Test: linux.gcc.mpi.serialization.integration.mpi 「view this page in B3 βῆτα server」
Branch: rosetta:commits 「revision: №20608」
Test files: 「file-system-view」 「file-list-view」
Daemon: hojo-2     Started at: 2024-11-11 17:11:40     Run time: 1:56:11      State: failed

Failed sub-tests (click for more details):
replica_docking

Compiling: find bin -type l ! -name ".*" -exec rm {} \; ; /home/benchmark/prefix/hojo-2/linux/python-3.9.gcc/99a1a29fd465f86265a7c5b92d75dbcd/bin/python3.9 ./scons.py bin mode=release_debug cxx=gcc extras=mpi,serialization -j24 Running: unset __PYVENV_LAUNCHER__ && . /home/benchmark/prefix/hojo-2/linux/python_virtual_environments/python-3.9/f916a9c27c93a1801304b72f29630408/bin/activate && cd /home/benchmark/rosetta/tests/integration && python ./integration.py --mode=release_debug --compiler=gcc --extras=mpi,serialization --timeout=3600 -j24 --skip-comparison --suffix mpi --additional_flags "-in:path:database_cache_dir /home/benchmark/rosetta/.database-binaries/mpiserialization.linuxgccrelease_debug" Running integration script... Command line: unset __PYVENV_LAUNCHER__ && . /home/benchmark/prefix/hojo-2/linux/python_virtual_environments/python-3.9/f916a9c27c93a1801304b72f29630408/bin/activate && cd /home/benchmark/rosetta/tests/integration && python ./integration.py --mode=release_debug --compiler=gcc --extras=mpi,serialization --timeout=3600 -j24 --skip-comparison --suffix mpi --additional_flags "-in:path:database_cache_dir /home/benchmark/rosetta/.database-binaries/mpiserialization.linuxgccrelease_debug" Using Rosetta source dir at: /home/benchmark/rosetta/source Using Rosetta database dir at:/home/benchmark/rosetta/database Current Versions Tested: MAIN: d3eb73fd8f34c6c60f020cab28136200449e9392 TOOLS: b0af2521cbed1f2bde597ef1c5406efa376a6f85 DEMOS: 48c9239db73b9a8c828954d9215c983b9f144c92 Python: `/home/benchmark/prefix/hojo-2/linux/python_virtual_environments/python-3.9/f916a9c27c93a1801304b72f29630408/bin/python` Outdir: new Running Test simple_cycpep_predict_thioether_lariat ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/simple_cycpep_predict_thioether_lariat/command.mpi.sh Running Test simple_cycpep_predict_terminal_disulfide_tails_2 ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/simple_cycpep_predict_terminal_disulfide_tails_2/command.mpi.sh Running Test simple_cycpep_predict_terminal_disulfide_tails ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/simple_cycpep_predict_terminal_disulfide_tails/command.mpi.sh Running Test simple_cycpep_predict_terminal_disulfide ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/simple_cycpep_predict_terminal_disulfide/command.mpi.sh Running Test simple_cycpep_predict_sidechain_isopeptide_reverse ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/simple_cycpep_predict_sidechain_isopeptide_reverse/command.mpi.sh Running Test simple_cycpep_predict_sidechain_isopeptide ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/simple_cycpep_predict_sidechain_isopeptide/command.mpi.sh Running Test simple_cycpep_predict_nterm_isopeptide_lariat_tailless ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/simple_cycpep_predict_nterm_isopeptide_lariat_tailless/command.mpi.sh Running Test simple_cycpep_predict_nterm_isopeptide_lariat ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/simple_cycpep_predict_nterm_isopeptide_lariat/command.mpi.sh Running Test simple_cycpep_predict_cterm_isopeptide_lariat_tailless ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/simple_cycpep_predict_cterm_isopeptide_lariat_tailless/command.mpi.sh Running Test simple_cycpep_predict_lanthionine ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/simple_cycpep_predict_lanthionine/command.mpi.sh Running Test simple_cycpep_predict_cterm_isopeptide_lariat ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/simple_cycpep_predict_cterm_isopeptide_lariat/command.mpi.sh Running Test simple_cycpep_predict_bondangle_bondlength ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/simple_cycpep_predict_bondangle_bondlength/command.mpi.sh Running Test simple_cycpep_predict_beta_thioether_lariat ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/simple_cycpep_predict_beta_thioether_lariat/command.mpi.sh Running Test replica_docking ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/replica_docking/command.mpi.sh Running Test recon_design_mpi ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/recon_design_mpi/command.mpi.sh Running Test mpi_simple_cycpep_predict_computing_pnear_to_all ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/mpi_simple_cycpep_predict_computing_pnear_to_all/command.mpi.sh Running Test mpi_simple_cycpep_predict_4level ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/mpi_simple_cycpep_predict_4level/command.mpi.sh Running Test mpi_simple_cycpep_predict ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/mpi_simple_cycpep_predict/command.mpi.sh Running Test helical_bundle_predict_skipping_residues ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/helical_bundle_predict_skipping_residues/command.mpi.sh Running Test helical_bundle_predict_sequence ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/helical_bundle_predict_sequence/command.mpi.sh Running Test helical_bundle_predict_psipred_with_helix_globals ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/helical_bundle_predict_psipred_with_helix_globals/command.mpi.sh Running Test helical_bundle_predict_psipred ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/helical_bundle_predict_psipred/command.mpi.sh Running Test helical_bundle_predict ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/helical_bundle_predict/command.mpi.sh Running Test features_pdb_mpi ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/features_pdb_mpi/command.mpi.sh Finished simple_cycpep_predict_terminal_disulfide in 266 seconds [~ 800 test (99.62640099626401%) started, 3 in queue, 24 running] Running Test database_md5 ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/database_md5/command.mpi.sh Finished simple_cycpep_predict_terminal_disulfide_tails in 336 seconds [~ 801 test (99.75093399750934%) started, 2 in queue, 24 running] Running Test threefold_symm_peptide_design ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/threefold_symm_peptide_design/command.mpi.sh Finished simple_cycpep_predict_lanthionine in 725 seconds [~ 802 test (99.87546699875467%) started, 1 in queue, 24 running] Running Test simple_cycpep_predict_design ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/simple_cycpep_predict_design/command.mpi.sh Finished simple_cycpep_predict_sidechain_isopeptide in 746 seconds [~ 803 test (100.0%) started, 0 in queue, 24 running] Running Test backbonegridsampler_nstruct_mode ulimit -t 3600 && bash /home/benchmark/rosetta/tests/integration/new/backbonegridsampler_nstruct_mode/command.mpi.sh Finished simple_cycpep_predict_cterm_isopeptide_lariat in 751 seconds [~ 803 test (100.0%) started, 0 in queue, 23 running] Finished simple_cycpep_predict_cterm_isopeptide_lariat_tailless in 754 seconds [~ 803 test (100.0%) started, 0 in queue, 22 running] Finished simple_cycpep_predict_sidechain_isopeptide_reverse in 787 seconds [~ 803 test (100.0%) started, 0 in queue, 21 running] Finished simple_cycpep_predict_nterm_isopeptide_lariat_tailless in 825 seconds [~ 803 test (100.0%) started, 0 in queue, 20 running] Finished simple_cycpep_predict_thioether_lariat in 839 seconds [~ 803 test (100.0%) started, 0 in queue, 19 running] dumping features_IntegrationTest.db3_1 ... dumping features_IntegrationTest.db3_2 ... merging dumps ... off exclusive analyzing database ... Finished features_pdb_mpi in 842 seconds [~ 803 test (100.0%) started, 0 in queue, 18 running] Finished simple_cycpep_predict_nterm_isopeptide_lariat in 851 seconds [~ 803 test (100.0%) started, 0 in queue, 17 running] Finished recon_design_mpi in 855 seconds [~ 803 test (100.0%) started, 0 in queue, 16 running] Finished mpi_simple_cycpep_predict_4level in 863 seconds [~ 803 test (100.0%) started, 0 in queue, 15 running] Finished mpi_simple_cycpep_predict in 896 seconds [~ 803 test (100.0%) started, 0 in queue, 14 running] Finished simple_cycpep_predict_beta_thioether_lariat in 956 seconds [~ 803 test (100.0%) started, 0 in queue, 13 running] Finished mpi_simple_cycpep_predict_computing_pnear_to_all in 1011 seconds [~ 803 test (100.0%) started, 0 in queue, 12 running] Finished database_md5 in 755 seconds [~ 803 test (100.0%) started, 0 in queue, 11 running] Finished simple_cycpep_predict_bondangle_bondlength in 1054 seconds [~ 803 test (100.0%) started, 0 in queue, 10 running] Finished threefold_symm_peptide_design in 748 seconds [~ 803 test (100.0%) started, 0 in queue, 9 running] Finished simple_cycpep_predict_terminal_disulfide_tails_2 in 1136 seconds [~ 803 test (100.0%) started, 0 in queue, 8 running] Finished backbonegridsampler_nstruct_mode in 447 seconds [~ 803 test (100.0%) started, 0 in queue, 7 running] Finished simple_cycpep_predict_design in 489 seconds [~ 803 test (100.0%) started, 0 in queue, 6 running] ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** See LICENSE.md or email license@uw.edu for more details. ********** ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** See LICENSE.md or email license@uw.edu for more details. ********** ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** See LICENSE.md or email license@uw.edu for more details. ********** ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** See LICENSE.md or email license@uw.edu for more details. ********** Finished helical_bundle_predict_skipping_residues in 1385 seconds [~ 803 test (100.0%) started, 0 in queue, 5 running] ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** See LICENSE.md or email license@uw.edu for more details. ********** ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** See LICENSE.md or email license@uw.edu for more details. ********** ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** See LICENSE.md or email license@uw.edu for more details. ********** ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** See LICENSE.md or email license@uw.edu for more details. ********** Finished helical_bundle_predict in 1422 seconds [~ 803 test (100.0%) started, 0 in queue, 4 running] ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** See LICENSE.md or email license@uw.edu for more details. ********** ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** See LICENSE.md or email license@uw.edu for more details. ********** ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** See LICENSE.md or email license@uw.edu for more details. ********** ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** See LICENSE.md or email license@uw.edu for more details. ********** Finished helical_bundle_predict_sequence in 1423 seconds [~ 803 test (100.0%) started, 0 in queue, 3 running] ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** See LICENSE.md or email license@uw.edu for more details. ********** ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** See LICENSE.md or email license@uw.edu for more details. ********** ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** See LICENSE.md or email license@uw.edu for more details. ********** ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** See LICENSE.md or email license@uw.edu for more details. ********** Finished helical_bundle_predict_psipred_with_helix_globals in 1569 seconds [~ 803 test (100.0%) started, 0 in queue, 2 running] ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** See LICENSE.md or email license@uw.edu for more details. ********** ******** See LICENSE.md or email license@uw.edu for more details. ********** ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** See LICENSE.md or email license@uw.edu for more details. ********** ******** (C) Copyright Rosetta Commons Member Institutions. *************** * Use of Rosetta for commercial purposes may require purchase of a license. * ******** See LICENSE.md or email license@uw.edu for more details. ********** Finished helical_bundle_predict_psipred in 1608 seconds [~ 803 test (100.0%) started, 0 in queue, 1 running] *** Test replica_docking exceeded the timeout=3600 and will be killed! [2024-11-11 18:53:23.702082] Finished replica_docking in 3600 seconds [~ 803 test (100.0%) started, 0 in queue, 0 running] Skipping comparison/analysis phase because command line option "--skip-comparison" was specified... Missing new/runtimes.yaml ──────────────── 'hojo-2' comparing commits:20608 linux.gcc.mpi.serialization.integration.mpi test_id=845957 vs. main:62138 previous_test_id=845091 ────────────────
Brief Diff: Files /home/benchmark/working_dir/main:62138/replica_docking/log and /home/benchmark/working_dir/commits:20608/replica_docking/log differ Files /home/benchmark/working_dir/main:62138/replica_docking/logs/log_0 and /home/benchmark/working_dir/commits:20608/replica_docking/logs/log_0 differ Files /home/benchmark/working_dir/main:62138/replica_docking/logs/log_1 and /home/benchmark/working_dir/commits:20608/replica_docking/logs/log_1 differ Files /home/benchmark/working_dir/main:62138/replica_docking/logs/log_2 and /home/benchmark/working_dir/commits:20608/replica_docking/logs/log_2 differ Files /home/benchmark/working_dir/main:62138/replica_docking/logs/log_3 and /home/benchmark/working_dir/commits:20608/replica_docking/logs/log_3 differ Files /home/benchmark/working_dir/main:62138/replica_docking/.test_got_timeout_kill.log and /home/benchmark/working_dir/commits:20608/replica_docking/.test_got_timeout_kill.log differ Full Diff: diff -r '--exclude=command.sh' '--exclude=command.mpi.sh' '--exclude=observers' '--exclude=*.ignore' /home/benchmark/working_dir/main:62138/replica_docking/log /home/benchmark/working_dir/commits:20608/replica_docking/log 1a2 > ******** (C) Copyright Rosetta Commons Member Institutions. *************** 4d4 < ******** (C) Copyright Rosetta Commons Member Institutions. *************** 14c14 < mpirun noticed that process rank 1 with PID 1977804 on node nobu-1 exited on signal 9 (Killed). --- > mpirun noticed that process rank 3 with PID 1174007 on node hojo-2 exited on signal 9 (Killed). diff -r '--exclude=command.sh' '--exclude=command.mpi.sh' '--exclude=observers' '--exclude=*.ignore' /home/benchmark/working_dir/main:62138/replica_docking/logs/log_0 /home/benchmark/working_dir/commits:20608/replica_docking/logs/log_0 1c1 < core.init: (0) Rosetta version: 2024.42.post.dev+4.HEAD.9488241 9488241768c837909eeb29965b890f877beed822 git@github.com:RosettaCommons/rosetta.git 2024-10-28T10:44:49 --- > core.init: (0) Rosetta version: 2024.42.post.dev+23.HEAD.d3eb73f d3eb73fd8f34c6c60f020cab28136200449e9392 git@github.com:RosettaCommons/rosetta.git 2024-11-11T17:11:43 10c10 < core.chemical.GlobalResidueTypeSet: (0) Total time to initialize 6.69 seconds. --- > core.chemical.GlobalResidueTypeSet: (0) Total time to initialize 7.51 seconds. diff -r '--exclude=command.sh' '--exclude=command.mpi.sh' '--exclude=observers' '--exclude=*.ignore' /home/benchmark/working_dir/main:62138/replica_docking/logs/log_1 /home/benchmark/working_dir/commits:20608/replica_docking/logs/log_1 1c1 < core.init: (1) Rosetta version: 2024.42.post.dev+4.HEAD.9488241 9488241768c837909eeb29965b890f877beed822 git@github.com:RosettaCommons/rosetta.git 2024-10-28T10:44:49 --- > core.init: (1) Rosetta version: 2024.42.post.dev+23.HEAD.d3eb73f d3eb73fd8f34c6c60f020cab28136200449e9392 git@github.com:RosettaCommons/rosetta.git 2024-11-11T17:11:43 10c10 < core.chemical.GlobalResidueTypeSet: (1) Total time to initialize 6.72 seconds. --- > core.chemical.GlobalResidueTypeSet: (1) Total time to initialize 7.55 seconds. diff -r '--exclude=command.sh' '--exclude=command.mpi.sh' '--exclude=observers' '--exclude=*.ignore' /home/benchmark/working_dir/main:62138/replica_docking/logs/log_2 /home/benchmark/working_dir/commits:20608/replica_docking/logs/log_2 1c1 < core.init: (2) Rosetta version: 2024.42.post.dev+4.HEAD.9488241 9488241768c837909eeb29965b890f877beed822 git@github.com:RosettaCommons/rosetta.git 2024-10-28T10:44:49 --- > core.init: (2) Rosetta version: 2024.42.post.dev+23.HEAD.d3eb73f d3eb73fd8f34c6c60f020cab28136200449e9392 git@github.com:RosettaCommons/rosetta.git 2024-11-11T17:11:43 10c10 < core.chemical.GlobalResidueTypeSet: (2) Total time to initialize 6.68 seconds. --- > core.chemical.GlobalResidueTypeSet: (2) Total time to initialize 7.53 seconds. 78c78 < core.pack.dunbrack.RotamerLibrary: (2) Dunbrack 2010 library took 153.53 seconds to load from ASCII --- > core.pack.dunbrack.RotamerLibrary: (2) Dunbrack 2010 library took 165.65 seconds to load from ASCII diff -r '--exclude=command.sh' '--exclude=command.mpi.sh' '--exclude=observers' '--exclude=*.ignore' /home/benchmark/working_dir/main:62138/replica_docking/logs/log_3 /home/benchmark/working_dir/commits:20608/replica_docking/logs/log_3 1c1 < core.init: (3) Rosetta version: 2024.42.post.dev+4.HEAD.9488241 9488241768c837909eeb29965b890f877beed822 git@github.com:RosettaCommons/rosetta.git 2024-10-28T10:44:49 --- > core.init: (3) Rosetta version: 2024.42.post.dev+23.HEAD.d3eb73f d3eb73fd8f34c6c60f020cab28136200449e9392 git@github.com:RosettaCommons/rosetta.git 2024-11-11T17:11:43 10c10 < core.chemical.GlobalResidueTypeSet: (3) Total time to initialize 6.73 seconds. --- > core.chemical.GlobalResidueTypeSet: (3) Total time to initialize 7.55 seconds. 78c78 < core.pack.dunbrack.RotamerLibrary: (3) Dunbrack 2010 library took 150.45 seconds to load from ASCII --- > core.pack.dunbrack.RotamerLibrary: (3) Dunbrack 2010 library took 166.68 seconds to load from ASCII 98a99,101 > core.pack.dunbrack.RotamerLibrary: (3) Random tempname will be: ROSETTA/.database-binaries/mpiserialization.linuxgccrelease_debug/rotamer/shapovalov/StpDwn_0-0-0/dun10_binaryGIIV2L5N > core.pack.dunbrack.RotamerLibrary: (3) Opening file ROSETTA/.database-binaries/mpiserialization.linuxgccrelease_debug/rotamer/shapovalov/StpDwn_0-0-0/dun10_binaryGIIV2L5N for output. > core.pack.dunbrack.RotamerLibrary: (3) Moving temporary file to ROSETTA/.database-binaries/mpiserialization.linuxgccrelease_debug/rotamer/shapovalov/StpDwn_0-0-0/Dunbrack10.lib.bin diff -r '--exclude=command.sh' '--exclude=command.mpi.sh' '--exclude=observers' '--exclude=*.ignore' /home/benchmark/working_dir/main:62138/replica_docking/.test_got_timeout_kill.log /home/benchmark/working_dir/commits:20608/replica_docking/.test_got_timeout_kill.log 1c1 < *** Test replica_docking exceeded the timeout=3600 and will be killed! [2024-10-28 14:39:31.371501] --- > *** Test replica_docking exceeded the timeout=3600 and will be killed! [2024-11-11 18:53:23.702082] Compare(...): Marking as "Script failed" due to presense of .test_did_not_run.log or .test_got_timeout_kill.log file!
{ "compared_with_test": { "full_name": "linux.gcc.mpi.serialization.integration.mpi", "name": "integration.mpi", "platform": { "compiler": "gcc", "extras": [ "mpi", "serialization" ], "os": "linux" }, "platform_as_string": "linux.gcc.mpi.serialization", "revision": { "branch": "main", "revision_id": 62138 }, "state": "failed", "test_id": 845091 }, "summary": { "failed": 1, "failed_tests": [ "replica_docking" ], "total": 28 }, "tests": { "backbonegridsampler_nstruct_mode": { "log": "", "state": "passed" }, "database_md5": { "log": "", "state": "passed" }, "features_pdb_mpi": { "log": "", "state": "passed" }, "helical_bundle_predict": { "log": "", "state": "passed" }, "helical_bundle_predict_psipred": { "log": "", "state": "passed" }, "helical_bundle_predict_psipred_with_helix_globals": { "log": "", "state": "passed" }, "helical_bundle_predict_sequence": { "log": "", "state": "passed" }, "helical_bundle_predict_skipping_residues": { "log": "", "state": "passed" }, "mpi_simple_cycpep_predict": { "log": "", "state": "passed" }, "mpi_simple_cycpep_predict_4level": { "log": "", "state": "passed" }, "mpi_simple_cycpep_predict_computing_pnear_to_all": { "log": "", "state": "passed" }, "recon_design_mpi": { "log": "", "state": "passed" }, "replica_docking": { "log": "Brief Diff:\nFiles /home/benchmark/working_dir/main:62138/replica_docking/log and /home/benchmark/working_dir/commits:20608/replica_docking/log differ\r\nFiles /home/benchmark/working_dir/main:62138/replica_docking/logs/log_0 and /home/benchmark/working_dir/commits:20608/replica_docking/logs/log_0 differ\r\nFiles /home/benchmark/working_dir/main:62138/replica_docking/logs/log_1 and /home/benchmark/working_dir/commits:20608/replica_docking/logs/log_1 differ\r\nFiles /home/benchmark/working_dir/main:62138/replica_docking/logs/log_2 and /home/benchmark/working_dir/commits:20608/replica_docking/logs/log_2 differ\r\nFiles /home/benchmark/working_dir/main:62138/replica_docking/logs/log_3 and /home/benchmark/working_dir/commits:20608/replica_docking/logs/log_3 differ\r\nFiles /home/benchmark/working_dir/main:62138/replica_docking/.test_got_timeout_kill.log and /home/benchmark/working_dir/commits:20608/replica_docking/.test_got_timeout_kill.log differ\r\n\n\nFull Diff:\ndiff -r '--exclude=command.sh' '--exclude=command.mpi.sh' '--exclude=observers' '--exclude=*.ignore' /home/benchmark/working_dir/main:62138/replica_docking/log /home/benchmark/working_dir/commits:20608/replica_docking/log\r\n1a2\r\n> ******** (C) Copyright Rosetta Commons Member Institutions. ***************\r\n4d4\r\n< ******** (C) Copyright Rosetta Commons Member Institutions. ***************\r\n14c14\r\n< mpirun noticed that process rank 1 with PID 1977804 on node nobu-1 exited on signal 9 (Killed).\r\n---\r\n> mpirun noticed that process rank 3 with PID 1174007 on node hojo-2 exited on signal 9 (Killed).\r\ndiff -r '--exclude=command.sh' '--exclude=command.mpi.sh' '--exclude=observers' '--exclude=*.ignore' /home/benchmark/working_dir/main:62138/replica_docking/logs/log_0 /home/benchmark/working_dir/commits:20608/replica_docking/logs/log_0\r\n1c1\r\n< core.init: (0) Rosetta version: 2024.42.post.dev+4.HEAD.9488241 9488241768c837909eeb29965b890f877beed822 git@github.com:RosettaCommons/rosetta.git 2024-10-28T10:44:49\r\n---\r\n> core.init: (0) Rosetta version: 2024.42.post.dev+23.HEAD.d3eb73f d3eb73fd8f34c6c60f020cab28136200449e9392 git@github.com:RosettaCommons/rosetta.git 2024-11-11T17:11:43\r\n10c10\r\n< core.chemical.GlobalResidueTypeSet: (0) Total time to initialize 6.69 seconds.\r\n---\r\n> core.chemical.GlobalResidueTypeSet: (0) Total time to initialize 7.51 seconds.\r\ndiff -r '--exclude=command.sh' '--exclude=command.mpi.sh' '--exclude=observers' '--exclude=*.ignore' /home/benchmark/working_dir/main:62138/replica_docking/logs/log_1 /home/benchmark/working_dir/commits:20608/replica_docking/logs/log_1\r\n1c1\r\n< core.init: (1) Rosetta version: 2024.42.post.dev+4.HEAD.9488241 9488241768c837909eeb29965b890f877beed822 git@github.com:RosettaCommons/rosetta.git 2024-10-28T10:44:49\r\n---\r\n> core.init: (1) Rosetta version: 2024.42.post.dev+23.HEAD.d3eb73f d3eb73fd8f34c6c60f020cab28136200449e9392 git@github.com:RosettaCommons/rosetta.git 2024-11-11T17:11:43\r\n10c10\r\n< core.chemical.GlobalResidueTypeSet: (1) Total time to initialize 6.72 seconds.\r\n---\r\n> core.chemical.GlobalResidueTypeSet: (1) Total time to initialize 7.55 seconds.\r\ndiff -r '--exclude=command.sh' '--exclude=command.mpi.sh' '--exclude=observers' '--exclude=*.ignore' /home/benchmark/working_dir/main:62138/replica_docking/logs/log_2 /home/benchmark/working_dir/commits:20608/replica_docking/logs/log_2\r\n1c1\r\n< core.init: (2) Rosetta version: 2024.42.post.dev+4.HEAD.9488241 9488241768c837909eeb29965b890f877beed822 git@github.com:RosettaCommons/rosetta.git 2024-10-28T10:44:49\r\n---\r\n> core.init: (2) Rosetta version: 2024.42.post.dev+23.HEAD.d3eb73f d3eb73fd8f34c6c60f020cab28136200449e9392 git@github.com:RosettaCommons/rosetta.git 2024-11-11T17:11:43\r\n10c10\r\n< core.chemical.GlobalResidueTypeSet: (2) Total time to initialize 6.68 seconds.\r\n---\r\n> core.chemical.GlobalResidueTypeSet: (2) Total time to initialize 7.53 seconds.\r\n78c78\r\n< core.pack.dunbrack.RotamerLibrary: (2) Dunbrack 2010 library took 153.53 seconds to load from ASCII\r\n---\r\n> core.pack.dunbrack.RotamerLibrary: (2) Dunbrack 2010 library took 165.65 seconds to load from ASCII\r\ndiff -r '--exclude=command.sh' '--exclude=command.mpi.sh' '--exclude=observers' '--exclude=*.ignore' /home/benchmark/working_dir/main:62138/replica_docking/logs/log_3 /home/benchmark/working_dir/commits:20608/replica_docking/logs/log_3\r\n1c1\r\n< core.init: (3) Rosetta version: 2024.42.post.dev+4.HEAD.9488241 9488241768c837909eeb29965b890f877beed822 git@github.com:RosettaCommons/rosetta.git 2024-10-28T10:44:49\r\n---\r\n> core.init: (3) Rosetta version: 2024.42.post.dev+23.HEAD.d3eb73f d3eb73fd8f34c6c60f020cab28136200449e9392 git@github.com:RosettaCommons/rosetta.git 2024-11-11T17:11:43\r\n10c10\r\n< core.chemical.GlobalResidueTypeSet: (3) Total time to initialize 6.73 seconds.\r\n---\r\n> core.chemical.GlobalResidueTypeSet: (3) Total time to initialize 7.55 seconds.\r\n78c78\r\n< core.pack.dunbrack.RotamerLibrary: (3) Dunbrack 2010 library took 150.45 seconds to load from ASCII\r\n---\r\n> core.pack.dunbrack.RotamerLibrary: (3) Dunbrack 2010 library took 166.68 seconds to load from ASCII\r\n98a99,101\r\n> core.pack.dunbrack.RotamerLibrary: (3) Random tempname will be: ROSETTA/.database-binaries/mpiserialization.linuxgccrelease_debug/rotamer/shapovalov/StpDwn_0-0-0/dun10_binaryGIIV2L5N\r\n> core.pack.dunbrack.RotamerLibrary: (3) Opening file ROSETTA/.database-binaries/mpiserialization.linuxgccrelease_debug/rotamer/shapovalov/StpDwn_0-0-0/dun10_binaryGIIV2L5N for output.\r\n> core.pack.dunbrack.RotamerLibrary: (3) Moving temporary file to ROSETTA/.database-binaries/mpiserialization.linuxgccrelease_debug/rotamer/shapovalov/StpDwn_0-0-0/Dunbrack10.lib.bin\r\ndiff -r '--exclude=command.sh' '--exclude=command.mpi.sh' '--exclude=observers' '--exclude=*.ignore' /home/benchmark/working_dir/main:62138/replica_docking/.test_got_timeout_kill.log /home/benchmark/working_dir/commits:20608/replica_docking/.test_got_timeout_kill.log\r\n1c1\r\n< *** Test replica_docking exceeded the timeout=3600 and will be killed! [2024-10-28 14:39:31.371501]\r\n---\r\n> *** Test replica_docking exceeded the timeout=3600 and will be killed! [2024-11-11 18:53:23.702082]\r\n\nCompare(...): Marking as \"Script failed\" due to presense of .test_did_not_run.log or .test_got_timeout_kill.log file!\n", "state": "script failed" }, "simple_cycpep_predict_beta_thioether_lariat": { "log": "", "state": "passed" }, "simple_cycpep_predict_bondangle_bondlength": { "log": "", "state": "passed" }, "simple_cycpep_predict_cterm_isopeptide_lariat": { "log": "", "state": "passed" }, "simple_cycpep_predict_cterm_isopeptide_lariat_tailless": { "log": "", "state": "passed" }, "simple_cycpep_predict_design": { "log": "", "state": "passed" }, "simple_cycpep_predict_lanthionine": { "log": "", "state": "passed" }, "simple_cycpep_predict_nterm_isopeptide_lariat": { "log": "", "state": "passed" }, "simple_cycpep_predict_nterm_isopeptide_lariat_tailless": { "log": "", "state": "passed" }, "simple_cycpep_predict_sidechain_isopeptide": { "log": "", "state": "passed" }, "simple_cycpep_predict_sidechain_isopeptide_reverse": { "log": "", "state": "passed" }, "simple_cycpep_predict_terminal_disulfide": { "log": "", "state": "passed" }, "simple_cycpep_predict_terminal_disulfide_tails": { "log": "", "state": "passed" }, "simple_cycpep_predict_terminal_disulfide_tails_2": { "log": "", "state": "passed" }, "simple_cycpep_predict_thioether_lariat": { "log": "", "state": "passed" }, "threefold_symm_peptide_design": { "log": "", "state": "passed" } } }