[Insight-developers] SimpleITK compilation error

[Dan Mueller]

Hi Arnaud,

A pre-prepared virtual machine sounds great! Sorry you encountered this issue.

Cheers, Dan

On 1 October 2011 14:04, Arnaud Gelas <Arnaud_Gelas at hms.harvard.edu> wrote:
> Hi Dan,
>
> I am not really interested in C# wrappers, I have already turned it off ;-).
>
> I used the default settings in which all wrappers are turned on at the
> beginning, then mono was detected.
> I plan to set up a nightly build for SimpleITK on this machine, anyway.
>
> Don't worry, there's no rush for C# on my side!
> If you are interested in, I can prepare a virtual machine with the same
> settings for you. Once you get back, you can then have a look.
>
> How does that sound?
>
> Cheers,
> Arnaud
>
> On Oct 1, 2011, at 5:18 AM, Dan Mueller wrote:
>
>> 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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>>>
>
>