[ITK-users] Undefined references to methods of template classes

Thu Jan 15 12:26:30 EST 2015

Hi Matt again.
You were fully right about setting the background/foreground values for the
filter. I

2015-01-15 16:41 GMT+01:00 Matt McCormick <matt.mccormick at kitware.com>:

> Hi Francisco,
>
> There is definitely something wrong with the textures features.  It is
> not possible to know what is going on without more details, though.
>
> Matt
>
> On Thu, Jan 15, 2015 at 1:32 AM, Francisco Lopez de la Franca
> <franciscolopezdelafranca at gmail.com> wrote:
> > Hi Matt,
> > Thanks a lot for your answers. I'll try this afternoon what you suggest
> > regarding the shape filter, but what do you think about my results as for
> > the texture filter?
> > Regards.
> > /Francisco
> >
> > 2015-01-15 2:30 GMT+01:00 Matt McCormick <matt.mccormick at kitware.com>:
> >>
> >> Hi Francisco,
> >>
> >> Great to hear about the progress!
> >>
> >> The itk::BinaryImageToShapeLabelMapFilter  requires a binary input,
> >> which should have an integer pixel type, like unsigned char or
> >> unsigned short.  It is important to set the BackgroundValue and
> >> ForegroundValue [1] to get this filter to work correctly.
> >>
> >> HTH,
> >> Matt
> >>
> >> [1]
> >>
> http://www.itk.org/Doxygen/html/classitk_1_1BinaryImageToShapeLabelMapFilter.html
> >>
> >> On Wed, Jan 14, 2015 at 5:05 PM, Francisco Lopez de la Franca
> >> <franciscolopezdelafranca at gmail.com> wrote:
> >> > Hi again.
> >> > I fixed all the errors and got my library, now ready to be tested.
> >> > It contains an encapsulation, on the one hand, of the class
> >> > itkBinaryImageToShapeLabelMapFilter in order to get image shape
> >> > descriptors
> >> > of a 3D binary image, and on the other hand, the same for the class
> >> > itkScalarImageToTextureFeaturesFilter to get image texture features
> of a
> >> > 3D
> >> > scalar image.
> >> >
> >> > I pass as input image to both classes a binary 3D Nifti image
> >> > (150x150x150)
> >> > containing a cylinder where the inside voxels are 255 and the outside
> >> > voxels
> >> > are 0.
> >> >
> >> > As for the shape issue, it's very strange to me that the call to
> >> > GetNumberOfLabelObjects on a itk::LabelMap object returns a value of
> 0.
> >> > The
> >> > main code is as follows:
> >> >
> >> > binaryImageToShapeLabelMapFilter->SetInput(_input);
> >> > binaryImageToShapeLabelMapFilter->ComputePerimeterOn();
> >> > binaryImageToShapeLabelMapFilter->Update();
> >> >
> >> > LabelMapType::Pointer labelMap =
> >> > binaryImageToShapeLabelMapFilter->GetOutput();
> >> >
> >> > int nrOfLabelObjects = labelMap->GetNumberOfLabelObjects();
> >> >
> >> >
> >> > And, as for the texture features, the result of the filter does not
> seem
> >> > to
> >> > be very logic:
> >> >
> >> > Energy = 1
> >> > Entropy = 0
> >> > Correlation = 1
> >> > Local Homogeneity = 0
> >> > Inertia = 0
> >> > Cluster Shade = 0
> >> > Cluster Prominence = 0
> >> >
> >> > I've also tested this with a scalar 3D Nifti image and the results are
> >> > the
> >> > same.
> >> >
> >> > And the question is: What kind of image do I have to pass to the
> filters
> >> > so
> >> > that the code would return a more logic expected answer?
> >> >
> >> > Thank you very much in advance.
> >> > My best regars.
> >> > /Francisco
> >> >
> >> > 2015-01-10 22:38 GMT+01:00 Matt McCormick <matt.mccormick at kitware.com
> >:
> >> >>
> >> >> Hi Francisco,
> >> >>
> >> >> Nice to hear about the progress!
> >> >>
> >> >> You will need to link your library to the ITK libraries:
> >> >>
> >> >>   target_link_libraries( mylibrary ${ITK_LIBRARIES} )
> >> >>
> >> >> HTH,
> >> >> Matt
> >> >>
> >> >> On Sat, Jan 10, 2015 at 4:16 PM, Francisco Lopez de la Franca
> >> >> <franciscolopezdelafranca at gmail.com> wrote:
> >> >>>
> >> >>> Thanks to your previous answer the problem was solved, but another
> one
> >> >>> has come out. It occurs when linking to create the library. It gives
> >> >>> an
> >> >>> undefined reference to itk::ExceptionObject::ExceptionObject... as
> you
> >> >>> can
> >> >>> see below.
> >> >>> What it is strange to me is that before including explicit template
> >> >>> instantiation, I created the library without errors, and now that I
> >> >>> include
> >> >>> that, I get this error.
> >> >>> I'll appreciate very much any help.
> >> >>>
> >> >>> Linking CXX shared library libTFM_Features.dll
> >> >>>
> >> >>>
> >> >>>
> CMakeFiles\TFM_Features.dir/objects.a(TFM_Features.cpp.obj):TFM_Features.cpp:(.t
> >> >>>
> >> >>>
> >> >>>
> ext$_ZN3itk21MemoryAllocationErrorC1ERKSsjS2_S2_[_ZN3itk21MemoryAllocationErrorC
> >> >>> 1ERKSsjS2_S2_]+0x35): undefined reference to
> >> >>> `itk::ExceptionObject::ExceptionObj
> >> >>> ect(std::string const&, unsigned int, std::string const&,
> std::string
> >> >>> const&)'
> >> >>>
> >> >>>
> >> >>>
> CMakeFiles\TFM_Features.dir/objects.a(TFM_Features.cpp.obj):TFM_Features.cpp:(.t
> >> >>>
> >> >>>
> >> >>>
> ext$_ZN3itk21MemoryAllocationErrorC1ERKSsjS2_S2_[_ZN3itk21MemoryAllocationErrorC
> >> >>> 1ERKSsjS2_S2_]+0x40): undefined reference to `vtable for
> >> >>> itk::MemoryAllocationEr
> >> >>> ror'
> >> >>>
> >> >>>
> >> >>>
> C:/CV/mingw64/bin/../lib/gcc/x86_64-w64-mingw32/4.8.2/../../../../x86_64-w64-min
> >> >>> gw32/bin/ld.exe:
> >> >>> CMakeFiles\TFM_Features.dir/objects.a(TFM_Features.cpp.obj): ba
> >> >>> d reloc address 0x40 in section
> >> >>> `.text$_ZN3itk21MemoryAllocationErrorC1ERKSsjS2_
> >> >>> S2_[_ZN3itk21MemoryAllocationErrorC1ERKSsjS2_S2_]'
> >> >>> collect2.exe: error: ld returned 1 exit status
> >> >>> SRC\CMakeFiles\TFM_Features.dir\build.make:219: recipe for target
> >> >>> 'SRC/libTFM_Fe
> >> >>> atures.dll' failed
> >> >>> mingw32-make[2]: *** [SRC/libTFM_Features.dll] Error 1
> >> >>> CMakeFiles\Makefile2:77: recipe for target
> >> >>> 'SRC/CMakeFiles/TFM_Features.dir/all'
> >> >>>  failed
> >> >>> mingw32-make[1]: *** [SRC/CMakeFiles/TFM_Features.dir/all] Error 2
> >> >>> Makefile:74: recipe for target 'all' failed
> >> >>> mingw32-make: *** [all] Error 2
> >> >>>
> >> >>>
> >> >>> 2015-01-09 21:02 GMT+01:00 Matt McCormick
> >> >>> <matt.mccormick at kitware.com>:
> >> >>>>
> >> >>>> Hi Francisco,
> >> >>>>
> >> >>>> In order for the templates to be available in the library, they
> must
> >> >>>> be explicitly instantiated [1].
> >> >>>>
> >> >>>> HTH,
> >> >>>> Matt
> >> >>>>
> >> >>>> [1] http://www.cplusplus.com/articles/1C75fSEw/
> >> >>>>
> >> >>>> On Fri, Jan 9, 2015 at 2:59 PM, Francisco Lopez de la Franca
> >> >>>> <franciscolopezdelafranca at gmail.com> wrote:
> >> >>>> > Hi.
> >> >>>> > I' like to create a library containing, for example, one template
> >> >>>> > class with
> >> >>>> > a number of methods.
> >> >>>> > I've programmed a simple example and the compilation and
> generation
> >> >>>> > of
> >> >>>> > the
> >> >>>> > library goes fine. I use the cmake "add_library" command for
> >> >>>> > generating the
> >> >>>> > library.
> >> >>>> >
> >> >>>> > The problem arises at the moment of testing the library. I get an
> >> >>>> > undefined
> >> >>>> > reference for every method in the template class.
> >> >>>> >
> >> >>>> > I've downloaded a tool to look in the contents (functions) of
> >> >>>> > dynamic
> >> >>>> > libraries, and there is no function in the library. If I add
> >> >>>> > another
> >> >>>> > class
> >> >>>> > (not a template class), then, this tool shows me only the
> functions
> >> >>>> > in
> >> >>>> > this
> >> >>>> > latter class.
> >> >>>> >
> >> >>>> > Has anyone ever come across with this problem?
> >> >>>> >
> >> >>>> > Thanks a lot in advance.
> >> >>>> > Regards
> >> >>>> > /Francisco
> >> >>>> >
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> >> >>>
> >> >>
> >> >
> >
> >
>
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