############################################################################################################## # # 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]: rosetta_scripts.hdf5.linuxgccrelease [MODE]: Release [EXTRAS]: hdf5 [OS]: GNU/Linux [COMPILER]: GCC version "4.8.5 20150623 (Red Hat 4.8.5-44)" [STDLIB]: libstdc++ version 20150623 [START_OPTIONS] -in:file:keep_input_scores=false -in:file:silent=/home/dengxj/RIFdock/binder/site1/pilot_splits/xad.silent -in:file:silent_read_through_errors -out:mute=protocols.rosetta_scripts.ParsedProtocol.REPORT -out:file:silent=out.silent -out:file:silent_struct_type=binary -parser:protocol=/home/dengxj/RIFdock/supplemental_files/cao_2021_protocol/paper_interface_design.xml -parser:script_vars=CAO_2021_PROTOCOL=/home/dengxj/RIFdock/supplemental_files/cao_2021_protocol patchdock_res=131,132,181 runpsipred_single=/home/dengxj/software/psipred/runpsipred_single -corrections:beta_nov16 -holes:dalphaball=/opt/software/rosetta_src_2021.16.61629_bundle/main/source/external/DAlpahBall -indexed_structure_store:fragment_store=/opt/software/ss_grouped_vall_all [END_OPTIONS] [START_BACKTRACE]: RAW_LIBC /home/dengxj/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/hdf5/libutility.so(utility::save_crash_report(char const*, std::string const&, int)+0x25) [0x7f18023a9765] /home/dengxj/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/hdf5/libutility.so(utility::terminate_handler()+0x1f4) [0x7f18023a9c64] /lib64/libstdc++.so.6(+0xabf47) [0x7f1811abdf47] /lib64/libstdc++.so.6(+0xabf7d) [0x7f1811abdf7d] /lib64/libstdc++.so.6(__cxa_rethrow+0) [0x7f1811abe15a] /lib64/libhdf5_cpp.so.8(H5::H5File::openFile(char const*, unsigned int, H5::FileAccPropList const&)+0xe1) [0x7f17ff806dd1] /home/dengxj/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/hdf5/libprotocols.3.so(protocols::indexed_structure_store::FragmentStoreManager::load_fragment_store(std::string, std::string, utility::vector1 >, utility::vector1 >)+0x107) [0x7f1809460da7] /home/dengxj/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/hdf5/libprotocols.3.so(protocols::indexed_structure_store::FragmentStoreManager::load_grouped_fragment_store(std::string, std::string, std::string, utility::vector1 >, utility::vector1 >)+0x2e3) [0x7f1809462313] /home/dengxj/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/hdf5/libprotocols.3.so(protocols::indexed_structure_store::SSHashedFragmentStore::SSHashedFragmentStore()+0x7a1) [0x7f1809456dd1] /home/dengxj/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/hdf5/libprotocols.3.so(protocols::simple_moves::StructProfileMover::parse_my_tag(std::shared_ptr, basic::datacache::DataMap&)+0x493) [0x7f1809e49313] /home/dengxj/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/hdf5/libprotocols.1.so(protocols::moves::MoverFactory::newMover(std::shared_ptr, basic::datacache::DataMap&) const+0x6d) [0x7f18080923bd] /home/dengxj/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/hdf5/libprotocols.1.so(protocols::rosetta_scripts::RosettaScriptsParser::instantiate_mover(std::shared_ptr const&, basic::datacache::DataMap&) const+0x169) [0x7f18081900f9] /home/dengxj/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/hdf5/libprotocols.1.so(protocols::rosetta_scripts::RosettaScriptsParser::generate_mover_for_protocol(std::shared_ptr, basic::datacache::DataMap&, utility::options::OptionCollection const&, std::shared_ptr, std::shared_ptr)+0x65a) [0x7f1808193e8a] /home/dengxj/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/hdf5/libprotocols.1.so(protocols::rosetta_scripts::RosettaScriptsParser::generate_mover_for_protocol(std::shared_ptr, utility::options::OptionCollection const&, std::string const&, std::string const&, std::shared_ptr, std::shared_ptr)+0x281) [0x7f18081968b1] /home/dengxj/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/hdf5/libprotocols.1.so(protocols::rosetta_scripts::RosettaScriptsParser::generate_mover(std::shared_ptr&, bool, std::string const&, std::string const&, std::string const&, bool)+0x11e) [0x7f180819b13e] /home/dengxj/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/hdf5/libprotocols.1.so(protocols::jd2::JobDistributor::run_one_job(std::shared_ptr&, long, std::string&, std::string&, unsigned long&, unsigned long&, bool)+0x139d) [0x7f180829db9d] /home/dengxj/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/hdf5/libprotocols.1.so(protocols::jd2::JobDistributor::go_main(std::shared_ptr)+0xc1) [0x7f180829f171] /home/dengxj/software/rosetta_src_2021.16.61629_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/hdf5/libprotocols.1.so(protocols::jd2::FileSystemJobDistributor::go(std::shared_ptr)+0x4a) [0x7f180828daea] rosetta_scripts.hdf5.linuxgccrelease() [0x403cee] /lib64/libc.so.6(__libc_start_main+0xf5) [0x7f17feacf555] rosetta_scripts.hdf5.linuxgccrelease() [0x4040e4] [END_BACKTRACE] [FILE]: Uncaught non-std exception [LINE]: 0 [START_MESSAGE] Uncaught non-std exception [END_MESSAGE] [END_CRASH_REPORT]