Generating python wrappers on recent version of the code

[julien]

Hi Chris, 

I am working with revision 2526 of the code (post April merge of gaetano's code) on my ubuntu 12.04 VM. 

I have done some changes to interface of SireMol::AmberParameters and am running into issues with the generation of new wrappers. 

julien@ubuntu:~/software/devel/siregac/python$ python AutoGenerate/scanheaders.py ~/software/devel/siregac/corelib/src/libs/ .

julien@ubuntu:~/software/devel/siregac/python$ cd Mol/

julien@ubuntu:~/software/devel/siregac/python/Mol$ python ../AutoGenerate/create_wrappers.py 

Generating wrappers including OpenMM from /home/julien/local/openmm6.0/

INFO Parsing source file "active_headers.h" ... 

INFO gccxml cmd: /usr/bin/gccxml  -m64   -I"." -I"/home/julien/software/devel/siregac/corelib/src/libs/" -I"/home/julien/software/devel/siregac/corelib/src/libs//SireMol" -I"/home/julien/sire.app/bundled/include" -I"/home/julien/sire.app/bundled/include/QtCore" -I"/home/julien/sire.app/bundled/include" -I"/home/julien/sire.app/bundled/include" -I"/home/julien/local/openmm6.0//include"  -D"GCCXML_PARSE" -D"SIRE_USE_OPENMM" -D"SIRE_SKIP_INLINE_FUNCTIONS" -D"SIREN_SKIP_INLINE_FUNCTIONS" -D"SIRE_INSTANTIATE_TEMPLATES" -D"SIREN_INSTANTIATE_TEMPLATES"  "active_headers.h" -fxml="/tmp/tmpYjurj5.xml"

Traceback (most recent call last):

  File "../AutoGenerate/create_wrappers.py", line 595, in <module>

    "SIREN_INSTANTIATE_TEMPLATES"] )

  File "/usr/local/lib/python2.7/dist-packages/pyplusplus/module_builder/builder.py", line 90, in __init__

    , indexing_suite_version)

  File "/usr/local/lib/python2.7/dist-packages/pyplusplus/module_builder/builder.py", line 144, in __parse_declarations

    decls = reader.read_files( files, compilation_mode )

  File "/usr/local/lib/python2.7/dist-packages/pygccxml/parser/project_reader.py", line 225, in read_files

    return self.__parse_file_by_file(files)

  File "/usr/local/lib/python2.7/dist-packages/pygccxml/parser/project_reader.py", line 250, in __parse_file_by_file

    decls = reader.read_file( header )

  File "/usr/local/lib/python2.7/dist-packages/pygccxml/parser/source_reader.py", line 198, in read_file

    return self.read_gccxml_file( source_file )

  File "/usr/local/lib/python2.7/dist-packages/pygccxml/parser/source_reader.py", line 225, in read_gccxml_file

    raise error

pygccxml.parser.source_reader.gccxml_runtime_error_t: Error occured while running GCC-XML: In file included from /home/julien/sire.app/bundled/include/QtCore/qchar.h:45,

                 from /home/julien/sire.app/bundled/include/QtCore/qhash.h:45,

                 from /home/julien/sire.app/bundled/include/QtCore/QHash:1,

                 from /home/julien/software/devel/siregac/corelib/src/libs/SireBase/propertymap.h:32,

                 from /home/julien/software/devel/siregac/corelib/src/libs//SireMol/amberparameters.h:32,

                 from active_headers.h:6:

/home/julien/sire.app/bundled/include/QtCore/qglobal.h:996:4: error: #error "You must build your code with position independent code if Qt was built with -reduce-relocations. " "Compile your code with -fPIC or -fPIE."

In file included from active_headers.h:10:

/home/julien/software/devel/siregac/corelib/src/libs//SireMol/atombeads.h:44: error: redefinition of 'struct QMetaTypeId<SireMol::AtomProperty<SireMol::BeadNum> >'

/home/julien/software/devel/siregac/corelib/src/libs//SireMol/atombeading.h:44: error: previous definition of 'struct QMetaTypeId<SireMol::AtomProperty<SireMol::BeadNum> >'

/home/julien/software/devel/siregac/corelib/src/libs//SireMol/atombeads.h:49: error: duplicate explicit instantiation of 'class SireMol::AtomProperty<SireMol::BeadNum>'

I tried adding the flags -fPIC or -fPIE to  cflags = "-m64" in the script Autogenerate/create_wrappers.py but that hasn't solved the problem.

I am using

 julien@ubuntu:~/software/devel/siregac/corelib$ gccxml --version

GCC-XML version 0.9.0

Do you think you know what is going on?

Best wishes, 

Julien

[Gaetano Calabró]

Hi Julien,

you cannot use Ubuntu 12.04 to generate the wrapper with the latest version of Sire. You have to install Scientific Linux 5. There is a compatibility problem with QT5 somewhere. I also tried with other ubuntu distribution (9,10,11) an the problem persists. 

 

Cheers,

Gaetano

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