science/avogadro fails to build

[Carmel]

FreeBSD-8.3 STABLE amd64

Evidently, the "science/avogadro" port does not have a full time
maintainer. In that case, I will report the problem here. Basically,
the port refused to build. It ends with this output: (it probably
suffers severe line wrap distortion)

cd /usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src/extensions/crystallography
&& /usr/bin/c++   -DHAVE_GCC_VISIBILITY -DQT_CORE_LIB -DQT_GUI_LIB
-DQT_NO_DEBUG -DQT_OPENGL_LIB -DQT_PLUGIN -DQT_SHARED -D_BSD_SOURCE
-Dcrystallographyextension_EXPORTS -O2 -pipe -march=athlon64
-idirafter /usr/local/include -fno-strict-aliasing -fvisibility=hidden
-fvisibility-inlines-hidden -fpermissive -O2 -pipe -march=athlon64
-idirafter /usr/local/include -fno-strict-aliasing -fPIC
-I/usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/include
-I/usr/local/include/qt4 -I/usr/local/include/qt4/QtOpenGL
-I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtCore
-I/usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src
-I/usr/local/include/eigen2 -I/usr/local/include/openbabel-2.0
-I/usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src/extensions
-I/usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src/extensions/gl2ps
-I/usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src/extensions/crystallography
-o
CMakeFiles/crystallographyextension.dir/ui/moc_ceviewoptionswidget.cxx.o
-c /usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src/extensions/crystallography/ui/moc_ceviewoptionswidget.cxx
Linking CXX shared module ../../../../lib/crystallographyextension.so
cd /usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src/extensions/crystallography
&& /usr/local/bin/cmake -E cmake_link_script
CMakeFiles/crystallographyextension.dir/link.txt
--verbose=1 /usr/bin/c++  -fPIC -O2 -pipe -march=athlon64
-idirafter /usr/local/include -fno-strict-aliasing -fvisibility=hidden
-fvisibility-inlines-hidden -fpermissive -O2 -pipe -march=athlon64
-idirafter /usr/local/include -fno-strict-aliasing  -L/usr/local/lib
-shared -Wl,-soname,crystallographyextension.so
-o ../../../../lib/crystallographyextension.so
CMakeFiles/crystallographyextension.dir/avospglib.cpp.o
CMakeFiles/crystallographyextension.dir/ceundo.cpp.o
CMakeFiles/crystallographyextension.dir/crystallographyextension.cpp.o
CMakeFiles/crystallographyextension.dir/crystalpastedialog.cpp.o
CMakeFiles/crystallographyextension.dir/ui/ceabstractdockwidget.cpp.o
CMakeFiles/crystallographyextension.dir/ui/ceabstracteditor.cpp.o
CMakeFiles/crystallographyextension.dir/ui/cecoordinateeditor.cpp.o
CMakeFiles/crystallographyextension.dir/ui/cematrixeditor.cpp.o
CMakeFiles/crystallographyextension.dir/ui/ceparametereditor.cpp.o
CMakeFiles/crystallographyextension.dir/ui/ceslabbuilder.cpp.o
CMakeFiles/crystallographyextension.dir/ui/cetranslatewidget.cpp.o
CMakeFiles/crystallographyextension.dir/ui/ceviewoptionswidget.cpp.o
CMakeFiles/crystallographyextension.dir/moc_crystallographyextension.cxx.o
CMakeFiles/crystallographyextension.dir/moc_crystalpastedialog.cxx.o
CMakeFiles/crystallographyextension.dir/ui/moc_ceabstractdockwidget.cxx.o
CMakeFiles/crystallographyextension.dir/ui/moc_ceabstracteditor.cxx.o
CMakeFiles/crystallographyextension.dir/ui/moc_cecoordinateeditor.cxx.o
CMakeFiles/crystallographyextension.dir/ui/moc_cematrixeditor.cxx.o
CMakeFiles/crystallographyextension.dir/ui/moc_ceparametereditor.cxx.o
CMakeFiles/crystallographyextension.dir/ui/moc_ceslabbuilder.cxx.o
CMakeFiles/crystallographyextension.dir/ui/moc_cetranslatewidget.cxx.o
CMakeFiles/crystallographyextension.dir/ui/moc_ceviewoptionswidget.cxx.o
-L/usr/local/lib ../../../../lib/libavogadro.so.1.1.0 /usr/local/lib/qt4/libQtCore.so /usr/local/lib/qt4/libQtGui.so
-lopenbabel /usr/local/lib/libGLU.so /usr/local/lib/libGL.so /usr/local/lib/libSM.so /usr/local/lib/libICE.so /usr/local/lib/libX11.so /usr/local/lib/libXext.so
spglib/libspglib.a
-Wl,-rpath,/usr/ports/science/avogadro/work/avogadro-1.1.0/lib:/usr/local/lib:/usr/local/lib/qt4: /usr/bin/ld:
spglib/libspglib.a(spglib.c.o): relocation R_X86_64_32 can not be used
when making a shared object; recompile with -fPIC spglib/libspglib.a:
could not read symbols: Bad value *** Error code 1 1 error *** Error
code 2 /usr/local/bin/cmake -E
cmake_progress_report /usr/ports/science/avogadro/work/avogadro-1.1.0/CMakeFiles
[ 65%] Building CXX object
libavogadro/src/extensions/spectra/CMakeFiles/spectraextension.dir/uv.cpp.o
cd /usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src/extensions/spectra
&& /usr/bin/c++   -DHAVE_GCC_VISIBILITY -DQT_CORE_LIB -DQT_GUI_LIB
-DQT_NO_DEBUG -DQT_OPENGL_LIB -DQT_PLUGIN -DQT_SHARED -D_BSD_SOURCE
-Dspectraextension_EXPORTS -O2 -pipe -march=athlon64
-idirafter /usr/local/include -fno-strict-aliasing -fvisibility=hidden
-fvisibility-inlines-hidden -fpermissive -O2 -pipe -march=athlon64
-idirafter /usr/local/include -fno-strict-aliasing -fPIC
-I/usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/include
-I/usr/local/include/qt4 -I/usr/local/include/qt4/QtOpenGL
-I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtCore
-I/usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src
-I/usr/local/include/eigen2 -I/usr/local/include/openbabel-2.0
-I/usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src/extensions
-I/usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src/extensions/gl2ps
-I/usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src/extensions/spectra
-o CMakeFiles/spectraextension.dir/uv.cpp.o
-c /usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src/extensions/spectra/uv.cpp
Linking CXX shared module ../../../../lib/spectraextension.so
cd /usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src/extensions/spectra
&& /usr/local/bin/cmake -E cmake_link_script
CMakeFiles/spectraextension.dir/link.txt --verbose=1 /usr/bin/c++
-fPIC -O2 -pipe -march=athlon64 -idirafter /usr/local/include
-fno-strict-aliasing -fvisibility=hidden -fvisibility-inlines-hidden
-fpermissive -O2 -pipe -march=athlon64 -idirafter /usr/local/include
-fno-strict-aliasing  -L/usr/local/lib -shared
-Wl,-soname,spectraextension.so -o ../../../../lib/spectraextension.so
CMakeFiles/spectraextension.dir/spectraextension.cpp.o
CMakeFiles/spectraextension.dir/spectradialog.cpp.o
CMakeFiles/spectraextension.dir/spectratype.cpp.o
CMakeFiles/spectraextension.dir/abstract_ir.cpp.o
CMakeFiles/spectraextension.dir/ir.cpp.o
CMakeFiles/spectraextension.dir/nmr.cpp.o
CMakeFiles/spectraextension.dir/dos.cpp.o
CMakeFiles/spectraextension.dir/uv.cpp.o
CMakeFiles/spectraextension.dir/cd.cpp.o
CMakeFiles/spectraextension.dir/raman.cpp.o
CMakeFiles/spectraextension.dir/moc_spectraextension.cxx.o
CMakeFiles/spectraextension.dir/moc_spectradialog.cxx.o
CMakeFiles/spectraextension.dir/moc_spectratype.cxx.o
CMakeFiles/spectraextension.dir/moc_abstract_ir.cxx.o
CMakeFiles/spectraextension.dir/moc_ir.cxx.o
CMakeFiles/spectraextension.dir/moc_nmr.cxx.o
CMakeFiles/spectraextension.dir/moc_dos.cxx.o
CMakeFiles/spectraextension.dir/moc_uv.cxx.o
CMakeFiles/spectraextension.dir/moc_cd.cxx.o
CMakeFiles/spectraextension.dir/moc_raman.cxx.o
-L/usr/local/lib ../../../../lib/libavogadro.so.1.1.0 /usr/local/lib/qt4/libQtCore.so /usr/local/lib/qt4/libQtGui.so
-lopenbabel
-Wl,-rpath,/usr/ports/science/avogadro/work/avogadro-1.1.0/lib:/usr/local/lib:/usr/local/lib/qt4: /usr/local/bin/cmake
-E
cmake_progress_report /usr/ports/science/avogadro/work/avogadro-1.1.0/CMakeFiles
85 86 87 88 89 [ 65%] Built target spectraextension 1 error *** Error
code 2 1 error *** Error code 1

The full build log can be viewed here:
"http://seibercom.net/logs/avogadro_build.txt"

-- 
Carmel ✌
carmel_ny at hotmail.com