Test: linux.gcc.cxx11thread.serialization.build.debug 「view this page in B3 βῆτα server」
Branch: rosetta:commits 「revision: №20502」
Test files: 「file-system-view」 「file-list-view」
Daemon: hojo-1     Started at: 2024-09-24 11:08:21     Run time: 0:01:38      State: failed


Running: /home/benchmark/prefix/hojo-1/linux/python-3.9.gcc/99a1a29fd465f86265a7c5b92d75dbcd/bin/python3.9 ./scons.py bin cxx=gcc extras=cxx11thread,serialization -j24 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 ... g++ -o build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-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 -DMULTI_THREADED -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 g++ -o 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-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 g++ -o build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-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 -DMULTI_THREADED -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 g++ -o 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-Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/protocols/multistate_design/util.cc g++ -o build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-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 -DMULTI_THREADED -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 g++ -o 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src/protocols/ncbb/triazolamer/TriazolamerRandomSmallMover.cc g++ -o build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-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 -DMULTI_THREADED -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 g++ -o build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-serialization/protocols/ncbb/PeptideStapleMover.os -c -std=c++0x -ffor-scope 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-DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -D_GLIBCXX_DEBUG -DMULTI_THREADED -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/TerminalDSSPSortedPoseVector.cc g++ -o build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-serialization/protocols/pose_sewing/filters/CoreScorer.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 -DMULTI_THREADED -DSERIALIZATION -Isrc 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build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-serialization/protocols/pose_sewing/movers/AddFlankingVirtualResiduesMover.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 -DMULTI_THREADED -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/movers/AddFlankingVirtualResiduesMover.cc g++ -o build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-serialization/protocols/pose_sewing/movers/BlockwiseAnalysisMover.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 -DMULTI_THREADED -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/movers/BlockwiseAnalysisMover.cc In file included from src/protocols/motifs/LigandDiscoverySearch.cc:131:0: src/protocols/motifs/LigandDiscoverySearch.hh:287:50: error: 'ScoreFunctionFactory' has not been declared core::scoring::ScoreFunctionOP whole_score_fxn_(ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:287:93: error: expected ',' or '...' before '(' token core::scoring::ScoreFunctionOP whole_score_fxn_(ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:290:45: error: 'ScoreFunctionFactory' has not been declared core::scoring::ScoreFunctionOP fa_atr_fxn_(ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:290:88: error: expected ',' or '...' before '(' token core::scoring::ScoreFunctionOP fa_atr_fxn_(ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:293:45: error: 'ScoreFunctionFactory' has not been declared core::scoring::ScoreFunctionOP fa_rep_fxn_(ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:293:88: error: expected ',' or '...' before '(' token core::scoring::ScoreFunctionOP fa_rep_fxn_(ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:296:49: error: 'ScoreFunctionFactory' has not been declared core::scoring::ScoreFunctionOP fa_atr_rep_fxn_(ScoreFunctionFactory::create_score_function( "ligand.wts" )); ^ src/protocols/motifs/LigandDiscoverySearch.hh:296:92: error: expected ',' or '...' before '(' token core::scoring::ScoreFunctionOP fa_atr_rep_fxn_(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::)(int) {aka std::shared_ptr<core::scoring::ScoreFunction> (LigandDiscoverySearch::)(int)}' 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::)(int) {aka std::shared_ptr<core::scoring::ScoreFunction> (LigandDiscoverySearch::)(int)}' 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::)(int) {aka std::shared_ptr<core::scoring::ScoreFunction> (LigandDiscoverySearch::)(int)}' 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::)(int) {aka std::shared_ptr<core::scoring::ScoreFunction> (LigandDiscoverySearch::)(int)}' 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 g++ -o build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-serialization/protocols/pose_sewing/movers/OmnibusDisulfideAnalysisLabelerMover.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 -DMULTI_THREADED -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/movers/OmnibusDisulfideAnalysisLabelerMover.cc g++ -o build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-serialization/protocols/pose_sewing/movers/PickRandomSegmentMover.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 -DMULTI_THREADED -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/movers/PickRandomSegmentMover.cc g++ -o build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-serialization/protocols/pose_sewing/movers/SewAnythingAddMover.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 -DMULTI_THREADED -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/movers/SewAnythingAddMover.cc g++ -o build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-serialization/protocols/pose_sewing/simple_metrics/BlockwisePoseCompMotifMetric.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 -DMULTI_THREADED -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/simple_metrics/BlockwisePoseCompMotifMetric.cc g++ -o build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-serialization/protocols/pose_sewing/simple_metrics/BlockwiseShapeCompMetric.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 -DMULTI_THREADED -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/simple_metrics/BlockwiseShapeCompMetric.cc g++ -o build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-serialization/protocols/pose_sewing/simple_metrics/MinimumInterAlphaDistanceMetric.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 -DMULTI_THREADED -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/simple_metrics/MinimumInterAlphaDistanceMetric.cc g++ -o build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-serialization/protocols/pose_sewing/simple_metrics/WindowPoseCompMotifMetric.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 -DMULTI_THREADED -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/simple_metrics/WindowPoseCompMotifMetric.cc g++ -o build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-serialization/protocols/vip/VIP_Mover.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 -DMULTI_THREADED -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/vip/VIP_Mover.cc g++ -o build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-serialization/protocols/vip/VIP_Report.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 -DMULTI_THREADED -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/vip/VIP_Report.cc g++ -o build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-serialization/protocols/vip/VIP_Utils.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 -DMULTI_THREADED -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/vip/VIP_Utils.cc g++ -o build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-serialization/protocols/sewing/movers/AssemblyMover.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 -DMULTI_THREADED -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/sewing/movers/AssemblyMover.cc scons: *** [build/src/debug/linux/5.4/64/x86/gcc/4.8/cxx11thread-serialization/protocols/motifs/LigandDiscoverySearch.os] Error 1 scons: building terminated because of errors.
{}