core.init: Rosetta version: rosetta.binary.linux.release-171 r171 2018.09+release.333d996 333d99699777cd6a50d1c1736bacd689f8f1d1df https://www.rosettacommons.org 2018-02-27T09:57:00.705373 core.init: command: /home/ubuntu/rosetta/main/source/bin/rosetta_scripts.static.linuxgccrelease @flags -database /home/ubuntu/rosetta/main/database -nstruct 20 core.init: 'RNG device' seed mode, using '/dev/urandom', seed=-1672645855 seed_offset=0 real_seed=-1672645855 core.init.random: RandomGenerator:init: Normal mode, seed=-1672645855 RG_type=mt19937 protocols.evaluation.ChiWellRmsdEvaluatorCreator: Evaluation Creator active ... core.chemical.GlobalResidueTypeSet: Finished initializing centroid residue type set. Created 62 residue types core.chemical.GlobalResidueTypeSet: Total time to initialize 0.03 seconds. protocols.rosetta_scripts.RosettaScriptsParser: dock_design_filename=rosetta_cm.xml protocols.rosetta_scripts.RosettaScriptsParser: Generating XML Schema for rosetta_scripts... protocols.rosetta_scripts.RosettaScriptsParser: ...done protocols.rosetta_scripts.RosettaScriptsParser: Initializing schema validator... protocols.rosetta_scripts.RosettaScriptsParser: ...done protocols.rosetta_scripts.RosettaScriptsParser: Validating input script... protocols.rosetta_scripts.RosettaScriptsParser: ...done protocols.rosetta_scripts.RosettaScriptsParser: Parsed script: core.scoring.ScoreFunctionFactory: SCOREFUNCTION: beta_nov16_cart.wts core.scoring.etable: Starting energy table calculation core.scoring.etable: smooth_etable: changing atr/rep split to bottom of energy well core.scoring.etable: smooth_etable: spline smoothing lj etables (maxdis = 6) core.scoring.etable: smooth_etable: spline smoothing solvation etables (max_dis = 6) core.scoring.etable: Finished calculating energy tables. 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 core.chemical.GlobalResidueTypeSet: Finished initializing fa_standard residue type set. Created 603 residue types core.chemical.GlobalResidueTypeSet: Total time to initialize 0.69 seconds. 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 core.scoring.P_AA: shapovalov_lib::shap_p_aa_pp_smooth_level of 1( aka low_smooth ) got activated. 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/bondlength_bondangle/hydroxyl_torsion_preference.txt core.chemical.GlobalResidueTypeSet: [ WARNING ] Could not find: '##' in pdb components files [chemical/pdb_components/components.Nov01_2017.A_to_C.cif, chemical/pdb_components/components.Nov01_2017.D_to_Z.cif]! Skipping residue... core.chemical.GlobalResidueTypeSet: [ WARNING ] Could not find: '##' in pdb components files [chemical/pdb_components/components.Nov01_2017.A_to_C.cif, chemical/pdb_components/components.Nov01_2017.D_to_Z.cif]! Skipping residue... core.chemical.GlobalResidueTypeSet: [ WARNING ] Could not find: '##' in pdb components files [chemical/pdb_components/components.Nov01_2017.A_to_C.cif, chemical/pdb_components/components.Nov01_2017.D_to_Z.cif]! Skipping residue... core.chemical.GlobalResidueTypeSet: [ WARNING ] Could not find: '##' in pdb components files [chemical/pdb_components/components.Nov01_2017.A_to_C.cif, chemical/pdb_components/components.Nov01_2017.D_to_Z.cif]! Skipping residue... core.chemical.GlobalResidueTypeSet: [ WARNING ] Could not find: '#' in pdb components files [chemical/pdb_components/components.Nov01_2017.A_to_C.cif, chemical/pdb_components/components.Nov01_2017.D_to_Z.cif]! Skipping residue... core.scoring.CartesianBondedEnergy: Initializing IdealParametersDatabase with default Ks=300 , 80 , 20 , 10 , 40 basic.io.database: Database file opened: scoring/score_functions/bondlength_bondangle/default-lengths.txt core.scoring.CartesianBondedEnergy: Read 757 bb-independent lengths. basic.io.database: Database file opened: scoring/score_functions/bondlength_bondangle/default-angles.txt core.scoring.CartesianBondedEnergy: Read 1454 bb-independent angles. basic.io.database: Database file opened: scoring/score_functions/bondlength_bondangle/default-torsions.txt core.scoring.CartesianBondedEnergy: Read 1 bb-independent torsions. basic.io.database: Database file opened: scoring/score_functions/bondlength_bondangle/default-improper.txt core.scoring.CartesianBondedEnergy: Read 2197 bb-independent improper tors. core.scoring.etable: Starting energy table calculation core.scoring.etable: smooth_etable: changing atr/rep split to bottom of energy well core.scoring.etable: smooth_etable: spline smoothing lj etables (maxdis = 6) core.scoring.etable: smooth_etable: spline smoothing solvation etables (max_dis = 6) core.scoring.etable: Finished calculating energy tables. basic.io.database: Database file opened: scoring/score_functions/PairEPotential/pdb_pair_stats_fine 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 core.scoring.ramachandran: shapovalov_lib::shap_rama_smooth_level of 4( aka highest_smooth ) got activated. basic.io.database: Database file opened: scoring/score_functions/rama/shapovalov/kappa25/all.ramaProb basic.io.database: Database file opened: scoring/score_functions/SecondaryStructurePotential/phi.theta.36.HS.resmooth basic.io.database: Database file opened: scoring/score_functions/SecondaryStructurePotential/phi.theta.36.SS.resmooth protocols.jd2.parser.ScoreFunctionLoader: defined score function "stage1" with weights "score3" protocols.jd2.parser.ScoreFunctionLoader: setting stage1 weight atom_pair_constraint to 0.1 basic.io.database: Database file opened: scoring/score_functions/centroid_smooth/cen_smooth_params.txt protocols.jd2.parser.ScoreFunctionLoader: defined score function "stage2" with weights "score4_smooth_cart" protocols.jd2.parser.ScoreFunctionLoader: setting stage2 weight atom_pair_constraint to 0.1 protocols.jd2.parser.ScoreFunctionLoader: defined score function "fullatom" with weights "beta_cart" protocols.jd2.parser.ScoreFunctionLoader: setting fullatom weight atom_pair_constraint to 0.1 core.scoring.ScoreFunctionFactory: SCOREFUNCTION: beta_nov16_cart.wts protocols.rosetta_scripts.RosettaScriptsParser: Defined mover named "hybridize" of type Hybridize protocols.rosetta_scripts.ParsedProtocol: ParsedProtocol mover with the following movers and filters protocols.rosetta_scripts.ParsedProtocol: added mover "hybridize" with filter "true_filter" protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= core.fragment.picking_old.vall.vall_io: Reading Vall library from /home/ubuntu/rosetta/main/database//sampling/filtered.vall.dat.2006-05-05 ... core.fragment.picking_old.vall.vall_io: 100000 core.fragment.picking_old.vall.vall_io: 200000 core.fragment.picking_old.vall.vall_io: 300000 core.fragment.picking_old.vall.vall_io: 400000 core.fragment.picking_old.vall.vall_io: 500000 core.fragment.picking_old.vall.vall_io: 600000 core.fragment.picking_old.vall.vall_io: 700000 core.fragment.picking_old.vall.vall_io: 800000 core.fragment.picking_old.vall.vall_io: 900000 core.fragment.picking_old.vall.vall_io: 1000000 core.fragment.picking_old.vall.vall_io: 1100000 core.fragment.picking_old.vall.vall_io: 1200000 core.fragment.picking_old.vall.vall_io: 1300000 core.fragment.picking_old.vall.vall_io: 1400000 core.fragment.picking_old.vall.vall_io: ... done. Read 1400124 lines. Time elapsed: 8 seconds. core.fragment.picking_old.vall.vall_io: Prior library contained 0 sections totaling 0 residues. core.fragment.picking_old.vall.vall_io: Added 62471 sections to library totaling 1400124 residues. core.fragment.picking_old.vall.eval.IdentityEval: ss = DDDDDDDDD | aa = NDHRYRRFT core.fragment.picking_old.vall.VallLibrarian: best fragment: score = 3.00078 core.fragment.picking_old.vall.VallLibrarian: worst fragment: score = 5.00004 core.fragment.picking_old.vall.eval.IdentityEval: ss = DDDDDDDDD | aa = DHRYRRFTQ core.fragment.picking_old.vall.VallLibrarian: best fragment: score = 4.00004 core.fragment.picking_old.vall.VallLibrarian: worst fragment: score = 5.00004 core.fragment.picking_old.vall.eval.IdentityEval: ss = DDDDDDDDD | aa = HRYRRFTQL core.fragment.picking_old.vall.VallLibrarian: best fragment: score = 4.00009 core.fragment.picking_old.vall.VallLibrarian: worst fragment: score = 4.0007 core.fragment.picking_old.vall.eval.IdentityEval: ss = DDDDDDDDD | aa = RYRRFTQLP core.fragment.picking_old.vall.VallLibrarian: best fragment: score = 3.00035 core.fragment.picking_old.vall.VallLibrarian: worst fragment: score = 4.00047 core.fragment.picking_old.vall.eval.IdentityEval: ss = DDDDDDDDD | aa = YRRFTQLPN core.fragment.picking_old.vall.VallLibrarian: best fragment: score = 3.00021 core.fragment.picking_old.vall.VallLibrarian: worst fragment: score = 4.0007 core.fragment.picking_old.vall.eval.IdentityEval: ss = DDDDDDDDD | aa = RRFTQLPNG core.fragment.picking_old.vall.VallLibrarian: best fragment: score = 3.00057 core.fragment.picking_old.vall.VallLibrarian: worst fragment: score = 4.00041 core.fragment.picking_old.vall.eval.IdentityEval: ss = DDDDDDDDD | aa = RFTQLPNGR core.fragment.picking_old.vall.VallLibrarian: best fragment: score = 3.00012 core.fragment.picking_old.vall.VallLibrarian: worst fragment: score = 4.00033 core.fragment.picking_old.vall.eval.IdentityEval: ss = DDDDDDDDD | aa = FTQLPNGRD core.fragment.picking_old.vall.VallLibrarian: best fragment: score = 3.00001 core.fragment.picking_old.vall.VallLibrarian: worst fragment: score = 4.00056 core.fragment.picking_old.vall.eval.IdentityEval: ss = DDDDDDDDD | aa = TQLPNGRDY core.fragment.picking_old.vall.VallLibrarian: best fragment: score = 3.00015 core.fragment.picking_old.vall.VallLibrarian: worst fragment: score = 4.00034 core.fragment.picking_old.vall.eval.IdentityEval: ss = DDDDDDDDD | aa = QLPNGRDYH core.fragment.picking_old.vall.VallLibrarian: best fragment: score = 3.0004 core.fragment.picking_old.vall.VallLibrarian: worst fragment: score = 4.00059 core.fragment.picking_old.vall.eval.IdentityEval: ss = DDDDDDDDD | aa = LPNGRDYHY core.fragment.picking_old.vall.VallLibrarian: best fragment: score = 3.00009 core.fragment.picking_old.vall.VallLibrarian: worst fragment: score = 4.00066 core.fragment.picking_old.vall.eval.IdentityEval: ss = DDDDDDDDD | aa = PNGRDYHYS core.fragment.picking_old.vall.VallLibrarian: best fragment: score = 3.00004 core.fragment.picking_old.vall.VallLibrarian: worst fragment: score = 4.00055 core.fragment.picking_old.vall.eval.IdentityEval: ss = DDDDDDDDD | aa = NGRDYHYSV core.fragment.picking_old.vall.VallLibrarian: best fragment: score = 3.00042 core.fragment.picking_old.vall.VallLibrarian: worst fragment: score = 4.00067 core.fragment.picking_old.vall.eval.IdentityEval: ss = DDDDDDDDD | aa = GRDYHYSVV core.fragment.picking_old.vall.VallLibrarian: best fragment: score = 3.00083 core.fragment.picking_old.vall.VallLibrarian: worst fragment: score = 4.0005 core.fragment.picking_old.vall.eval.IdentityEval: ss = DDDDDDDDD | aa = RDYHYSVVG core.fragment.picking_old.vall.VallLibrarian: best fragment: score = 3.00014 core.fragment.picking_old.vall.VallLibrarian: worst fragment: score = 4.00082 core.fragment.picking_old.vall.eval.IdentityEval: ss = DDDDDDDDD | aa = DYHYSVVGP core.fragment.picking_old.vall.VallLibrarian: best fragment: score = 4.00002 core.fragment.picking_old.vall.VallLibrarian: worst fragment: score = 4.00061 core.fragment.picking_old.vall.eval.IdentityEval: ss = DDDDDDDDD | aa = YHYSVVGPE core.fragment.picking_old.vall.VallLibrarian: best fragment: score = 3.00024 core.fragment.picking_old.vall.VallLibrarian: worst fragment: score = 4.00048 core.fragment.picking_old.vall.eval.IdentityEval: ss = DDDDDDDDD | aa = HYSVVGPED core.fragment.picking_old.vall.VallLibrarian: best fragment: score = 3.0008 core.fragment.picking_old.vall.VallLibrarian: worst fragment: score = 4.00047 protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0001 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0001 reported failure and will NOT retry protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0002 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0002 reported failure and will NOT retry protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0003 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0003 reported failure and will NOT retry protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0004 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0004 reported failure and will NOT retry protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0005 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0005 reported failure and will NOT retry protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0006 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0006 reported failure and will NOT retry protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0007 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0007 reported failure and will NOT retry protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0008 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0008 reported failure and will NOT retry protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0009 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0009 reported failure and will NOT retry protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0010 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0010 reported failure and will NOT retry protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0011 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0011 reported failure and will NOT retry protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0012 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0012 reported failure and will NOT retry protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0013 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0013 reported failure and will NOT retry protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0014 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0014 reported failure and will NOT retry protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0015 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0015 reported failure and will NOT retry protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0016 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0016 reported failure and will NOT retry protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0017 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0017 reported failure and will NOT retry protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0018 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0018 reported failure and will NOT retry protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0019 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0019 reported failure and will NOT retry protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN MOVER Hybridize - hybridize======================= protocols.hybridization.HybridizeProtocol: FRAGMENTS small max length: 3 protocols.hybridization.HybridizeProtocol: FRAGMENTS big max length: 9 ERROR: Assertion `weights_.size()` failed. ERROR:: Exit from: src/numeric/random/WeightedSampler.cc line: 118 BACKTRACE: [0x58c6188] [0x574ee59] [0x1131fdb] [0x1132354] [0x3544771] [0x354593b] [0x35460be] [0x35aa058] [0x35abb61] [0x364e6d8] [0x410acb] [0x5e0bee4] [0x6151fd] protocols.rosetta_scripts.ParsedProtocol: [ ERROR ] Exception while processing procotol: File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] [ERROR] Exception caught by JobDistributor for job S_0020 File: src/numeric/random/WeightedSampler.cc:118 [ ERROR ] UtilityExitException ERROR: Assertion `weights_.size()` failed. protocols.jd2.JobDistributor: [ ERROR ] protocols.jd2.JobDistributor: [ WARNING ] S_0020 reported failure and will NOT retry protocols.jd2.JobDistributor: no more batches to process... protocols.jd2.JobDistributor: 20 jobs considered, 20 jobs attempted in 26 seconds Error: [ ERROR ] Exception caught by rosetta_scripts application: File: src/protocols/jd2/JobDistributor.cc:329 20 jobs failed; check output for error messages Error: [ ERROR ]