############################################################################################################## # # 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]: 2020.11+release.ce6f14f37b4 [COMMIT_DATE]: 2020-03-14T01:17:10.055064 [APPLICATION]: /Users/yarovoylab/local/rosetta_bin_mac_2020.11.61179_bundle/main/source/bin/rosetta_scripts.default.macosclangrelease [MODE]: Release [EXTRAS]: default [OS]: Apple Mac OS X [COMPILER]: Clang version "10.0.1 (clang-1001.0.46.4)" [STDLIB]: libc++ version 7000 [START_OPTIONS] -in:path:database=/Users/yarovoylab/local/rosetta_bin_mac_2020.11.61179_bundle/main/database/ -in:file:s=1a11_0001.pdb -out:nstruct=1 -out:no_color -out:file:scorefile=1a11.score -parser:protocol=test.xml -parser:script_vars=sfxn_weights=franklin2019 -mp:lipids:composition=DLPC -mp:setup:spanfiles=1a11.span [END_OPTIONS] [START_BACKTRACE]: RAW_LIBC 0 libutility.dylib 0x000000010dd72940 backtrace_string(int) + 80 1 libutility.dylib 0x000000010dd7286f utility::excn::Exception::Exception(char const*, int, std::__1::basic_string, std::__1::allocator > const&) + 207 2 libprotocols.1.dylib 0x000000010a15c575 protocols::rosetta_scripts::RosettaScriptsParser::validate_input_script_against_xsd(std::__1::basic_string, std::__1::allocator > const&, std::__1::basic_stringstream, std::__1::allocator > const&) const + 4037 3 libprotocols.1.dylib 0x000000010a15a264 protocols::rosetta_scripts::RosettaScriptsParser::finish_creating_tag(std::__1::basic_string, std::__1::allocator > const&, utility::vector1, std::__1::allocator >, std::__1::allocator, std::__1::allocator > > > const&, std::__1::basic_string, std::__1::allocator > const&) const + 644 4 libprotocols.1.dylib 0x000000010a1546ec protocols::rosetta_scripts::RosettaScriptsParser::create_tag_from_xml(std::__1::basic_string, std::__1::allocator > const&, utility::vector1, std::__1::allocator >, std::__1::allocator, std::__1::allocator > > > const&) + 284 5 libprotocols.1.dylib 0x000000010a1584d6 protocols::rosetta_scripts::RosettaScriptsParser::create_tag_from_xml(std::__1::basic_string, std::__1::allocator > const&, utility::options::OptionCollection const&) + 310 6 libprotocols.1.dylib 0x000000010a15d693 protocols::rosetta_scripts::RosettaScriptsParser::generate_mover_from_pose(core::pose::Pose&, std::__1::shared_ptr&, bool, std::__1::basic_string, std::__1::allocator > const&, std::__1::basic_string, std::__1::allocator > const&, std::__1::basic_string, std::__1::allocator > const&, bool) + 483 7 libprotocols.1.dylib 0x000000010a2272cc protocols::jd2::JobDistributor::run_one_job(std::__1::shared_ptr&, long, std::__1::basic_string, std::__1::allocator >&, std::__1::basic_string, std::__1::allocator >&, unsigned long&, unsigned long&, bool) + 6476 8 libprotocols.1.dylib 0x000000010a224c72 protocols::jd2::JobDistributor::go_main(std::__1::shared_ptr) + 194 9 libprotocols.1.dylib 0x000000010a21fca6 protocols::jd2::FileSystemJobDistributor::go(std::__1::shared_ptr) + 70 10 rosetta_scripts.default.macosclangrelease 0x000000010487f02e main + 1822 11 libdyld.dylib 0x00007fff624c63d5 start + 1 12 ??? 0x0000000000000012 0x0 + 18 [END_BACKTRACE] [FILE]: src/protocols/rosetta_scripts/RosettaScriptsParser.cc [LINE]: 1313 [START_MESSAGE] Input rosetta scripts XML file "test.xml" failed to validate against the rosetta scripts schema. Use the option -parser::output_schema to output the schema to a file to see all valid options. Your XML has failed validation. The error message below will tell you where in your XML file the error occurred. Here's how to fix it: 1) If the validation fails on something obvious, like an illegal attribute due to a spelling error (perhaps you used scorefnction instead of scorefunction), then you need to fix your XML file. 2) If you haven’t run the XML rewriter script and this might be pre-2017 Rosetta XML, run the rewriter script (tools/xsd_xrw/rewrite_rosetta_script.py) on your input XML first. The attribute values not being in quotes (scorefunction=talaris2014 instead of scorefunction="talaris2014") is a good indicator that this is your problem. 3) If you are a developer and neither 1 nor 2 worked - email the developer’s mailing list or try Slack. 4) If you are an academic or commercial user - try the Rosetta Forums https://www.rosettacommons.org/forum Error messages were: From line 11: Error: Element 'OptimizeMembranePositionMover': This element is not expected. 6: 7: 8: 9: 10: 11: 12: 13: 14: 15: 16: ------------------------------------------------------------ Warning messages were: ------------------------------------------------------------ [END_MESSAGE] [END_CRASH_REPORT]