[Insight-users] My median + gradient-anisotropic-diffusion filter became 200% slower when I updated ITK

Wed Mar 16 11:12:48 EDT 2011

Sorry, it seems you might be on the right track -- the build type was not set in the Cmake , not for the building of ITK but for the building of my application. Since it's not set, it must be defaulting to 'debug' or something worse. 

> -----Original Message-----
> From: insight-users-bounces at itk.org [mailto:insight-users-
> bounces at itk.org] On Behalf Of Robert.Atwood at diamond.ac.uk
> Sent: 16 March 2011 14:24
> To: vincent-magnotta at uiowa.edu; insight-users at itk.org
> Subject: Re: [Insight-users] My median + gradient-anisotropic-diffusion
> filter became 200% slower when I updated ITK
> 
> Thanks, Vincent. Certainly worth double checking, but no, it's
> definitely 'release' in the build that's the slow result:
> 
> Further, I did check by subtracting results, I get identically zero so
> there's no change in the result of running the filter pipeline.
> 
> 
> 
> 
> 
>  BUILD_DOXYGEN                    OFF
>  BUILD_EXAMPLES                   OFF
>  BUILD_SHARED_LIBS                ON
>  BUILD_TESTING                    OFF
>  CMAKE_BACKWARDS_COMPATIBILITY    2.4
>  CMAKE_BUILD_TYPE                 Release
>  CMAKE_INSTALL_PREFIX             /dls_sw/apps/itk/itk-3.20
> 
> 
> ...
> 
> > -----Original Message-----
> > From: Magnotta, Vincent A [mailto:vincent-magnotta at uiowa.edu]
> > Sent: 16 March 2011 13:24
> > To: Atwood, Robert (DLSLtd,RAL,DIA); insight-users at itk.org
> > Subject: Re: [Insight-users] My median + gradient-anisotropic-
> diffusion
> > filter became 200% slower when I updated ITK
> >
> > Robert,
> >
> > Was ITK built in release mode in both cases? You might expect similar
> > timing measures if the new download was built in Debug mode while the
> > previous version was built in Release mode.
> >
> > Vince
> >
> > --
> > Associate Professor
> > Department of Radiology
> > 0453-D JCP
> > 200 Hawkins Drive
> > Iowa City, IA 52242
> > E-mail: vincent-magnotta at uiowa.edu
> > Phone: 319-356-8255 Fax: 319-353-6275
> > Website: http://www.healthcare.uiowa.edu/Radiology
> >
> >
> >
> >
> >
> > On 3/16/11 7:48 AM, "Robert.Atwood at diamond.ac.uk"
> > <Robert.Atwood at diamond.ac.uk> wrote:
> >
> > >Hi,
> > >I've installed version 3.2 from GIT recently, and suddenly my fairly
> > >simple volume median + gradientAnisotropicDiffusion program became
> > 100%
> > >slower. It could be a large issue because I want to apply this
> filter
> > to
> > >a LOT of data! I suppose I can just use the old version, but is
> > something
> > >wrong with it? Why is it acting differently !?! The results look the
> > same
> > >to me.
> > >
> > >I also therefore came to observe that the newer code (using git)
> lacks
> > >the automatic version string that was included in the older code
> > (using
> > >cvs).
> > >
> > >Does anyone have any idea why it's taking so much longer? Thanks
> > >Robert
> > >
> > >
> > >
> > >*** old header:
> >
> >/*====================================================================
> > ====
> > >=
> > >
> > >  Program:   Insight Segmentation & Registration Toolkit
> > >  Module:    $RCSfile:
> itkGradientAnisotropicDiffusionImageFilter.h,v
> > $
> > >  Language:  C++
> > >  Date:      $Date: 2008-10-16 16:45:08 $
> > >  Version:   $Revision: 1.28 $
> > >
> > >*** new header:
> >
> >/*====================================================================
> > ====
> > >=
> > >
> > >  Program:   Insight Segmentation & Registration Toolkit
> > >  Module:    itkGradientAnisotropicDiffusionImageFilter.h
> > >  Language:  C++
> > >  Date:      $Date$
> > >  Version:   $Revision$
> > >
> > >
> > >
> > >******************************
> > >Timing the old build:
> > >
> > >[kny48981 at cs04r-sc-com03-01 test_rad_iter]$ time
> > >/home/kny48981/progs/itk_progs/build64/itk_med_rca from-mhd.in >&
> > old.out
> > >
> > >real    0m44.201s
> > >user    0m58.038s
> > >sys     0m16.811s
> > >
> > >simpleFilterWatcher said:
> > >
> > >
> > >Filter took 0.506844 seconds.
> > >-------- End MedianImageFilter "VolMedian"...
> > >
> > >Filter took 19.1144 seconds.
> > >-------- End GradientAnisotropicDiffusionImageFilter "SmoothFilter"
> > >
> > >
> > >*******************************
> > >
> > >Timing the new build:
> > >
> > >[kny48981 at cs04r-sc-com03-01 test_rad_iter]$ time
> > >/home/kny48981/progs/itk_progs/build-64-3.20/itk_med_rca from-mhd.in
> > >&
> > >new.out
> > >
> > >real    1m55.548s
> > >user    3m32.898s
> > >sys     0m16.619s
> > >
> > >
> > >simpleFilterWatcher said:
> > >
> > >Filter took 2.9052 seconds.
> > >-------- End MedianImageFilter "VolMedian"
> > >
> > >Filter took 78.1621 seconds.
> > >-------- End GradientAnisotropicDiffusionImageFilter "SmoothFilter"
> > >
> > >
> > >
> > >
> > >--
> > >This e-mail and any attachments may contain confidential, copyright
> > and
> > >or privileged material, and are for the use of the intended
> addressee
> > >only. If you are not the intended addressee or an authorised
> recipient
> > of
> > >the addressee please notify us of receipt by returning the e-mail
> and
> > do
> > >not use, copy, retain, distribute or disclose the information in or
> > >attached to the e-mail.
> > >Any opinions expressed within this e-mail are those of the
> individual
> > and
> > >not necessarily of Diamond Light Source Ltd.
> > >Diamond Light Source Ltd. cannot guarantee that this e-mail or any
> > >attachments are free from viruses and we cannot accept liability for
> > any
> > >damage which you may sustain as a result of software viruses which
> may
> > be
> > >transmitted in or with the message.
> > >Diamond Light Source Limited (company no. 4375679). Registered in
> > England
> > >and Wales with its registered office at Diamond House, Harwell
> Science
> > >and Innovation Campus, Didcot, Oxfordshire, OX11 0DE, United Kingdom
> > >
> > >
> > >
> > >
> > >_____________________________________
> > >Powered by www.kitware.com
> > >
> > >Visit other Kitware open-source projects at
> > >http://www.kitware.com/opensource/opensource.html
> > >
> > >Kitware offers ITK Training Courses, for more information visit:
> > >http://www.kitware.com/products/protraining.html
> > >
> > >Please keep messages on-topic and check the ITK FAQ at:
> > >http://www.itk.org/Wiki/ITK_FAQ
> > >
> > >Follow this link to subscribe/unsubscribe:
> > >http://www.itk.org/mailman/listinfo/insight-users
> >
> >
> >
> > ________________________________
> > Notice: This UI Health Care e-mail (including attachments) is covered
> > by the Electronic Communications Privacy Act, 18 U.S.C. 2510-2521, is
> > confidential and may be legally privileged.  If you are not the
> > intended recipient, you are hereby notified that any retention,
> > dissemination, distribution, or copying of this communication is
> > strictly prohibited.  Please reply to the sender that you have
> received
> > the message in error, then delete it.  Thank you.
> > ________________________________
> 
> --
> This e-mail and any attachments may contain confidential, copyright and
> or privileged material, and are for the use of the intended addressee
> only. If you are not the intended addressee or an authorised recipient
> of the addressee please notify us of receipt by returning the e-mail
> and do not use, copy, retain, distribute or disclose the information in
> or attached to the e-mail.
> Any opinions expressed within this e-mail are those of the individual
> and not necessarily of Diamond Light Source Ltd.
> Diamond Light Source Ltd. cannot guarantee that this e-mail or any
> attachments are free from viruses and we cannot accept liability for
> any damage which you may sustain as a result of software viruses which
> may be transmitted in or with the message.
> Diamond Light Source Limited (company no. 4375679). Registered in
> England and Wales with its registered office at Diamond House, Harwell
> Science and Innovation Campus, Didcot, Oxfordshire, OX11 0DE, United
> Kingdom
> 
> 
> 
> 
> _____________________________________
> Powered by www.kitware.com
> 
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
> 
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.html
> 
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
> 
> Follow this link to subscribe/unsubscribe:
> http://www.itk.org/mailman/listinfo/insight-users

-- 
This e-mail and any attachments may contain confidential, copyright and or privileged material, and are for the use of the intended addressee only. If you are not the intended addressee or an authorised recipient of the addressee please notify us of receipt by returning the e-mail and do not use, copy, retain, distribute or disclose the information in or attached to the e-mail.
Any opinions expressed within this e-mail are those of the individual and not necessarily of Diamond Light Source Ltd. 
Diamond Light Source Ltd. cannot guarantee that this e-mail or any attachments are free from viruses and we cannot accept liability for any damage which you may sustain as a result of software viruses which may be transmitted in or with the message.
Diamond Light Source Limited (company no. 4375679). Registered in England and Wales with its registered office at Diamond House, Harwell Science and Innovation Campus, Didcot, Oxfordshire, OX11 0DE, United Kingdom