############################################################################################################## # # Rosetta crash log. # [START_CRASH_REPORT] [ROSETTA_VERSION]: 2019.35+release.767c1ea [COMMIT_DATE]: 2019-08-30T12:04:30.133343 [APPLICATION]: /sysapps/cluster/software/Rosetta/3.11/rosetta_bin_linux_2019.35.60890_bundle/main/source/bin/rosetta_scripts.mpi.linuxgccrelease [MODE]: Release [EXTRAS]: mpi (OpenMPI 1.8.4) [OS]: GNU/Linux [COMPILER]: GCC version "4.8.4" [STDLIB]: libstdc++ version 20141219 [START_OPTIONS] -in:path:database=/sysapps/cluster/software/Rosetta/3.11/rosetta_bin_linux_2019.35.60890_bundle/main/database/ -in:file:fasta=/nethome/haom/IN/IN.fasta -out:nstruct=20 -parser:protocol=rosetta_cm.xml -corrections:beta_cart -optimization:default_max_cycles=200 -cm:hybridize:stage1_probability=1 -relax:dualspace -relax:jump_move [END_OPTIONS] [START_BACKTRACE]: RAW_LIBC /sysapps/cluster/software/Rosetta/3.11/rosetta_bin_linux_2019.35.60890_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/mpi/libutility.so(utility::save_crash_report(char const*, std::string const&, int)+0x25) [0x2aaab96b1a15] /sysapps/cluster/software/Rosetta/3.11/rosetta_bin_linux_2019.35.60890_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/mpi/libutility.so(utility::signal_handler(int)+0xaa) [0x2aaab96b1b4a] /lib64/libc.so.6(+0x35670) [0x2aaabbe9a670] /sysapps/cluster/software/Rosetta/3.11/rosetta_bin_linux_2019.35.60890_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/mpi/libcore.2.so(core::conformation::carbohydrates::find_seqpos_of_saccharides_parent_residue(core::conformation::Residue const&)+0x2e) [0x2aaab81ea30e] /sysapps/cluster/software/Rosetta/3.11/rosetta_bin_linux_2019.35.60890_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/mpi/libcore.2.so(core::conformation::carbohydrates::get_glycosidic_bond_residues(core::conformation::Conformation const&, unsigned long)+0x248) [0x2aaab81ece58] /sysapps/cluster/software/Rosetta/3.11/rosetta_bin_linux_2019.35.60890_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/mpi/libcore.2.so(core::conformation::carbohydrates::get_reference_atoms_for_phi(core::conformation::Conformation const&, unsigned long)+0x44) [0x2aaab81ecf24] /sysapps/cluster/software/Rosetta/3.11/rosetta_bin_linux_2019.35.60890_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/mpi/libcore.2.so(core::conformation::carbohydrates::get_reference_atoms(unsigned long, core::conformation::Conformation const&, unsigned long)+0x101) [0x2aaab81edf51] /sysapps/cluster/software/Rosetta/3.11/rosetta_bin_linux_2019.35.60890_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/mpi/libcore.2.so(core::conformation::carbohydrates::set_glycosidic_torsion(unsigned long, core::conformation::Conformation&, unsigned long, double)+0x24) [0x2aaab81ee3d4] /sysapps/cluster/software/Rosetta/3.11/rosetta_bin_linux_2019.35.60890_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/mpi/libcore.3.so(core::pose::Pose::set_phi(unsigned long, double)+0x283) [0x2aaab62f3883] /sysapps/cluster/software/Rosetta/3.11/rosetta_bin_linux_2019.35.60890_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/mpi/libprotocols.3.so(protocols::loops::set_extended_torsions_and_idealize_loops(core::pose::Pose&, protocols::loops::Loops)+0x9e) [0x2aaab24d05ee] /sysapps/cluster/software/Rosetta/3.11/rosetta_bin_linux_2019.35.60890_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/mpi/libprotocols.4.so(protocols::pose_creation::ExtendedPoseMover::apply(core::pose::Pose&)+0x65) [0x2aaab1ad8f55] /sysapps/cluster/software/Rosetta/3.11/rosetta_bin_linux_2019.35.60890_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/mpi/libprotocols_g.5.so(protocols::comparative_modeling::GenericJobInputter::pose_from_job(core::pose::Pose&, std::shared_ptr)+0x296) [0x2aaaaf259166] /sysapps/cluster/software/Rosetta/3.11/rosetta_bin_linux_2019.35.60890_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/mpi/libprotocols.1.so(protocols::jd2::JobDistributor::run_one_job(std::shared_ptr&, long, std::string&, std::string&, unsigned long&, unsigned long&, bool)+0x6aa) [0x2aaab40bcf2a] /sysapps/cluster/software/Rosetta/3.11/rosetta_bin_linux_2019.35.60890_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/mpi/libprotocols.1.so(protocols::jd2::JobDistributor::go_main(std::shared_ptr)+0xc1) [0x2aaab40bf0c1] /sysapps/cluster/software/Rosetta/3.11/rosetta_bin_linux_2019.35.60890_bundle/main/source/build/src/release/linux/3.10/64/x86/gcc/4.8/mpi/libprotocols.1.so(protocols::jd2::FileSystemJobDistributor::go(std::shared_ptr)+0x4a) [0x2aaab40af1ca] /sysapps/cluster/software/Rosetta/3.11/rosetta_bin_linux_2019.35.60890_bundle/main/source/bin/rosetta_scripts.mpi.linuxgccrelease() [0x401ffb] /lib64/libc.so.6(__libc_start_main+0xf5) [0x2aaabbe86b15] /sysapps/cluster/software/Rosetta/3.11/rosetta_bin_linux_2019.35.60890_bundle/main/source/bin/rosetta_scripts.mpi.linuxgccrelease() [0x402295] [END_BACKTRACE] [FILE]: SIGSEGV [LINE]: 11 [START_MESSAGE] Segmentation Fault [END_MESSAGE] [END_CRASH_REPORT]