Test: linux.gcc.mpi.serialization.build.debug 「view this page in B3 βῆτα server」
Branch: rosetta:commits 「revision: №20503」
Test files: 「file-system-view」 「file-list-view」
Daemon: nobu-1     Started at: 2024-09-24 11:19:21     Run time: 0:03:27      State: failed


Running: /home/benchmark/prefix/nobu-1/linux/python-3.9.gcc/99a1a29fd465f86265a7c5b92d75dbcd/bin/python3.9 ./scons.py bin cxx=gcc extras=mpi,serialization -j48 scons: Reading SConscript files ... Running versioning script ... Done. (0.1 seconds) Number of option files updated: 0 Total 4707 options. Updating submodules needed for compilation. Finished updating ResidueProperty code -- no changes needed Finished updating VariantType code -- no changes needed scons: done reading SConscript files. scons: Building targets ... mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/motifs/LigandDiscoverySearch.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/motifs/LigandDiscoverySearch.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/topology_broker/PseudocontactShiftEnergyController_Ts4.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/topology_broker/PseudocontactShiftEnergyController_Ts4.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/topology_broker/RigidChunkClaimer.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/topology_broker/RigidChunkClaimer.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/topology_broker/SequenceClaimer.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/topology_broker/SequenceClaimer.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/topology_broker/SequenceNumberResolver.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/topology_broker/SequenceNumberResolver.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/topology_broker/StartStructClaimer.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/topology_broker/StartStructClaimer.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/topology_broker/SymmetryClaimer.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/topology_broker/SymmetryClaimer.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/topology_broker/TemplateFragmentClaimer.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/topology_broker/TemplateFragmentClaimer.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/topology_broker/TemplateJumpClaimer.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/topology_broker/TemplateJumpClaimer.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/topology_broker/TopologyBroker.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/topology_broker/TopologyBroker.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/topology_broker/TopologyClaimer.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/topology_broker/TopologyClaimer.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/topology_broker/TopologyClaimerFactory.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/topology_broker/TopologyClaimerFactory.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/topology_broker/util.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/topology_broker/util.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/topology_broker/claims/DofClaim.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/topology_broker/claims/DofClaim.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/trRosetta_protocols/constraint_generators/trRosettaConstraintGenerator.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/trRosetta_protocols/constraint_generators/trRosettaConstraintGenerator.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/trRosetta_protocols/movers/trRosettaProtocolMover.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/trRosetta_protocols/movers/trRosettaProtocolMover.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/protein_mpnn/ProteinMPNN.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/protein_mpnn/ProteinMPNN.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/protein_mpnn/util.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/protein_mpnn/util.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/protein_mpnn/ProteinMPNNMover.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/protein_mpnn/ProteinMPNNMover.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/protein_mpnn/ProteinMPNNProbabilitiesMetric.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/protein_mpnn/ProteinMPNNProbabilitiesMetric.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/fold_from_loops/filters/RmsdFromResidueSelectorFilter.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/fold_from_loops/filters/RmsdFromResidueSelectorFilter.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/fold_from_loops/filters/ScorePoseSegmentFromResidueSelectorFilter.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include 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-DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/helix_capper/HelixNCapperMover.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/metal_interface/AddZincSiteConstraints.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/metal_interface/AddZincSiteConstraints.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/metal_interface/FindClosestAtom.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/metal_interface/FindClosestAtom.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/metal_interface/MatchGrafter.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/metal_interface/MatchGrafter.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/metal_interface/MetalSiteResidue.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/metal_interface/MetalSiteResidue.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/metal_interface/RemoveMetalConnectionsMover.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/metal_interface/RemoveMetalConnectionsMover.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/metal_interface/ZincHeterodimerMover.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/metal_interface/ZincHeterodimerMover.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/metal_interface/ZincSiteFinder.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/metal_interface/ZincSiteFinder.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/neighbor/Neighborhood.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/neighbor/Neighborhood.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/multistate_design/MetricCalculatorFitnessFunction.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/multistate_design/MetricCalculatorFitnessFunction.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/multistate_design/MultiStateAggregateFunction.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/multistate_design/MultiStateAggregateFunction.cc In file included from src/protocols/motifs/LigandDiscoverySearch.cc:131:0: src/protocols/motifs/LigandDiscoverySearch.hh:287:87: error: 'core::scoring::ScoreFunctionFactory::create_score_function' is not a type core::scoring::ScoreFunctionOP whole_score_fxn_(core::scoring::ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:287:110: error: expected ')' before string constant core::scoring::ScoreFunctionOP whole_score_fxn_(core::scoring::ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:287:110: error: expected ')' before string constant src/protocols/motifs/LigandDiscoverySearch.hh:287:108: error: expected ';' at end of member declaration core::scoring::ScoreFunctionOP whole_score_fxn_(core::scoring::ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:287:110: error: expected unqualified-id before string constant core::scoring::ScoreFunctionOP whole_score_fxn_(core::scoring::ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:290:82: error: 'core::scoring::ScoreFunctionFactory::create_score_function' is not a type core::scoring::ScoreFunctionOP fa_atr_fxn_(core::scoring::ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:290:105: error: expected ')' before string constant core::scoring::ScoreFunctionOP fa_atr_fxn_(core::scoring::ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:290:105: error: expected ')' before string constant src/protocols/motifs/LigandDiscoverySearch.hh:290:103: error: expected ';' at end of member declaration core::scoring::ScoreFunctionOP fa_atr_fxn_(core::scoring::ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:290:105: error: expected unqualified-id before string constant core::scoring::ScoreFunctionOP fa_atr_fxn_(core::scoring::ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:293:82: error: 'core::scoring::ScoreFunctionFactory::create_score_function' is not a type core::scoring::ScoreFunctionOP fa_rep_fxn_(core::scoring::ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:293:105: error: expected ')' before string constant core::scoring::ScoreFunctionOP fa_rep_fxn_(core::scoring::ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:293:105: error: expected ')' before string constant src/protocols/motifs/LigandDiscoverySearch.hh:293:103: error: expected ';' at end of member declaration core::scoring::ScoreFunctionOP fa_rep_fxn_(core::scoring::ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:293:105: error: expected unqualified-id before string constant core::scoring::ScoreFunctionOP fa_rep_fxn_(core::scoring::ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:296:86: error: 'core::scoring::ScoreFunctionFactory::create_score_function' is not a type core::scoring::ScoreFunctionOP fa_atr_rep_fxn_(core::scoring::ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:296:109: error: expected ')' before string constant core::scoring::ScoreFunctionOP fa_atr_rep_fxn_(core::scoring::ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:296:109: error: expected ')' before string constant src/protocols/motifs/LigandDiscoverySearch.hh:296:107: error: expected ';' at end of member declaration core::scoring::ScoreFunctionOP fa_atr_rep_fxn_(core::scoring::ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:296:109: error: expected unqualified-id before string constant core::scoring::ScoreFunctionOP fa_atr_rep_fxn_(core::scoring::ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.cc: In member function 'void LigandDiscoverySearch::setup_score_functions()': src/protocols/motifs/LigandDiscoverySearch.cc:372:44: error: invalid use of member function (did you forget the '()' ?) for ( auto my_scoretype : whole_score_fxn_->get_nonzero_weighted_scoretypes() ) { ^ src/protocols/motifs/LigandDiscoverySearch.cc:372:44: error: base operand of '->' is not a pointer src/protocols/motifs/LigandDiscoverySearch.cc:373:14: error: invalid use of member function (did you forget the '()' ?) fa_rep_fxn_->set_weight(my_scoretype,0); ^ src/protocols/motifs/LigandDiscoverySearch.cc:373:14: error: base operand of '->' is not a pointer src/protocols/motifs/LigandDiscoverySearch.cc:374:14: error: invalid use of member function (did you forget the '()' ?) fa_atr_fxn_->set_weight(my_scoretype,0); ^ src/protocols/motifs/LigandDiscoverySearch.cc:374:14: error: base operand of '->' is not a pointer src/protocols/motifs/LigandDiscoverySearch.cc:375:18: error: invalid use of member function (did you forget the '()' ?) fa_atr_rep_fxn_->set_weight(my_scoretype,0); ^ src/protocols/motifs/LigandDiscoverySearch.cc:375:18: error: base operand of '->' is not a pointer src/protocols/motifs/LigandDiscoverySearch.cc:379:13: error: invalid use of member function (did you forget the '()' ?) fa_rep_fxn_->set_weight(core::scoring::fa_rep, 0.8); ^ src/protocols/motifs/LigandDiscoverySearch.cc:379:13: error: base operand of '->' is not a pointer src/protocols/motifs/LigandDiscoverySearch.cc:381:13: error: invalid use of member function (did you forget the '()' ?) fa_atr_fxn_->set_weight(core::scoring::fa_atr, 0.4); ^ src/protocols/motifs/LigandDiscoverySearch.cc:381:13: error: base operand of '->' is not a pointer src/protocols/motifs/LigandDiscoverySearch.cc:383:17: error: invalid use of member function (did you forget the '()' ?) fa_atr_rep_fxn_->set_weight(core::scoring::fa_atr, 0.8); ^ src/protocols/motifs/LigandDiscoverySearch.cc:383:17: error: base operand of '->' is not a pointer src/protocols/motifs/LigandDiscoverySearch.cc:384:17: error: invalid use of member function (did you forget the '()' ?) fa_atr_rep_fxn_->set_weight(core::scoring::fa_rep, 0.4); ^ src/protocols/motifs/LigandDiscoverySearch.cc:384:17: error: base operand of '->' is not a pointer src/protocols/motifs/LigandDiscoverySearch.cc:387:18: error: invalid use of member function (did you forget the '()' ?) whole_score_fxn_->set_weight(core::scoring::coordinate_constraint, 0); ^ src/protocols/motifs/LigandDiscoverySearch.cc:387:18: error: base operand of '->' is not a pointer src/protocols/motifs/LigandDiscoverySearch.cc: In member function 'core::Size LigandDiscoverySearch::discover(std::string)': src/protocols/motifs/LigandDiscoverySearch.cc:943:17: error: invalid use of member function (did you forget the '()' ?) fa_rep_fxn_->score(*minipose); ^ src/protocols/motifs/LigandDiscoverySearch.cc:943:17: error: base operand of '->' is not a pointer src/protocols/motifs/LigandDiscoverySearch.cc:957:17: error: invalid use of member function (did you forget the '()' ?) fa_atr_fxn_->score(*minipose); ^ src/protocols/motifs/LigandDiscoverySearch.cc:957:17: error: base operand of '->' is not a pointer src/protocols/motifs/LigandDiscoverySearch.cc:970:58: error: invalid use of member function (did you forget the '()' ?) core::Real fa_atr_rep_score_before = fa_atr_rep_fxn_->score(*minipose); ^ src/protocols/motifs/LigandDiscoverySearch.cc:970:58: error: base operand of '->' is not a pointer src/protocols/motifs/LigandDiscoverySearch.cc:1006:158: error: cannot convert 'LigandDiscoverySearch::whole_score_fxn_' from type 'core::scoring::ScoreFunctionOP (LigandDiscoverySearch::)(...) {aka std::shared_ptr<core::scoring::ScoreFunction> (LigandDiscoverySearch::)(...)}' to type 'core::scoring::ScoreFunctionOP {aka std::shared_ptr<core::scoring::ScoreFunction>}' std::map< std::string, core::Real > interface_mapX_postdock = protocols::ligand_docking::get_interface_deltas('2', *working_pose_, whole_score_fxn_, ""); ^ src/protocols/motifs/LigandDiscoverySearch.cc:1010:157: error: cannot convert 'LigandDiscoverySearch::fa_atr_rep_fxn_' from type 'core::scoring::ScoreFunctionOP (LigandDiscoverySearch::)(...) {aka std::shared_ptr<core::scoring::ScoreFunction> (LigandDiscoverySearch::)(...)}' to type 'core::scoring::ScoreFunctionOP {aka std::shared_ptr<core::scoring::ScoreFunction>}' std::map< std::string, core::Real > interface_mapX_postdock = protocols::ligand_docking::get_interface_deltas('2', *working_pose_, fa_atr_rep_fxn_, ""); ^ src/protocols/motifs/LigandDiscoverySearch.cc:1076:159: error: no matching function for call to 'protocols::ligand_docking::HighResDocker::HighResDocker(int, int, <unresolved overloaded function type>, protocols::ligand_docking::MoveMapBuilderOP&)' protocols::ligand_docking::HighResDockerOP my_HighResDocker_atrrep( new protocols::ligand_docking::HighResDocker(3, 0, fa_atr_rep_fxn_, my_movemapbuilder) ); ^ src/protocols/motifs/LigandDiscoverySearch.cc:1076:159: note: candidates are: In file included from src/protocols/motifs/LigandDiscoverySearch.cc:124:0: src/protocols/ligand_docking/HighResDocker.hh:63:2: note: protocols::ligand_docking::HighResDocker::HighResDocker(core::Size, core::Size, core::scoring::ScoreFunctionOP, protocols::ligand_docking::MoveMapBuilderOP, const string&) HighResDocker( ^ src/protocols/ligand_docking/HighResDocker.hh:63:2: note: no known conversion for argument 3 from '<unresolved overloaded function type>' to 'core::scoring::ScoreFunctionOP {aka std::shared_ptr<core::scoring::ScoreFunction>}' src/protocols/ligand_docking/HighResDocker.hh:62:2: note: protocols::ligand_docking::HighResDocker::HighResDocker(const protocols::ligand_docking::HighResDocker&) HighResDocker(HighResDocker const & that); ^ src/protocols/ligand_docking/HighResDocker.hh:62:2: note: candidate expects 1 argument, 4 provided src/protocols/ligand_docking/HighResDocker.hh:60:2: note: protocols::ligand_docking::HighResDocker::HighResDocker() HighResDocker(); ^ src/protocols/ligand_docking/HighResDocker.hh:60:2: note: candidate expects 0 arguments, 4 provided src/protocols/motifs/LigandDiscoverySearch.cc:1077:159: error: no matching function for call to 'protocols::ligand_docking::HighResDocker::HighResDocker(int, int, <unresolved overloaded function type>, protocols::ligand_docking::MoveMapBuilderOP&)' protocols::ligand_docking::HighResDockerOP my_HighResDocker_whole( new protocols::ligand_docking::HighResDocker(3, 0, whole_score_fxn_, my_movemapbuilder) ); ^ src/protocols/motifs/LigandDiscoverySearch.cc:1077:159: note: candidates are: In file included from src/protocols/motifs/LigandDiscoverySearch.cc:124:0: src/protocols/ligand_docking/HighResDocker.hh:63:2: note: protocols::ligand_docking::HighResDocker::HighResDocker(core::Size, core::Size, core::scoring::ScoreFunctionOP, protocols::ligand_docking::MoveMapBuilderOP, const string&) HighResDocker( ^ src/protocols/ligand_docking/HighResDocker.hh:63:2: note: no known conversion for argument 3 from '<unresolved overloaded function type>' to 'core::scoring::ScoreFunctionOP {aka std::shared_ptr<core::scoring::ScoreFunction>}' src/protocols/ligand_docking/HighResDocker.hh:62:2: note: protocols::ligand_docking::HighResDocker::HighResDocker(const protocols::ligand_docking::HighResDocker&) HighResDocker(HighResDocker const & that); ^ src/protocols/ligand_docking/HighResDocker.hh:62:2: note: candidate expects 1 argument, 4 provided src/protocols/ligand_docking/HighResDocker.hh:60:2: note: protocols::ligand_docking::HighResDocker::HighResDocker() HighResDocker(); ^ src/protocols/ligand_docking/HighResDocker.hh:60:2: note: candidate expects 0 arguments, 4 provided src/protocols/motifs/LigandDiscoverySearch.cc:1093:158: error: cannot convert 'LigandDiscoverySearch::whole_score_fxn_' from type 'core::scoring::ScoreFunctionOP (LigandDiscoverySearch::)(...) {aka std::shared_ptr<core::scoring::ScoreFunction> (LigandDiscoverySearch::)(...)}' to type 'core::scoring::ScoreFunctionOP {aka std::shared_ptr<core::scoring::ScoreFunction>}' std::map< std::string, core::Real > interface_mapX_postdock = protocols::ligand_docking::get_interface_deltas('2', *working_pose_, whole_score_fxn_, ""); ^ src/protocols/motifs/LigandDiscoverySearch.cc:1097:157: error: cannot convert 'LigandDiscoverySearch::fa_atr_rep_fxn_' from type 'core::scoring::ScoreFunctionOP (LigandDiscoverySearch::)(...) {aka std::shared_ptr<core::scoring::ScoreFunction> (LigandDiscoverySearch::)(...)}' to type 'core::scoring::ScoreFunctionOP {aka std::shared_ptr<core::scoring::ScoreFunction>}' std::map< std::string, core::Real > interface_mapX_postdock = protocols::ligand_docking::get_interface_deltas('2', *working_pose_, fa_atr_rep_fxn_, ""); ^ src/protocols/motifs/LigandDiscoverySearch.cc:1108:47: error: invalid use of member function (did you forget the '()' ?) fa_atr_rep_score_after = fa_atr_rep_fxn_->score(*working_pose_); ^ src/protocols/motifs/LigandDiscoverySearch.cc:1108:47: error: base operand of '->' is not a pointer src/protocols/motifs/LigandDiscoverySearch.cc:1132:37: error: invalid use of member function (did you forget the '()' ?) whole_score = whole_score_fxn_->score(*working_pose_); ^ src/protocols/motifs/LigandDiscoverySearch.cc:1132:37: error: base operand of '->' is not a pointer mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/multistate_design/MultiStateEntity.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/multistate_design/MultiStateEntity.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/multistate_design/MultiStateFitnessFunction.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/multistate_design/MultiStateFitnessFunction.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/multistate_design/MultiStatePacker.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/multistate_design/MultiStatePacker.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/multistate_design/PackingState.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/multistate_design/PackingState.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/multistate_design/PartitionAggregateFunction.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/multistate_design/PartitionAggregateFunction.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/multistate_design/SingleState.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/multistate_design/SingleState.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/multistate_design/SingleStateEntityData.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/multistate_design/SingleStateEntityData.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/multistate_design/SingleStateFitnessFunction.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/multistate_design/SingleStateFitnessFunction.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/multistate_design/util.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/multistate_design/util.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/ncbb/oop/OopDockDesignProtocol.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/ncbb/oop/OopDockDesignProtocol.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/ncbb/oop/OopCreatorMover.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/ncbb/oop/OopCreatorMover.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/ncbb/oop/OopPuckMover.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/ncbb/oop/OopPuckMover.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/ncbb/oop/OopMover.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/ncbb/oop/OopMover.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/ncbb/oop/OopPatcher.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/ncbb/oop/OopPatcher.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/ncbb/oop/OopRandomPuckMover.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/ncbb/oop/OopRandomPuckMover.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/ncbb/oop/OopRandomSmallMover.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/ncbb/oop/OopRandomSmallMover.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/ncbb/a3b_hbs/A3BHbsPatcher.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/ncbb/a3b_hbs/A3BHbsPatcher.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/ncbb/hbs/HbsPatcher.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/ncbb/hbs/HbsPatcher.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/ncbb/triazolamer/TriazolamerMover.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/ncbb/triazolamer/TriazolamerMover.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/ncbb/triazolamer/TriazolamerRandomSmallMover.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/ncbb/triazolamer/TriazolamerRandomSmallMover.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/ncbb/NcbbDockDesignProtocol.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/ncbb/NcbbDockDesignProtocol.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/ncbb/PeptideStapleMover.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall 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src/protocols/pack_daemon/MultistateAggregateFunction.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/pack_daemon/MultistateFitnessFunction.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/pack_daemon/MultistateFitnessFunction.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/pack_daemon/PackDaemon.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/pack_daemon/PackDaemon.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/pack_daemon/util.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror 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-Isrc/platform/linux src/protocols/pose_sewing/util.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/pose_sewing/data_storage/DsspShiftArray.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/pose_sewing/data_storage/DsspShiftArray.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/pose_sewing/data_storage/PoseSegment.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/pose_sewing/data_storage/PoseSegment.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/pose_sewing/data_storage/PoseWithTerminalSegmentsOfKnownDSSP.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/pose_sewing/data_storage/PoseWithTerminalSegmentsOfKnownDSSP.cc mpiCC -o build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/pose_sewing/data_storage/SegmentEnvelope.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O0 -g -ggdb -ffloat-store -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DUSEMPI -DOMPI_SKIP_MPICXX -DSERIALIZATION -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/pose_sewing/data_storage/SegmentEnvelope.cc scons: *** [build/src/debug/linux/5.4/64/x86/gcc/4.8/mpi-serialization/protocols/motifs/LigandDiscoverySearch.os] Error 1 scons: building terminated because of errors.
{}