I installed Openbabel on Fedora with Python.
And also I followed
http://openbabel.org/docs/2.3.1/Installation/install.html#compiling-open-babel
after
building.
But I got some errors at here.
$ cmake ../openbabel-2.3.1 -DPYTHON_BINDINGS=ON*$ make <- Here.*# make
install$ export
PYTHONPATH=/usr/local/lib/python2.6/site-packages:$PYTHONPATH
And here are the errors.
[root@---- build]# make
[ 20%] Built target openbabel
[ 21%] Built target plugin_charges
[ 23%] Built target plugin_descriptors
[ 24%] Built target plugin_fingerprints
[ 25%] Built target plugin_forcefields
[ 31%] Built target plugin_ops
[ 44%] Built target inchi
[ 44%] Built target APIInterface
[ 44%] Built target CSRformat
[ 45%] Built target MCDLformat
[ 45%] Built target MNAformat
[ 45%] Built target PQSformat
[ 46%] Built target abinitformat
[ 46%] Built target acrformat
[ 46%] Built target adfformat
[ 46%] Built target alchemyformat
[ 47%] Built target amberformat
[ 47%] Built target balstformat
[ 47%] Built target bgfformat
[ 48%] Built target boxformat
[ 48%] Built target cacaoformat
[ 48%] Built target cacheformat
[ 49%] Built target carformat
[ 49%] Built target castepformat
[ 49%] Built target cccformat
[ 50%] Built target cdxmlformat
[ 50%] Built target chem3dformat
[ 51%] Built target chemdrawcdx
[ 51%] Built target chemdrawct
[ 51%] Built target chemkinformat
[ 52%] Built target chemtoolformat
[ 52%] Built target cifformat
[ 53%] Built target cmlformat
[ 53%] Built target cmlreactformat
[ 54%] Built target copyformat
[ 54%] Built target crkformat
[ 54%] Built target cssrformat
[ 55%] Built target dlpolyformat
[ 55%] Built target dmolformat
[ 55%] Built target fastaformat
[ 56%] Built target fastsearchformat
[ 56%] Built target fchkformat
[ 56%] Built target featformat
[ 57%] Built target fhformat
[ 57%] Built target fhiaimsformat
[ 57%] Built target fingerprintformat
[ 58%] Built target freefracformat
[ 58%] Built target gamessformat
[ 58%] Built target gamessukformat
[ 59%] Built target gausscubeformat
[ 59%] Built target gaussformat
[ 59%] Built target gausszmatformat
[ 60%] Built target ghemicalformat
[ 60%] Built target groformat
[ 60%] Built target gromos96format
[ 61%] Built target gulpformat
[ 61%] Built target hinformat
[ 62%] Built target inchiformat
[ 62%] Built target jaguarformat
[ 63%] Built target mdlformat
[ 63%] Built target mmcifformat
[ 63%] Built target mmodformat
[ 63%] Built target mol2format
[ 64%] Built target moldenformat
[ 64%] Built target molproformat
[ 64%] Built target molreport
[ 65%] Built target mopacformat
[ 65%] Built target mpdformat
[ 65%] Built target mpqcformat
[ 66%] Built target msiformat
[ 66%] Built target msmsformat
[ 66%] Built target nulformat
[ 67%] Built target nwchemformat
[ 67%] Built target opendxformat
[ 67%] Built target outformat
[ 68%] Built target pcmodelformat
[ 68%] Built target pdbformat
[ 68%] Built target pdbqtformat
[ 69%] Built target pngformat
[ 69%] Built target povrayformat
[ 69%] Built target pqrformat
[ 70%] Built target pubchem
[ 70%] Built target pwscfformat
[ 71%] Built target qchemformat
[ 71%] Built target reportformat
[ 71%] Built target rsmiformat
[ 72%] Built target rxnformat
[ 72%] Built target shelxformat
[ 72%] Built target smilesformat
[ 73%] Built target svgformat
[ 73%] Built target textformat
[ 73%] Built target thermoformat
[ 74%] Built target tinkerformat
[ 74%] Built target titleformat
[ 74%] Built target turbomoleformat
[ 75%] Built target unichemformat
[ 75%] Built target vaspformat
[ 75%] Built target viewmolformat
[ 76%] Built target xedformat
[ 76%] Built target xmlformat
[ 77%] Built target xsfformat
[ 77%] Built target xtcformat
[ 77%] Built target xyzformat
[ 78%] Built target yasaraformat
[ 78%] Built target zindoformat
[ 78%] Built target babel
[ 79%] Built target obabel
[ 79%] Built target obchiral
[ 79%] Built target obconformer
[ 80%] Built target obenergy
[ 80%] Built target obfit
[ 80%] Built target obgen
[ 81%] Built target obgrep
[ 81%] Built target obminimize
[ 81%] Built target obprobe
[ 82%] Built target obprop
[ 82%] Built target obrotamer
[ 82%] Built target obrotate
[ 83%] Built target obspectrophore
[ 83%] Built target roundtrip
[ 83%] Built target test_aromatest
[ 83%] Built target test_atom
[ 84%] Built target test_automorphism
[ 84%] Built target test_bond
[ 84%] Built target test_builder
[ 85%] Built target test_canonconsistent
[ 85%] Built target test_canonstable
[ 85%] Built target test_cansmi
[ 86%] Built target test_charge-gasteiger
[ 86%] Built target test_charge-mmff94
[ 86%] Built target test_cistrans
[ 87%] Built target test_conversion
[ 87%] Built target test_datatest
[ 87%] Built target test_ffgaff
[ 88%] Built target test_ffghemical
[ 88%] Built target test_ffmmff94
[ 88%] Built target test_ffuff
[ 89%] Built target test_formalcharge
[ 89%] Built target test_format
[ 89%] Built target test_formula
[ 90%] Built target test_graphsym
[ 90%] Built target test_implicitH
[ 91%] Built target test_inchiwrite
[ 91%] Built target test_internalcoord
[ 91%] Built target test_invalidsmarts
[ 92%] Built target test_invalidsmiles
[ 92%] Built target test_isomorphism
[ 92%] Built target test_iterators
[ 93%] Built target test_logp_psa
[ 93%] Built target test_lssr
[ 93%] Built target test_math
[ 94%] Built target test_mol
[ 94%] Built target test_phmodel
[ 94%] Built target test_residue
[ 95%] Built target test_ringtest
[ 95%] Built target test_rotor
[ 95%] Built target test_shuffle
[ 96%] Built target test_smartsparse
[ 96%] Built target test_smartstest
[ 96%] Built target test_smiles
[ 97%] Built target test_smilesmatch
[ 97%] Built target test_spectrophore
[ 97%] Built target test_squareplanar
[ 98%] Built target test_stereo
[ 98%] Built target test_stereoperception
[ 98%] Built target test_tetrahedral
[ 99%] Built target test_tetranonplanar
[ 99%] Built target test_tetraplanar
[ 99%] Built target test_uniqueid
[100%] Built target test_unitcell
running build
running build_py
copying openbabel.py -> /root/Download/build/scripts/pybuild
copying pybel.py -> /root/Download/build/scripts/pybuild
running build_ext
building '_openbabel' extension
gcc -pthread -fno-strict-aliasing -DNDEBUG -O2 -g -pipe -Wall
-Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector
--param=ssp-buffer-size=4 -m64 -mtune=generic -D_GNU_SOURCE -fPIC -fPIC
-I/root/Download/openbabel-2.3.1/scripts/python/../../include -I../include
-I/usr/include/python2.6 -c
/root/Download/openbabel-2.3.1/scripts/python/openbabel-python.cpp -o
build/temp.linux-x86_64-2.6/root/Download/openbabel-2.3.1/scripts/python/openbabel-python.o
In file included from
/root/Download/openbabel-2.3.1/scripts/python/openbabel-python.cpp:3358:
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:26:22:
error: Eigen/Core: No such file or directory
In file included from
/root/Download/openbabel-2.3.1/scripts/python/openbabel-python.cpp:3353:
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/query.h:
In member function ‘virtual bool OpenBabel::OBQueryAtom::Matches(const
OpenBabel::OBAtom*) const’:
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/query.h:101:
warning: comparison between signed and unsigned integer expressions
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/query.h:
In member function ‘virtual bool OpenBabel::OBQueryBond::Matches(const
OpenBabel::OBBond*) const’:
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/query.h:179:
warning: comparison between signed and unsigned integer expressions
In file included from
/root/Download/openbabel-2.3.1/scripts/python/openbabel-python.cpp:3358:
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:
At global scope:
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:177:
error: ‘Eigen’ has not been declared
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:177:
error: ISO C++ forbids declaration of ‘MatrixXd’ with no type
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:177:
error: expected ‘;’ before ‘_rotMatrix’
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:178:
error: ‘Eigen’ has not been declared
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:178:
error: ISO C++ forbids declaration of ‘Vector3d’ with no type
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:178:
error: expected ‘;’ before ‘_ref_centr’
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:183:
error: ‘Eigen’ has not been declared
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:183:
error: ISO C++ forbids declaration of ‘MatrixXd’ with no type
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:183:
error: expected ‘;’ before ‘_result’
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:184:
error: ‘Eigen’ has not been declared
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:184:
error: ISO C++ forbids declaration of ‘MatrixXd’ with no type
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:184:
error: expected ‘;’ before ‘_mref’
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:185:
error: ‘Eigen’ has not been declared
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:185:
error: expected ‘,’ or ‘...’ before ‘&’ token
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:186:
error: ‘Eigen’ has not been declared
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:186:
error: ISO C++ forbids declaration of ‘Vector3d’ with no type
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:186:
error: expected ‘;’ before ‘MoveToOrigin’
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:187:
error: ISO C++ forbids declaration of ‘Eigen’ with no type
/root/Download/openbabel-2.3.1/scripts/python/../../include/openbabel/math/align.h:187:
error: expected ‘,’ or ‘...’ before ‘::’ token
error: command 'gcc' failed with exit status 1
make[2]: *** [scripts/CMakeFiles/_openbabel] Error 1
make[1]: *** [scripts/CMakeFiles/_openbabel.dir/all] Error 2
make: *** [all] Error 2
[root@lage build]#
I don't know why these errors occur :(
Please help me!
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