Running: ./ninja_build.py debug -v -remake -j24
['z', 'zlib', 'cppdb', 'sqlite3', 'cifparse', 'libxml2', 'libzmq', 'rdkit', 'bcl', 'cmaes']
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Found /home/benchmark/rosetta/source/src/pilot_apps.src.settings.all and going to use it!
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No source or binary directory provided. Both will be assumed to be the
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CMake Warning (dev) in CMakeLists.txt:
No project() command is present. The top-level CMakeLists.txt file must
contain a literal, direct call to the project() command. Add a line of
code such as
project(ProjectName)
near the top of the file, but after cmake_minimum_required().
CMake is pretending there is a "project(Project)" command on the first
line.
This warning is for project developers. Use -Wno-dev to suppress it.
>> CMAKE identifies C++ compiler as 'GNU', interpreting this as 'gcc'
>> To change, set CXX and CC environment variables (or pass -DCMAKE_CXX_COMPILER) and do a clean rebuild.
>> current settings: CXX='' CC=''
-- Compiler: gcc
Updating submodules needed for compilation.
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[45/4629] /usr/bin/c++ -DBOOST_DISABLE_THREADS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DCPPDB_EXPORTS -DCPPDB_LIBRARY_PREFIX=\"lib\" -DCPPDB_LIBRARY_SUFFIX=\".so\" -DCPPDB_MAJOR=0 -DCPPDB_MINOR=3 -DCPPDB_PATCH=0 -DCPPDB_SOVERSION=\"0\" -DCPPDB_VERSION=\"0.3.0\" -DCPPDB_WITH_SQLITE3 -DCXX11 -DLINUX -DPTR_STD -DSQLITE_OMIT_DISABLE_LFS -DSQLITE_OMIT_LOAD_EXTENSION -DSQLITE_THREADSAFE=0 -D_DEBUG -D_GLIBCXX_DEBUG -Dprotocols_b_6_EXPORTS -I../.. -I../../src -I../../src/platform/linux -I../../test -isystem ../../external -isystem ../../external/include -isystem ../../external/dbio -isystem ../../external/rdkit -isystem ../../external/boost_submod -isystem ../../external/cxxtest -isystem ../../external/dbio/sqlite3 -isystem ../../external/libxml2/include -std=c++11 -pipe -ffor-scope -ftemplate-depth-256 -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -I /usr/include -I /usr/local/include -I src -I external/include -I src/platform/linux -O0 -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -g -ggdb -ffloat-store -g -fPIC -MD -MT CMakeFiles/protocols_b.6.dir/home/benchmark/rosetta/source/src/protocols/topology_broker/SequenceClaimer.cc.o -MF CMakeFiles/protocols_b.6.dir/home/benchmark/rosetta/source/src/protocols/topology_broker/SequenceClaimer.cc.o.d -o CMakeFiles/protocols_b.6.dir/home/benchmark/rosetta/source/src/protocols/topology_broker/SequenceClaimer.cc.o -c /home/benchmark/rosetta/source/src/protocols/topology_broker/SequenceClaimer.cc
[46/4629] /usr/bin/c++ -DBOOST_DISABLE_THREADS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DCPPDB_EXPORTS -DCPPDB_LIBRARY_PREFIX=\"lib\" -DCPPDB_LIBRARY_SUFFIX=\".so\" -DCPPDB_MAJOR=0 -DCPPDB_MINOR=3 -DCPPDB_PATCH=0 -DCPPDB_SOVERSION=\"0\" -DCPPDB_VERSION=\"0.3.0\" -DCPPDB_WITH_SQLITE3 -DCXX11 -DLINUX -DPTR_STD -DSQLITE_OMIT_DISABLE_LFS -DSQLITE_OMIT_LOAD_EXTENSION -DSQLITE_THREADSAFE=0 -D_DEBUG -D_GLIBCXX_DEBUG -Dprotocols_b_6_EXPORTS -I../.. -I../../src -I../../src/platform/linux -I../../test -isystem ../../external -isystem ../../external/include -isystem ../../external/dbio -isystem ../../external/rdkit -isystem ../../external/boost_submod -isystem ../../external/cxxtest -isystem ../../external/dbio/sqlite3 -isystem ../../external/libxml2/include -std=c++11 -pipe -ffor-scope -ftemplate-depth-256 -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -I /usr/include -I /usr/local/include -I src -I external/include -I src/platform/linux -O0 -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -g -ggdb -ffloat-store -g -fPIC -MD -MT CMakeFiles/protocols_b.6.dir/home/benchmark/rosetta/source/src/protocols/trRosetta_protocols/movers/trRosettaProtocolMover.cc.o -MF CMakeFiles/protocols_b.6.dir/home/benchmark/rosetta/source/src/protocols/trRosetta_protocols/movers/trRosettaProtocolMover.cc.o.d -o CMakeFiles/protocols_b.6.dir/home/benchmark/rosetta/source/src/protocols/trRosetta_protocols/movers/trRosettaProtocolMover.cc.o -c /home/benchmark/rosetta/source/src/protocols/trRosetta_protocols/movers/trRosettaProtocolMover.cc
[47/4629] /usr/bin/c++ -DBOOST_DISABLE_THREADS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DCPPDB_EXPORTS -DCPPDB_LIBRARY_PREFIX=\"lib\" -DCPPDB_LIBRARY_SUFFIX=\".so\" -DCPPDB_MAJOR=0 -DCPPDB_MINOR=3 -DCPPDB_PATCH=0 -DCPPDB_SOVERSION=\"0\" -DCPPDB_VERSION=\"0.3.0\" -DCPPDB_WITH_SQLITE3 -DCXX11 -DLINUX -DPTR_STD -DSQLITE_OMIT_DISABLE_LFS -DSQLITE_OMIT_LOAD_EXTENSION -DSQLITE_THREADSAFE=0 -D_DEBUG -D_GLIBCXX_DEBUG -Dprotocols_b_6_EXPORTS -I../.. -I../../src -I../../src/platform/linux -I../../test -isystem ../../external -isystem ../../external/include -isystem ../../external/dbio -isystem ../../external/rdkit -isystem ../../external/boost_submod -isystem ../../external/cxxtest -isystem ../../external/dbio/sqlite3 -isystem ../../external/libxml2/include -std=c++11 -pipe -ffor-scope -ftemplate-depth-256 -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -I /usr/include -I /usr/local/include -I src -I external/include -I src/platform/linux -O0 -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -g -ggdb -ffloat-store -g -fPIC -MD -MT CMakeFiles/protocols_b.6.dir/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc.o -MF CMakeFiles/protocols_b.6.dir/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc.o.d -o CMakeFiles/protocols_b.6.dir/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc.o -c /home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc
FAILED: CMakeFiles/protocols_b.6.dir/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc.o
/usr/bin/c++ -DBOOST_DISABLE_THREADS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DCPPDB_EXPORTS -DCPPDB_LIBRARY_PREFIX=\"lib\" -DCPPDB_LIBRARY_SUFFIX=\".so\" -DCPPDB_MAJOR=0 -DCPPDB_MINOR=3 -DCPPDB_PATCH=0 -DCPPDB_SOVERSION=\"0\" -DCPPDB_VERSION=\"0.3.0\" -DCPPDB_WITH_SQLITE3 -DCXX11 -DLINUX -DPTR_STD -DSQLITE_OMIT_DISABLE_LFS -DSQLITE_OMIT_LOAD_EXTENSION -DSQLITE_THREADSAFE=0 -D_DEBUG -D_GLIBCXX_DEBUG -Dprotocols_b_6_EXPORTS -I../.. -I../../src -I../../src/platform/linux -I../../test -isystem ../../external -isystem ../../external/include -isystem ../../external/dbio -isystem ../../external/rdkit -isystem ../../external/boost_submod -isystem ../../external/cxxtest -isystem ../../external/dbio/sqlite3 -isystem ../../external/libxml2/include -std=c++11 -pipe -ffor-scope -ftemplate-depth-256 -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -I /usr/include -I /usr/local/include -I src -I external/include -I src/platform/linux -O0 -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -g -ggdb -ffloat-store -g -fPIC -MD -MT CMakeFiles/protocols_b.6.dir/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc.o -MF CMakeFiles/protocols_b.6.dir/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc.o.d -o CMakeFiles/protocols_b.6.dir/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc.o -c /home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc
In file included from /home/benchmark/rosetta/source/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" ));
^
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc: In member function ‘void LigandDiscoverySearch::setup_score_functions()’:
/home/benchmark/rosetta/source/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() ) {
^
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc:372:44: error: base operand of ‘->’ is not a pointer
/home/benchmark/rosetta/source/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);
^
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc:373:14: error: base operand of ‘->’ is not a pointer
/home/benchmark/rosetta/source/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);
^
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc:374:14: error: base operand of ‘->’ is not a pointer
/home/benchmark/rosetta/source/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);
^
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc:375:18: error: base operand of ‘->’ is not a pointer
/home/benchmark/rosetta/source/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);
^
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc:379:13: error: base operand of ‘->’ is not a pointer
/home/benchmark/rosetta/source/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);
^
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc:381:13: error: base operand of ‘->’ is not a pointer
/home/benchmark/rosetta/source/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);
^
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc:383:17: error: base operand of ‘->’ is not a pointer
/home/benchmark/rosetta/source/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);
^
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc:384:17: error: base operand of ‘->’ is not a pointer
/home/benchmark/rosetta/source/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);
^
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc:387:18: error: base operand of ‘->’ is not a pointer
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc: In member function ‘core::Size LigandDiscoverySearch::discover(std::string)’:
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc:943:17: error: invalid use of member function (did you forget the ‘()’ ?)
fa_rep_fxn_->score(*minipose);
^
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc:943:17: error: base operand of ‘->’ is not a pointer
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc:957:17: error: invalid use of member function (did you forget the ‘()’ ?)
fa_atr_fxn_->score(*minipose);
^
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc:957:17: error: base operand of ‘->’ is not a pointer
/home/benchmark/rosetta/source/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);
^
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc:970:58: error: base operand of ‘->’ is not a pointer
/home/benchmark/rosetta/source/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_, "");
^
/home/benchmark/rosetta/source/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_, "");
^
/home/benchmark/rosetta/source/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) );
^
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc:1076:159: note: candidates are:
In file included from /home/benchmark/rosetta/source/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
/home/benchmark/rosetta/source/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) );
^
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc:1077:159: note: candidates are:
In file included from /home/benchmark/rosetta/source/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
/home/benchmark/rosetta/source/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_, "");
^
/home/benchmark/rosetta/source/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_, "");
^
/home/benchmark/rosetta/source/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_);
^
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc:1108:47: error: base operand of ‘->’ is not a pointer
/home/benchmark/rosetta/source/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_);
^
/home/benchmark/rosetta/source/src/protocols/motifs/LigandDiscoverySearch.cc:1132:37: error: base operand of ‘->’ is not a pointer
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[70/4629] /usr/bin/c++ -DBOOST_DISABLE_THREADS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DCPPDB_EXPORTS -DCPPDB_LIBRARY_PREFIX=\"lib\" -DCPPDB_LIBRARY_SUFFIX=\".so\" -DCPPDB_MAJOR=0 -DCPPDB_MINOR=3 -DCPPDB_PATCH=0 -DCPPDB_SOVERSION=\"0\" -DCPPDB_VERSION=\"0.3.0\" -DCPPDB_WITH_SQLITE3 -DCXX11 -DLINUX -DPTR_STD -DSQLITE_OMIT_DISABLE_LFS -DSQLITE_OMIT_LOAD_EXTENSION -DSQLITE_THREADSAFE=0 -D_DEBUG -D_GLIBCXX_DEBUG -Dprotocols_b_6_EXPORTS -I../.. -I../../src -I../../src/platform/linux -I../../test -isystem ../../external -isystem ../../external/include -isystem ../../external/dbio -isystem ../../external/rdkit -isystem ../../external/boost_submod -isystem ../../external/cxxtest -isystem ../../external/dbio/sqlite3 -isystem ../../external/libxml2/include -std=c++11 -pipe -ffor-scope -ftemplate-depth-256 -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -I /usr/include -I /usr/local/include -I src -I external/include -I src/platform/linux -O0 -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -g -ggdb -ffloat-store -g -fPIC -MD -MT CMakeFiles/protocols_b.6.dir/home/benchmark/rosetta/source/src/protocols/topology_broker/TopologyBroker.cc.o -MF CMakeFiles/protocols_b.6.dir/home/benchmark/rosetta/source/src/protocols/topology_broker/TopologyBroker.cc.o.d -o CMakeFiles/protocols_b.6.dir/home/benchmark/rosetta/source/src/protocols/topology_broker/TopologyBroker.cc.o -c /home/benchmark/rosetta/source/src/protocols/topology_broker/TopologyBroker.cc
ninja: build stopped: subcommand failed.
Traceback (most recent call last):
File "./ninja_build.py", line 132, in <module>
subprocess.check_call(ninja_command)
File "/usr/local/lib/python3.7/subprocess.py", line 347, in check_call
raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['ninja', '-C', '/home/benchmark/rosetta/source/cmake/build_debug', '-j', '24', '-v']' returned non-zero exit status 1.