[ITK] [ITK-users] Texture pixel by pixel

Wed Sep 30 17:38:41 EDT 2015

Hello Bradley again,
I would like to ask you for a couple of favours. In the one hand, could you
please send me your 3D image so that I can test on it? And on the other
hand, could you test the example I have referenced in the previous email
with your image, not changing anything in the code, such as it is, and tell
me if the execution time is normal?
Thank you very much.
Regards,
/Francisco

PS: All my application trace is printed via standard 'cout' command, not
due to a debugging compilation mode.

El miércoles, 30 de septiembre de 2015, Bradley Lowekamp <
blowekamp at mail.nih.gov> escribió:

> 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
> <javascript:_e(%7B%7D,'cvml','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
> <javascript:_e(%7B%7D,'cvml','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
>> <javascript:_e(%7B%7D,'cvml','ml-node%2Bs2283740n7587961h47 at n2.nabble.com');>>
>> wrote:
>>
>> > Have you tried with a radius of 3 instead of 1?
>> >
>> > 2015-09-30 8:26 GMT+02:00 vis <[hidden email]
>> > <http:///user/SendEmail.jtp?type=node&node=7587961&i=0>>:
>> >
>> >> hey Matt,
>> >> thanks for ur advice.. it did build successfully... but im not able to
>> run
>> >> the code for 2D png image... i tried to change the dimension to 2 and
>> >> build
>> >> it which it did.. but when i run the code using the command
>> >> line itkTextureFeatureImageFilterTest.exe cthead.png putput.png 1... i
>> see
>> >> this output
>> >>
>> >> offset: [-1, -1] [0, -1]
>> >> offset: [0, -1] [1, -1]
>> >> offset: [-1, 0] [0, 0]
>> >> offset: [0, 0] [1, 0]
>> >> offset: [-1, 1] [0, 1]
>> >> offset: [0, 1] [1, 1] and it asks for abort the program... if pls tel
>> me
>> >> how can i modify this code to work wid 2d image... forgive me if my
>> ques
>> >> are really silly im trying to learn something..
>> >> regards
>> >> Vis
>> >>
>> >> On Wed, Sep 30, 2015 at 2:56 AM, Matt McCormick-2 [via ITK Insight
>> Users]
>> >> <
>> >> [hidden email] <http:///user/SendEmail.jtp?type=node&node=7587961&i=1
>> >>
>> >> wrote:
>> >>
>> >> > Hi,
>> >> >
>> >> > The function:
>> >> >
>> >> >   itkTextureFeatureImageFilterTest(int argc, char *argv[])
>> >> >
>> >> > must be renamed to
>> >> >
>> >> >   main(int argc, char* argv[])
>> >> >
>> >> > HTH,
>> >> > Matt
>> >> >
>> >> > On Tue, Sep 29, 2015 at 6:08 AM, vis <[hidden email]
>> >> > <http:///user/SendEmail.jtp?type=node&node=7587952&i=0>> wrote:
>> >> >
>> >> > > hi all,
>> >> > > im trying to build the itkTextureFeatureImageFilterTest.cxx code
>> but
>> >> im
>> >> > not
>> >> > > able to it is showing the following error
>> >> > > 1>------ Rebuild All started: Project: ZERO_CHECK, Configuration:
>> >> Debug
>> >> > x64
>> >> > > ------
>> >> > > 1>  Checking Build System
>> >> > > 1>  CMake does not need to re-run because
>> >> > >
>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/CMakeFiles/generate.stamp
>> >> > is
>> >> > > up-to-date.
>> >> > > 2>------ Rebuild All started: Project:
>> >> itkTextureFeatureImageFilterTest,
>> >> > > Configuration: Debug x64 ------
>> >> > > 2>  Building Custom Rule
>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>> >> > > 2>  CMake does not need to re-run because
>> >> > >
>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>> >> > is
>> >> > > up-to-date.
>> >> > > 2>  itkTextureFeatureImageFilterTest.cxx
>> >> > > 2>C:\Program Files (x86)\Microsoft Visual Studio
>> >> > > 11.0\VC\include\xutility(2176): warning C4996: 'std::_Copy_impl':
>> >> > Function
>> >> > > call with parameters that may be unsafe - this call relies on the
>> >> caller
>> >> > to
>> >> > > check that the passed values are correct. To disable this warning,
>> use
>> >> > > -D_SCL_SECURE_NO_WARNINGS. See documentation on how to use Visual
>> C++
>> >> > > 'Checked Iterators'
>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>> 'std::_Copy_impl'
>> >> > > 2>
>> >> > >
>> >> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(439)
>> :
>> >> > see
>> >> > > reference to function template instantiation '_OutIt
>> std::copy<const
>> >> > > unsigned char*,unsigned char*>(_InIt,_InIt,_OutIt)' being compiled
>> >> > > 2>          with
>> >> > > 2>          [
>> >> > > 2>              _OutIt=unsigned char *,
>> >> > > 2>              _InIt=const unsigned char *
>> >> > > 2>          ]
>> >> > > 2>
>> >> > >
>> >> c:\itk\source\modules\io\imagebase\include\itkImageFileReader.hxx(353)
>> :
>> >> > > while compiling class template member function 'void
>> >> > > itk::ImageFileReader<TOutputImage>::GenerateData(void)'
>> >> > > 2>          with
>> >> > > 2>          [
>> >> > > 2>              TOutputImage=InputImageType
>> >> > > 2>          ]
>> >> > > 2>
>> >> > >
>> >> >
>> >>
>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\itkTextureFeatureImageFilterTest.cxx(47)
>> >> >
>> >> > > : see reference to class template instantiation
>> >> > > 'itk::ImageFileReader<TOutputImage>' being compiled
>> >> > > 2>          with
>> >> > > 2>          [
>> >> > > 2>              TOutputImage=InputImageType
>> >> > > 2>          ]
>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>> 'std::_Copy_impl'
>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>> 'std::_Copy_impl'
>> >> > > 2>          C:\Program Files (x86)\Microsoft Visual Studio
>> >> > > 11.0\VC\include\xutility(2157) : see declaration of
>> 'std::_Copy_impl'
>> >> > > 2>     Creating library
>> >> > >
>> >> >
>> >>
>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.lib
>> >> >
>> >> > > and object
>> >> > >
>> >> >
>> >>
>> D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/bin/Debug/itkTextureFeatureImageFilterTest.exp
>> >> >
>> >> > > 2>MSVCRTD.lib(crtexe.obj) : error LNK2019: unresolved external
>> symbol
>> >> > main
>> >> > > referenced in function __tmainCRTStartup
>> >> > >
>> >> >
>> >>
>> 2>D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\Debug\itkTextureFeatureImageFilterTest.exe
>> >> >
>> >> > > : fatal error LNK1120: 1 unresolved externals
>> >> > > 3>------ Rebuild All started: Project: ALL_BUILD, Configuration:
>> Debug
>> >> > x64
>> >> > > ------
>> >> > > 3>  Building Custom Rule
>> >> > > D:/ITK_VTK_EX/My_ITK_Ex/seg/Texture/test/CMakeLists.txt
>> >> > > 3>  CMake does not need to re-run because
>> >> > >
>> D:\ITK_VTK_EX\My_ITK_Ex\seg\Texture\test\bin\CMakeFiles\generate.stamp
>> >> > is
>> >> > > up-to-date.
>> >> > > ========== Rebuild All: 2 succeeded, 1 failed, 0 skipped ==========
>> >> > > im using the follwing CMakeList.txt
>> >> > > # This is the root ITK CMakeLists file.
>> >> > > cmake_minimum_required(VERSION 2.4)
>> >> > > if(COMMAND CMAKE_POLICY)
>> >> > >   cmake_policy(SET CMP0003 NEW)
>> >> > > endif()
>> >> > >
>> >> > >
>> >> > > # This project is designed to be built outside the Insight source
>> >> tree.
>> >> > > project(HelloWorld)
>> >> > >
>> >> > > # Find ITK.
>> >> > > find_package(ITK REQUIRED)
>> >> > > include(${ITK_USE_FILE})
>> >> > >
>> >> > > add_executable(itkTextureFeatureImageFilterTest
>> >> > > itkTextureFeatureImageFilterTest.cxx )
>> >> > >
>> >> > > target_link_libraries(itkTextureFeatureImageFilterTest
>> >> ${ITK_LIBRARIES})
>> >> > >
>> >> > > please tel me wat the error is??
>> >> > >
>> >> > >
>> >> > >
>> >> > > --
>> >> > > View this message in context:
>> >> >
>> >>
>> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Texture-pixel-by-pixel-tp7587867p7587935.html
>> >> > > Sent from the ITK Insight Users mailing list archive at Nabble.com
>> .
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>> >> > NAML
>> >> > <
>> >>
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