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

[Matt McCormick]

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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>> >>>
>> >>>
>> >>
>> >
>
>