Hello,
>I'm getting the following error when running make:
>[ 78%] Built target openbabel
>Linking CXX executable ../bin/babel.exe
>../src/libopenbabel.a(plugin.obj):c:/msys/1.0/home/igor/openbabel-2.3.1/src/plug
>in.cpp:336: undefined reference to `OpenBabel::theQEqCharges'
>../src/libopenbabel.a(plugin.obj):c:/msys/1.0/home/igor/openbabel-2.3.1/src/plug
>in.cpp:337: undefined reference to `OpenBabel::theQTPIECharges'
>../src/libopenbabel.a(genbankformat.obj):c:/msys/1.0/home/igor/openbabel-2.3.1/s
>rc/formats/genbankformat.cpp:137: undefined reference to
>`OpenBabel::ReadFASTASe
>quence(OpenBabel::OBMol*, int, std::istream*, bool, bool)'
>collect2: ld returned 1 exit status
>make[2]: *** [bin/babel.exe] Error 1
>make[1]: *** [tools/CMakeFiles/babel.dir/all] Error 2
>make: *** [all] Error 2
ok, you've caught me cheating a bit. :-) I've got those too but worked around
them by commenting out the affected lines of code in plugin.cpp and
genbankformat.cpp since I don't need them at the moment. After doing that I ran
into the problems I've already mentioned.
The next thing I've tried is to change this code in src/formats/CMakeLists.txt:
set(ADD_INCHI_FORMAT FALSE)
if(WITH_INCHI)
if(NOT OPENBABEL_USE_SYSTEM_INCHI)
set(ADD_INCHI_FORMAT TRUE)
else()
if (EXISTS ${INCHI_LIBRARY})
set(ADD_INCHI_FORMAT TRUE)
else (EXISTS ${INCHI_LIBRARY})
message("WARNING: INCHI_LIBRARY not set, or does not exist.\n....InChI
format will NOT be compiled.")
endif()
endif()
endif()
if(ADD_INCHI_FORMAT)
add_definitions(-DINCHI_LINK_AS_DLL)
if(NOT OPENBABEL_USE_SYSTEM_INCHI)
add_subdirectory(inchi103)
include_directories(${CMAKE_SOURCE_DIR}/include/inchi103)
set(libs ${libs} inchi)
else()
include_directories(${INCHI_INCLUDE_DIR})
set(libs ${libs} ${INCHI_LIBRARY})
endif()
set(inchiformat_additional_sources getinchi.cpp ../ops/unique.cpp)
set(formats_common
${formats_common}
inchiformat
)
endif()
which, if I understand it correctly, should include the /inchi103 subdirectory
and the neccessary include files into the compilation and add 'inchiformat' to
the list of supported formats.
But even when I change it to:
add_definitions(-DINCHI_LINK_AS_DLL) //Is this needed for static linking as
well?
add_subdirectory(inchi103)
include_directories(${CMAKE_SOURCE_DIR}/include/inchi103)
set(libs ${libs} inchi)
set(formats_common
${formats_common}
inchiformat
)
which should force inclusion of inchiformat regardless of any environment
variables set, the linking errors persist.
Best regards,
Ernst-Georg
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