[ITK-users] Texture pixel by pixel

Bradley Lowekamp blowekamp at mail.nih.gov
Wed Sep 30 08:55:39 EDT 2015 

Hello,

Did you compile TextureFeatureImage in Release mode?

1) The filter does not scale well with a large radius. And given by your initial report of print a very large number of offset you, it sounds like you are using a large radius with many offsets. I created a 224x224x300 unsigned short image and ran with the default offset and a radius of 2 in 5 minutes on my laptop. When I wrote this filter is was ~10x faster than this example... things change though...


2) I sounds like the boundaries/limits of the histogram may be clipping you values. I would inspect the co-occurance matrix.


HTH,
Brad

On Sep 30, 2015, at 3:28 AM, Francisco Lopez de la Franca <franciscolopezdelafranca at gmail.com> wrote:

> I've tested with itkTextureFeatureImageFilter, with itk::ScalarImageToTextureFeaturesFilter and also with the http://itk.org/Wiki/ITK/Examples/Statistics/TextureFeatures example, for a 3D image and here are my comments:
> 
> 
> 1. I had to interrupt the test after several hours and it kept on calculating. And this is for only a 3D image (224x224x300). I need to process around 35 images.
> 2. The result (texture features: entropy, energy, correlation, LH, inertia, CS and CP) for every voxel was: [1, 0, 1, 0, 0, 0, 7.83083e+247]. These values were not what I expected based on my experience on another application I developed, but in that case, I calculated the texture features for an image as a whole, not voxel by voxel.
> 
> Regards.
> 
> 2015-09-30 8:46 GMT+02:00 vis <itkhelpacc at gmail.com>:
> i yes i have tried radius = 3;
> still no luck
> 
> On Wed, Sep 30, 2015 at 12:06 PM, Francisco López-Franca [via ITK Insight
> Users] <ml-node+s2283740n7587961h47 at n2.nabble.com> wrote:
> 
> > Have you tried with a radius of 3 instead of 1?
> >
> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
> >
> >> hey Matt,
> >> thanks for ur advice.. it did build successfully... but im not able to run
> >> the code for 2D png image... i tried to change the dimension to 2 and
> >> build
> >> it which it did.. but when i run the code using the command
> >> line itkTextureFeatureImageFilterTest.exe cthead.png putput.png 1... i see
> >> this output
> >>
> >> offset: [-1, -1] [0, -1]
> >> offset: [0, -1] [1, -1]
> >> offset: [-1, 0] [0, 0]
> >> offset: [0, 0] [1, 0]
> >> offset: [-1, 1] [0, 1]
> >> offset: [0, 1] [1, 1] and it asks for abort the program... if pls tel me
> >> how can i modify this code to work wid 2d image... forgive me if my ques
> >> are really silly im trying to learn something..
> >> regards
> >> Vis
> >>
> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via ITK Insight Users]
> >> <
> >> [hidden email] <http:///user/SendEmail.jtp?type=node&node=7587961&i=1>>
> >> wrote:
> >>
> >> > Hi,
> >> >
> >> > The function:
> >> >
> >> >   itkTextureFeatureImageFilterTest(int argc, char *argv[])
> >> >
> >> > must be renamed to
> >> >
> >> >   main(int argc, char* argv[])
> >> >
> >> > HTH,
> >> > Matt
> >> >
> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>> wrote:
> >> >
> >> > > hi all,
> >> > > im trying to build the itkTextureFeatureImageFilterTest.cxx code but
> >> im
> >> > not
> >> > > able to it is showing the following error
> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK, Configuration:
> >> Debug
> >> > x64
> >> > > ------
> >> > > 1>  Checking Build System
> >> > > 1>  CMake does not need to re-run because
> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
> >> > is
> >> > > up-to-date.
> >> > > 2>------ Rebuild All started: Project:
> >> itkTextureFeatureImageFilterTest,
> >> > > Configuration: Debug x64 ------
> >> > > 2>  Building Custom Rule
> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
> >> > > 2>  CMake does not need to re-run because
> >> > > D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
> >> > is
> >> > > up-to-date.
> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
> >> > > 11.0\VC\include\xutility(2176): warning C4996: 'std::_Copy_impl':
> >> > Function
> >> > > call with parameters that may be unsafe - this call relies on the
> >> caller
> >> > to
> >> > > check that the passed values are correct. To disable this warning, use
> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how to use Visual C++
> >> > > 'Checked Iterators'
> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
> >> > > 11.0\VC\include\xutility(2157) : see declaration of 'std::_Copy_impl'
> >> > > 2>
> >> > >
> >> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439) :
> >> > see
> >> > > reference to function template instantiation '_OutIt std::copy<const
> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)' being compiled
> >> > > 2>          with
> >> > > 2>          [
> >> > > 2>              _OutIt=unsigned char *,
> >> > > 2>              _InIt=const unsigned char *
> >> > > 2>          ]
> >> > > 2>
> >> > >
> >> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353) :
> >> > > while compiling class template member function 'void
> >> > > itk::ImageFileReader<TOutputImage>::GenerateData(void)'
> >> > > 2>          with
> >> > > 2>          [
> >> > > 2>              TOutputImage=InputImageType
> >> > > 2>          ]
> >> > > 2>
> >> > >
> >> >
> >> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
> >> >
> >> > > : see reference to class template instantiation
> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
> >> > > 2>          with
> >> > > 2>          [
> >> > > 2>              TOutputImage=InputImageType
> >> > > 2>          ]
> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
> >> > > 11.0\VC\include\xutility(2157) : see declaration of 'std::_Copy_impl'
> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
> >> > > 11.0\VC\include\xutility(2157) : see declaration of 'std::_Copy_impl'
> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
> >> > > 11.0\VC\include\xutility(2157) : see declaration of 'std::_Copy_impl'
> >> > > 2>     Creating library
> >> > >
> >> >
> >> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
> >> >
> >> > > and object
> >> > >
> >> >
> >> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
> >> >
> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved external symbol
> >> > main
> >> > > referenced in function __tmainCRTStartup
> >> > >
> >> >
> >> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
> >> >
> >> > > : fatal error LNK1120: 1 unresolved externals
> >> > > 3>------ Rebuild All started: Project: ALL_BUILD, Configuration: Debug
> >> > x64
> >> > > ------
> >> > > 3>  Building Custom Rule
> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
> >> > > 3>  CMake does not need to re-run because
> >> > > D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
> >> > is
> >> > > up-to-date.
> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0 skipped ==========
> >> > > im using the follwing CMakeList.txt
> >> > > # This is the root ITK CMakeLists file.
> >> > > cmake_minimum_required(VERSION 2.4)
> >> > > if(COMMAND CMAKE_POLICY)
> >> > >   cmake_policy(SET CMP0003 NEW)
> >> > > endif()
> >> > >
> >> > >
> >> > > # This project is designed to be built outside the Insight source
> >> tree.
> >> > > project(HelloWorld)
> >> > >
> >> > > # Find ITK.
> >> > > find_package(ITK REQUIRED)
> >> > > include(${ITK_USE_FILE})
> >> > >
> >> > > add_executable(itkTextureFeatureImageFilterTest
> >> > > itkTextureFeatureImageFilterTest.cxx )
> >> > >
> >> > > target_link_libraries(itkTextureFeatureImageFilterTest
> >> ${ITK_LIBRARIES})
> >> > >
> >> > > please tel me wat the error is??
> >> > >
> >> > >
> >> > >
> >> > > --
> >> > > View this message in context:
> >> >
> >> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
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> 
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