHIMkXAxx0AsAajsYuM/edit
>> >> _____________________________________
>> >> Powered by www.kitware.com
>> >>
>> >> Visit other Kitware open-source projects at
>> >> http://www.kitware.com/opensource/opensource.html
>> >>
>> >> Kitware offers ITK Training Courses, for more information visit:
>> >> http://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 mihail.isakov at googlemail.com  Wed Nov 25 11:08:01 2015
From: mihail.isakov at googlemail.com (Mihail Isakov)
Date: Wed, 25 Nov 2015 17:08:01 +0100
Subject: [ITK-users] [ANN] ITK 4.9 Release Candidate 1 is ready for
	testing!
In-Reply-To: <CALzTN-QFzWXhwYCUukD-vtDFjZWyA-C27-5-D0CCrvFgK8OsfQ@mail.gmail.com>
References: <CALzTN-QFzWXhwYCUukD-vtDFjZWyA-C27-5-D0CCrvFgK8OsfQ@mail.gmail.com>
Message-ID: <CAJYHnFKz-dWExf8UWJUuBB1A1DQequ34=0vcwHsyhc7X7waWjA@mail.gmail.com>

Hello,
not 100% sure,  but looks like  i can not open "*.nii.gz" files
directly (" Can not create ImageIO for ..."),  tried different build
options without success (system zlib on/off etc) ... never has this
problem before...


Regards,
Mihail

From matt.mccormick at kitware.com  Wed Nov 25 11:09:59 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Wed, 25 Nov 2015 11:09:59 -0500
Subject: [ITK-users] FW: ITK Python wrapping
In-Reply-To: <50B858FB5F53124F9E32314E5C1B409435AFEA63@MBX112.d.ethz.ch>
References: <50B858FB5F53124F9E32314E5C1B409435ACEA2D@MBX212.d.ethz.ch>
 <CALzTN-R2_viV6Y0-AkNpmicZTOaaA98E99ReZSoWkU6tb_xuYQ@mail.gmail.com>
 <50B858FB5F53124F9E32314E5C1B409435ACEB17@MBX212.d.ethz.ch>
 <CALzTN-R3f+fi5pRze+a68d14YgLcYJPCnwwjPnz5Fm9W4hBV8A@mail.gmail.com>
 <50B858FB5F53124F9E32314E5C1B409435ACECAC@MBX212.d.ethz.ch>
 <CALzTN-SX9vduwxUSTi-XFVStWLCTYCdGccjEPy6a+XiEtH1Ryg@mail.gmail.com>
 <50B858FB5F53124F9E32314E5C1B409435ACED36@MBX212.d.ethz.ch>
 <CALzTN-SH7qnfGH_qHoXib6iVOf_W0kHnDDtVsC3oHhp7j5YEcg@mail.gmail.com>
 <50B858FB5F53124F9E32314E5C1B409435ACEE97@MBX212.d.ethz.ch>
 <50B858FB5F53124F9E32314E5C1B409435AFE854@MBX112.d.ethz.ch>
 <CALzTN-SLOrgf=EsFwgL1jK5_3JzasbwjCKr5_jCY97ot=c4+Kg@mail.gmail.com>
 <50B858FB5F53124F9E32314E5C1B409435AFEA63@MBX112.d.ethz.ch>
Message-ID: <CALzTN-RK2NadMv4drc3r_83aLbCG-myXtto6P+Dxk_PXBtm3eg@mail.gmail.com>

Hi Fabio,

There is some description in the .GetTypes() function here:

 http://itk.org/ITKSoftwareGuide/html/Book1/ITKSoftwareGuide-Book1ch3.html#x34-410003.7

The possible data types are explained here:

  http://review.source.kitware.com/#/c/19958/

which was merged and should show up in the HTML version online tomorrow.

Thanks,
Matt

On Tue, Nov 24, 2015 at 7:37 AM, D'Isidoro  Fabio <fisidoro at ethz.ch> wrote:
> Thanks, I will try Ipython.
>
> I still haven't find documentation for ITK Python, i.e. I would like to know all possible data types (as "itk.UC"), for example I want to use unsigned int (I assume it's itk.UI but I don't know it..). I can't find where this is explained.
>
> Thank you
>
> ----------------------------------------------------------------------
> Fabio D?Isidoro
> PhD Student ? Institute for Biomechanics, ETH Z?rich
> HPP O 14, Schafmattstrasse 30, 8093 Zuerich, Switzerland
> Tel: +41 44 633 40 60
>
>
> -----Original Message-----
> From: Matt McCormick [mailto:matt.mccormick at kitware.com]
> Sent: Montag, 23. November 2015 22:23
> To: D'Isidoro Fabio
> Cc: insight-users at itk.org
> Subject: Re: [ITK-users] FW: ITK Python wrapping
>
> Dear Fabio,
>
> To debug an ITK Python script, the ITK Python wrappings do not need to be built with a Debug CMake build type -- any Python interpreter or IDE can be used for debugging. At a basic level, the pdb Python module gives gdb like functionality [1]. Newer versions of Visual Studio also have better Python integration. Or, there are many other very nice Python IDE's out there.  My personal favorite Python development and debugging tool is IPython [2].
>
>
> For ITK 4.9, the Python development guidelines in the ITK Software Guide were improved based on your feedback in addition to other improvements [3].  Also, the registration examples in the source tree were updated [4] [5] [6] along with a new Sphinx example [7].
>
> Python wrapping also builds more quickly in ITK 4.9.
>
> The first ITK 4.9 release candidate will be announced soon, and your testing and feedback will be appreciated.
>
> Thanks,
> Matt
>
>
> [1] https://docs.python.org/3.5/library/pdb.html
>
> [2] http://ipython.org/
>
> [3] http://itk.org/ITKSoftwareGuide/html/Book1/ITKSoftwareGuide-Book1ch3.html#x34-410003.7
>
> [4] https://github.com/InsightSoftwareConsortium/ITK/blob/547729e58d25692877f29938d19b2b1a8530ca86/Examples/RegistrationITKv4/ImageRegistration3.py
>
> [5] https://github.com/InsightSoftwareConsortium/ITK/blob/547729e58d25692877f29938d19b2b1a8530ca86/Examples/RegistrationITKv4/ImageRegistration4.py
>
> [6] https://github.com/InsightSoftwareConsortium/ITK/blob/547729e58d25692877f29938d19b2b1a8530ca86/Examples/RegistrationITKv4/ImageRegistration5.py
>
> [7] http://itk.org/ITKExamples/src/Registration/Common/Perform2DTranslationRegistrationWithMeanSquares/Documentation.html
>
> On Mon, Nov 23, 2015 at 3:38 PM, D'Isidoro  Fabio <fisidoro at ethz.ch> wrote:
>> Hi Matt,
>>
>> Since my ITK with Python wrapping build on Visual Studio 2012 worked only in RELEASE mode (while not in Debug), my projects succeed to build only in Release mode (because there is no Debug folder with all the necessary compiled libraries and pyd files). That means that I cannot Debug step by step my codes with breakpoints (that works only in Debug mode in Visual Studio), and makes it impossible programming.
>>
>> What's your solution?
>>
>> Thank you!
>>
>> ----------------------------------------------------------------------
>> Fabio D?Isidoro
>> PhD Student ? Institute for Biomechanics, ETH Z?rich HPP O 14,
>> Schafmattstrasse 30, 8093 Zuerich, Switzerland
>> Tel: +41 44 633 40 60
>>
>> -----Original Message-----
>> From: Insight-users [mailto:insight-users-bounces at itk.org] On Behalf
>> Of D'Isidoro Fabio
>> Sent: Mittwoch, 26. August 2015 16:42
>> To: Matt McCormick
>> Cc: insight-users at itk.org
>> Subject: Re: [ITK-users] FW: ITK Python wrapping
>>
>> Hi Matt,
>>
>> I did the build again and this time everything is working properly :)
>>
>> As a summary of my issue: the key factor is that building ITK with Python Wrapping on Visual Studio on DEBUG mode did not produced the required *.pyd files. So in the guide you may want to remind an unexperienced Windows user that the build should be performed on RELEADE mode. My second problem was that the build did not work the first time for one of the modules.
>>
>> Just to figure out how to write in python with itk: I was trying to be lucky and to run an example similar to the example ImageRegistration3.py in the Examples folder of InsightToolkit-4.8.0 (in attachment). I start the code with 'import itk'. However fixedImageReader  = itk.ImageFileReaderF2.New()' returns an error. Is this an old version and should I just write ' fixedImageReader  = itk.ImageFileReader[ImageType].New()' instead?
>>
>> Which guide should I look for figuring these things out?
>>
>> Thank you for your valuable support.
>>
>> -----Original Message-----
>> From: Matt McCormick [mailto:matt.mccormick at kitware.com]
>> Sent: Dienstag, 25. August 2015 18:38
>> To: D'Isidoro Fabio
>> Cc: insight-users at itk.org
>> Subject: Re: FW: [ITK-users] ITK Python wrapping
>>
>> Hi Fabio,
>>
>> We are making good progress :-).
>>
>> The build log indicates that the build did not complete correctly:
>>
>>            Traceback (most recent call last):
>>            File
>> "C:/Users/difabio/ITK/InsightToolkit-4.8.0/Wrapping/Generators/SwigInt
>> erface/igenerator.py",
>> line 923, in <module>
>>              with open(options.typedef_output, "w") as f:
>>          IOError: [Errno 13] Permission denied:
>> 'E:/ITK/ITK_bin_Win64_Python_Wrap/Wrapping/Typedefs/itkAffineTransformSwigInterface.h'
>>      1>C:\Program Files
>> (x86)\MSBuild\Microsoft.Cpp\v4.0\V110\Microsoft.CppCommon.targets(172,5):
>> error MSB6006: "cmd.exe" exited with code 1.
>>      1>Done Building Project
>> "E:\ITK\ITK_bin_Win64_Python_Wrap\Wrapping\Modules\ITKTransform\ITKTransformPython.vcxproj"
>> (Build target(s)) -- FAILED.
>>
>> Please make sure the directory is writable, and run the build again.
>> Sometimes, for example, anti-virus software can interfere with a build, and it should be disabled on a build directory.
>>
>> Hope this helps,
>> Matt
>>
>> On Tue, Aug 25, 2015 at 11:25 AM, D'Isidoro  Fabio <fisidoro at ethz.ch> wrote:
>>> Hi Matt,
>>>
>>> Thank you. Actually I have the .dll in the bin/release.
>>>
>>> Shortly, I (redundantly) added then ITKbuild/bin, ITKbuild/bin/release, ITKbuild/lib, ITKbuild/lib/release to BOTH my PATH environmental variable and the WrapITK.pth. Still not working, however I have a new error (see attachment 'error').
>>>
>>> Therefore I went to check the ITKTransformPython module but it's not there in lib/Release where all other .lib files relative to the other modules are. I went in the directory shown in attachment 'directory' (it's in the Wrapping/Module/.. directory) and found a  log file (attachment): the build of this module failed (I check other modules and there build there did not fail). Could you please read the log? Why did just this module fail?
>>>
>>> Thank you again!
>>>
>>> -----Original Message-----
>>> From: Matt McCormick [mailto:matt.mccormick at kitware.com]
>>> Sent: Dienstag, 25. August 2015 16:31
>>> To: D'Isidoro Fabio; insight-users at itk.org
>>> Subject: Re: FW: [ITK-users] ITK Python wrapping
>>>
>>> Hi Fabio,
>>>
>>> Thanks for the updates.
>>>
>>> The apparent errors are not actual errors.  These result when CMake configuration runs (indicated by the preceding "--"), and CMake tests the availability of compiler features with try_compiles [1].  If an error occurs, then that feature is not used in the build.
>>>
>>> It is good to see that the *.pyd files are there and your Python path.
>>> There should still be *.dll files whose folder needs to be added to the PATH system environmental variable.  These are usually in the "bin" instead of "lib" directory. Search for a file "ITKCommon-4.8.dll" if you built ITK 4.8.
>>>
>>> Hope this helps,
>>> Matt
>>>
>>> PS. Please reply-to-all so conversations remain on the mailing lists.
>>>
>>> [1] http://www.cmake.org/cmake/help/v3.3/command/try_compile.html
>>>
>>> On Tue, Aug 25, 2015 at 3:02 AM, D'Isidoro  Fabio <fisidoro at ethz.ch> wrote:
>>>> Sorry forgot the attachments
>>>>
>>>> -----Original Message-----
>>>> From: D'Isidoro Fabio
>>>> Sent: Dienstag, 25. August 2015 09:01
>>>> To: 'Matt McCormick'
>>>> Subject: RE: [ITK-users] ITK Python wrapping
>>>>
>>>> One more thing: in the guide it's written to add to the PATH the directories containing the .dll files, suggesting ITKbuild, ITKbuild/bin and ITKbuild/bin/Release.
>>>>
>>>> However as you can see from the attachments the suggested directory has only executables, while the .lib files (I don't have .dll files) are in the ITKbuild/lib/Release (second attachment)...
>>>>
>>>> Anyway I tried to add the the ITKbuild/lib/Release directory to the PATH but it did not work either.
>>>>
>>>>
>>>> -----Original Message-----
>>>> From: Matt McCormick [mailto:matt.mccormick at kitware.com]
>>>> Sent: Montag, 24. August 2015 17:08
>>>> To: D'Isidoro Fabio
>>>> Cc: insight-users at itk.org
>>>> Subject: Re: [ITK-users] ITK Python wrapping
>>>>
>>>> Hi Fabio,
>>>>
>>>>> - Well, I have a ITKPyBasePython.pyc file in the ITK lib (and the things you told me to check are allright). So the difference is that the name has no underscore _ITKPyBasePython (as reported in the error) and the extension is pyc rather than pyd (although I have read it should not make the difference). Are those things relevant? If yes, how to correct for them? Maybe the dlls were not properly compiled so the underscore is missing?
>>>>
>>>> Both the .pyc and the .pyd files are required.
>>>>
>>>>
>>>>> Depending on your reply to this email, I will then try to build ITK with Python wrapping again so that I can report the compilation failures I got regarding CastXML.
>>>>
>>>> Great, thank you.  A Release build instead of a Debug build is recommended -- build size and runtime performance are greatly improved.  There is on going work to substantially decrease the wrapping build time in ITK Git master, but it is currently unstable.
>>>> The 4.8.0 release is recommended until that is resolved.
>>>>
>>>>
>>>>> About the symbolic link, I just read on the guide "ln -s /path/to/ITK-Wrapped/Wrapping/Generators/Python/WrapITK.pth" and went to find out what ln -s was ... but you are right, the guide says to copy the file, so I guess you don't have improve this part. Maybe just specifiy that there is no need to download Swig.
>>>>
>>>> Thanks for the feedback.  We will improve the wrapping process description.
>>>>
>>>>
>>>>> Thank you, I have spent 5 long days already with no success on this issue (which seems to me a very common issue for users willing to use the Python wrapping, from my extensive google search).
>>>>
>>>> Yes, wrapping has been difficult in the past, but things are changing.
>>>> With your help, it will improve even quicker :-).
>>>>
>>>>
>>>> Thanks,
>>>> Matt

From matt.mccormick at kitware.com  Wed Nov 25 11:11:27 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Wed, 25 Nov 2015 11:11:27 -0500
Subject: [ITK-users] [ANN] ITK 4.9 Release Candidate 1 is ready for
	testing!
In-Reply-To: <CAJYHnFKz-dWExf8UWJUuBB1A1DQequ34=0vcwHsyhc7X7waWjA@mail.gmail.com>
References: <CALzTN-QFzWXhwYCUukD-vtDFjZWyA-C27-5-D0CCrvFgK8OsfQ@mail.gmail.com>
 <CAJYHnFKz-dWExf8UWJUuBB1A1DQequ34=0vcwHsyhc7X7waWjA@mail.gmail.com>
Message-ID: <CALzTN-RoGLosE+T-1SjD=LEYdnha-WqLq_4OxCaShouqKGqWRg@mail.gmail.com>

Hi Mihail,

Is it possible to share the code and data to reproduce this issue?

Thanks,
Matt

On Wed, Nov 25, 2015 at 11:08 AM, Mihail Isakov via Insight-users
<insight-users at itk.org> wrote:
> Hello,
> not 100% sure,  but looks like  i can not open "*.nii.gz" files
> directly (" Can not create ImageIO for ..."),  tried different build
> options without success (system zlib on/off etc) ... never has this
> problem before...
>
>
> Regards,
> Mihail
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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 skalexander at gmail.com  Wed Nov 25 11:29:40 2015
From: skalexander at gmail.com (Simon Alexander)
Date: Wed, 25 Nov 2015 16:29:40 +0000
Subject: [ITK-users] [ANN] ITK 4.9 Release Candidate 1 is ready for
	testing!
In-Reply-To: <CALzTN-Rpg5BvzFkT5SYSfUaLXM0Ap2fuRe+wDw3Td7iZgpcM6g@mail.gmail.com>
References: <CALzTN-QFzWXhwYCUukD-vtDFjZWyA-C27-5-D0CCrvFgK8OsfQ@mail.gmail.com>
 <CAJFNcCT6w880EzKxXsx7oNHEq8zto646PMvJFrpGRJ+w8DorGQ@mail.gmail.com>
 <CALzTN-S5oLGFxp20L1t89hfo6fR0MOqZR2vv7LX2p_JaraV_kQ@mail.gmail.com>
 <CAJFNcCQoQJtiCock1g9z9N=+W=TwTYsX62bUHfHnTSPSrozNOg@mail.gmail.com>
 <CALzTN-Rpg5BvzFkT5SYSfUaLXM0Ap2fuRe+wDw3Td7iZgpcM6g@mail.gmail.com>
Message-ID: <CAJFNcCQe-907wcX8JpZRzPf4vz1F3=WD6=9ac8nJ44BMV=cyTA@mail.gmail.com>

Two of the three failures look like truncation issues (like
https://open.cdash.org/testDetails.php?test=395263772&build=4117158)

The other (
https://open.cdash.org/testDetails.php?test=395264938&build=4117158)  is
less obvious.

If I have time this evening I'll try and have a look at these.

Is your standard test build in 32 bit ?  That might explain the difference
if there are some underlying type assumptions, but not obvious why 2015
would trigger but not 2013.



On Wed, 25 Nov 2015 at 11:01 Matt McCormick <matt.mccormick at kitware.com>
wrote:

> Ah, cool!  Here:
>
>  https://open.cdash.org/viewBuildError.php?type=1&buildid=4117158
>
> Could you please look into the test failures?
>
> @Hyun Jae, could you please look into the KWStyle warnings?
>
> Thanks,
> Matt
>
>
> On Wed, Nov 25, 2015 at 10:55 AM, Simon Alexander <skalexander at gmail.com>
> wrote:
> > Sorry, if I wasn't clear - I submitted two builds yesterday from
> SIMON-LAP,
> > (actually 3 as I wasn't sure the config was right on the first one).
> VS2013
> > was green, three failures on VS2015  (and 18 warnings).  Looks like a
> > truncation problem on the resuts.
> >
> > On Wed, 25 Nov 2015 at 10:51 Matt McCormick <matt.mccormick at kitware.com>
> > wrote:
> >>
> >> Hi Simon,
> >>
> >> Thanks for testing.
> >>
> >> We have a Visual Studio 2015 build on the dashboard that is green:
> >>
> >>   https://open.cdash.org/buildSummary.php?buildid=4117955
> >>
> >> Are there any different flags? Could you please submit an Experimental
> >> build?
> >>
> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T Submit -C
> >> Release
> >>
> >> from a fresh build tree.
> >>
> >> Thanks,
> >> Matt
> >>
> >> On Wed, Nov 25, 2015 at 9:07 AM, Simon Alexander <skalexander at gmail.com
> >
> >> wrote:
> >> > Looks like a few problems with x64 build on visual studio 2015 - do
> you
> >> > have
> >> > a test machine in this configuration?
> >> >
> >> > On Mon, 23 Nov 2015 at 17:53 Matt McCormick <
> matt.mccormick at kitware.com>
> >> > wrote:
> >> >>
> >> >> On behalf of the Insight Toolkit community, we are proud to announce
> >> >> that
> >> >> ITK 4.9 release candidate 1 has been tagged and is available for
> >> >> testing!
> >> >>
> >> >> Please take this opportunity to test the new features in the release
> >> >> candidate.
> >> >>
> >> >>
> >> >> To obtain the source code,
> >> >>
> >> >>   git clone http://itk.org/ITK.git
> >> >>  cd ITK
> >> >>  git checkout -q --detach v4.9rc01
> >> >>
> >> >> For more details, please see the Git documentation [1].
> >> >>
> >> >>
> >> >> A few selected highlights for this release:
> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
> >> >>
> >> >> * New Remote modules: the Cuberille module for smooth generation of
> >> >> meshes
> >> >> from binary segmentation images, and the AnisotropicDiffusionLBR
> module
> >> >> improved edge-preserving smoothing.
> >> >> * Build your own ITK module outside the source tree, add continuous
> >> >> integration testing on GitHub, and easily add Python wrapping for
> your
> >> >> C++
> >> >> algorithms.
> >> >> * Python wrapping, including Python 3, builds faster with a more
> >> >> standard
> >> >> installation
> >> >> * Improved performance of itk::Image::GetPixel and operations on
> >> >> itk::VariableLengthVector?s
> >> >> * Generate a FlatStructuringElement from an image
> >> >> * Point-set registration with time-varying B-splines
> >> >> * Module dependencies can now be specified as public / private /
> >> >> compile /
> >> >> test
> >> >>
> >> >>
> >> >> Please test the release candidate and share your experiences on the
> >> >> mailing list, issue tracker, and Gerrit Code Review. The new module
> >> >> dependency specification mechanism may unearth missing dependencies
> for
> >> >> projects that use ITK COMPONENTS with the CMake find_package command.
> >> >>
> >> >>
> >> >> An Experimental build, which demonstrates how the test suite performs
> >> >> on
> >> >> your local build system, can be submitted to the dashboard [2] with:
> >> >>
> >> >>   mkdir ../ITK-build
> >> >>   cd ../ITK-build
> >> >>   cmake ../ITK
> >> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T Submit
> >> >>
> >> >> Visual Studio builds must also add ?-C Release? to the ctest command.
> >> >>
> >> >> Notify the mailing list if there are any unexpected failures.
> Testing
> >> >> your own applications against the RC is also appreciated.
> >> >>
> >> >>
> >> >> Congratulations and well done to the 35 contributors to this release.
> >> >> We
> >> >> would especially like to recognize the new contributors: Mikhail
> >> >> Isakov,
> >> >> Betsy McPhail, Alexander Leinoff, Shawn Waldon, Tobias Wood, Seun
> >> >> Odutola,
> >> >> Hyun Jae Kang, Lucas Gandel, Adam Snyder, Junjie Bai, Pablo
> >> >> Hernandez-Cerdan, Abhishek Tiwari, Eugene Prilepin, Zach Williamson,
> >> >> Luc
> >> >> Hermitte, Laurentiu Nicola, and Floris Berendsen.
> >> >>
> >> >>
> >> >> The final release is scheduled for mid-December.
> >> >>
> >> >>
> >> >> [1] http://www.itk.org/Wiki/ITK/Git
> >> >>
> >> >> [2] http://open.cdash.org/index.php?project=Insight
> >> >>
> >> >>
> >> >>
> >> >> New Features
> >> >> ---------------------
> >> >>
> >> >> Wrapping improvements
> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
> >> >>
> >> >> * Python 3 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::)
> >> >>
> >> >>
> >> >> 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
> >> >>    * 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
> >> >>
> >> >>
> >> >> 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
> >> >> * GDCM updated 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
> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
> >> >>
> >> >>
> >> >> * And much more! See details in the log below.
> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
> >> >>
> >> >>
> >> >>
> >> >> 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
> >> >>
> >> >>
> >> >>
> >> >> -----------------------------------------------------
> >> >> Errors or omissions? Please fix them here:
> >> >>
> >> >>
> >> >>
> >> >>
> https://docs.google.com/document/d/1j3IAZFfi0ToO8N6hTr0fVTTMmHIMkXAxx0AsAajsYuM/edit
> >> >> _____________________________________
> >> >> Powered by www.kitware.com
> >> >>
> >> >> Visit other Kitware open-source projects at
> >> >> http://www.kitware.com/opensource/opensource.html
> >> >>
> >> >> Kitware offers ITK Training Courses, for more information visit:
> >> >> http://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  Wed Nov 25 15:57:58 2015
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Wed, 25 Nov 2015 15:57:58 -0500
Subject: [ITK-users] [ITK-dev] [ANN] ITK 4.9 Release Candidate 1 is
 ready for testing!
In-Reply-To: <CAJFNcCQe-907wcX8JpZRzPf4vz1F3=WD6=9ac8nJ44BMV=cyTA@mail.gmail.com>
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 <CAJFNcCT6w880EzKxXsx7oNHEq8zto646PMvJFrpGRJ+w8DorGQ@mail.gmail.com>
 <CALzTN-S5oLGFxp20L1t89hfo6fR0MOqZR2vv7LX2p_JaraV_kQ@mail.gmail.com>
 <CAJFNcCQoQJtiCock1g9z9N=+W=TwTYsX62bUHfHnTSPSrozNOg@mail.gmail.com>
 <CALzTN-Rpg5BvzFkT5SYSfUaLXM0Ap2fuRe+wDw3Td7iZgpcM6g@mail.gmail.com>
 <CAJFNcCQe-907wcX8JpZRzPf4vz1F3=WD6=9ac8nJ44BMV=cyTA@mail.gmail.com>
Message-ID: <CAPf2UMRke6KvaQRe42HCT0PUDDp2XaVrF0w7-HgYAW48bCxrPg@mail.gmail.com>

Building git master from Nov 23rd with examples and testing enabled I get
14 compile errors in VS2015 debug x64. Should we coordinate our efforts in
fixing them?

On Wed, Nov 25, 2015 at 11:29 AM, Simon Alexander <skalexander at gmail.com>
wrote:

> Two of the three failures look like truncation issues (like
> https://open.cdash.org/testDetails.php?test=395263772&build=4117158)
>
> The other (
> https://open.cdash.org/testDetails.php?test=395264938&build=4117158)  is
> less obvious.
>
> If I have time this evening I'll try and have a look at these.
>
> Is your standard test build in 32 bit ?  That might explain the difference
> if there are some underlying type assumptions, but not obvious why 2015
> would trigger but not 2013.
>
>
>
> On Wed, 25 Nov 2015 at 11:01 Matt McCormick <matt.mccormick at kitware.com>
> wrote:
>
>> Ah, cool!  Here:
>>
>>  https://open.cdash.org/viewBuildError.php?type=1&buildid=4117158
>>
>> Could you please look into the test failures?
>>
>> @Hyun Jae, could you please look into the KWStyle warnings?
>>
>> Thanks,
>> Matt
>>
>>
>> On Wed, Nov 25, 2015 at 10:55 AM, Simon Alexander <skalexander at gmail.com>
>> wrote:
>> > Sorry, if I wasn't clear - I submitted two builds yesterday from
>> SIMON-LAP,
>> > (actually 3 as I wasn't sure the config was right on the first one).
>> VS2013
>> > was green, three failures on VS2015  (and 18 warnings).  Looks like a
>> > truncation problem on the resuts.
>> >
>> > On Wed, 25 Nov 2015 at 10:51 Matt McCormick <matt.mccormick at kitware.com
>> >
>> > wrote:
>> >>
>> >> Hi Simon,
>> >>
>> >> Thanks for testing.
>> >>
>> >> We have a Visual Studio 2015 build on the dashboard that is green:
>> >>
>> >>   https://open.cdash.org/buildSummary.php?buildid=4117955
>> >>
>> >> Are there any different flags? Could you please submit an Experimental
>> >> build?
>> >>
>> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T Submit
>> -C
>> >> Release
>> >>
>> >> from a fresh build tree.
>> >>
>> >> Thanks,
>> >> Matt
>> >>
>> >> On Wed, Nov 25, 2015 at 9:07 AM, Simon Alexander <
>> skalexander at gmail.com>
>> >> wrote:
>> >> > Looks like a few problems with x64 build on visual studio 2015 - do
>> you
>> >> > have
>> >> > a test machine in this configuration?
>> >> >
>> >> > On Mon, 23 Nov 2015 at 17:53 Matt McCormick <
>> matt.mccormick at kitware.com>
>> >> > wrote:
>> >> >>
>> >> >> On behalf of the Insight Toolkit community, we are proud to announce
>> >> >> that
>> >> >> ITK 4.9 release candidate 1 has been tagged and is available for
>> >> >> testing!
>> >> >>
>> >> >> Please take this opportunity to test the new features in the release
>> >> >> candidate.
>> >> >>
>> >> >>
>> >> >> To obtain the source code,
>> >> >>
>> >> >>   git clone http://itk.org/ITK.git
>> >> >>  cd ITK
>> >> >>  git checkout -q --detach v4.9rc01
>> >> >>
>> >> >> For more details, please see the Git documentation [1].
>> >> >>
>> >> >>
>> >> >> A few selected highlights for this release:
>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>> >> >>
>> >> >> * New Remote modules: the Cuberille module for smooth generation of
>> >> >> meshes
>> >> >> from binary segmentation images, and the AnisotropicDiffusionLBR
>> module
>> >> >> improved edge-preserving smoothing.
>> >> >> * Build your own ITK module outside the source tree, add continuous
>> >> >> integration testing on GitHub, and easily add Python wrapping for
>> your
>> >> >> C++
>> >> >> algorithms.
>> >> >> * Python wrapping, including Python 3, builds faster with a more
>> >> >> standard
>> >> >> installation
>> >> >> * Improved performance of itk::Image::GetPixel and operations on
>> >> >> itk::VariableLengthVector?s
>> >> >> * Generate a FlatStructuringElement from an image
>> >> >> * Point-set registration with time-varying B-splines
>> >> >> * Module dependencies can now be specified as public / private /
>> >> >> compile /
>> >> >> test
>> >> >>
>> >> >>
>> >> >> Please test the release candidate and share your experiences on the
>> >> >> mailing list, issue tracker, and Gerrit Code Review. The new module
>> >> >> dependency specification mechanism may unearth missing dependencies
>> for
>> >> >> projects that use ITK COMPONENTS with the CMake find_package
>> command.
>> >> >>
>> >> >>
>> >> >> An Experimental build, which demonstrates how the test suite
>> performs
>> >> >> on
>> >> >> your local build system, can be submitted to the dashboard [2] with:
>> >> >>
>> >> >>   mkdir ../ITK-build
>> >> >>   cd ../ITK-build
>> >> >>   cmake ../ITK
>> >> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T
>> Submit
>> >> >>
>> >> >> Visual Studio builds must also add ?-C Release? to the ctest
>> command.
>> >> >>
>> >> >> Notify the mailing list if there are any unexpected failures.
>> Testing
>> >> >> your own applications against the RC is also appreciated.
>> >> >>
>> >> >>
>> >> >> Congratulations and well done to the 35 contributors to this
>> release.
>> >> >> We
>> >> >> would especially like to recognize the new contributors: Mikhail
>> >> >> Isakov,
>> >> >> Betsy McPhail, Alexander Leinoff, Shawn Waldon, Tobias Wood, Seun
>> >> >> Odutola,
>> >> >> Hyun Jae Kang, Lucas Gandel, Adam Snyder, Junjie Bai, Pablo
>> >> >> Hernandez-Cerdan, Abhishek Tiwari, Eugene Prilepin, Zach Williamson,
>> >> >> Luc
>> >> >> Hermitte, Laurentiu Nicola, and Floris Berendsen.
>> >> >>
>> >> >>
>> >> >> The final release is scheduled for mid-December.
>> >> >>
>> >> >>
>> >> >> [1] http://www.itk.org/Wiki/ITK/Git
>> >> >>
>> >> >> [2] http://open.cdash.org/index.php?project=Insight
>> >> >>
>> >> >>
>> >> >>
>> >> >> New Features
>> >> >> ---------------------
>> >> >>
>> >> >> Wrapping improvements
>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>> >> >>
>> >> >> * Python 3 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::)
>> >> >>
>> >> >>
>> >> >> 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
>> >> >>    * 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
>> >> >>
>> >> >>
>> >> >> 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
>> >> >> * GDCM updated 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
>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>> >> >>
>> >> >>
>> >> >> * And much more! See details in the log below.
>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>> >> >>
>> >> >>
>> >> >>
>> >> >> 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
>> >> >>
>> >> >>
>> >> >>
>> >> >> -----------------------------------------------------
>> >> >> Errors or omissions? Please fix them here:
>> >> >>
>> >> >>
>> >> >>
>> >> >>
>> https://docs.google.com/document/d/1j3IAZFfi0ToO8N6hTr0fVTTMmHIMkXAxx0AsAajsYuM/edit
>> >> >> _____________________________________
>> >> >> Powered by www.kitware.com
>> >> >>
>> >> >> Visit other Kitware open-source projects at
>> >> >> http://www.kitware.com/opensource/opensource.html
>> >> >>
>> >> >> Kitware offers ITK Training Courses, for more information visit:
>> >> >> http://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://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-developers
>
>
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From skalexander at gmail.com  Wed Nov 25 16:02:21 2015
From: skalexander at gmail.com (Simon Alexander)
Date: Wed, 25 Nov 2015 21:02:21 +0000
Subject: [ITK-users] [ITK-dev] [ANN] ITK 4.9 Release Candidate 1 is
 ready for testing!
In-Reply-To: <CAPf2UMRke6KvaQRe42HCT0PUDDp2XaVrF0w7-HgYAW48bCxrPg@mail.gmail.com>
References: <CALzTN-QFzWXhwYCUukD-vtDFjZWyA-C27-5-D0CCrvFgK8OsfQ@mail.gmail.com>
 <CAJFNcCT6w880EzKxXsx7oNHEq8zto646PMvJFrpGRJ+w8DorGQ@mail.gmail.com>
 <CALzTN-S5oLGFxp20L1t89hfo6fR0MOqZR2vv7LX2p_JaraV_kQ@mail.gmail.com>
 <CAJFNcCQoQJtiCock1g9z9N=+W=TwTYsX62bUHfHnTSPSrozNOg@mail.gmail.com>
 <CALzTN-Rpg5BvzFkT5SYSfUaLXM0Ap2fuRe+wDw3Td7iZgpcM6g@mail.gmail.com>
 <CAJFNcCQe-907wcX8JpZRzPf4vz1F3=WD6=9ac8nJ44BMV=cyTA@mail.gmail.com>
 <CAPf2UMRke6KvaQRe42HCT0PUDDp2XaVrF0w7-HgYAW48bCxrPg@mail.gmail.com>
Message-ID: <CAJFNcCQJb=T7pw+vxw+H+3pvB4HYxEihSpcr21dqfZ9cb2h5dg@mail.gmail.com>

Makes sense.  At this point I am unlikely to have time to look at this
until Saturday, but have hopes for a few free hours there.

On Wed, 25 Nov 2015 at 15:58 D?enan Zuki? <dzenanz at gmail.com> wrote:

> Building git master from Nov 23rd with examples and testing enabled I get
> 14 compile errors in VS2015 debug x64. Should we coordinate our efforts in
> fixing them?
>
> On Wed, Nov 25, 2015 at 11:29 AM, Simon Alexander <skalexander at gmail.com>
> wrote:
>
>> Two of the three failures look like truncation issues (like
>> https://open.cdash.org/testDetails.php?test=395263772&build=4117158)
>>
>> The other (
>> https://open.cdash.org/testDetails.php?test=395264938&build=4117158)  is
>> less obvious.
>>
>> If I have time this evening I'll try and have a look at these.
>>
>> Is your standard test build in 32 bit ?  That might explain the
>> difference if there are some underlying type assumptions, but not obvious
>> why 2015 would trigger but not 2013.
>>
>>
>>
>> On Wed, 25 Nov 2015 at 11:01 Matt McCormick <matt.mccormick at kitware.com>
>> wrote:
>>
>>> Ah, cool!  Here:
>>>
>>>  https://open.cdash.org/viewBuildError.php?type=1&buildid=4117158
>>>
>>> Could you please look into the test failures?
>>>
>>> @Hyun Jae, could you please look into the KWStyle warnings?
>>>
>>> Thanks,
>>> Matt
>>>
>>>
>>> On Wed, Nov 25, 2015 at 10:55 AM, Simon Alexander <skalexander at gmail.com>
>>> wrote:
>>> > Sorry, if I wasn't clear - I submitted two builds yesterday from
>>> SIMON-LAP,
>>> > (actually 3 as I wasn't sure the config was right on the first one).
>>> VS2013
>>> > was green, three failures on VS2015  (and 18 warnings).  Looks like a
>>> > truncation problem on the resuts.
>>> >
>>> > On Wed, 25 Nov 2015 at 10:51 Matt McCormick <
>>> matt.mccormick at kitware.com>
>>> > wrote:
>>> >>
>>> >> Hi Simon,
>>> >>
>>> >> Thanks for testing.
>>> >>
>>> >> We have a Visual Studio 2015 build on the dashboard that is green:
>>> >>
>>> >>   https://open.cdash.org/buildSummary.php?buildid=4117955
>>> >>
>>> >> Are there any different flags? Could you please submit an Experimental
>>> >> build?
>>> >>
>>> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T Submit
>>> -C
>>> >> Release
>>> >>
>>> >> from a fresh build tree.
>>> >>
>>> >> Thanks,
>>> >> Matt
>>> >>
>>> >> On Wed, Nov 25, 2015 at 9:07 AM, Simon Alexander <
>>> skalexander at gmail.com>
>>> >> wrote:
>>> >> > Looks like a few problems with x64 build on visual studio 2015 - do
>>> you
>>> >> > have
>>> >> > a test machine in this configuration?
>>> >> >
>>> >> > On Mon, 23 Nov 2015 at 17:53 Matt McCormick <
>>> matt.mccormick at kitware.com>
>>> >> > wrote:
>>> >> >>
>>> >> >> On behalf of the Insight Toolkit community, we are proud to
>>> announce
>>> >> >> that
>>> >> >> ITK 4.9 release candidate 1 has been tagged and is available for
>>> >> >> testing!
>>> >> >>
>>> >> >> Please take this opportunity to test the new features in the
>>> release
>>> >> >> candidate.
>>> >> >>
>>> >> >>
>>> >> >> To obtain the source code,
>>> >> >>
>>> >> >>   git clone http://itk.org/ITK.git
>>> >> >>  cd ITK
>>> >> >>  git checkout -q --detach v4.9rc01
>>> >> >>
>>> >> >> For more details, please see the Git documentation [1].
>>> >> >>
>>> >> >>
>>> >> >> A few selected highlights for this release:
>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>> >> >>
>>> >> >> * New Remote modules: the Cuberille module for smooth generation of
>>> >> >> meshes
>>> >> >> from binary segmentation images, and the AnisotropicDiffusionLBR
>>> module
>>> >> >> improved edge-preserving smoothing.
>>> >> >> * Build your own ITK module outside the source tree, add continuous
>>> >> >> integration testing on GitHub, and easily add Python wrapping for
>>> your
>>> >> >> C++
>>> >> >> algorithms.
>>> >> >> * Python wrapping, including Python 3, builds faster with a more
>>> >> >> standard
>>> >> >> installation
>>> >> >> * Improved performance of itk::Image::GetPixel and operations on
>>> >> >> itk::VariableLengthVector?s
>>> >> >> * Generate a FlatStructuringElement from an image
>>> >> >> * Point-set registration with time-varying B-splines
>>> >> >> * Module dependencies can now be specified as public / private /
>>> >> >> compile /
>>> >> >> test
>>> >> >>
>>> >> >>
>>> >> >> Please test the release candidate and share your experiences on the
>>> >> >> mailing list, issue tracker, and Gerrit Code Review. The new module
>>> >> >> dependency specification mechanism may unearth missing
>>> dependencies for
>>> >> >> projects that use ITK COMPONENTS with the CMake find_package
>>> command.
>>> >> >>
>>> >> >>
>>> >> >> An Experimental build, which demonstrates how the test suite
>>> performs
>>> >> >> on
>>> >> >> your local build system, can be submitted to the dashboard [2]
>>> with:
>>> >> >>
>>> >> >>   mkdir ../ITK-build
>>> >> >>   cd ../ITK-build
>>> >> >>   cmake ../ITK
>>> >> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T
>>> Submit
>>> >> >>
>>> >> >> Visual Studio builds must also add ?-C Release? to the ctest
>>> command.
>>> >> >>
>>> >> >> Notify the mailing list if there are any unexpected failures.
>>> Testing
>>> >> >> your own applications against the RC is also appreciated.
>>> >> >>
>>> >> >>
>>> >> >> Congratulations and well done to the 35 contributors to this
>>> release.
>>> >> >> We
>>> >> >> would especially like to recognize the new contributors: Mikhail
>>> >> >> Isakov,
>>> >> >> Betsy McPhail, Alexander Leinoff, Shawn Waldon, Tobias Wood, Seun
>>> >> >> Odutola,
>>> >> >> Hyun Jae Kang, Lucas Gandel, Adam Snyder, Junjie Bai, Pablo
>>> >> >> Hernandez-Cerdan, Abhishek Tiwari, Eugene Prilepin, Zach
>>> Williamson,
>>> >> >> Luc
>>> >> >> Hermitte, Laurentiu Nicola, and Floris Berendsen.
>>> >> >>
>>> >> >>
>>> >> >> The final release is scheduled for mid-December.
>>> >> >>
>>> >> >>
>>> >> >> [1] http://www.itk.org/Wiki/ITK/Git
>>> >> >>
>>> >> >> [2] http://open.cdash.org/index.php?project=Insight
>>> >> >>
>>> >> >>
>>> >> >>
>>> >> >> New Features
>>> >> >> ---------------------
>>> >> >>
>>> >> >> Wrapping improvements
>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>> >> >>
>>> >> >> * Python 3 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::)
>>> >> >>
>>> >> >>
>>> >> >> 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
>>> >> >>    * 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
>>> >> >>
>>> >> >>
>>> >> >> 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
>>> >> >> * GDCM updated 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
>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>> >> >>
>>> >> >>
>>> >> >> * And much more! See details in the log below.
>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>> >> >>
>>> >> >>
>>> >> >>
>>> >> >> 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
>>> >> >>
>>> >> >>
>>> >> >>
>>> >> >> -----------------------------------------------------
>>> >> >> Errors or omissions? Please fix them here:
>>> >> >>
>>> >> >>
>>> >> >>
>>> >> >>
>>> https://docs.google.com/document/d/1j3IAZFfi0ToO8N6hTr0fVTTMmHIMkXAxx0AsAajsYuM/edit
>>> >> >> _____________________________________
>>> >> >> Powered by www.kitware.com
>>> >> >>
>>> >> >> Visit other Kitware open-source projects at
>>> >> >> http://www.kitware.com/opensource/opensource.html
>>> >> >>
>>> >> >> Kitware offers ITK Training Courses, for more information visit:
>>> >> >> http://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://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-developers
>>
>>
>
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From dzenanz at gmail.com  Wed Nov 25 16:05:50 2015
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Wed, 25 Nov 2015 16:05:50 -0500
Subject: [ITK-users] [ITK-dev] [ANN] ITK 4.9 Release Candidate 1 is
 ready for testing!
In-Reply-To: <CAJFNcCQJb=T7pw+vxw+H+3pvB4HYxEihSpcr21dqfZ9cb2h5dg@mail.gmail.com>
References: <CALzTN-QFzWXhwYCUukD-vtDFjZWyA-C27-5-D0CCrvFgK8OsfQ@mail.gmail.com>
 <CAJFNcCT6w880EzKxXsx7oNHEq8zto646PMvJFrpGRJ+w8DorGQ@mail.gmail.com>
 <CALzTN-S5oLGFxp20L1t89hfo6fR0MOqZR2vv7LX2p_JaraV_kQ@mail.gmail.com>
 <CAJFNcCQoQJtiCock1g9z9N=+W=TwTYsX62bUHfHnTSPSrozNOg@mail.gmail.com>
 <CALzTN-Rpg5BvzFkT5SYSfUaLXM0Ap2fuRe+wDw3Td7iZgpcM6g@mail.gmail.com>
 <CAJFNcCQe-907wcX8JpZRzPf4vz1F3=WD6=9ac8nJ44BMV=cyTA@mail.gmail.com>
 <CAPf2UMRke6KvaQRe42HCT0PUDDp2XaVrF0w7-HgYAW48bCxrPg@mail.gmail.com>
 <CAJFNcCQJb=T7pw+vxw+H+3pvB4HYxEihSpcr21dqfZ9cb2h5dg@mail.gmail.com>
Message-ID: <CAPf2UMS7QYr-iNikg=cOeNEHY36B6EmznPXFbB2QheRM_V+g+Q@mail.gmail.com>

OK I will work on it for an hour or two now, and I will make a branch and
push it to Gerrit so whoever wants can pick up from there and keep updating
it.

On Wed, Nov 25, 2015 at 4:02 PM, Simon Alexander <skalexander at gmail.com>
wrote:

> Makes sense.  At this point I am unlikely to have time to look at this
> until Saturday, but have hopes for a few free hours there.
>
> On Wed, 25 Nov 2015 at 15:58 D?enan Zuki? <dzenanz at gmail.com> wrote:
>
>> Building git master from Nov 23rd with examples and testing enabled I get
>> 14 compile errors in VS2015 debug x64. Should we coordinate our efforts in
>> fixing them?
>>
>> On Wed, Nov 25, 2015 at 11:29 AM, Simon Alexander <skalexander at gmail.com>
>> wrote:
>>
>>> Two of the three failures look like truncation issues (like
>>> https://open.cdash.org/testDetails.php?test=395263772&build=4117158)
>>>
>>> The other (
>>> https://open.cdash.org/testDetails.php?test=395264938&build=4117158)
>>>  is less obvious.
>>>
>>> If I have time this evening I'll try and have a look at these.
>>>
>>> Is your standard test build in 32 bit ?  That might explain the
>>> difference if there are some underlying type assumptions, but not obvious
>>> why 2015 would trigger but not 2013.
>>>
>>>
>>>
>>> On Wed, 25 Nov 2015 at 11:01 Matt McCormick <matt.mccormick at kitware.com>
>>> wrote:
>>>
>>>> Ah, cool!  Here:
>>>>
>>>>  https://open.cdash.org/viewBuildError.php?type=1&buildid=4117158
>>>>
>>>> Could you please look into the test failures?
>>>>
>>>> @Hyun Jae, could you please look into the KWStyle warnings?
>>>>
>>>> Thanks,
>>>> Matt
>>>>
>>>>
>>>> On Wed, Nov 25, 2015 at 10:55 AM, Simon Alexander <
>>>> skalexander at gmail.com> wrote:
>>>> > Sorry, if I wasn't clear - I submitted two builds yesterday from
>>>> SIMON-LAP,
>>>> > (actually 3 as I wasn't sure the config was right on the first one).
>>>> VS2013
>>>> > was green, three failures on VS2015  (and 18 warnings).  Looks like a
>>>> > truncation problem on the resuts.
>>>> >
>>>> > On Wed, 25 Nov 2015 at 10:51 Matt McCormick <
>>>> matt.mccormick at kitware.com>
>>>> > wrote:
>>>> >>
>>>> >> Hi Simon,
>>>> >>
>>>> >> Thanks for testing.
>>>> >>
>>>> >> We have a Visual Studio 2015 build on the dashboard that is green:
>>>> >>
>>>> >>   https://open.cdash.org/buildSummary.php?buildid=4117955
>>>> >>
>>>> >> Are there any different flags? Could you please submit an
>>>> Experimental
>>>> >> build?
>>>> >>
>>>> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T
>>>> Submit -C
>>>> >> Release
>>>> >>
>>>> >> from a fresh build tree.
>>>> >>
>>>> >> Thanks,
>>>> >> Matt
>>>> >>
>>>> >> On Wed, Nov 25, 2015 at 9:07 AM, Simon Alexander <
>>>> skalexander at gmail.com>
>>>> >> wrote:
>>>> >> > Looks like a few problems with x64 build on visual studio 2015 -
>>>> do you
>>>> >> > have
>>>> >> > a test machine in this configuration?
>>>> >> >
>>>> >> > On Mon, 23 Nov 2015 at 17:53 Matt McCormick <
>>>> matt.mccormick at kitware.com>
>>>> >> > wrote:
>>>> >> >>
>>>> >> >> On behalf of the Insight Toolkit community, we are proud to
>>>> announce
>>>> >> >> that
>>>> >> >> ITK 4.9 release candidate 1 has been tagged and is available for
>>>> >> >> testing!
>>>> >> >>
>>>> >> >> Please take this opportunity to test the new features in the
>>>> release
>>>> >> >> candidate.
>>>> >> >>
>>>> >> >>
>>>> >> >> To obtain the source code,
>>>> >> >>
>>>> >> >>   git clone http://itk.org/ITK.git
>>>> >> >>  cd ITK
>>>> >> >>  git checkout -q --detach v4.9rc01
>>>> >> >>
>>>> >> >> For more details, please see the Git documentation [1].
>>>> >> >>
>>>> >> >>
>>>> >> >> A few selected highlights for this release:
>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>> >> >>
>>>> >> >> * New Remote modules: the Cuberille module for smooth generation
>>>> of
>>>> >> >> meshes
>>>> >> >> from binary segmentation images, and the AnisotropicDiffusionLBR
>>>> module
>>>> >> >> improved edge-preserving smoothing.
>>>> >> >> * Build your own ITK module outside the source tree, add
>>>> continuous
>>>> >> >> integration testing on GitHub, and easily add Python wrapping for
>>>> your
>>>> >> >> C++
>>>> >> >> algorithms.
>>>> >> >> * Python wrapping, including Python 3, builds faster with a more
>>>> >> >> standard
>>>> >> >> installation
>>>> >> >> * Improved performance of itk::Image::GetPixel and operations on
>>>> >> >> itk::VariableLengthVector?s
>>>> >> >> * Generate a FlatStructuringElement from an image
>>>> >> >> * Point-set registration with time-varying B-splines
>>>> >> >> * Module dependencies can now be specified as public / private /
>>>> >> >> compile /
>>>> >> >> test
>>>> >> >>
>>>> >> >>
>>>> >> >> Please test the release candidate and share your experiences on
>>>> the
>>>> >> >> mailing list, issue tracker, and Gerrit Code Review. The new
>>>> module
>>>> >> >> dependency specification mechanism may unearth missing
>>>> dependencies for
>>>> >> >> projects that use ITK COMPONENTS with the CMake find_package
>>>> command.
>>>> >> >>
>>>> >> >>
>>>> >> >> An Experimental build, which demonstrates how the test suite
>>>> performs
>>>> >> >> on
>>>> >> >> your local build system, can be submitted to the dashboard [2]
>>>> with:
>>>> >> >>
>>>> >> >>   mkdir ../ITK-build
>>>> >> >>   cd ../ITK-build
>>>> >> >>   cmake ../ITK
>>>> >> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T
>>>> Submit
>>>> >> >>
>>>> >> >> Visual Studio builds must also add ?-C Release? to the ctest
>>>> command.
>>>> >> >>
>>>> >> >> Notify the mailing list if there are any unexpected failures.
>>>> Testing
>>>> >> >> your own applications against the RC is also appreciated.
>>>> >> >>
>>>> >> >>
>>>> >> >> Congratulations and well done to the 35 contributors to this
>>>> release.
>>>> >> >> We
>>>> >> >> would especially like to recognize the new contributors: Mikhail
>>>> >> >> Isakov,
>>>> >> >> Betsy McPhail, Alexander Leinoff, Shawn Waldon, Tobias Wood, Seun
>>>> >> >> Odutola,
>>>> >> >> Hyun Jae Kang, Lucas Gandel, Adam Snyder, Junjie Bai, Pablo
>>>> >> >> Hernandez-Cerdan, Abhishek Tiwari, Eugene Prilepin, Zach
>>>> Williamson,
>>>> >> >> Luc
>>>> >> >> Hermitte, Laurentiu Nicola, and Floris Berendsen.
>>>> >> >>
>>>> >> >>
>>>> >> >> The final release is scheduled for mid-December.
>>>> >> >>
>>>> >> >>
>>>> >> >> [1] http://www.itk.org/Wiki/ITK/Git
>>>> >> >>
>>>> >> >> [2] http://open.cdash.org/index.php?project=Insight
>>>> >> >>
>>>> >> >>
>>>> >> >>
>>>> >> >> New Features
>>>> >> >> ---------------------
>>>> >> >>
>>>> >> >> Wrapping improvements
>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>> >> >>
>>>> >> >> * Python 3 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::)
>>>> >> >>
>>>> >> >>
>>>> >> >> 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
>>>> >> >>    * 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
>>>> >> >>
>>>> >> >>
>>>> >> >> 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
>>>> >> >> * GDCM updated 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
>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>> >> >>
>>>> >> >>
>>>> >> >> * And much more! See details in the log below.
>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>> >> >>
>>>> >> >>
>>>> >> >>
>>>> >> >> 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
>>>> >> >>
>>>> >> >>
>>>> >> >>
>>>> >> >> -----------------------------------------------------
>>>> >> >> Errors or omissions? Please fix them here:
>>>> >> >>
>>>> >> >>
>>>> >> >>
>>>> >> >>
>>>> https://docs.google.com/document/d/1j3IAZFfi0ToO8N6hTr0fVTTMmHIMkXAxx0AsAajsYuM/edit
>>>> >> >> _____________________________________
>>>> >> >> Powered by www.kitware.com
>>>> >> >>
>>>> >> >> Visit other Kitware open-source projects at
>>>> >> >> http://www.kitware.com/opensource/opensource.html
>>>> >> >>
>>>> >> >> Kitware offers ITK Training Courses, for more information visit:
>>>> >> >> http://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://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-developers
>>>
>>>
>>
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From skalexander at gmail.com  Wed Nov 25 16:08:18 2015
From: skalexander at gmail.com (Simon Alexander)
Date: Wed, 25 Nov 2015 21:08:18 +0000
Subject: [ITK-users] [ITK-dev] [ANN] ITK 4.9 Release Candidate 1 is
 ready for testing!
In-Reply-To: <CAPf2UMS7QYr-iNikg=cOeNEHY36B6EmznPXFbB2QheRM_V+g+Q@mail.gmail.com>
References: <CALzTN-QFzWXhwYCUukD-vtDFjZWyA-C27-5-D0CCrvFgK8OsfQ@mail.gmail.com>
 <CAJFNcCT6w880EzKxXsx7oNHEq8zto646PMvJFrpGRJ+w8DorGQ@mail.gmail.com>
 <CALzTN-S5oLGFxp20L1t89hfo6fR0MOqZR2vv7LX2p_JaraV_kQ@mail.gmail.com>
 <CAJFNcCQoQJtiCock1g9z9N=+W=TwTYsX62bUHfHnTSPSrozNOg@mail.gmail.com>
 <CALzTN-Rpg5BvzFkT5SYSfUaLXM0Ap2fuRe+wDw3Td7iZgpcM6g@mail.gmail.com>
 <CAJFNcCQe-907wcX8JpZRzPf4vz1F3=WD6=9ac8nJ44BMV=cyTA@mail.gmail.com>
 <CAPf2UMRke6KvaQRe42HCT0PUDDp2XaVrF0w7-HgYAW48bCxrPg@mail.gmail.com>
 <CAJFNcCQJb=T7pw+vxw+H+3pvB4HYxEihSpcr21dqfZ9cb2h5dg@mail.gmail.com>
 <CAPf2UMS7QYr-iNikg=cOeNEHY36B6EmznPXFbB2QheRM_V+g+Q@mail.gmail.com>
Message-ID: <CAJFNcCSvFRopjuQFWxfNBc7h40ZoYpV5w3dq2JNu7JfTE3LUuA@mail.gmail.com>

Perfect.  I'm under a deadline that is likely to eat the rest of the week
but if that clears up I'll try and jump in earlier.

On Wed, 25 Nov 2015 at 16:06 D?enan Zuki? <dzenanz at gmail.com> wrote:

> OK I will work on it for an hour or two now, and I will make a branch and
> push it to Gerrit so whoever wants can pick up from there and keep updating
> it.
>
> On Wed, Nov 25, 2015 at 4:02 PM, Simon Alexander <skalexander at gmail.com>
> wrote:
>
>> Makes sense.  At this point I am unlikely to have time to look at this
>> until Saturday, but have hopes for a few free hours there.
>>
>> On Wed, 25 Nov 2015 at 15:58 D?enan Zuki? <dzenanz at gmail.com> wrote:
>>
>>> Building git master from Nov 23rd with examples and testing enabled I
>>> get 14 compile errors in VS2015 debug x64. Should we coordinate our efforts
>>> in fixing them?
>>>
>>> On Wed, Nov 25, 2015 at 11:29 AM, Simon Alexander <skalexander at gmail.com
>>> > wrote:
>>>
>>>> Two of the three failures look like truncation issues (like
>>>> https://open.cdash.org/testDetails.php?test=395263772&build=4117158)
>>>>
>>>> The other (
>>>> https://open.cdash.org/testDetails.php?test=395264938&build=4117158)
>>>>  is less obvious.
>>>>
>>>> If I have time this evening I'll try and have a look at these.
>>>>
>>>> Is your standard test build in 32 bit ?  That might explain the
>>>> difference if there are some underlying type assumptions, but not obvious
>>>> why 2015 would trigger but not 2013.
>>>>
>>>>
>>>>
>>>> On Wed, 25 Nov 2015 at 11:01 Matt McCormick <matt.mccormick at kitware.com>
>>>> wrote:
>>>>
>>>>> Ah, cool!  Here:
>>>>>
>>>>>  https://open.cdash.org/viewBuildError.php?type=1&buildid=4117158
>>>>>
>>>>> Could you please look into the test failures?
>>>>>
>>>>> @Hyun Jae, could you please look into the KWStyle warnings?
>>>>>
>>>>> Thanks,
>>>>> Matt
>>>>>
>>>>>
>>>>> On Wed, Nov 25, 2015 at 10:55 AM, Simon Alexander <
>>>>> skalexander at gmail.com> wrote:
>>>>> > Sorry, if I wasn't clear - I submitted two builds yesterday from
>>>>> SIMON-LAP,
>>>>> > (actually 3 as I wasn't sure the config was right on the first
>>>>> one).  VS2013
>>>>> > was green, three failures on VS2015  (and 18 warnings).  Looks like a
>>>>> > truncation problem on the resuts.
>>>>> >
>>>>> > On Wed, 25 Nov 2015 at 10:51 Matt McCormick <
>>>>> matt.mccormick at kitware.com>
>>>>> > wrote:
>>>>> >>
>>>>> >> Hi Simon,
>>>>> >>
>>>>> >> Thanks for testing.
>>>>> >>
>>>>> >> We have a Visual Studio 2015 build on the dashboard that is green:
>>>>> >>
>>>>> >>   https://open.cdash.org/buildSummary.php?buildid=4117955
>>>>> >>
>>>>> >> Are there any different flags? Could you please submit an
>>>>> Experimental
>>>>> >> build?
>>>>> >>
>>>>> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T
>>>>> Submit -C
>>>>> >> Release
>>>>> >>
>>>>> >> from a fresh build tree.
>>>>> >>
>>>>> >> Thanks,
>>>>> >> Matt
>>>>> >>
>>>>> >> On Wed, Nov 25, 2015 at 9:07 AM, Simon Alexander <
>>>>> skalexander at gmail.com>
>>>>> >> wrote:
>>>>> >> > Looks like a few problems with x64 build on visual studio 2015 -
>>>>> do you
>>>>> >> > have
>>>>> >> > a test machine in this configuration?
>>>>> >> >
>>>>> >> > On Mon, 23 Nov 2015 at 17:53 Matt McCormick <
>>>>> matt.mccormick at kitware.com>
>>>>> >> > wrote:
>>>>> >> >>
>>>>> >> >> On behalf of the Insight Toolkit community, we are proud to
>>>>> announce
>>>>> >> >> that
>>>>> >> >> ITK 4.9 release candidate 1 has been tagged and is available for
>>>>> >> >> testing!
>>>>> >> >>
>>>>> >> >> Please take this opportunity to test the new features in the
>>>>> release
>>>>> >> >> candidate.
>>>>> >> >>
>>>>> >> >>
>>>>> >> >> To obtain the source code,
>>>>> >> >>
>>>>> >> >>   git clone http://itk.org/ITK.git
>>>>> >> >>  cd ITK
>>>>> >> >>  git checkout -q --detach v4.9rc01
>>>>> >> >>
>>>>> >> >> For more details, please see the Git documentation [1].
>>>>> >> >>
>>>>> >> >>
>>>>> >> >> A few selected highlights for this release:
>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>> >> >>
>>>>> >> >> * New Remote modules: the Cuberille module for smooth generation
>>>>> of
>>>>> >> >> meshes
>>>>> >> >> from binary segmentation images, and the AnisotropicDiffusionLBR
>>>>> module
>>>>> >> >> improved edge-preserving smoothing.
>>>>> >> >> * Build your own ITK module outside the source tree, add
>>>>> continuous
>>>>> >> >> integration testing on GitHub, and easily add Python wrapping
>>>>> for your
>>>>> >> >> C++
>>>>> >> >> algorithms.
>>>>> >> >> * Python wrapping, including Python 3, builds faster with a more
>>>>> >> >> standard
>>>>> >> >> installation
>>>>> >> >> * Improved performance of itk::Image::GetPixel and operations on
>>>>> >> >> itk::VariableLengthVector?s
>>>>> >> >> * Generate a FlatStructuringElement from an image
>>>>> >> >> * Point-set registration with time-varying B-splines
>>>>> >> >> * Module dependencies can now be specified as public / private /
>>>>> >> >> compile /
>>>>> >> >> test
>>>>> >> >>
>>>>> >> >>
>>>>> >> >> Please test the release candidate and share your experiences on
>>>>> the
>>>>> >> >> mailing list, issue tracker, and Gerrit Code Review. The new
>>>>> module
>>>>> >> >> dependency specification mechanism may unearth missing
>>>>> dependencies for
>>>>> >> >> projects that use ITK COMPONENTS with the CMake find_package
>>>>> command.
>>>>> >> >>
>>>>> >> >>
>>>>> >> >> An Experimental build, which demonstrates how the test suite
>>>>> performs
>>>>> >> >> on
>>>>> >> >> your local build system, can be submitted to the dashboard [2]
>>>>> with:
>>>>> >> >>
>>>>> >> >>   mkdir ../ITK-build
>>>>> >> >>   cd ../ITK-build
>>>>> >> >>   cmake ../ITK
>>>>> >> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T
>>>>> Submit
>>>>> >> >>
>>>>> >> >> Visual Studio builds must also add ?-C Release? to the ctest
>>>>> command.
>>>>> >> >>
>>>>> >> >> Notify the mailing list if there are any unexpected failures.
>>>>> Testing
>>>>> >> >> your own applications against the RC is also appreciated.
>>>>> >> >>
>>>>> >> >>
>>>>> >> >> Congratulations and well done to the 35 contributors to this
>>>>> release.
>>>>> >> >> We
>>>>> >> >> would especially like to recognize the new contributors: Mikhail
>>>>> >> >> Isakov,
>>>>> >> >> Betsy McPhail, Alexander Leinoff, Shawn Waldon, Tobias Wood, Seun
>>>>> >> >> Odutola,
>>>>> >> >> Hyun Jae Kang, Lucas Gandel, Adam Snyder, Junjie Bai, Pablo
>>>>> >> >> Hernandez-Cerdan, Abhishek Tiwari, Eugene Prilepin, Zach
>>>>> Williamson,
>>>>> >> >> Luc
>>>>> >> >> Hermitte, Laurentiu Nicola, and Floris Berendsen.
>>>>> >> >>
>>>>> >> >>
>>>>> >> >> The final release is scheduled for mid-December.
>>>>> >> >>
>>>>> >> >>
>>>>> >> >> [1] http://www.itk.org/Wiki/ITK/Git
>>>>> >> >>
>>>>> >> >> [2] http://open.cdash.org/index.php?project=Insight
>>>>> >> >>
>>>>> >> >>
>>>>> >> >>
>>>>> >> >> New Features
>>>>> >> >> ---------------------
>>>>> >> >>
>>>>> >> >> Wrapping improvements
>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>> >> >>
>>>>> >> >> * Python 3 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::)
>>>>> >> >>
>>>>> >> >>
>>>>> >> >> 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
>>>>> >> >>    * 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
>>>>> >> >>
>>>>> >> >>
>>>>> >> >> 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
>>>>> >> >> * GDCM updated 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
>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>> >> >>
>>>>> >> >>
>>>>> >> >> * And much more! See details in the log below.
>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>> >> >>
>>>>> >> >>
>>>>> >> >>
>>>>> >> >> 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
>>>>> >> >>
>>>>> >> >>
>>>>> >> >>
>>>>> >> >> -----------------------------------------------------
>>>>> >> >> Errors or omissions? Please fix them here:
>>>>> >> >>
>>>>> >> >>
>>>>> >> >>
>>>>> >> >>
>>>>> https://docs.google.com/document/d/1j3IAZFfi0ToO8N6hTr0fVTTMmHIMkXAxx0AsAajsYuM/edit
>>>>> >> >> _____________________________________
>>>>> >> >> Powered by www.kitware.com
>>>>> >> >>
>>>>> >> >> Visit other Kitware open-source projects at
>>>>> >> >> http://www.kitware.com/opensource/opensource.html
>>>>> >> >>
>>>>> >> >> Kitware offers ITK Training Courses, for more information visit:
>>>>> >> >> http://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://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-developers
>>>>
>>>>
>>>
>
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From dzenanz at gmail.com  Wed Nov 25 16:40:46 2015
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Wed, 25 Nov 2015 16:40:46 -0500
Subject: [ITK-users] [ITK-dev] [ANN] ITK 4.9 Release Candidate 1 is
 ready for testing!
In-Reply-To: <CAJFNcCSvFRopjuQFWxfNBc7h40ZoYpV5w3dq2JNu7JfTE3LUuA@mail.gmail.com>
References: <CALzTN-QFzWXhwYCUukD-vtDFjZWyA-C27-5-D0CCrvFgK8OsfQ@mail.gmail.com>
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 <CAJFNcCQoQJtiCock1g9z9N=+W=TwTYsX62bUHfHnTSPSrozNOg@mail.gmail.com>
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 <CAPf2UMRke6KvaQRe42HCT0PUDDp2XaVrF0w7-HgYAW48bCxrPg@mail.gmail.com>
 <CAJFNcCQJb=T7pw+vxw+H+3pvB4HYxEihSpcr21dqfZ9cb2h5dg@mail.gmail.com>
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Message-ID: <CAPf2UMSqrPnbJfaVZ-Nsw=m0iw8rnPENLsD0x588ekJ7wHG7yw@mail.gmail.com>

It turns out that all the compile errors were occurring in WikiExamples. I
solved all except one:
ITK_FIXED_PARAMETERS_ARE_DOUBLE is not defined in
file ITK\Modules\Remote\WikiExamples\Utilities\FileOutputWindow.cxx line
23, but it should be judging from the comment on that line.

For the rest, I created a pull request:
https://github.com/InsightSoftwareConsortium/ITKWikiExamples/pull/3

On Wed, Nov 25, 2015 at 4:08 PM, Simon Alexander <skalexander at gmail.com>
wrote:

> Perfect.  I'm under a deadline that is likely to eat the rest of the week
> but if that clears up I'll try and jump in earlier.
>
> On Wed, 25 Nov 2015 at 16:06 D?enan Zuki? <dzenanz at gmail.com> wrote:
>
>> OK I will work on it for an hour or two now, and I will make a branch and
>> push it to Gerrit so whoever wants can pick up from there and keep updating
>> it.
>>
>> On Wed, Nov 25, 2015 at 4:02 PM, Simon Alexander <skalexander at gmail.com>
>> wrote:
>>
>>> Makes sense.  At this point I am unlikely to have time to look at this
>>> until Saturday, but have hopes for a few free hours there.
>>>
>>> On Wed, 25 Nov 2015 at 15:58 D?enan Zuki? <dzenanz at gmail.com> wrote:
>>>
>>>> Building git master from Nov 23rd with examples and testing enabled I
>>>> get 14 compile errors in VS2015 debug x64. Should we coordinate our efforts
>>>> in fixing them?
>>>>
>>>> On Wed, Nov 25, 2015 at 11:29 AM, Simon Alexander <
>>>> skalexander at gmail.com> wrote:
>>>>
>>>>> Two of the three failures look like truncation issues (like
>>>>> https://open.cdash.org/testDetails.php?test=395263772&build=4117158)
>>>>>
>>>>> The other (
>>>>> https://open.cdash.org/testDetails.php?test=395264938&build=4117158)
>>>>>  is less obvious.
>>>>>
>>>>> If I have time this evening I'll try and have a look at these.
>>>>>
>>>>> Is your standard test build in 32 bit ?  That might explain the
>>>>> difference if there are some underlying type assumptions, but not obvious
>>>>> why 2015 would trigger but not 2013.
>>>>>
>>>>>
>>>>>
>>>>> On Wed, 25 Nov 2015 at 11:01 Matt McCormick <
>>>>> matt.mccormick at kitware.com> wrote:
>>>>>
>>>>>> Ah, cool!  Here:
>>>>>>
>>>>>>  https://open.cdash.org/viewBuildError.php?type=1&buildid=4117158
>>>>>>
>>>>>> Could you please look into the test failures?
>>>>>>
>>>>>> @Hyun Jae, could you please look into the KWStyle warnings?
>>>>>>
>>>>>> Thanks,
>>>>>> Matt
>>>>>>
>>>>>>
>>>>>> On Wed, Nov 25, 2015 at 10:55 AM, Simon Alexander <
>>>>>> skalexander at gmail.com> wrote:
>>>>>> > Sorry, if I wasn't clear - I submitted two builds yesterday from
>>>>>> SIMON-LAP,
>>>>>> > (actually 3 as I wasn't sure the config was right on the first
>>>>>> one).  VS2013
>>>>>> > was green, three failures on VS2015  (and 18 warnings).  Looks like
>>>>>> a
>>>>>> > truncation problem on the resuts.
>>>>>> >
>>>>>> > On Wed, 25 Nov 2015 at 10:51 Matt McCormick <
>>>>>> matt.mccormick at kitware.com>
>>>>>> > wrote:
>>>>>> >>
>>>>>> >> Hi Simon,
>>>>>> >>
>>>>>> >> Thanks for testing.
>>>>>> >>
>>>>>> >> We have a Visual Studio 2015 build on the dashboard that is green:
>>>>>> >>
>>>>>> >>   https://open.cdash.org/buildSummary.php?buildid=4117955
>>>>>> >>
>>>>>> >> Are there any different flags? Could you please submit an
>>>>>> Experimental
>>>>>> >> build?
>>>>>> >>
>>>>>> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T
>>>>>> Submit -C
>>>>>> >> Release
>>>>>> >>
>>>>>> >> from a fresh build tree.
>>>>>> >>
>>>>>> >> Thanks,
>>>>>> >> Matt
>>>>>> >>
>>>>>> >> On Wed, Nov 25, 2015 at 9:07 AM, Simon Alexander <
>>>>>> skalexander at gmail.com>
>>>>>> >> wrote:
>>>>>> >> > Looks like a few problems with x64 build on visual studio 2015 -
>>>>>> do you
>>>>>> >> > have
>>>>>> >> > a test machine in this configuration?
>>>>>> >> >
>>>>>> >> > On Mon, 23 Nov 2015 at 17:53 Matt McCormick <
>>>>>> matt.mccormick at kitware.com>
>>>>>> >> > wrote:
>>>>>> >> >>
>>>>>> >> >> On behalf of the Insight Toolkit community, we are proud to
>>>>>> announce
>>>>>> >> >> that
>>>>>> >> >> ITK 4.9 release candidate 1 has been tagged and is available for
>>>>>> >> >> testing!
>>>>>> >> >>
>>>>>> >> >> Please take this opportunity to test the new features in the
>>>>>> release
>>>>>> >> >> candidate.
>>>>>> >> >>
>>>>>> >> >>
>>>>>> >> >> To obtain the source code,
>>>>>> >> >>
>>>>>> >> >>   git clone http://itk.org/ITK.git
>>>>>> >> >>  cd ITK
>>>>>> >> >>  git checkout -q --detach v4.9rc01
>>>>>> >> >>
>>>>>> >> >> For more details, please see the Git documentation [1].
>>>>>> >> >>
>>>>>> >> >>
>>>>>> >> >> A few selected highlights for this release:
>>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>>> >> >>
>>>>>> >> >> * New Remote modules: the Cuberille module for smooth
>>>>>> generation of
>>>>>> >> >> meshes
>>>>>> >> >> from binary segmentation images, and the
>>>>>> AnisotropicDiffusionLBR module
>>>>>> >> >> improved edge-preserving smoothing.
>>>>>> >> >> * Build your own ITK module outside the source tree, add
>>>>>> continuous
>>>>>> >> >> integration testing on GitHub, and easily add Python wrapping
>>>>>> for your
>>>>>> >> >> C++
>>>>>> >> >> algorithms.
>>>>>> >> >> * Python wrapping, including Python 3, builds faster with a more
>>>>>> >> >> standard
>>>>>> >> >> installation
>>>>>> >> >> * Improved performance of itk::Image::GetPixel and operations on
>>>>>> >> >> itk::VariableLengthVector?s
>>>>>> >> >> * Generate a FlatStructuringElement from an image
>>>>>> >> >> * Point-set registration with time-varying B-splines
>>>>>> >> >> * Module dependencies can now be specified as public / private /
>>>>>> >> >> compile /
>>>>>> >> >> test
>>>>>> >> >>
>>>>>> >> >>
>>>>>> >> >> Please test the release candidate and share your experiences on
>>>>>> the
>>>>>> >> >> mailing list, issue tracker, and Gerrit Code Review. The new
>>>>>> module
>>>>>> >> >> dependency specification mechanism may unearth missing
>>>>>> dependencies for
>>>>>> >> >> projects that use ITK COMPONENTS with the CMake find_package
>>>>>> command.
>>>>>> >> >>
>>>>>> >> >>
>>>>>> >> >> An Experimental build, which demonstrates how the test suite
>>>>>> performs
>>>>>> >> >> on
>>>>>> >> >> your local build system, can be submitted to the dashboard [2]
>>>>>> with:
>>>>>> >> >>
>>>>>> >> >>   mkdir ../ITK-build
>>>>>> >> >>   cd ../ITK-build
>>>>>> >> >>   cmake ../ITK
>>>>>> >> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T
>>>>>> Submit
>>>>>> >> >>
>>>>>> >> >> Visual Studio builds must also add ?-C Release? to the ctest
>>>>>> command.
>>>>>> >> >>
>>>>>> >> >> Notify the mailing list if there are any unexpected failures.
>>>>>> Testing
>>>>>> >> >> your own applications against the RC is also appreciated.
>>>>>> >> >>
>>>>>> >> >>
>>>>>> >> >> Congratulations and well done to the 35 contributors to this
>>>>>> release.
>>>>>> >> >> We
>>>>>> >> >> would especially like to recognize the new contributors: Mikhail
>>>>>> >> >> Isakov,
>>>>>> >> >> Betsy McPhail, Alexander Leinoff, Shawn Waldon, Tobias Wood,
>>>>>> Seun
>>>>>> >> >> Odutola,
>>>>>> >> >> Hyun Jae Kang, Lucas Gandel, Adam Snyder, Junjie Bai, Pablo
>>>>>> >> >> Hernandez-Cerdan, Abhishek Tiwari, Eugene Prilepin, Zach
>>>>>> Williamson,
>>>>>> >> >> Luc
>>>>>> >> >> Hermitte, Laurentiu Nicola, and Floris Berendsen.
>>>>>> >> >>
>>>>>> >> >>
>>>>>> >> >> The final release is scheduled for mid-December.
>>>>>> >> >>
>>>>>> >> >>
>>>>>> >> >> [1] http://www.itk.org/Wiki/ITK/Git
>>>>>> >> >>
>>>>>> >> >> [2] http://open.cdash.org/index.php?project=Insight
>>>>>> >> >>
>>>>>> >> >>
>>>>>> >> >>
>>>>>> >> >> New Features
>>>>>> >> >> ---------------------
>>>>>> >> >>
>>>>>> >> >> Wrapping improvements
>>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>>> >> >>
>>>>>> >> >> * Python 3 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::)
>>>>>> >> >>
>>>>>> >> >>
>>>>>> >> >> 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
>>>>>> >> >>    * 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
>>>>>> >> >>
>>>>>> >> >>
>>>>>> >> >> 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
>>>>>> >> >> * GDCM updated 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
>>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>>> >> >>
>>>>>> >> >>
>>>>>> >> >> * And much more! See details in the log below.
>>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>>> >> >>
>>>>>> >> >>
>>>>>> >> >>
>>>>>> >> >> 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
>>>>>> >> >>
>>>>>> >> >>
>>>>>> >> >>
>>>>>> >> >> -----------------------------------------------------
>>>>>> >> >> Errors or omissions? Please fix them here:
>>>>>> >> >>
>>>>>> >> >>
>>>>>> >> >>
>>>>>> >> >>
>>>>>> https://docs.google.com/document/d/1j3IAZFfi0ToO8N6hTr0fVTTMmHIMkXAxx0AsAajsYuM/edit
>>>>>> >> >> _____________________________________
>>>>>> >> >> Powered by www.kitware.com
>>>>>> >> >>
>>>>>> >> >> Visit other Kitware open-source projects at
>>>>>> >> >> http://www.kitware.com/opensource/opensource.html
>>>>>> >> >>
>>>>>> >> >> Kitware offers ITK Training Courses, for more information visit:
>>>>>> >> >> http://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://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-developers
>>>>>
>>>>>
>>>>
>>
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From itkhelpacc at gmail.com  Thu Nov 26 07:48:52 2015
From: itkhelpacc at gmail.com (vis)
Date: Thu, 26 Nov 2015 05:48:52 -0700 (MST)
Subject: [ITK-users] reconstruction 3d (PSEUDO CT) volume from two or more
 2d projection images
Message-ID: <1448542132349-7588211.post@n2.nabble.com>

hi,
Im working on project regarding 2d/3d registration.. I came across many
papers in ITK that help to achieve this as in [1]... have two questions

(A) these frameworks are designed for ITKv3 but im using  ITKv4( i have
already used ITKv4 for developing various parts of my application) Is it
possible to integrate [1] with my application? if yes can u please guide me
who to do so?

(B) while doing my literature survey i came across papers like [2],
[3],[4]... wherein they use two projection images (one from lateral and one
from AP) to reconstruct a pseudo 3d ct volume.. it is obvious that the
pseudo ct generated wouldnt have the information present in actual ct.. but
even if i could get the outline of the 3d ct volume would help me alot..(i
Plan on performing 3d/3d registration of pre-op CT with pseudo ct obtained
now) could anyone please help me out with this problem?

Regards
Vishal

[1]http://www.insight-journal.org/browse/publication/800
[2]http://iopscience.iop.org/article/10.1088/0031-9155/56/4/010/pdf
[3]http://www.researchgate.net/publication/268302050_3D_Skull_Warping_from_2D_X-Ray_Lateral_and_PA_Images
[4]A review of 3D/2D registration methods for image-guided interventions P.
Markelj
[5] 3D reconstruction of the human rib cage from 2D projection
images using a statistical shape model DOI 10.1007/s11548-009-0390-2



--
View this message in context: http://itk-insight-users.2283740.n2.nabble.com/reconstruction-3d-PSEUDO-CT-volume-from-two-or-more-2d-projection-images-tp7588211.html
Sent from the ITK Insight Users mailing list archive at Nabble.com.

From cervellone at gmail.com  Thu Nov 26 20:28:10 2015
From: cervellone at gmail.com (cervellone at gmail.com)
Date: Fri, 27 Nov 2015 02:28:10 +0100
Subject: [ITK-users] missing watershed filters ???
Message-ID: <CAO8H67OLnRqnd3gF0FcM0BgBBNisFu-2=9KHc1Qj7yia7Po_2g@mail.gmail.com>

Dear all,

i have been using ITK-4.6.1 for quite some time, always without problems.
but today i wanted to use the morphological watershed from markers I found
out that the function is missing.
At least that is the error i am getting.

AttributeError: 'LazyITKModule' object has no attribute
'MorphologicalWatershedFromMarkersImageFilter'

All the other filters seem to be there.

Does anybody have an idea ?

Thank you
jp
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From richard.beare at gmail.com  Thu Nov 26 21:00:57 2015
From: richard.beare at gmail.com (Richard Beare)
Date: Fri, 27 Nov 2015 13:00:57 +1100
Subject: [ITK-users] missing watershed filters ???
In-Reply-To: <CAO8H67OLnRqnd3gF0FcM0BgBBNisFu-2=9KHc1Qj7yia7Po_2g@mail.gmail.com>
References: <CAO8H67OLnRqnd3gF0FcM0BgBBNisFu-2=9KHc1Qj7yia7Po_2g@mail.gmail.com>
Message-ID: <CA+V7QS-hPhn_NB01fGwtMg-qx44AiZBFdp6GW_vSG9bRp_TSqA@mail.gmail.com>

It has been put in review, for some reason, so you need to enable that
option when installing ITK.

On Fri, Nov 27, 2015 at 12:28 PM, <cervellone at gmail.com> wrote:

> Dear all,
>
> i have been using ITK-4.6.1 for quite some time, always without problems.
> but today i wanted to use the morphological watershed from markers I found
> out that the function is missing.
> At least that is the error i am getting.
>
> AttributeError: 'LazyITKModule' object has no attribute
> 'MorphologicalWatershedFromMarkersImageFilter'
>
> All the other filters seem to be there.
>
> Does anybody have an idea ?
>
> Thank you
> jp
>
>
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://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 cervellone at gmail.com  Thu Nov 26 22:09:14 2015
From: cervellone at gmail.com (cervellone at gmail.com)
Date: Fri, 27 Nov 2015 04:09:14 +0100
Subject: [ITK-users] missing watershed filters ???
In-Reply-To: <CA+V7QS-hPhn_NB01fGwtMg-qx44AiZBFdp6GW_vSG9bRp_TSqA@mail.gmail.com>
References: <CAO8H67OLnRqnd3gF0FcM0BgBBNisFu-2=9KHc1Qj7yia7Po_2g@mail.gmail.com>
 <CA+V7QS-hPhn_NB01fGwtMg-qx44AiZBFdp6GW_vSG9bRp_TSqA@mail.gmail.com>
Message-ID: <CAO8H67P2s3qu5JvcYAXftLaXfyAi6=QgFqgwOGbz81GbUpV1Fw@mail.gmail.com>

Thanks for the fast reply
How do i do that ? is there a option in cmake ?
I did not find any

jp


On Fri, Nov 27, 2015 at 3:00 AM, Richard Beare <richard.beare at gmail.com>
wrote:

> It has been put in review, for some reason, so you need to enable that
> option when installing ITK.
>
> On Fri, Nov 27, 2015 at 12:28 PM, <cervellone at gmail.com> wrote:
>
>> Dear all,
>>
>> i have been using ITK-4.6.1 for quite some time, always without problems.
>> but today i wanted to use the morphological watershed from markers I found
>> out that the function is missing.
>> At least that is the error i am getting.
>>
>> AttributeError: 'LazyITKModule' object has no attribute
>> 'MorphologicalWatershedFromMarkersImageFilter'
>>
>> All the other filters seem to be there.
>>
>> Does anybody have an idea ?
>>
>> Thank you
>> jp
>>
>>
>>
>>
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Kitware offers ITK Training Courses, for more information visit:
>> http://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 richard.beare at gmail.com  Thu Nov 26 22:12:58 2015
From: richard.beare at gmail.com (Richard Beare)
Date: Fri, 27 Nov 2015 14:12:58 +1100
Subject: [ITK-users] missing watershed filters ???
In-Reply-To: <CAO8H67P2s3qu5JvcYAXftLaXfyAi6=QgFqgwOGbz81GbUpV1Fw@mail.gmail.com>
References: <CAO8H67OLnRqnd3gF0FcM0BgBBNisFu-2=9KHc1Qj7yia7Po_2g@mail.gmail.com>
 <CA+V7QS-hPhn_NB01fGwtMg-qx44AiZBFdp6GW_vSG9bRp_TSqA@mail.gmail.com>
 <CAO8H67P2s3qu5JvcYAXftLaXfyAi6=QgFqgwOGbz81GbUpV1Fw@mail.gmail.com>
Message-ID: <CA+V7QS85rscJywvaEYW1JRXRw595fDPVeYcRvM9TipRiV0HtMA@mail.gmail.com>

Yes - I think you need to toggle advanced mode and it is in there somewhere.

On Fri, Nov 27, 2015 at 2:09 PM, <cervellone at gmail.com> wrote:

> Thanks for the fast reply
> How do i do that ? is there a option in cmake ?
> I did not find any
>
> jp
>
>
> On Fri, Nov 27, 2015 at 3:00 AM, Richard Beare <richard.beare at gmail.com>
> wrote:
>
>> It has been put in review, for some reason, so you need to enable that
>> option when installing ITK.
>>
>> On Fri, Nov 27, 2015 at 12:28 PM, <cervellone at gmail.com> wrote:
>>
>>> Dear all,
>>>
>>> i have been using ITK-4.6.1 for quite some time, always without
>>> problems. but today i wanted to use the morphological watershed from
>>> markers I found out that the function is missing.
>>> At least that is the error i am getting.
>>>
>>> AttributeError: 'LazyITKModule' object has no attribute
>>> 'MorphologicalWatershedFromMarkersImageFilter'
>>>
>>> All the other filters seem to be there.
>>>
>>> Does anybody have an idea ?
>>>
>>> Thank you
>>> jp
>>>
>>>
>>>
>>>
>>> _____________________________________
>>> Powered by www.kitware.com
>>>
>>> Visit other Kitware open-source projects at
>>> http://www.kitware.com/opensource/opensource.html
>>>
>>> Kitware offers ITK Training Courses, for more information visit:
>>> http://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 cervellone at gmail.com  Thu Nov 26 23:08:42 2015
From: cervellone at gmail.com (cervellone at gmail.com)
Date: Fri, 27 Nov 2015 05:08:42 +0100
Subject: [ITK-users] missing watershed filters ???
In-Reply-To: <CA+V7QS85rscJywvaEYW1JRXRw595fDPVeYcRvM9TipRiV0HtMA@mail.gmail.com>
References: <CAO8H67OLnRqnd3gF0FcM0BgBBNisFu-2=9KHc1Qj7yia7Po_2g@mail.gmail.com>
 <CA+V7QS-hPhn_NB01fGwtMg-qx44AiZBFdp6GW_vSG9bRp_TSqA@mail.gmail.com>
 <CAO8H67P2s3qu5JvcYAXftLaXfyAi6=QgFqgwOGbz81GbUpV1Fw@mail.gmail.com>
 <CA+V7QS85rscJywvaEYW1JRXRw595fDPVeYcRvM9TipRiV0HtMA@mail.gmail.com>
Message-ID: <CAO8H67MQUA3XSW2Asq5P+pBAjyTry5STDzWLeqjjh4hjY4bfsw@mail.gmail.com>

I am in advanced mode and searching for it directly does not yield any
result.

i find the sourcefiles of the filter and other in Modules/Nonunit/Review/
in my src directory so I checked the ITKReview on in cmake  and i will see
what happens now after building.
Is there a way to build only the changes and not the entire project ?

Thanks
jp




On Fri, Nov 27, 2015 at 4:12 AM, Richard Beare <richard.beare at gmail.com>
wrote:

> Yes - I think you need to toggle advanced mode and it is in there
> somewhere.
>
> On Fri, Nov 27, 2015 at 2:09 PM, <cervellone at gmail.com> wrote:
>
>> Thanks for the fast reply
>> How do i do that ? is there a option in cmake ?
>> I did not find any
>>
>> jp
>>
>>
>> On Fri, Nov 27, 2015 at 3:00 AM, Richard Beare <richard.beare at gmail.com>
>> wrote:
>>
>>> It has been put in review, for some reason, so you need to enable that
>>> option when installing ITK.
>>>
>>> On Fri, Nov 27, 2015 at 12:28 PM, <cervellone at gmail.com> wrote:
>>>
>>>> Dear all,
>>>>
>>>> i have been using ITK-4.6.1 for quite some time, always without
>>>> problems. but today i wanted to use the morphological watershed from
>>>> markers I found out that the function is missing.
>>>> At least that is the error i am getting.
>>>>
>>>> AttributeError: 'LazyITKModule' object has no attribute
>>>> 'MorphologicalWatershedFromMarkersImageFilter'
>>>>
>>>> All the other filters seem to be there.
>>>>
>>>> Does anybody have an idea ?
>>>>
>>>> Thank you
>>>> jp
>>>>
>>>>
>>>>
>>>>
>>>> _____________________________________
>>>> Powered by www.kitware.com
>>>>
>>>> Visit other Kitware open-source projects at
>>>> http://www.kitware.com/opensource/opensource.html
>>>>
>>>> Kitware offers ITK Training Courses, for more information visit:
>>>> http://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 dominik.hofer at gmail.com  Fri Nov 27 07:28:54 2015
From: dominik.hofer at gmail.com (dominik)
Date: Fri, 27 Nov 2015 05:28:54 -0700 (MST)
Subject: [ITK-users] Own Transformation Class
Message-ID: <1448627334852-7588218.post@n2.nabble.com>

Hey guys, 

I have been working on a project in Slicer which is about registering
histology slices to an MRI volume of the same subject. So far everything was
straight-forward but now the implemented registration algorithms in Slicer
are coming to their limits and I think I have to write some of the stuff
myself in ITK. I can use SimpleITK in python or the C++ version in Slicer
depending on which plugin I want to write. The stuff I wrote so far is in
Python but I think I can write another plugin in C++ just for the
registration algorithm and execute this in my Python plugin. 

So, now to the questions: 

- I'd like to constraint the registration algorithm because both modalities
have a very robust feature which is the urethra. So I'd like the
registration algorithm to stay as it is and just limit the transformation so
the histology-urethra follows the MRI-urethra and the rotation center is in
the urethra. I read in the slicers forum that I can write my own
transformation class for this but I didn't have a lot of success so far so
I'm thankful for more hints on how to write my own transformation class or
any other solutions. 

- Once every histology slice is registered, I'd like to merge these slices
to one. Is there an easy solution in ITK for this? I read the
ResampleImageFilter is usable for this but so far I just understood that it
resamples an image depending on how you transform it. 

Cheers!



--
View this message in context: http://itk-insight-users.2283740.n2.nabble.com/Own-Transformation-Class-tp7588218.html
Sent from the ITK Insight Users mailing list archive at Nabble.com.

From dzenanz at gmail.com  Fri Nov 27 10:25:05 2015
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Fri, 27 Nov 2015 10:25:05 -0500
Subject: [ITK-users] missing watershed filters ???
In-Reply-To: <CAO8H67MQUA3XSW2Asq5P+pBAjyTry5STDzWLeqjjh4hjY4bfsw@mail.gmail.com>
References: <CAO8H67OLnRqnd3gF0FcM0BgBBNisFu-2=9KHc1Qj7yia7Po_2g@mail.gmail.com>
 <CA+V7QS-hPhn_NB01fGwtMg-qx44AiZBFdp6GW_vSG9bRp_TSqA@mail.gmail.com>
 <CAO8H67P2s3qu5JvcYAXftLaXfyAi6=QgFqgwOGbz81GbUpV1Fw@mail.gmail.com>
 <CA+V7QS85rscJywvaEYW1JRXRw595fDPVeYcRvM9TipRiV0HtMA@mail.gmail.com>
 <CAO8H67MQUA3XSW2Asq5P+pBAjyTry5STDzWLeqjjh4hjY4bfsw@mail.gmail.com>
Message-ID: <CAPf2UMSWTz5CMAcBEFinsU5pXcSEzV24Tk7-AfyT+fBXn4Dt4Q@mail.gmail.com>

By default, only the affected files/projects should be built, so it should
be much faster than a clean build.

HTH,
D?enan

On Thu, Nov 26, 2015 at 11:08 PM, <cervellone at gmail.com> wrote:

> I am in advanced mode and searching for it directly does not yield any
> result.
>
> i find the sourcefiles of the filter and other in Modules/Nonunit/Review/
> in my src directory so I checked the ITKReview on in cmake  and i will see
> what happens now after building.
> Is there a way to build only the changes and not the entire project ?
>
> Thanks
> jp
>
>
>
>
> On Fri, Nov 27, 2015 at 4:12 AM, Richard Beare <richard.beare at gmail.com>
> wrote:
>
>> Yes - I think you need to toggle advanced mode and it is in there
>> somewhere.
>>
>> On Fri, Nov 27, 2015 at 2:09 PM, <cervellone at gmail.com> wrote:
>>
>>> Thanks for the fast reply
>>> How do i do that ? is there a option in cmake ?
>>> I did not find any
>>>
>>> jp
>>>
>>>
>>> On Fri, Nov 27, 2015 at 3:00 AM, Richard Beare <richard.beare at gmail.com>
>>> wrote:
>>>
>>>> It has been put in review, for some reason, so you need to enable that
>>>> option when installing ITK.
>>>>
>>>> On Fri, Nov 27, 2015 at 12:28 PM, <cervellone at gmail.com> wrote:
>>>>
>>>>> Dear all,
>>>>>
>>>>> i have been using ITK-4.6.1 for quite some time, always without
>>>>> problems. but today i wanted to use the morphological watershed from
>>>>> markers I found out that the function is missing.
>>>>> At least that is the error i am getting.
>>>>>
>>>>> AttributeError: 'LazyITKModule' object has no attribute
>>>>> 'MorphologicalWatershedFromMarkersImageFilter'
>>>>>
>>>>> All the other filters seem to be there.
>>>>>
>>>>> Does anybody have an idea ?
>>>>>
>>>>> Thank you
>>>>> jp
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> _____________________________________
>>>>> Powered by www.kitware.com
>>>>>
>>>>> Visit other Kitware open-source projects at
>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>
>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>> http://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 skalexander at gmail.com  Mon Nov 30 13:53:59 2015
From: skalexander at gmail.com (Simon Alexander)
Date: Mon, 30 Nov 2015 18:53:59 +0000
Subject: [ITK-users] [ITK-dev] [ANN] ITK 4.9 Release Candidate 1 is
 ready for testing!
In-Reply-To: <CAPf2UMSqrPnbJfaVZ-Nsw=m0iw8rnPENLsD0x588ekJ7wHG7yw@mail.gmail.com>
References: <CALzTN-QFzWXhwYCUukD-vtDFjZWyA-C27-5-D0CCrvFgK8OsfQ@mail.gmail.com>
 <CAJFNcCT6w880EzKxXsx7oNHEq8zto646PMvJFrpGRJ+w8DorGQ@mail.gmail.com>
 <CALzTN-S5oLGFxp20L1t89hfo6fR0MOqZR2vv7LX2p_JaraV_kQ@mail.gmail.com>
 <CAJFNcCQoQJtiCock1g9z9N=+W=TwTYsX62bUHfHnTSPSrozNOg@mail.gmail.com>
 <CALzTN-Rpg5BvzFkT5SYSfUaLXM0Ap2fuRe+wDw3Td7iZgpcM6g@mail.gmail.com>
 <CAJFNcCQe-907wcX8JpZRzPf4vz1F3=WD6=9ac8nJ44BMV=cyTA@mail.gmail.com>
 <CAPf2UMRke6KvaQRe42HCT0PUDDp2XaVrF0w7-HgYAW48bCxrPg@mail.gmail.com>
 <CAJFNcCQJb=T7pw+vxw+H+3pvB4HYxEihSpcr21dqfZ9cb2h5dg@mail.gmail.com>
 <CAPf2UMS7QYr-iNikg=cOeNEHY36B6EmznPXFbB2QheRM_V+g+Q@mail.gmail.com>
 <CAJFNcCSvFRopjuQFWxfNBc7h40ZoYpV5w3dq2JNu7JfTE3LUuA@mail.gmail.com>
 <CAPf2UMSqrPnbJfaVZ-Nsw=m0iw8rnPENLsD0x588ekJ7wHG7yw@mail.gmail.com>
Message-ID: <CAJFNcCQr1F6QjqaC6MFDo66Y609JTzuiCPCHCN6JF0OaNfoB7g@mail.gmail.com>

Hi All,

I had hoped to be able to look at this over the weekend, but no such luck.
Is there somewhere useful I can help with it now?  Not sure what state we
are in (or what branch).

On Wed, 25 Nov 2015 at 16:41 D?enan Zuki? <dzenanz at gmail.com> wrote:

> It turns out that all the compile errors were occurring in WikiExamples. I
> solved all except one:
> ITK_FIXED_PARAMETERS_ARE_DOUBLE is not defined in
> file ITK\Modules\Remote\WikiExamples\Utilities\FileOutputWindow.cxx line
> 23, but it should be judging from the comment on that line.
>
> For the rest, I created a pull request:
> https://github.com/InsightSoftwareConsortium/ITKWikiExamples/pull/3
>
> On Wed, Nov 25, 2015 at 4:08 PM, Simon Alexander <skalexander at gmail.com>
> wrote:
>
>> Perfect.  I'm under a deadline that is likely to eat the rest of the week
>> but if that clears up I'll try and jump in earlier.
>>
>> On Wed, 25 Nov 2015 at 16:06 D?enan Zuki? <dzenanz at gmail.com> wrote:
>>
>>> OK I will work on it for an hour or two now, and I will make a branch
>>> and push it to Gerrit so whoever wants can pick up from there and keep
>>> updating it.
>>>
>>> On Wed, Nov 25, 2015 at 4:02 PM, Simon Alexander <skalexander at gmail.com>
>>> wrote:
>>>
>>>> Makes sense.  At this point I am unlikely to have time to look at this
>>>> until Saturday, but have hopes for a few free hours there.
>>>>
>>>> On Wed, 25 Nov 2015 at 15:58 D?enan Zuki? <dzenanz at gmail.com> wrote:
>>>>
>>>>> Building git master from Nov 23rd with examples and testing enabled I
>>>>> get 14 compile errors in VS2015 debug x64. Should we coordinate our efforts
>>>>> in fixing them?
>>>>>
>>>>> On Wed, Nov 25, 2015 at 11:29 AM, Simon Alexander <
>>>>> skalexander at gmail.com> wrote:
>>>>>
>>>>>> Two of the three failures look like truncation issues (like
>>>>>> https://open.cdash.org/testDetails.php?test=395263772&build=4117158)
>>>>>>
>>>>>> The other (
>>>>>> https://open.cdash.org/testDetails.php?test=395264938&build=4117158)
>>>>>>  is less obvious.
>>>>>>
>>>>>> If I have time this evening I'll try and have a look at these.
>>>>>>
>>>>>> Is your standard test build in 32 bit ?  That might explain the
>>>>>> difference if there are some underlying type assumptions, but not obvious
>>>>>> why 2015 would trigger but not 2013.
>>>>>>
>>>>>>
>>>>>>
>>>>>> On Wed, 25 Nov 2015 at 11:01 Matt McCormick <
>>>>>> matt.mccormick at kitware.com> wrote:
>>>>>>
>>>>>>> Ah, cool!  Here:
>>>>>>>
>>>>>>>  https://open.cdash.org/viewBuildError.php?type=1&buildid=4117158
>>>>>>>
>>>>>>> Could you please look into the test failures?
>>>>>>>
>>>>>>> @Hyun Jae, could you please look into the KWStyle warnings?
>>>>>>>
>>>>>>> Thanks,
>>>>>>> Matt
>>>>>>>
>>>>>>>
>>>>>>> On Wed, Nov 25, 2015 at 10:55 AM, Simon Alexander <
>>>>>>> skalexander at gmail.com> wrote:
>>>>>>> > Sorry, if I wasn't clear - I submitted two builds yesterday from
>>>>>>> SIMON-LAP,
>>>>>>> > (actually 3 as I wasn't sure the config was right on the first
>>>>>>> one).  VS2013
>>>>>>> > was green, three failures on VS2015  (and 18 warnings).  Looks
>>>>>>> like a
>>>>>>> > truncation problem on the resuts.
>>>>>>> >
>>>>>>> > On Wed, 25 Nov 2015 at 10:51 Matt McCormick <
>>>>>>> matt.mccormick at kitware.com>
>>>>>>> > wrote:
>>>>>>> >>
>>>>>>> >> Hi Simon,
>>>>>>> >>
>>>>>>> >> Thanks for testing.
>>>>>>> >>
>>>>>>> >> We have a Visual Studio 2015 build on the dashboard that is green:
>>>>>>> >>
>>>>>>> >>   https://open.cdash.org/buildSummary.php?buildid=4117955
>>>>>>> >>
>>>>>>> >> Are there any different flags? Could you please submit an
>>>>>>> Experimental
>>>>>>> >> build?
>>>>>>> >>
>>>>>>> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T
>>>>>>> Submit -C
>>>>>>> >> Release
>>>>>>> >>
>>>>>>> >> from a fresh build tree.
>>>>>>> >>
>>>>>>> >> Thanks,
>>>>>>> >> Matt
>>>>>>> >>
>>>>>>> >> On Wed, Nov 25, 2015 at 9:07 AM, Simon Alexander <
>>>>>>> skalexander at gmail.com>
>>>>>>> >> wrote:
>>>>>>> >> > Looks like a few problems with x64 build on visual studio 2015
>>>>>>> - do you
>>>>>>> >> > have
>>>>>>> >> > a test machine in this configuration?
>>>>>>> >> >
>>>>>>> >> > On Mon, 23 Nov 2015 at 17:53 Matt McCormick <
>>>>>>> matt.mccormick at kitware.com>
>>>>>>> >> > wrote:
>>>>>>> >> >>
>>>>>>> >> >> On behalf of the Insight Toolkit community, we are proud to
>>>>>>> announce
>>>>>>> >> >> that
>>>>>>> >> >> ITK 4.9 release candidate 1 has been tagged and is available
>>>>>>> for
>>>>>>> >> >> testing!
>>>>>>> >> >>
>>>>>>> >> >> Please take this opportunity to test the new features in the
>>>>>>> release
>>>>>>> >> >> candidate.
>>>>>>> >> >>
>>>>>>> >> >>
>>>>>>> >> >> To obtain the source code,
>>>>>>> >> >>
>>>>>>> >> >>   git clone http://itk.org/ITK.git
>>>>>>> >> >>  cd ITK
>>>>>>> >> >>  git checkout -q --detach v4.9rc01
>>>>>>> >> >>
>>>>>>> >> >> For more details, please see the Git documentation [1].
>>>>>>> >> >>
>>>>>>> >> >>
>>>>>>> >> >> A few selected highlights for this release:
>>>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>>>> >> >>
>>>>>>> >> >> * New Remote modules: the Cuberille module for smooth
>>>>>>> generation of
>>>>>>> >> >> meshes
>>>>>>> >> >> from binary segmentation images, and the
>>>>>>> AnisotropicDiffusionLBR module
>>>>>>> >> >> improved edge-preserving smoothing.
>>>>>>> >> >> * Build your own ITK module outside the source tree, add
>>>>>>> continuous
>>>>>>> >> >> integration testing on GitHub, and easily add Python wrapping
>>>>>>> for your
>>>>>>> >> >> C++
>>>>>>> >> >> algorithms.
>>>>>>> >> >> * Python wrapping, including Python 3, builds faster with a
>>>>>>> more
>>>>>>> >> >> standard
>>>>>>> >> >> installation
>>>>>>> >> >> * Improved performance of itk::Image::GetPixel and operations
>>>>>>> on
>>>>>>> >> >> itk::VariableLengthVector?s
>>>>>>> >> >> * Generate a FlatStructuringElement from an image
>>>>>>> >> >> * Point-set registration with time-varying B-splines
>>>>>>> >> >> * Module dependencies can now be specified as public / private
>>>>>>> /
>>>>>>> >> >> compile /
>>>>>>> >> >> test
>>>>>>> >> >>
>>>>>>> >> >>
>>>>>>> >> >> Please test the release candidate and share your experiences
>>>>>>> on the
>>>>>>> >> >> mailing list, issue tracker, and Gerrit Code Review. The new
>>>>>>> module
>>>>>>> >> >> dependency specification mechanism may unearth missing
>>>>>>> dependencies for
>>>>>>> >> >> projects that use ITK COMPONENTS with the CMake find_package
>>>>>>> command.
>>>>>>> >> >>
>>>>>>> >> >>
>>>>>>> >> >> An Experimental build, which demonstrates how the test suite
>>>>>>> performs
>>>>>>> >> >> on
>>>>>>> >> >> your local build system, can be submitted to the dashboard [2]
>>>>>>> with:
>>>>>>> >> >>
>>>>>>> >> >>   mkdir ../ITK-build
>>>>>>> >> >>   cd ../ITK-build
>>>>>>> >> >>   cmake ../ITK
>>>>>>> >> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T
>>>>>>> Submit
>>>>>>> >> >>
>>>>>>> >> >> Visual Studio builds must also add ?-C Release? to the ctest
>>>>>>> command.
>>>>>>> >> >>
>>>>>>> >> >> Notify the mailing list if there are any unexpected failures.
>>>>>>> Testing
>>>>>>> >> >> your own applications against the RC is also appreciated.
>>>>>>> >> >>
>>>>>>> >> >>
>>>>>>> >> >> Congratulations and well done to the 35 contributors to this
>>>>>>> release.
>>>>>>> >> >> We
>>>>>>> >> >> would especially like to recognize the new contributors:
>>>>>>> Mikhail
>>>>>>> >> >> Isakov,
>>>>>>> >> >> Betsy McPhail, Alexander Leinoff, Shawn Waldon, Tobias Wood,
>>>>>>> Seun
>>>>>>> >> >> Odutola,
>>>>>>> >> >> Hyun Jae Kang, Lucas Gandel, Adam Snyder, Junjie Bai, Pablo
>>>>>>> >> >> Hernandez-Cerdan, Abhishek Tiwari, Eugene Prilepin, Zach
>>>>>>> Williamson,
>>>>>>> >> >> Luc
>>>>>>> >> >> Hermitte, Laurentiu Nicola, and Floris Berendsen.
>>>>>>> >> >>
>>>>>>> >> >>
>>>>>>> >> >> The final release is scheduled for mid-December.
>>>>>>> >> >>
>>>>>>> >> >>
>>>>>>> >> >> [1] http://www.itk.org/Wiki/ITK/Git
>>>>>>> >> >>
>>>>>>> >> >> [2] http://open.cdash.org/index.php?project=Insight
>>>>>>> >> >>
>>>>>>> >> >>
>>>>>>> >> >>
>>>>>>> >> >> New Features
>>>>>>> >> >> ---------------------
>>>>>>> >> >>
>>>>>>> >> >> Wrapping improvements
>>>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>>>> >> >>
>>>>>>> >> >> * Python 3 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::)
>>>>>>> >> >>
>>>>>>> >> >>
>>>>>>> >> >> 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
>>>>>>> >> >>    * 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
>>>>>>> >> >>
>>>>>>> >> >>
>>>>>>> >> >> 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
>>>>>>> >> >> * GDCM updated 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
>>>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>>>> >> >>
>>>>>>> >> >>
>>>>>>> >> >> * And much more! See details in the log below.
>>>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>>>> >> >>
>>>>>>> >> >>
>>>>>>> >> >>
>>>>>>> >> >> 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
>>>>>>> >> >>
>>>>>>> >> >>
>>>>>>> >> >>
>>>>>>> >> >> -----------------------------------------------------
>>>>>>> >> >> Errors or omissions? Please fix them here:
>>>>>>> >> >>
>>>>>>> >> >>
>>>>>>> >> >>
>>>>>>> >> >>
>>>>>>> https://docs.google.com/document/d/1j3IAZFfi0ToO8N6hTr0fVTTMmHIMkXAxx0AsAajsYuM/edit
>>>>>>> >> >> _____________________________________
>>>>>>> >> >> Powered by www.kitware.com
>>>>>>> >> >>
>>>>>>> >> >> Visit other Kitware open-source projects at
>>>>>>> >> >> http://www.kitware.com/opensource/opensource.html
>>>>>>> >> >>
>>>>>>> >> >> Kitware offers ITK Training Courses, for more information
>>>>>>> visit:
>>>>>>> >> >> http://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://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-developers
>>>>>>
>>>>>>
>>>>>
>>>
>
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From dzenanz at gmail.com  Mon Nov 30 14:00:26 2015
From: dzenanz at gmail.com (=?UTF-8?B?RMW+ZW5hbiBadWtpxIc=?=)
Date: Mon, 30 Nov 2015 14:00:26 -0500
Subject: [ITK-users] [ITK-dev] [ANN] ITK 4.9 Release Candidate 1 is
 ready for testing!
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Looking at the master branch is the right thing to do. I am not doing any
active development regarding this right now.

On Mon, Nov 30, 2015 at 1:53 PM, Simon Alexander <skalexander at gmail.com>
wrote:

> Hi All,
>
> I had hoped to be able to look at this over the weekend, but no such luck.
> Is there somewhere useful I can help with it now?  Not sure what state we
> are in (or what branch).
>
> On Wed, 25 Nov 2015 at 16:41 D?enan Zuki? <dzenanz at gmail.com> wrote:
>
>> It turns out that all the compile errors were occurring in WikiExamples.
>> I solved all except one:
>> ITK_FIXED_PARAMETERS_ARE_DOUBLE is not defined in
>> file ITK\Modules\Remote\WikiExamples\Utilities\FileOutputWindow.cxx line
>> 23, but it should be judging from the comment on that line.
>>
>> For the rest, I created a pull request:
>> https://github.com/InsightSoftwareConsortium/ITKWikiExamples/pull/3
>>
>> On Wed, Nov 25, 2015 at 4:08 PM, Simon Alexander <skalexander at gmail.com>
>> wrote:
>>
>>> Perfect.  I'm under a deadline that is likely to eat the rest of the
>>> week but if that clears up I'll try and jump in earlier.
>>>
>>> On Wed, 25 Nov 2015 at 16:06 D?enan Zuki? <dzenanz at gmail.com> wrote:
>>>
>>>> OK I will work on it for an hour or two now, and I will make a branch
>>>> and push it to Gerrit so whoever wants can pick up from there and keep
>>>> updating it.
>>>>
>>>> On Wed, Nov 25, 2015 at 4:02 PM, Simon Alexander <skalexander at gmail.com
>>>> > wrote:
>>>>
>>>>> Makes sense.  At this point I am unlikely to have time to look at this
>>>>> until Saturday, but have hopes for a few free hours there.
>>>>>
>>>>> On Wed, 25 Nov 2015 at 15:58 D?enan Zuki? <dzenanz at gmail.com> wrote:
>>>>>
>>>>>> Building git master from Nov 23rd with examples and testing enabled I
>>>>>> get 14 compile errors in VS2015 debug x64. Should we coordinate our efforts
>>>>>> in fixing them?
>>>>>>
>>>>>> On Wed, Nov 25, 2015 at 11:29 AM, Simon Alexander <
>>>>>> skalexander at gmail.com> wrote:
>>>>>>
>>>>>>> Two of the three failures look like truncation issues (like
>>>>>>> https://open.cdash.org/testDetails.php?test=395263772&build=4117158)
>>>>>>>
>>>>>>> The other (
>>>>>>> https://open.cdash.org/testDetails.php?test=395264938&build=4117158)
>>>>>>>  is less obvious.
>>>>>>>
>>>>>>> If I have time this evening I'll try and have a look at these.
>>>>>>>
>>>>>>> Is your standard test build in 32 bit ?  That might explain the
>>>>>>> difference if there are some underlying type assumptions, but not obvious
>>>>>>> why 2015 would trigger but not 2013.
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> On Wed, 25 Nov 2015 at 11:01 Matt McCormick <
>>>>>>> matt.mccormick at kitware.com> wrote:
>>>>>>>
>>>>>>>> Ah, cool!  Here:
>>>>>>>>
>>>>>>>>  https://open.cdash.org/viewBuildError.php?type=1&buildid=4117158
>>>>>>>>
>>>>>>>> Could you please look into the test failures?
>>>>>>>>
>>>>>>>> @Hyun Jae, could you please look into the KWStyle warnings?
>>>>>>>>
>>>>>>>> Thanks,
>>>>>>>> Matt
>>>>>>>>
>>>>>>>>
>>>>>>>> On Wed, Nov 25, 2015 at 10:55 AM, Simon Alexander <
>>>>>>>> skalexander at gmail.com> wrote:
>>>>>>>> > Sorry, if I wasn't clear - I submitted two builds yesterday from
>>>>>>>> SIMON-LAP,
>>>>>>>> > (actually 3 as I wasn't sure the config was right on the first
>>>>>>>> one).  VS2013
>>>>>>>> > was green, three failures on VS2015  (and 18 warnings).  Looks
>>>>>>>> like a
>>>>>>>> > truncation problem on the resuts.
>>>>>>>> >
>>>>>>>> > On Wed, 25 Nov 2015 at 10:51 Matt McCormick <
>>>>>>>> matt.mccormick at kitware.com>
>>>>>>>> > wrote:
>>>>>>>> >>
>>>>>>>> >> Hi Simon,
>>>>>>>> >>
>>>>>>>> >> Thanks for testing.
>>>>>>>> >>
>>>>>>>> >> We have a Visual Studio 2015 build on the dashboard that is
>>>>>>>> green:
>>>>>>>> >>
>>>>>>>> >>   https://open.cdash.org/buildSummary.php?buildid=4117955
>>>>>>>> >>
>>>>>>>> >> Are there any different flags? Could you please submit an
>>>>>>>> Experimental
>>>>>>>> >> build?
>>>>>>>> >>
>>>>>>>> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T
>>>>>>>> Submit -C
>>>>>>>> >> Release
>>>>>>>> >>
>>>>>>>> >> from a fresh build tree.
>>>>>>>> >>
>>>>>>>> >> Thanks,
>>>>>>>> >> Matt
>>>>>>>> >>
>>>>>>>> >> On Wed, Nov 25, 2015 at 9:07 AM, Simon Alexander <
>>>>>>>> skalexander at gmail.com>
>>>>>>>> >> wrote:
>>>>>>>> >> > Looks like a few problems with x64 build on visual studio 2015
>>>>>>>> - do you
>>>>>>>> >> > have
>>>>>>>> >> > a test machine in this configuration?
>>>>>>>> >> >
>>>>>>>> >> > On Mon, 23 Nov 2015 at 17:53 Matt McCormick <
>>>>>>>> matt.mccormick at kitware.com>
>>>>>>>> >> > wrote:
>>>>>>>> >> >>
>>>>>>>> >> >> On behalf of the Insight Toolkit community, we are proud to
>>>>>>>> announce
>>>>>>>> >> >> that
>>>>>>>> >> >> ITK 4.9 release candidate 1 has been tagged and is available
>>>>>>>> for
>>>>>>>> >> >> testing!
>>>>>>>> >> >>
>>>>>>>> >> >> Please take this opportunity to test the new features in the
>>>>>>>> release
>>>>>>>> >> >> candidate.
>>>>>>>> >> >>
>>>>>>>> >> >>
>>>>>>>> >> >> To obtain the source code,
>>>>>>>> >> >>
>>>>>>>> >> >>   git clone http://itk.org/ITK.git
>>>>>>>> >> >>  cd ITK
>>>>>>>> >> >>  git checkout -q --detach v4.9rc01
>>>>>>>> >> >>
>>>>>>>> >> >> For more details, please see the Git documentation [1].
>>>>>>>> >> >>
>>>>>>>> >> >>
>>>>>>>> >> >> A few selected highlights for this release:
>>>>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>>>>> >> >>
>>>>>>>> >> >> * New Remote modules: the Cuberille module for smooth
>>>>>>>> generation of
>>>>>>>> >> >> meshes
>>>>>>>> >> >> from binary segmentation images, and the
>>>>>>>> AnisotropicDiffusionLBR module
>>>>>>>> >> >> improved edge-preserving smoothing.
>>>>>>>> >> >> * Build your own ITK module outside the source tree, add
>>>>>>>> continuous
>>>>>>>> >> >> integration testing on GitHub, and easily add Python wrapping
>>>>>>>> for your
>>>>>>>> >> >> C++
>>>>>>>> >> >> algorithms.
>>>>>>>> >> >> * Python wrapping, including Python 3, builds faster with a
>>>>>>>> more
>>>>>>>> >> >> standard
>>>>>>>> >> >> installation
>>>>>>>> >> >> * Improved performance of itk::Image::GetPixel and operations
>>>>>>>> on
>>>>>>>> >> >> itk::VariableLengthVector?s
>>>>>>>> >> >> * Generate a FlatStructuringElement from an image
>>>>>>>> >> >> * Point-set registration with time-varying B-splines
>>>>>>>> >> >> * Module dependencies can now be specified as public /
>>>>>>>> private /
>>>>>>>> >> >> compile /
>>>>>>>> >> >> test
>>>>>>>> >> >>
>>>>>>>> >> >>
>>>>>>>> >> >> Please test the release candidate and share your experiences
>>>>>>>> on the
>>>>>>>> >> >> mailing list, issue tracker, and Gerrit Code Review. The new
>>>>>>>> module
>>>>>>>> >> >> dependency specification mechanism may unearth missing
>>>>>>>> dependencies for
>>>>>>>> >> >> projects that use ITK COMPONENTS with the CMake find_package
>>>>>>>> command.
>>>>>>>> >> >>
>>>>>>>> >> >>
>>>>>>>> >> >> An Experimental build, which demonstrates how the test suite
>>>>>>>> performs
>>>>>>>> >> >> on
>>>>>>>> >> >> your local build system, can be submitted to the dashboard
>>>>>>>> [2] with:
>>>>>>>> >> >>
>>>>>>>> >> >>   mkdir ../ITK-build
>>>>>>>> >> >>   cd ../ITK-build
>>>>>>>> >> >>   cmake ../ITK
>>>>>>>> >> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test
>>>>>>>> -T Submit
>>>>>>>> >> >>
>>>>>>>> >> >> Visual Studio builds must also add ?-C Release? to the ctest
>>>>>>>> command.
>>>>>>>> >> >>
>>>>>>>> >> >> Notify the mailing list if there are any unexpected
>>>>>>>> failures.  Testing
>>>>>>>> >> >> your own applications against the RC is also appreciated.
>>>>>>>> >> >>
>>>>>>>> >> >>
>>>>>>>> >> >> Congratulations and well done to the 35 contributors to this
>>>>>>>> release.
>>>>>>>> >> >> We
>>>>>>>> >> >> would especially like to recognize the new contributors:
>>>>>>>> Mikhail
>>>>>>>> >> >> Isakov,
>>>>>>>> >> >> Betsy McPhail, Alexander Leinoff, Shawn Waldon, Tobias Wood,
>>>>>>>> Seun
>>>>>>>> >> >> Odutola,
>>>>>>>> >> >> Hyun Jae Kang, Lucas Gandel, Adam Snyder, Junjie Bai, Pablo
>>>>>>>> >> >> Hernandez-Cerdan, Abhishek Tiwari, Eugene Prilepin, Zach
>>>>>>>> Williamson,
>>>>>>>> >> >> Luc
>>>>>>>> >> >> Hermitte, Laurentiu Nicola, and Floris Berendsen.
>>>>>>>> >> >>
>>>>>>>> >> >>
>>>>>>>> >> >> The final release is scheduled for mid-December.
>>>>>>>> >> >>
>>>>>>>> >> >>
>>>>>>>> >> >> [1] http://www.itk.org/Wiki/ITK/Git
>>>>>>>> >> >>
>>>>>>>> >> >> [2] http://open.cdash.org/index.php?project=Insight
>>>>>>>> >> >>
>>>>>>>> >> >>
>>>>>>>> >> >>
>>>>>>>> >> >> New Features
>>>>>>>> >> >> ---------------------
>>>>>>>> >> >>
>>>>>>>> >> >> Wrapping improvements
>>>>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>>>>> >> >>
>>>>>>>> >> >> * Python 3 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::)
>>>>>>>> >> >>
>>>>>>>> >> >>
>>>>>>>> >> >> 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
>>>>>>>> >> >>    * 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
>>>>>>>> >> >>
>>>>>>>> >> >>
>>>>>>>> >> >> 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
>>>>>>>> >> >> * GDCM updated 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
>>>>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>>>>> >> >>
>>>>>>>> >> >>
>>>>>>>> >> >> * And much more! See details in the log below.
>>>>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>>>>> >> >>
>>>>>>>> >> >>
>>>>>>>> >> >>
>>>>>>>> >> >> 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
>>>>>>>> >> >>
>>>>>>>> >> >>
>>>>>>>> >> >>
>>>>>>>> >> >> -----------------------------------------------------
>>>>>>>> >> >> Errors or omissions? Please fix them here:
>>>>>>>> >> >>
>>>>>>>> >> >>
>>>>>>>> >> >>
>>>>>>>> >> >>
>>>>>>>> https://docs.google.com/document/d/1j3IAZFfi0ToO8N6hTr0fVTTMmHIMkXAxx0AsAajsYuM/edit
>>>>>>>> >> >> _____________________________________
>>>>>>>> >> >> Powered by www.kitware.com
>>>>>>>> >> >>
>>>>>>>> >> >> Visit other Kitware open-source projects at
>>>>>>>> >> >> http://www.kitware.com/opensource/opensource.html
>>>>>>>> >> >>
>>>>>>>> >> >> Kitware offers ITK Training Courses, for more information
>>>>>>>> visit:
>>>>>>>> >> >> http://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://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-developers
>>>>>>>
>>>>>>>
>>>>>>
>>>>
>>
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From matt.mccormick at kitware.com  Mon Nov 30 20:42:55 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Mon, 30 Nov 2015 20:42:55 -0500
Subject: [ITK-users] [ITK-dev] [ANN] ITK 4.9 Release Candidate 1 is
 ready for testing!
In-Reply-To: <CAPf2UMT=7HT0=b6S_OPJhvZLFYsVsOMb_oWpP_+pOPOO9EsnrQ@mail.gmail.com>
References: <CALzTN-QFzWXhwYCUukD-vtDFjZWyA-C27-5-D0CCrvFgK8OsfQ@mail.gmail.com>
 <CAJFNcCT6w880EzKxXsx7oNHEq8zto646PMvJFrpGRJ+w8DorGQ@mail.gmail.com>
 <CALzTN-S5oLGFxp20L1t89hfo6fR0MOqZR2vv7LX2p_JaraV_kQ@mail.gmail.com>
 <CAJFNcCQoQJtiCock1g9z9N=+W=TwTYsX62bUHfHnTSPSrozNOg@mail.gmail.com>
 <CALzTN-Rpg5BvzFkT5SYSfUaLXM0Ap2fuRe+wDw3Td7iZgpcM6g@mail.gmail.com>
 <CAJFNcCQe-907wcX8JpZRzPf4vz1F3=WD6=9ac8nJ44BMV=cyTA@mail.gmail.com>
 <CAPf2UMRke6KvaQRe42HCT0PUDDp2XaVrF0w7-HgYAW48bCxrPg@mail.gmail.com>
 <CAJFNcCQJb=T7pw+vxw+H+3pvB4HYxEihSpcr21dqfZ9cb2h5dg@mail.gmail.com>
 <CAPf2UMS7QYr-iNikg=cOeNEHY36B6EmznPXFbB2QheRM_V+g+Q@mail.gmail.com>
 <CAJFNcCSvFRopjuQFWxfNBc7h40ZoYpV5w3dq2JNu7JfTE3LUuA@mail.gmail.com>
 <CAPf2UMSqrPnbJfaVZ-Nsw=m0iw8rnPENLsD0x588ekJ7wHG7yw@mail.gmail.com>
 <CAJFNcCQr1F6QjqaC6MFDo66Y609JTzuiCPCHCN6JF0OaNfoB7g@mail.gmail.com>
 <CAPf2UMT=7HT0=b6S_OPJhvZLFYsVsOMb_oWpP_+pOPOO9EsnrQ@mail.gmail.com>
Message-ID: <CALzTN-RaMCFdZZeaBYrU+o1ciubQcY=B_tKrN7+LGrEvim59PQ@mail.gmail.com>

Hi Simon,

I am returning from holiday, and also catching up on activity.


Hyun Jae has taken care of the KWStyle warnings and the data conversion
warning:

  http://review.source.kitware.com/#/c/20430/
  http://review.source.kitware.com/#/c/20446/


And Dzenan and Bill have addressed Wiki examples errors:

  https://github.com/InsightSoftwareConsortium/ITKWikiExamples/pull/3


It is likely that the test failures on your build still remain.  Did you
want to take them on?

Thanks,
Matt

On Mon, Nov 30, 2015 at 2:00 PM, D?enan Zuki? <dzenanz at gmail.com> wrote:

> Looking at the master branch is the right thing to do. I am not doing any
> active development regarding this right now.
>
> On Mon, Nov 30, 2015 at 1:53 PM, Simon Alexander <skalexander at gmail.com>
> wrote:
>
>> Hi All,
>>
>> I had hoped to be able to look at this over the weekend, but no such
>> luck. Is there somewhere useful I can help with it now?  Not sure what
>> state we are in (or what branch).
>>
>> On Wed, 25 Nov 2015 at 16:41 D?enan Zuki? <dzenanz at gmail.com> wrote:
>>
>>> It turns out that all the compile errors were occurring in WikiExamples.
>>> I solved all except one:
>>> ITK_FIXED_PARAMETERS_ARE_DOUBLE is not defined in
>>> file ITK\Modules\Remote\WikiExamples\Utilities\FileOutputWindow.cxx line
>>> 23, but it should be judging from the comment on that line.
>>>
>>> For the rest, I created a pull request:
>>> https://github.com/InsightSoftwareConsortium/ITKWikiExamples/pull/3
>>>
>>> On Wed, Nov 25, 2015 at 4:08 PM, Simon Alexander <skalexander at gmail.com>
>>> wrote:
>>>
>>>> Perfect.  I'm under a deadline that is likely to eat the rest of the
>>>> week but if that clears up I'll try and jump in earlier.
>>>>
>>>> On Wed, 25 Nov 2015 at 16:06 D?enan Zuki? <dzenanz at gmail.com> wrote:
>>>>
>>>>> OK I will work on it for an hour or two now, and I will make a branch
>>>>> and push it to Gerrit so whoever wants can pick up from there and keep
>>>>> updating it.
>>>>>
>>>>> On Wed, Nov 25, 2015 at 4:02 PM, Simon Alexander <
>>>>> skalexander at gmail.com> wrote:
>>>>>
>>>>>> Makes sense.  At this point I am unlikely to have time to look at
>>>>>> this until Saturday, but have hopes for a few free hours there.
>>>>>>
>>>>>> On Wed, 25 Nov 2015 at 15:58 D?enan Zuki? <dzenanz at gmail.com> wrote:
>>>>>>
>>>>>>> Building git master from Nov 23rd with examples and testing enabled
>>>>>>> I get 14 compile errors in VS2015 debug x64. Should we coordinate our
>>>>>>> efforts in fixing them?
>>>>>>>
>>>>>>> On Wed, Nov 25, 2015 at 11:29 AM, Simon Alexander <
>>>>>>> skalexander at gmail.com> wrote:
>>>>>>>
>>>>>>>> Two of the three failures look like truncation issues (like
>>>>>>>> https://open.cdash.org/testDetails.php?test=395263772&build=4117158
>>>>>>>> )
>>>>>>>>
>>>>>>>> The other (
>>>>>>>> https://open.cdash.org/testDetails.php?test=395264938&build=4117158)
>>>>>>>>  is less obvious.
>>>>>>>>
>>>>>>>> If I have time this evening I'll try and have a look at these.
>>>>>>>>
>>>>>>>> Is your standard test build in 32 bit ?  That might explain the
>>>>>>>> difference if there are some underlying type assumptions, but not obvious
>>>>>>>> why 2015 would trigger but not 2013.
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> On Wed, 25 Nov 2015 at 11:01 Matt McCormick <
>>>>>>>> matt.mccormick at kitware.com> wrote:
>>>>>>>>
>>>>>>>>> Ah, cool!  Here:
>>>>>>>>>
>>>>>>>>>  https://open.cdash.org/viewBuildError.php?type=1&buildid=4117158
>>>>>>>>>
>>>>>>>>> Could you please look into the test failures?
>>>>>>>>>
>>>>>>>>> @Hyun Jae, could you please look into the KWStyle warnings?
>>>>>>>>>
>>>>>>>>> Thanks,
>>>>>>>>> Matt
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> On Wed, Nov 25, 2015 at 10:55 AM, Simon Alexander <
>>>>>>>>> skalexander at gmail.com> wrote:
>>>>>>>>> > Sorry, if I wasn't clear - I submitted two builds yesterday from
>>>>>>>>> SIMON-LAP,
>>>>>>>>> > (actually 3 as I wasn't sure the config was right on the first
>>>>>>>>> one).  VS2013
>>>>>>>>> > was green, three failures on VS2015  (and 18 warnings).  Looks
>>>>>>>>> like a
>>>>>>>>> > truncation problem on the resuts.
>>>>>>>>> >
>>>>>>>>> > On Wed, 25 Nov 2015 at 10:51 Matt McCormick <
>>>>>>>>> matt.mccormick at kitware.com>
>>>>>>>>> > wrote:
>>>>>>>>> >>
>>>>>>>>> >> Hi Simon,
>>>>>>>>> >>
>>>>>>>>> >> Thanks for testing.
>>>>>>>>> >>
>>>>>>>>> >> We have a Visual Studio 2015 build on the dashboard that is
>>>>>>>>> green:
>>>>>>>>> >>
>>>>>>>>> >>   https://open.cdash.org/buildSummary.php?buildid=4117955
>>>>>>>>> >>
>>>>>>>>> >> Are there any different flags? Could you please submit an
>>>>>>>>> Experimental
>>>>>>>>> >> build?
>>>>>>>>> >>
>>>>>>>>> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test -T
>>>>>>>>> Submit -C
>>>>>>>>> >> Release
>>>>>>>>> >>
>>>>>>>>> >> from a fresh build tree.
>>>>>>>>> >>
>>>>>>>>> >> Thanks,
>>>>>>>>> >> Matt
>>>>>>>>> >>
>>>>>>>>> >> On Wed, Nov 25, 2015 at 9:07 AM, Simon Alexander <
>>>>>>>>> skalexander at gmail.com>
>>>>>>>>> >> wrote:
>>>>>>>>> >> > Looks like a few problems with x64 build on visual studio
>>>>>>>>> 2015 - do you
>>>>>>>>> >> > have
>>>>>>>>> >> > a test machine in this configuration?
>>>>>>>>> >> >
>>>>>>>>> >> > On Mon, 23 Nov 2015 at 17:53 Matt McCormick <
>>>>>>>>> matt.mccormick at kitware.com>
>>>>>>>>> >> > wrote:
>>>>>>>>> >> >>
>>>>>>>>> >> >> On behalf of the Insight Toolkit community, we are proud to
>>>>>>>>> announce
>>>>>>>>> >> >> that
>>>>>>>>> >> >> ITK 4.9 release candidate 1 has been tagged and is available
>>>>>>>>> for
>>>>>>>>> >> >> testing!
>>>>>>>>> >> >>
>>>>>>>>> >> >> Please take this opportunity to test the new features in the
>>>>>>>>> release
>>>>>>>>> >> >> candidate.
>>>>>>>>> >> >>
>>>>>>>>> >> >>
>>>>>>>>> >> >> To obtain the source code,
>>>>>>>>> >> >>
>>>>>>>>> >> >>   git clone http://itk.org/ITK.git
>>>>>>>>> >> >>  cd ITK
>>>>>>>>> >> >>  git checkout -q --detach v4.9rc01
>>>>>>>>> >> >>
>>>>>>>>> >> >> For more details, please see the Git documentation [1].
>>>>>>>>> >> >>
>>>>>>>>> >> >>
>>>>>>>>> >> >> A few selected highlights for this release:
>>>>>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>>>>>> >> >>
>>>>>>>>> >> >> * New Remote modules: the Cuberille module for smooth
>>>>>>>>> generation of
>>>>>>>>> >> >> meshes
>>>>>>>>> >> >> from binary segmentation images, and the
>>>>>>>>> AnisotropicDiffusionLBR module
>>>>>>>>> >> >> improved edge-preserving smoothing.
>>>>>>>>> >> >> * Build your own ITK module outside the source tree, add
>>>>>>>>> continuous
>>>>>>>>> >> >> integration testing on GitHub, and easily add Python
>>>>>>>>> wrapping for your
>>>>>>>>> >> >> C++
>>>>>>>>> >> >> algorithms.
>>>>>>>>> >> >> * Python wrapping, including Python 3, builds faster with a
>>>>>>>>> more
>>>>>>>>> >> >> standard
>>>>>>>>> >> >> installation
>>>>>>>>> >> >> * Improved performance of itk::Image::GetPixel and
>>>>>>>>> operations on
>>>>>>>>> >> >> itk::VariableLengthVector?s
>>>>>>>>> >> >> * Generate a FlatStructuringElement from an image
>>>>>>>>> >> >> * Point-set registration with time-varying B-splines
>>>>>>>>> >> >> * Module dependencies can now be specified as public /
>>>>>>>>> private /
>>>>>>>>> >> >> compile /
>>>>>>>>> >> >> test
>>>>>>>>> >> >>
>>>>>>>>> >> >>
>>>>>>>>> >> >> Please test the release candidate and share your experiences
>>>>>>>>> on the
>>>>>>>>> >> >> mailing list, issue tracker, and Gerrit Code Review. The new
>>>>>>>>> module
>>>>>>>>> >> >> dependency specification mechanism may unearth missing
>>>>>>>>> dependencies for
>>>>>>>>> >> >> projects that use ITK COMPONENTS with the CMake find_package
>>>>>>>>> command.
>>>>>>>>> >> >>
>>>>>>>>> >> >>
>>>>>>>>> >> >> An Experimental build, which demonstrates how the test suite
>>>>>>>>> performs
>>>>>>>>> >> >> on
>>>>>>>>> >> >> your local build system, can be submitted to the dashboard
>>>>>>>>> [2] with:
>>>>>>>>> >> >>
>>>>>>>>> >> >>   mkdir ../ITK-build
>>>>>>>>> >> >>   cd ../ITK-build
>>>>>>>>> >> >>   cmake ../ITK
>>>>>>>>> >> >>   ctest -j 4 -M Experimental  -T Configure -T Build -T Test
>>>>>>>>> -T Submit
>>>>>>>>> >> >>
>>>>>>>>> >> >> Visual Studio builds must also add ?-C Release? to the ctest
>>>>>>>>> command.
>>>>>>>>> >> >>
>>>>>>>>> >> >> Notify the mailing list if there are any unexpected
>>>>>>>>> failures.  Testing
>>>>>>>>> >> >> your own applications against the RC is also appreciated.
>>>>>>>>> >> >>
>>>>>>>>> >> >>
>>>>>>>>> >> >> Congratulations and well done to the 35 contributors to this
>>>>>>>>> release.
>>>>>>>>> >> >> We
>>>>>>>>> >> >> would especially like to recognize the new contributors:
>>>>>>>>> Mikhail
>>>>>>>>> >> >> Isakov,
>>>>>>>>> >> >> Betsy McPhail, Alexander Leinoff, Shawn Waldon, Tobias Wood,
>>>>>>>>> Seun
>>>>>>>>> >> >> Odutola,
>>>>>>>>> >> >> Hyun Jae Kang, Lucas Gandel, Adam Snyder, Junjie Bai, Pablo
>>>>>>>>> >> >> Hernandez-Cerdan, Abhishek Tiwari, Eugene Prilepin, Zach
>>>>>>>>> Williamson,
>>>>>>>>> >> >> Luc
>>>>>>>>> >> >> Hermitte, Laurentiu Nicola, and Floris Berendsen.
>>>>>>>>> >> >>
>>>>>>>>> >> >>
>>>>>>>>> >> >> The final release is scheduled for mid-December.
>>>>>>>>> >> >>
>>>>>>>>> >> >>
>>>>>>>>> >> >> [1] http://www.itk.org/Wiki/ITK/Git
>>>>>>>>> >> >>
>>>>>>>>> >> >> [2] http://open.cdash.org/index.php?project=Insight
>>>>>>>>> >> >>
>>>>>>>>> >> >>
>>>>>>>>> >> >>
>>>>>>>>> >> >> New Features
>>>>>>>>> >> >> ---------------------
>>>>>>>>> >> >>
>>>>>>>>> >> >> Wrapping improvements
>>>>>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>>>>>> >> >>
>>>>>>>>> >> >> * Python 3 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::)
>>>>>>>>> >> >>
>>>>>>>>> >> >>
>>>>>>>>> >> >> 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
>>>>>>>>> >> >>    * 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
>>>>>>>>> >> >>
>>>>>>>>> >> >>
>>>>>>>>> >> >> 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
>>>>>>>>> >> >> * GDCM updated 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
>>>>>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>>>>>> >> >>
>>>>>>>>> >> >>
>>>>>>>>> >> >> * And much more! See details in the log below.
>>>>>>>>> >> >> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>>>>>>>>> >> >>
>>>>>>>>> >> >>
>>>>>>>>> >> >>
>>>>>>>>> >> >> 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
>>>>>>>>> >> >>
>>>>>>>>> >> >>
>>>>>>>>> >> >>
>>>>>>>>> >> >> -----------------------------------------------------
>>>>>>>>> >> >> Errors or omissions? Please fix them here:
>>>>>>>>> >> >>
>>>>>>>>> >> >>
>>>>>>>>> >> >>
>>>>>>>>> >> >>
>>>>>>>>> https://docs.google.com/document/d/1j3IAZFfi0ToO8N6hTr0fVTTMmHIMkXAxx0AsAajsYuM/edit
>>>>>>>>> >> >> _____________________________________
>>>>>>>>> >> >> Powered by www.kitware.com
>>>>>>>>> >> >>
>>>>>>>>> >> >> Visit other Kitware open-source projects at
>>>>>>>>> >> >> http://www.kitware.com/opensource/opensource.html
>>>>>>>>> >> >>
>>>>>>>>> >> >> Kitware offers ITK Training Courses, for more information
>>>>>>>>> visit:
>>>>>>>>> >> >> http://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://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-developers
>>>>>>>>
>>>>>>>>
>>>>>>>
>>>>>
>>>
>
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From matt.mccormick at kitware.com  Mon Nov 30 22:19:54 2015
From: matt.mccormick at kitware.com (Matt McCormick)
Date: Mon, 30 Nov 2015 22:19:54 -0500
Subject: [ITK-users] Own Transformation Class
In-Reply-To: <1448627334852-7588218.post@n2.nabble.com>
References: <1448627334852-7588218.post@n2.nabble.com>
Message-ID: <CALzTN-Q+2YsJjCZyj3o+N5OC5OCNCweqCKpY+6eJgwM5JUZsiA@mail.gmail.com>

Hello Dominik,


> I have been working on a project in Slicer which is about registering
> histology slices to an MRI volume of the same subject. So far everything
> was
> straight-forward but now the implemented registration algorithms in Slicer
> are coming to their limits and I think I have to write some of the stuff
> myself in ITK. I can use SimpleITK in python or the C++ version in Slicer
> depending on which plugin I want to write. The stuff I wrote so far is in
> Python but I think I can write another plugin in C++ just for the
> registration algorithm and execute this in my Python plugin.


Nice!



> So, now to the questions:
>
> - I'd like to constraint the registration algorithm because both modalities
> have a very robust feature which is the urethra. So I'd like the
> registration algorithm to stay as it is and just limit the transformation
> so
> the histology-urethra follows the MRI-urethra and the rotation center is in
> the urethra. I read in the slicers forum that I can write my own
> transformation class for this but I didn't have a lot of success so far so
> I'm thankful for more hints on how to write my own transformation class or
> any other solutions.
>

A new transformation can often be avoided by calling SetWeights() on the
optimizer as explained here [1]. This can be used to hold parameters
constant for a given transform during the optimization process.

However, it sounds like goal is to limit registration to information from a
particular region in the image (the urethra). To achieve this goal, you may
consider setting the Fixed and Moving image masks on the metric as
described here [2].


>
> - Once every histology slice is registered, I'd like to merge these slices
> to one. Is there an easy solution in ITK for this? I read the
> ResampleImageFilter is usable for this but so far I just understood that it
> resamples an image depending on how you transform it.
>

If every histology slice is registered independently, when they are merged
together there will be gaps and overlap in the histology slice locations.
Therefore, if a histology volume is desired, the histology slices could be
registered to each other first to generate a single histology slice volume,
then that volume is registered to the MRI volume.

Cheers,
Matt


[1]
http://www.itk.org/Doxygen/html/classitk_1_1ObjectToObjectOptimizerBaseTemplate.html


[2] http://www.itk.org/Doxygen/html/classitk_1_1ImageToImageMetricv4.html
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From itkhelpacc at gmail.com  Mon Nov 30 23:22:18 2015
From: itkhelpacc at gmail.com (vishal)
Date: Mon, 30 Nov 2015 21:22:18 -0700 (MST)
Subject: [ITK-users] Examples for ITK-based 2D/3D registration
In-Reply-To: <CALzTN-QQjvfGujLBW8-82epLmVsTgxwQnc3WP3JSbU9-HFDw0Q@mail.gmail.com>
References: <5E843F0B86B47846B72559B57A54F96217BE836658@MBX02.ad.uni-heidelberg.de>
 <CALzTN-QQjvfGujLBW8-82epLmVsTgxwQnc3WP3JSbU9-HFDw0Q@mail.gmail.com>
Message-ID: <1448943738317-36519.post@n7.nabble.com>

hi Matt,
im planning to use "itk based framework for 2d/3d registration with multiple
fixed images by A. Bertelsen" in my project but this journal is written in
ITK 3.20.0... but im using ITK 4.7.0.. i was wondering if this will be an
issue....if it is how can i convert the V3 code to V4..
regards
Vishal



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