Compiling: find bin -type l ! -name ".*" -exec rm {} \; ; /home/benchmark/prefix/sokudo-1/linux/python-3.9.gcc/99a1a29fd465f86265a7c5b92d75dbcd/bin/python3.9 ./scons.py bin mode=release cxx=clang extras= -j4
Running: /home/benchmark/rosetta/source/bin/performance_benchmark.default.linuxclangrelease -database /home/benchmark/rosetta/database -benchmark_scale 64 -mute core protocols -in:file:extra_res_path extra_params >/home/benchmark/working_dir/_performance_.log 2>&1
basic.random.init_random_generator: 'RNG device' seed mode, using '/dev/urandom', seed=-986814446 seed_offset=0 real_seed=-986814446
basic.random.init_random_generator: RandomGenerator:init: Normal mode, seed=-986814446 RG_type=mt19937
benchmark: Performance Benchmark started! Scale factor: 64 -------------
benchmark:
benchmark: Executing all benchmarks...
benchmark:
benchmark: Setting up protocols_docking_DockingHighRes...
basic.random.init_random_generator: Constant seed mode, seed=1111111 seed_offset=0 real_seed=1111111
basic.random.init_random_generator: RandomGenerator:init: Normal mode, seed=1111111 RG_type=mt19937
basic.io.database: Database file opened: scoring/score_functions/hbonds/ref2015_params/HBPoly1D.csv
basic.io.database: Database file opened: scoring/score_functions/hbonds/ref2015_params/HBFadeIntervals.csv
basic.io.database: Database file opened: scoring/score_functions/hbonds/ref2015_params/HBEval.csv
basic.io.database: Database file opened: scoring/score_functions/hbonds/ref2015_params/DonStrength.csv
basic.io.database: Database file opened: scoring/score_functions/hbonds/ref2015_params/AccStrength.csv
basic.io.database: Database file opened: scoring/score_functions/rama/fd/all.ramaProb
basic.io.database: Database file opened: scoring/score_functions/rama/fd/prepro.ramaProb
basic.io.database: Database file opened: scoring/score_functions/omega/omega_ppdep.all.txt
basic.io.database: Database file opened: scoring/score_functions/omega/omega_ppdep.gly.txt
basic.io.database: Database file opened: scoring/score_functions/omega/omega_ppdep.pro.txt
basic.io.database: Database file opened: scoring/score_functions/omega/omega_ppdep.valile.txt
basic.io.database: Database file opened: scoring/score_functions/P_AA_pp/P_AA
basic.io.database: Database file opened: scoring/score_functions/P_AA_pp/P_AA_n
basic.io.database: Database file opened: scoring/score_functions/P_AA_pp/shapovalov/10deg/kappa131/a20.prop
basic.io.database: Database file opened: scoring/score_functions/elec_cp_reps.dat
basic.io.database: Database file opened: scoring/score_functions/InterchainPotential/interchain_env_log.txt
basic.io.database: Database file opened: scoring/score_functions/InterchainPotential/interchain_pair_log.txt
basic.io.database: Database file opened: scoring/score_functions/EnvPairPotential/env_log.txt
basic.io.database: Database file opened: scoring/score_functions/EnvPairPotential/cbeta_den.txt
basic.io.database: Database file opened: scoring/score_functions/EnvPairPotential/pair_log.txt
basic.io.database: Database file opened: scoring/score_functions/EnvPairPotential/cenpack_log.txt
...truncated...
basic.io.database: Database file opened: sampling/branch_angle/branch_angle_1.txt
basic.io.database: Database file opened: sampling/branch_angle/branch_angle_2.txt
basic.io.database: Database file opened: scoring/score_functions/P_AA_SS_cen6/P_AA_SS_cen6.txt
basic.io.database: Database file opened: protocol_data/crick_parameters/alpha_helix.crick_params
basic.io.database: Database file opened: protocol_data/crick_parameters/alpha_helix.crick_params
basic.io.database: Database file opened: sampling/branch_angle/branch_angle_1.txt
basic.io.database: Database file opened: sampling/branch_angle/branch_angle_2.txt
Preparing score function
score function done
basic.io.database: Database file opened: protocol_data/crick_parameters/alpha_helix.crick_params
basic.io.database: Database file opened: protocol_data/crick_parameters/alpha_helix.crick_params
basic.io.database: Database file opened: protocol_data/crick_parameters/alpha_helix.crick_params
basic.io.database: Database file opened: protocol_data/crick_parameters/alpha_helix.crick_params
devel.scientific_tests.PDBDiagnosticMover: PDBDiagnosticMover ctor
basic.io.database: Database file opened: sampling/branch_angle/branch_angle_1.txt
basic.io.database: Database file opened: sampling/branch_angle/branch_angle_2.txt
basic.io.database: Database file opened: scoring/score_functions/P_AA_SS_cen6/P_AA_SS_cen6.txt
basic.io.database: Database file opened: protocol_data/crick_parameters/alpha_helix.crick_params
basic.io.database: Database file opened: protocol_data/crick_parameters/alpha_helix.crick_params
basic.io.database: Database file opened: sampling/branch_angle/branch_angle_1.txt
basic.io.database: Database file opened: sampling/branch_angle/branch_angle_2.txt
Preparing score function
score function done
basic.io.database: Database file opened: protocol_data/crick_parameters/alpha_helix.crick_params
basic.io.database: Database file opened: protocol_data/crick_parameters/alpha_helix.crick_params
basic.io.database: Database file opened: protocol_data/crick_parameters/alpha_helix.crick_params
basic.io.database: Database file opened: protocol_data/crick_parameters/alpha_helix.crick_params
devel.scientific_tests.PDBDiagnosticMover: PDBDiagnosticMover ctor
basic.io.database: Database file opened: sampling/branch_angle/branch_angle_1.txt
basic.io.database: Database file opened: sampling/branch_angle/branch_angle_2.txt
basic.io.database: Database file opened: scoring/score_functions/P_AA_SS_cen6/P_AA_SS_cen6.txt
basic.io.database: Database file opened: protocol_data/crick_parameters/alpha_helix.crick_params
basic.io.database: Database file opened: protocol_data/crick_parameters/alpha_helix.crick_params
basic.io.database: Database file opened: sampling/branch_angle/branch_angle_1.txt
basic.io.database: Database file opened: sampling/branch_angle/branch_angle_2.txt
Preparing score function
score function done
basic.io.database: Database file opened: protocol_data/crick_parameters/alpha_helix.crick_params
basic.io.database: Database file opened: protocol_data/crick_parameters/alpha_helix.crick_params
basic.io.database: Database file opened: protocol_data/crick_parameters/alpha_helix.crick_params
basic.io.database: Database file opened: protocol_data/crick_parameters/alpha_helix.crick_params
devel.scientific_tests.PDBDiagnosticMover: PDBDiagnosticMover ctor
basic.io.database: Database file opened: sampling/branch_angle/branch_angle_1.txt
basic.io.database: Database file opened: sampling/branch_angle/branch_angle_2.txt
basic.io.database: Database file opened: scoring/score_functions/P_AA_SS_cen6/P_AA_SS_cen6.txt
benchmark: Running(U) instantiate_modules_movers... Done. Time: 64.0016. Times executed:7019
benchmark: Tear down instantiate_modules_movers...
benchmark: Tear down instantiate_modules_movers... Done.
benchmark:
benchmark: Setting up protocols_moves_ShearMover...
benchmark: Running(U) protocols_moves_ShearMover...
benchmark: Running(U) protocols_moves_ShearMover... Done. Time: 64.0467. Times executed:1068
benchmark: Tear down protocols_moves_ShearMover...
benchmark: Tear down protocols_moves_ShearMover... Done.
benchmark:
benchmark: Setting up basic_options_OptionCollection...
benchmark: Running(U) basic_options_OptionCollection...
benchmark: Running(U) basic_options_OptionCollection... Done. Time: 64.3044. Times executed:124
benchmark: Tear down basic_options_OptionCollection...
benchmark: Tear down basic_options_OptionCollection... Done.
benchmark:
benchmark: Setting up instantiate_modules_simple_metrics...
benchmark: Running(U) instantiate_modules_simple_metrics...
benchmark: Running(U) instantiate_modules_simple_metrics... Done. Time: 64.0002. Times executed:173309
benchmark: Tear down instantiate_modules_simple_metrics...
benchmark: Tear down instantiate_modules_simple_metrics... Done.
benchmark:
benchmark: Setting up protocols_optimization_Minimizer_dfpmin_armijo_nonmonotone...
benchmark: Running(U) protocols_optimization_Minimizer_dfpmin_armijo_nonmonotone...
benchmark: Running(U) protocols_optimization_Minimizer_dfpmin_armijo_nonmonotone... Done. Time: 66.2797. Times executed:14
benchmark: Tear down protocols_optimization_Minimizer_dfpmin_armijo_nonmonotone...
benchmark: Tear down protocols_optimization_Minimizer_dfpmin_armijo_nonmonotone... Done.
benchmark:
benchmark: Setting up instantiate_modules_packer_palettes...
benchmark: Running(U) instantiate_modules_packer_palettes...
benchmark: Running(U) instantiate_modules_packer_palettes... Done. Time: 64. Times executed:4051924
benchmark: Tear down instantiate_modules_packer_palettes...
benchmark: Tear down instantiate_modules_packer_palettes... Done.
benchmark:
benchmark: Setting up protocols_optimization_Minimizer_dfpmin_armijo...
benchmark: Running(U) protocols_optimization_Minimizer_dfpmin_armijo...
benchmark: Running(U) protocols_optimization_Minimizer_dfpmin_armijo... Done. Time: 64.3765. Times executed:17
benchmark: Tear down protocols_optimization_Minimizer_dfpmin_armijo...
benchmark: Tear down protocols_optimization_Minimizer_dfpmin_armijo... Done.
benchmark:
benchmark: Setting up core_scoring_Score...
benchmark: Running(U) core_scoring_Score...
benchmark: Running(U) core_scoring_Score... Done. Time: 64.0254. Times executed:1771
benchmark: Tear down core_scoring_Score...
benchmark: Tear down core_scoring_Score... Done.
benchmark:
benchmark: Setting up instantiate_modules_res_level_task_operations...
benchmark: Running(U) instantiate_modules_res_level_task_operations...
benchmark: Running(U) instantiate_modules_res_level_task_operations... Done. Time: 64. Times executed:42261305
benchmark: Tear down instantiate_modules_res_level_task_operations...
benchmark: Tear down instantiate_modules_res_level_task_operations... Done.
benchmark:
benchmark: Setting up protocols_moves_SmallMover...
benchmark: Running(U) protocols_moves_SmallMover...
benchmark: Running(U) protocols_moves_SmallMover... Done. Time: 64.0303. Times executed:1077
benchmark: Tear down protocols_moves_SmallMover...
benchmark: Tear down protocols_moves_SmallMover... Done.
benchmark:
benchmark:
benchmark: Executing all benchmarks... Done.
benchmark: Results:
benchmark: {
"basic_options_OptionCollection":{"run_time":64.304397, "cycles":124},
"core_scoring_Score":{"run_time":64.025421, "cycles":1771},
"protocols_moves_SmallMover":{"run_time":64.030293, "cycles":1077},
"protocols_moves_ShearMover":{"run_time":64.046721, "cycles":1068},
"protocols_optimization_Minimizer_dfpmin":{"run_time":71.667467, "cycles":8},
"protocols_optimization_Minimizer_dfpmin_armijo":{"run_time":64.376453, "cycles":17},
"protocols_optimization_Minimizer_dfpmin_armijo_nonmonotone":{"run_time":66.279675, "cycles":14},
"protocols_docking_DockingLowRes":{"run_time":67.005959, "cycles":14},
"protocols_docking_DockingHighRes":{"run_time":65.600228, "cycles":4},
"core_import_pose_pose_from_pdbstring":{"run_time":64.740354, "cycles":65},
"utility_tag_Tag_Create":{"run_time":64.066267, "cycles":677},
"instantiate_modules_movers":{"run_time":64.001565, "cycles":7019},
"instantiate_modules_filters":{"run_time":64.002992, "cycles":18318},
"instantiate_modules_task_operations":{"run_time":64.000157, "cycles":376663},
"instantiate_modules_res_level_task_operations":{"run_time":64.000002, "cycles":42261305},
"instantiate_modules_residue_selectors":{"run_time":64.000014, "cycles":2022106},
"instantiate_modules_simple_metrics":{"run_time":64.000154, "cycles":173309},
"instantiate_modules_packer_palettes":{"run_time":64.000014, "cycles":4051924}
}
benchmark: Performance Benchmark ended. --------------------------------
──────────────── 'takeshi' comparing commits:20529 linux.clang.performance test_id=839972 vs. main:62109 previous_test_id=827819 ────────────────
WARNING: Previous test results does not have `.execution.results.json` file, so comparison with None was performed instead!
WARNING: This can often be fixed by merging with the latest `main`.
WARNING: Overriding calculated test state `passed` → `failed`...
{
"compared_with_test": {
"full_name": "linux.clang.performance",
"name": "performance",
"platform": {
"compiler": "clang",
"extras": [],
"os": "linux"
},
"platform_as_string": "linux.clang",
"revision": {
"branch": "main",
"revision_id": 62109
},
"state": "passed",
"test_id": 827819
},
"plots": [
{
"data": [
{
"color": "#66f",
"legend": "cycles",
"y": "cycles"
}
],
"type": "sub_test:revision_value"
}
],
"summary": {
"failed": 0,
"failed_tests": [],
"total": 18
},
"tests": {
"basic_options_OptionCollection": {
"cycles": 124,
"log": "First run, no previous results available. Skipping comparison...\n",
"previous_values": null,
"run_time": 64.304397,
"state": "passed"
},
"core_import_pose_pose_from_pdbstring": {
"cycles": 65,
"log": "First run, no previous results available. Skipping comparison...\n",
"previous_values": null,
"run_time": 64.740354,
"state": "passed"
},
"core_scoring_Score": {
"cycles": 1771,
"log": "First run, no previous results available. Skipping comparison...\n",
"previous_values": null,
"run_time": 64.025421,
"state": "passed"
},
"instantiate_modules_filters": {
"cycles": 18318,
"log": "First run, no previous results available. Skipping comparison...\n",
"previous_values": null,
"run_time": 64.002992,
"state": "passed"
},
"instantiate_modules_movers": {
"cycles": 7019,
"log": "First run, no previous results available. Skipping comparison...\n",
"previous_values": null,
"run_time": 64.001565,
"state": "passed"
},
"instantiate_modules_packer_palettes": {
"cycles": 4051924,
"log": "First run, no previous results available. Skipping comparison...\n",
"previous_values": null,
"run_time": 64.000014,
"state": "passed"
},
"instantiate_modules_res_level_task_operations": {
"cycles": 42261305,
"log": "First run, no previous results available. Skipping comparison...\n",
"previous_values": null,
"run_time": 64.000002,
"state": "passed"
},
"instantiate_modules_residue_selectors": {
"cycles": 2022106,
"log": "First run, no previous results available. Skipping comparison...\n",
"previous_values": null,
"run_time": 64.000014,
"state": "passed"
},
"instantiate_modules_simple_metrics": {
"cycles": 173309,
"log": "First run, no previous results available. Skipping comparison...\n",
"previous_values": null,
"run_time": 64.000154,
"state": "passed"
},
"instantiate_modules_task_operations": {
"cycles": 376663,
"log": "First run, no previous results available. Skipping comparison...\n",
"previous_values": null,
"run_time": 64.000157,
"state": "passed"
},
"protocols_docking_DockingHighRes": {
"cycles": 4,
"log": "First run, no previous results available. Skipping comparison...\n",
"previous_values": null,
"run_time": 65.600228,
"state": "passed"
},
"protocols_docking_DockingLowRes": {
"cycles": 14,
"log": "First run, no previous results available. Skipping comparison...\n",
"previous_values": null,
"run_time": 67.005959,
"state": "passed"
},
"protocols_moves_ShearMover": {
"cycles": 1068,
"log": "First run, no previous results available. Skipping comparison...\n",
"previous_values": null,
"run_time": 64.046721,
"state": "passed"
},
"protocols_moves_SmallMover": {
"cycles": 1077,
"log": "First run, no previous results available. Skipping comparison...\n",
"previous_values": null,
"run_time": 64.030293,
"state": "passed"
},
"protocols_optimization_Minimizer_dfpmin": {
"cycles": 8,
"log": "First run, no previous results available. Skipping comparison...\n",
"previous_values": null,
"run_time": 71.667467,
"state": "passed"
},
"protocols_optimization_Minimizer_dfpmin_armijo": {
"cycles": 17,
"log": "First run, no previous results available. Skipping comparison...\n",
"previous_values": null,
"run_time": 64.376453,
"state": "passed"
},
"protocols_optimization_Minimizer_dfpmin_armijo_nonmonotone": {
"cycles": 14,
"log": "First run, no previous results available. Skipping comparison...\n",
"previous_values": null,
"run_time": 66.279675,
"state": "passed"
},
"utility_tag_Tag_Create": {
"cycles": 677,
"log": "First run, no previous results available. Skipping comparison...\n",
"previous_values": null,
"run_time": 64.066267,
"state": "passed"
}
}
}