############################################################################################################## # # Rosetta crash log. Please submit the contents of this file to http://crash.rosettacommons.org/ # or use the script Rosetta/main/source/scripts/python/public/report_crashes.py # [START_CRASH_REPORT] [ROSETTA_VERSION]: 2021.16+release.8ee4f02 [COMMIT_DATE]: 2021-04-20T20:57:38.289184 [APPLICATION]: /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/bin/rosetta_scripts.python.linuxgccrelease [MODE]: Release [EXTRAS]: python [OS]: GNU/Linux [COMPILER]: GCC version "4.8.5 20150623 (Red Hat 4.8.5-44)" [STDLIB]: libstdc++ version 20150623 [START_OPTIONS] -in:file:s=2jcl_rosetta_in.pdb -out:nstruct=1 -out:suffix=_1 -run:preserve_header -parser:protocol=/dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/src/apps/public/crystal_refinement/low_resolution_refine.xml -parser:script_vars=symmdef=2jcl_rosetta.symm bfactstrat=individual map_type=Auto -cryst:mtzfile=2jcl_rosetta_data.mtz -cryst:crystal_refine [END_OPTIONS] [START_BACKTRACE]: RAW_LIBC /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/python/libutility.so(backtrace_string(int)+0x3a) [0x7f42a2eb28ea] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/python/libutility.so(utility::excn::Exception::Exception(char const*, int, std::string const&)+0x51) [0x7f42a2eb1e71] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/python/libutility.so(utility::exit(char const*, int, std::string const&, int)+0xa5) [0x7f42a2f54de5] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/python/libcore.3.so(core::scoring::cryst::PhenixInterface::getScore(core::pose::Pose const&)+0x22f) [0x7f42a6461aff] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/python/libcore.4.so(core::energy_methods::XtalMLEnergy::finalize_total_energy(core::pose::Pose&, core::scoring::ScoreFunction const&, core::scoring::EMapVector&) const+0x3d) [0x7f42a6d51edd] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/python/libcore.3.so(core::scoring::ScoreFunction::operator()(core::pose::Pose&) const+0x15f) [0x7f42a572bdcf] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/python/libcore.5.so(core::util::getMLweight(core::scoring::ScoreFunction&, core::pose::Pose&, core::kinematics::MoveMap&)+0x1342) [0x7f42a7ccdbf2] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/python/libprotocols.4.so(protocols::cryst::SetCrystWeightMover::apply(core::pose::Pose&)+0x56) [0x7f42ab642486] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/python/libprotocols.1.so(protocols::rosetta_scripts::ParsedProtocol::apply_mover(core::pose::Pose&, protocols::rosetta_scripts::ParsedProtocol::ParsedProtocolStep const&)+0x230) [0x7f42a8d259b0] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/python/libprotocols.1.so(protocols::rosetta_scripts::ParsedProtocol::apply_step(core::pose::Pose&, protocols::rosetta_scripts::ParsedProtocol::ParsedProtocolStep const&, bool)+0x1f) [0x7f42a8d25daf] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/python/libprotocols.1.so(protocols::rosetta_scripts::ParsedProtocol::sequence_protocol(core::pose::Pose&, __gnu_cxx::__normal_iterator > >)+0x3d) [0x7f42a8d267dd] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/python/libprotocols.1.so(protocols::rosetta_scripts::ParsedProtocol::apply(core::pose::Pose&)+0x1ff) [0x7f42a8d272cf] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/python/libprotocols.1.so(protocols::rosetta_scripts::ParsedProtocol::apply_mover(core::pose::Pose&, protocols::rosetta_scripts::ParsedProtocol::ParsedProtocolStep const&)+0x230) [0x7f42a8d259b0] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/python/libprotocols.1.so(protocols::rosetta_scripts::ParsedProtocol::apply_step(core::pose::Pose&, protocols::rosetta_scripts::ParsedProtocol::ParsedProtocolStep const&, bool)+0x1f) [0x7f42a8d25daf] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/python/libprotocols.1.so(protocols::rosetta_scripts::ParsedProtocol::sequence_protocol(core::pose::Pose&, __gnu_cxx::__normal_iterator > >)+0x3d) [0x7f42a8d267dd] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/python/libprotocols.1.so(protocols::rosetta_scripts::ParsedProtocol::apply(core::pose::Pose&)+0x1ff) [0x7f42a8d272cf] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/python/libprotocols.1.so(protocols::jd2::JobDistributor::run_one_job(std::shared_ptr&, long, std::string&, std::string&, unsigned long&, unsigned long&, bool)+0xc52) [0x7f42a8e4f462] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/python/libprotocols.1.so(protocols::jd2::JobDistributor::go_main(std::shared_ptr)+0xc1) [0x7f42a8e51181] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/python/libprotocols.1.so(protocols::jd2::FileSystemJobDistributor::go(std::shared_ptr)+0x4a) [0x7f42a8e3fafa] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/bin/rosetta_scripts.python.linuxgccrelease() [0x403d1e] /lib64/libc.so.6(__libc_start_main+0xf5) [0x7f429fdbb555] /dev/shm/bkpoon/software/rosetta_src_2021.16.61629_bundle/main/source/bin/rosetta_scripts.python.linuxgccrelease() [0x404114] [END_BACKTRACE] [FILE]: src/core/scoring/cryst/PhenixInterface.cc [LINE]: 158 [START_MESSAGE] [ ERROR ] UtilityExitException ERROR: error computing X-ray target [END_MESSAGE] [END_CRASH_REPORT]