[Insight-developers] SimpleITK compilation error

Sat Oct 1 05:18:10 EDT 2011

Hi Arnaud,

I forgot to add: if you are not interested in C# wrappers, you can
simply turn them off to help the build process.

Are you specifically interested in the C# wrappers? Or was it turned
on automatically because Mono was detected on your system?

Cheers, Dan

On 30 September 2011 17:00, Dan Mueller <dan.muel at gmail.com> wrote:
> Hi Arnaud,
>
> Hmm. Looks like there is an issue wrapping enums for C# on debian. We
> are using a special "enum as type" option in SWIG, which may be
> contributing to the issue ("enum as integer" did not work for other
> Linux flavours). I'm travelling for the next 2 weeks, so it may take a
> while before I can set up a virtual machine to investigate...
>
> Cheers, Dan
>
> On 30 September 2011 15:45, Arnaud Gelas <arnaud_gelas at hms.harvard.edu> wrote:
>> Here is what I get on next:
>>
>> [ 39%] Compiling C# library SimpleITKCSharpManaged
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/AffineTransform.cs(47,26):
>> error CS0115: `itk.simple.AffineTransform.GetTransform(int)' is marked as an
>> override but no suitable method found to override
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/AffineTransform.cs(53,32):
>> error CS0115: `itk.simple.AffineTransform.GetOptimizerScales(int)' is marked
>> as an override but no suitable method found to override
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/MattesMutualInformationMetric.cs(47,26):
>> error CS0115:
>> `itk.simple.MattesMutualInformationMetric.GetMetric(itk.simple.Image)' is
>> marked as an override but no suitable method found to override
>> Compilation failed: 3 error(s), 0 warnings
>>
>> ---
>>
>> Let me know if there's anything you want me to try here
>>
>> Best,
>> Arnaud
>>
>> On 09/30/2011 09:32 AM, Arnaud Gelas wrote:
>>
>> My machine is a debian squeeze (64 bits)
>> Mono (version): 2.6.7-5
>> gcc: 4.6.1
>>
>> It was working fine yesterday (after removing the dependency to curses)...
>>
>> ---
>>
>> I am giving a try on next, to check if it has not been fixed there...
>>
>> On 09/30/2011 09:25 AM, Bradley Lowekamp wrote:
>>
>> Hello Arnaud,
>> This error looks only related to CSharp. Dan Mueller is the CSharp expert,
>> hopefully he as some insight.
>> What version of OS, and mono are you using?
>> Thanks for let up know what's not working for you,
>> Brad
>> On Sep 30, 2011, at 9:17 AM, Arnaud Gelas wrote:
>>
>> Hi Brad,
>>
>> I am recompiling SimpleITK (master) this morning and I get compilation
>> errors (see errors below).
>>
>> BTW, is there a mailing list for SimpleITK where I could post such a
>> message?
>>
>> Thanks,
>> Arnaud
>>
>> Linking CXX shared module ../../lib/_SimpleITK.so
>> Creating Python virtualenv
>> Already using interpreter /usr/bin/python2.6
>> New python executable in
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Testing/Installation/PythonVirtualenv/bin/python2.6
>> Also creating executable in
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Testing/Installation/PythonVirtualenv/bin/python
>> [ 56%] Built target SimpleITKUnitTestDriver
>> Installing
>> distribute....................................................................................................................................................................................done.
>> Installing
>> pip.../home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/InterpolateFunctionEnum.cs(12,122):
>> error CS0117: `itk.simple.SimpleITKPINVOKE' does not contain a
>> definition for `sitkUnknow_get'
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/SimpleITKPINVOKE.cs(14,7):
>> (Location of the symbol related to previous error)
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/InterpolateFunctionEnum.cs(12,139):
>> error CS1502: The best overloaded method match for
>> `itk.simple.InterpolateFunctionEnum.InterpolateFunctionEnum(string,
>> itk.simple.InterpolateFunctionEnum)' has some invalid arguments
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/InterpolateFunctionEnum.cs(43,11):
>> (Location of the symbol related to previous error)
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/InterpolateFunctionEnum.cs(12,139):
>> error CS1503: Argument `#2' cannot convert `object' expression to type
>> `itk.simple.InterpolateFunctionEnum'
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/InterpolateFunctionEnum.cs(13,140):
>> error CS0117: `itk.simple.SimpleITKPINVOKE' does not contain a
>> definition for `sitkNearestNeighbor_get'
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/SimpleITKPINVOKE.cs(14,7):
>> (Location of the symbol related to previous error)
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/InterpolateFunctionEnum.cs(13,166):
>> error CS1502: The best overloaded method match for
>> `itk.simple.InterpolateFunctionEnum.InterpolateFunctionEnum(string,
>> itk.simple.InterpolateFunctionEnum)' has some invalid arguments
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/InterpolateFunctionEnum.cs(43,11):
>> (Location of the symbol related to previous error)
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/InterpolateFunctionEnum.cs(13,166):
>> error CS1503: Argument `#2' cannot convert `object' expression to type
>> `itk.simple.InterpolateFunctionEnum'
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/InterpolateFunctionEnum.cs(14,144):
>> error CS0117: `itk.simple.SimpleITKPINVOKE' does not contain a
>> definition for `sitkLinearInterpolate_get'
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/SimpleITKPINVOKE.cs(14,7):
>> (Location of the symbol related to previous error)
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/InterpolateFunctionEnum.cs(14,172):
>> error CS1502: The best overloaded method match for
>> `itk.simple.InterpolateFunctionEnum.InterpolateFunctionEnum(string,
>> itk.simple.InterpolateFunctionEnum)' has some invalid arguments
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/InterpolateFunctionEnum.cs(43,11):
>> (Location of the symbol related to previous error)
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/InterpolateFunctionEnum.cs(14,172):
>> error CS1503: Argument `#2' cannot convert `object' expression to type
>> `itk.simple.InterpolateFunctionEnum'
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/InterpolateFunctionEnum.cs(15,134):
>> error CS0117: `itk.simple.SimpleITKPINVOKE' does not contain a
>> definition for `sitkWindowedSinc_get'
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/SimpleITKPINVOKE.cs(14,7):
>> (Location of the symbol related to previous error)
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/InterpolateFunctionEnum.cs(15,157):
>> error CS1502: The best overloaded method match for
>> `itk.simple.InterpolateFunctionEnum.InterpolateFunctionEnum(string,
>> itk.simple.InterpolateFunctionEnum)' has some invalid arguments
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/InterpolateFunctionEnum.cs(43,11):
>> (Location of the symbol related to previous error)
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/InterpolateFunctionEnum.cs(15,157):
>> error CS1503: Argument `#2' cannot convert `object' expression to type
>> `itk.simple.InterpolateFunctionEnum'
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/ResampleImageFilter.cs(17,86):
>> error CS0117: `itk.simple.SimpleITKPINVOKE' does not contain a
>> definition for `ResampleImageFilter_SWIGUpcast'
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/SimpleITKPINVOKE.cs(14,7):
>> (Location of the symbol related to previous error)
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/ResampleImageFilter.cs(17,64):
>> error CS1502: The best overloaded method match for
>> `itk.simple.ImageFilter.ImageFilter(System.IntPtr, bool)' has some
>> invalid arguments
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/ImageFilter.cs(18,12):
>> (Location of the symbol related to previous error)
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/ResampleImageFilter.cs(17,64):
>> error CS1503: Argument `#1' cannot convert `object' expression to type
>> `System.IntPtr'
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/ResampleImageFilter.cs(43,56):
>> error CS0117: `itk.simple.SimpleITKPINVOKE' does not contain a
>> definition for `new_ResampleImageFilter'
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/SimpleITKPINVOKE.cs(14,7):
>> (Location of the symbol related to previous error)
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/ResampleImageFilter.cs(43,34):
>> error CS1502: The best overloaded method match for
>> `itk.simple.ResampleImageFilter.ResampleImageFilter(System.IntPtr,
>> bool)' has some invalid arguments
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/ResampleImageFilter.cs(17,12):
>> (Location of the symbol related to previous error)
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/ResampleImageFilter.cs(43,34):
>> error CS1503: Argument `#1' cannot convert `object' expression to type
>> `System.IntPtr'
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/SOptimizer.cs(44,47):
>> error CS0117: `itk.simple.SimpleITKPINVOKE' does not contain a
>> definition for `new_SOptimizer'
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/SimpleITKPINVOKE.cs(14,7):
>> (Location of the symbol related to previous error)
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/SOptimizer.cs(44,25):
>> error CS1502: The best overloaded method match for
>> `itk.simple.SOptimizer.SOptimizer(System.IntPtr, bool)' has some invalid
>> arguments
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/SOptimizer.cs(18,12):
>> (Location of the symbol related to previous error)
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Wrapping/CSharpSources/SOptimizer.cs(44,25):
>> error CS1503: Argument `#1' cannot convert `object' expression to type
>> `System.IntPtr'
>> Compilation failed: 21 error(s), 0 warnings
>> make[5]: *** [Wrapping/SimpleITKCSharpManaged.dll] Error 1
>> make[4]: *** [Wrapping/CMakeFiles/SimpleITKCSharpManaged.dir/all] Error 2
>> make[4]: *** Waiting for unfinished jobs....
>> ..................done.
>> Installing python module to the virtualenv
>> running install
>> running bdist_egg
>> running egg_info
>> writing SimpleITK.egg-info/PKG-INFO
>> writing top-level names to SimpleITK.egg-info/top_level.txt
>> writing dependency_links to SimpleITK.egg-info/dependency_links.txt
>> warning: manifest_maker: standard file 'setup.py' not found
>> reading manifest file 'SimpleITK.egg-info/SOURCES.txt'
>> writing manifest file 'SimpleITK.egg-info/SOURCES.txt'
>> installing library code to build/bdist.linux-x86_64/egg
>> running install_lib
>> running build_py
>> creating build/bdist.linux-x86_64/egg
>> copying build/lib.linux-x86_64-2.6/SimpleITK.py ->
>> build/bdist.linux-x86_64/egg
>> byte-compiling build/bdist.linux-x86_64/egg/SimpleITK.py to SimpleITK.pyc
>> [ 56%] Built target org_itk_simple_jar
>> installing package data to build/bdist.linux-x86_64/egg
>> running install_data
>> copying /home/ajg23/GITROOT/SimpleITK/build/lib/_SimpleITK.so ->
>> build/bdist.linux-x86_64/egg/
>> creating build/bdist.linux-x86_64/egg/EGG-INFO
>> copying SimpleITK.egg-info/PKG-INFO -> build/bdist.linux-x86_64/egg/EGG-INFO
>> copying SimpleITK.egg-info/SOURCES.txt ->
>> build/bdist.linux-x86_64/egg/EGG-INFO
>> copying SimpleITK.egg-info/dependency_links.txt ->
>> build/bdist.linux-x86_64/egg/EGG-INFO
>> copying SimpleITK.egg-info/not-zip-safe ->
>> build/bdist.linux-x86_64/egg/EGG-INFO
>> copying SimpleITK.egg-info/top_level.txt ->
>> build/bdist.linux-x86_64/egg/EGG-INFO
>> creating 'dist/SimpleITK-0.3.0-py2.6.egg' and adding
>> 'build/bdist.linux-x86_64/egg' to it
>> removing 'build/bdist.linux-x86_64/egg' (and everything under it)
>> Processing SimpleITK-0.3.0-py2.6.egg
>> creating
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Testing/Installation/PythonVirtualenv/lib/python2.6/site-packages/SimpleITK-0.3.0-py2.6.egg
>> Extracting SimpleITK-0.3.0-py2.6.egg to
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Testing/Installation/PythonVirtualenv/lib/python2.6/site-packages
>> Adding SimpleITK 0.3.0 to easy-install.pth file
>>
>> Installed
>> /home/ajg23/GITROOT/SimpleITK/build/SimpleITK-build/Testing/Installation/PythonVirtualenv/lib/python2.6/site-packages/SimpleITK-0.3.0-py2.6.egg
>> Processing dependencies for SimpleITK==0.3.0
>> Finished processing dependencies for SimpleITK==0.3.0
>> [ 57%] Built target _SimpleITK
>> make[3]: *** [all] Error 2
>> make[2]: *** [SimpleITK-prefix/src/SimpleITK-stamp/SimpleITK-build] Error 2
>> make[1]: *** [CMakeFiles/SimpleITK.dir/all] Error 2
>> make: *** [all] Error 2
>>
>>
>> ========================================================
>>
>> Bradley Lowekamp
>>
>> Medical Science and Computing for
>>
>> Office of High Performance Computing and Communications
>>
>> National Library of Medicine
>>
>> blowekamp at mail.nih.gov
>>
>>
>>
>>
>>
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