Re: [Rdkit-discuss] problem building from source - ‘CT_CHIRALITY_PROP_PREFIX’ is not a member of ‘schrodinger::mae’
Thanks Paolo, that fixed it. On 30/03/2020 15:05, Paolo Tosco wrote: Hi Tim, try rm -rf External/CoordGen/coordgen* External/CoordGen/maeparser* you might have some outdated coordgen libs. Deleting those and re-running cmake will download them afresh. Cheers, p. On 30/03/2020 14:51, Tim Dudgeon wrote: I'm finding an error building from source (on master branch). Any ideas? cmake -DPYTHON_EXECUTABLE=/usr/bin/python3 -DRDK_BUILD_INCHI_SUPPORT=ON -DRDK_BUILD_AVALON_SUPPORT=ON -DRDK_BUILD_PYTHON_WRAPPERS=ON -DRDK_BUILD_SWIG_WRAPPERS=ON .. make -j 8 [ 66%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/TplFileParser.cpp.o [ 66%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/TplFileWriter.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/PDBParser.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/PDBWriter.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/PDBSupplier.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/XYZFileWriter.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/MaeMolSupplier.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/ProximityBonds.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/SequenceParsers.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/SequenceWriters.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/SVGParser.cpp.o /home/timbo/github/rdkit/rdkit/Code/GraphMol/FileParsers/MaeMolSupplier.cpp: In function ‘void RDKit::{anonymous}::set_mol_properties(RDKit::RWMol&, const schrodinger::mae::Block&)’: /home/timbo/github/rdkit/rdkit/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:214:37: error: ‘CT_CHIRALITY_PROP_PREFIX’ is not a member of ‘schrodinger::mae’ 214 | } else if (prop.first.find(mae::CT_CHIRALITY_PROP_PREFIX) == 0 || | ^~~~ /home/timbo/github/rdkit/rdkit/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:215:37: error: ‘CT_PSEUDOCHIRALITY_PROP_PREFIX’ is not a member of ‘schrodinger::mae’ 215 | prop.first.find(mae::CT_PSEUDOCHIRALITY_PROP_PREFIX) == 0) { | ^~ /home/timbo/github/rdkit/rdkit/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:217:37: error: ‘CT_EZ_PROP_PREFIX’ is not a member of ‘schrodinger::mae’ 217 | } else if (prop.first.find(mae::CT_EZ_PROP_PREFIX) == 0) { | ^ make[2]: *** [Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/build.make:310: Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/MaeMolSupplier.cpp.o] Error 1 make[2]: *** Waiting for unfinished jobs make[1]: *** [CMakeFiles/Makefile2:7238: Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/all] Error 2 make: *** [Makefile:163: all] Error 2 ___ Rdkit-discuss mailing list Rdkit-discuss@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/rdkit-discuss ___ Rdkit-discuss mailing list Rdkit-discuss@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/rdkit-discuss
Re: [Rdkit-discuss] problem building from source - ‘CT_CHIRALITY_PROP_PREFIX’ is not a member of ‘schrodinger::mae’
Yes, that did the trick. Thanks. On 30/03/2020 15:05, Paolo Tosco wrote: Hi Tim, try rm -rf External/CoordGen/coordgen* External/CoordGen/maeparser* you might have some outdated coordgen libs. Deleting those and re-running cmake will download them afresh. Cheers, p. On 30/03/2020 14:51, Tim Dudgeon wrote: I'm finding an error building from source (on master branch). Any ideas? cmake -DPYTHON_EXECUTABLE=/usr/bin/python3 -DRDK_BUILD_INCHI_SUPPORT=ON -DRDK_BUILD_AVALON_SUPPORT=ON -DRDK_BUILD_PYTHON_WRAPPERS=ON -DRDK_BUILD_SWIG_WRAPPERS=ON .. make -j 8 [ 66%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/TplFileParser.cpp.o [ 66%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/TplFileWriter.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/PDBParser.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/PDBWriter.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/PDBSupplier.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/XYZFileWriter.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/MaeMolSupplier.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/ProximityBonds.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/SequenceParsers.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/SequenceWriters.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/SVGParser.cpp.o /home/timbo/github/rdkit/rdkit/Code/GraphMol/FileParsers/MaeMolSupplier.cpp: In function ‘void RDKit::{anonymous}::set_mol_properties(RDKit::RWMol&, const schrodinger::mae::Block&)’: /home/timbo/github/rdkit/rdkit/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:214:37: error: ‘CT_CHIRALITY_PROP_PREFIX’ is not a member of ‘schrodinger::mae’ 214 | } else if (prop.first.find(mae::CT_CHIRALITY_PROP_PREFIX) == 0 || | ^~~~ /home/timbo/github/rdkit/rdkit/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:215:37: error: ‘CT_PSEUDOCHIRALITY_PROP_PREFIX’ is not a member of ‘schrodinger::mae’ 215 | prop.first.find(mae::CT_PSEUDOCHIRALITY_PROP_PREFIX) == 0) { | ^~ /home/timbo/github/rdkit/rdkit/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:217:37: error: ‘CT_EZ_PROP_PREFIX’ is not a member of ‘schrodinger::mae’ 217 | } else if (prop.first.find(mae::CT_EZ_PROP_PREFIX) == 0) { | ^ make[2]: *** [Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/build.make:310: Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/MaeMolSupplier.cpp.o] Error 1 make[2]: *** Waiting for unfinished jobs make[1]: *** [CMakeFiles/Makefile2:7238: Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/all] Error 2 make: *** [Makefile:163: all] Error 2 ___ Rdkit-discuss mailing list Rdkit-discuss@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/rdkit-discuss ___ Rdkit-discuss mailing list Rdkit-discuss@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/rdkit-discuss
Re: [Rdkit-discuss] problem building from source - ‘CT_CHIRALITY_PROP_PREFIX’ is not a member of ‘schrodinger::mae’
Hi Tim, try rm -rf External/CoordGen/coordgen* External/CoordGen/maeparser* you might have some outdated coordgen libs. Deleting those and re-running cmake will download them afresh. Cheers, p. On 30/03/2020 14:51, Tim Dudgeon wrote: I'm finding an error building from source (on master branch). Any ideas? cmake -DPYTHON_EXECUTABLE=/usr/bin/python3 -DRDK_BUILD_INCHI_SUPPORT=ON -DRDK_BUILD_AVALON_SUPPORT=ON -DRDK_BUILD_PYTHON_WRAPPERS=ON -DRDK_BUILD_SWIG_WRAPPERS=ON .. make -j 8 [ 66%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/TplFileParser.cpp.o [ 66%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/TplFileWriter.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/PDBParser.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/PDBWriter.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/PDBSupplier.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/XYZFileWriter.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/MaeMolSupplier.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/ProximityBonds.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/SequenceParsers.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/SequenceWriters.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/SVGParser.cpp.o /home/timbo/github/rdkit/rdkit/Code/GraphMol/FileParsers/MaeMolSupplier.cpp: In function ‘void RDKit::{anonymous}::set_mol_properties(RDKit::RWMol&, const schrodinger::mae::Block&)’: /home/timbo/github/rdkit/rdkit/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:214:37: error: ‘CT_CHIRALITY_PROP_PREFIX’ is not a member of ‘schrodinger::mae’ 214 | } else if (prop.first.find(mae::CT_CHIRALITY_PROP_PREFIX) == 0 || | ^~~~ /home/timbo/github/rdkit/rdkit/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:215:37: error: ‘CT_PSEUDOCHIRALITY_PROP_PREFIX’ is not a member of ‘schrodinger::mae’ 215 | prop.first.find(mae::CT_PSEUDOCHIRALITY_PROP_PREFIX) == 0) { | ^~ /home/timbo/github/rdkit/rdkit/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:217:37: error: ‘CT_EZ_PROP_PREFIX’ is not a member of ‘schrodinger::mae’ 217 | } else if (prop.first.find(mae::CT_EZ_PROP_PREFIX) == 0) { | ^ make[2]: *** [Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/build.make:310: Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/MaeMolSupplier.cpp.o] Error 1 make[2]: *** Waiting for unfinished jobs make[1]: *** [CMakeFiles/Makefile2:7238: Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/all] Error 2 make: *** [Makefile:163: all] Error 2 ___ Rdkit-discuss mailing list Rdkit-discuss@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/rdkit-discuss ___ Rdkit-discuss mailing list Rdkit-discuss@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/rdkit-discuss
[Rdkit-discuss] problem building from source - ‘CT_CHIRALITY_PROP_PREFIX’ is not a member of ‘schrodinger::mae’
I'm finding an error building from source (on master branch). Any ideas? cmake -DPYTHON_EXECUTABLE=/usr/bin/python3 -DRDK_BUILD_INCHI_SUPPORT=ON -DRDK_BUILD_AVALON_SUPPORT=ON -DRDK_BUILD_PYTHON_WRAPPERS=ON -DRDK_BUILD_SWIG_WRAPPERS=ON .. make -j 8 [ 66%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/TplFileParser.cpp.o [ 66%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/TplFileWriter.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/PDBParser.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/PDBWriter.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/PDBSupplier.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/XYZFileWriter.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/MaeMolSupplier.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/ProximityBonds.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/SequenceParsers.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/SequenceWriters.cpp.o [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/SVGParser.cpp.o /home/timbo/github/rdkit/rdkit/Code/GraphMol/FileParsers/MaeMolSupplier.cpp: In function ‘void RDKit::{anonymous}::set_mol_properties(RDKit::RWMol&, const schrodinger::mae::Block&)’: /home/timbo/github/rdkit/rdkit/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:214:37: error: ‘CT_CHIRALITY_PROP_PREFIX’ is not a member of ‘schrodinger::mae’ 214 | } else if (prop.first.find(mae::CT_CHIRALITY_PROP_PREFIX) == 0 || | ^~~~ /home/timbo/github/rdkit/rdkit/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:215:37: error: ‘CT_PSEUDOCHIRALITY_PROP_PREFIX’ is not a member of ‘schrodinger::mae’ 215 | prop.first.find(mae::CT_PSEUDOCHIRALITY_PROP_PREFIX) == 0) { | ^~ /home/timbo/github/rdkit/rdkit/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:217:37: error: ‘CT_EZ_PROP_PREFIX’ is not a member of ‘schrodinger::mae’ 217 | } else if (prop.first.find(mae::CT_EZ_PROP_PREFIX) == 0) { | ^ make[2]: *** [Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/build.make:310: Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/MaeMolSupplier.cpp.o] Error 1 make[2]: *** Waiting for unfinished jobs make[1]: *** [CMakeFiles/Makefile2:7238: Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/all] Error 2 make: *** [Makefile:163: all] Error 2 ___ Rdkit-discuss mailing list Rdkit-discuss@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/rdkit-discuss