core.init: (0) Checking for fconfig files in pwd and ./rosetta/flags 
core.init: (0) Rosetta version: rosetta.binary.linux.release-243 r243 2020.03+release.f1c7e97 f1c7e97dda7fb7396c009a0e507f12e970b1a21d https://www.rosettacommons.org 2020-01-17T04:59:44.743008
core.init: (0) command: /home/apps/centos7/Rosetta/2020.03/main/source/bin/rosetta_scripts.mpi.linuxiccrelease -parser:protocol nothing.xml -s 2LUR0.pdb -nstruct 1 -overwrite
basic.random.init_random_generator: (0) 'RNG device' seed mode, using '/dev/urandom', seed=-292328847 seed_offset=0 real_seed=-292328847
basic.random.init_random_generator: (0) RandomGenerator:init: Normal mode, seed=-292328847 RG_type=mt19937
core.init: (0) Resolved executable path: /home/apps/centos7/Rosetta/2020.03/main/source/build/src/release/linux/3.10/64/x86/icc/19.0/mpi/rosetta_scripts.mpi.linuxiccrelease
core.init: (0) Looking for database based on location of executable: /home/apps/centos7/Rosetta/2020.03/main/database/
protocols.jd2.PDBJobInputter: (0) Instantiate PDBJobInputter
protocols.jd2.PDBJobInputter: (0) PDBJobInputter::fill_jobs
protocols.jd2.PDBJobInputter: (0) pushed 2LUR0.pdb nstruct index 1
protocols.evaluation.ChiWellRmsdEvaluatorCreator: (0) Evaluation Creator active ... 
protocols.jd2.PDBJobInputter: (0) PDBJobInputter::pose_from_job
protocols.jd2.PDBJobInputter: (0) filling pose from PDB 2LUR0.pdb
core.chemical.GlobalResidueTypeSet: (0) Finished initializing fa_standard residue type set.  Created 980 residue types
core.chemical.GlobalResidueTypeSet: (0) Total time to initialize 1.65 seconds.
core.import_pose.import_pose: (0) File '2LUR0.pdb' automatically determined to be of type PDB
core.io.pose_from_sfr.PoseFromSFRBuilder: (0) [ WARNING ] discarding 1 atoms at position 1 in file 2LUR0.pdb. Best match rsd_type:  CYS:NtermProteinFull
core.conformation.Conformation: (0) [ WARNING ] missing heavyatom:  OXT on residue VAL:CtermProteinFull 29
core.conformation.Conformation: (0) Found disulfide between residues 1 15
core.conformation.Conformation: (0) current variant for 1 CYS
core.conformation.Conformation: (0) current variant for 15 CYS
core.conformation.Conformation: (0) current variant for 1 CYD
core.conformation.Conformation: (0) current variant for 15 CYD
core.conformation.Conformation: (0) Found disulfide between residues 5 17
core.conformation.Conformation: (0) current variant for 5 CYS
core.conformation.Conformation: (0) current variant for 17 CYS
core.conformation.Conformation: (0) current variant for 5 CYD
core.conformation.Conformation: (0) current variant for 17 CYD
core.conformation.Conformation: (0) Found disulfide between residues 10 22
core.conformation.Conformation: (0) current variant for 10 CYS
core.conformation.Conformation: (0) current variant for 22 CYS
core.conformation.Conformation: (0) current variant for 10 CYD
core.conformation.Conformation: (0) current variant for 22 CYD
protocols.rosetta_scripts.RosettaScriptsParser: (0) dock_design_filename=nothing.xml
protocols.rosetta_scripts.RosettaScriptsParser: (0) Generating XML Schema for rosetta_scripts...
protocols.rosetta_scripts.RosettaScriptsParser: (0) ...done
protocols.rosetta_scripts.RosettaScriptsParser: (0) Initializing schema validator...
protocols.rosetta_scripts.RosettaScriptsParser: (0) ...done
protocols.rosetta_scripts.RosettaScriptsParser: (0) Validating input script...
protocols.rosetta_scripts.RosettaScriptsParser: (0) ...done
protocols.rosetta_scripts.RosettaScriptsParser: (0) Parsed script:
<ROSETTASCRIPTS>
	<SCOREFXNS>
		<ScoreFunction name="r15" weights="ref2015.wts">
			<Reweight scoretype="chainbreak" weight="25.0"/>
		</ScoreFunction>
	</SCOREFXNS>
	<RESIDUE_SELECTORS>
		<Index name="cys1" resnums="1,15"/>
		<Index name="cys2" resnums="5,17"/>
		<Index name="cys3" resnums="10,22"/>
		<Index name="termini" resnums="1,29"/>
		<Index name="pep" resnums="1-29"/>
	</RESIDUE_SELECTORS>
	<TASKOPERATIONS>
		<RestrictToRepacking name="rtr"/>
	</TASKOPERATIONS>
	<MOVE_MAP_FACTORIES/>
	<SIMPLE_METRICS/>
	<FILTERS>
		<OversaturatedHbondAcceptorFilter consider_mainchain_only="false" max_allowed_oversaturated="0" name="oversat" scorefxn="r15"/>
	</FILTERS>
	<MOVERS>
		<PeptideStubMover name="generate_conf" reset="true">
			<Append resname="CYS"/>
			<Append resname="GLY"/>
			<Append resname="GLU"/>
			<Append resname="THR"/>
			<Append resname="CYS"/>
			<Append resname="VAL"/>
			<Append resname="GLY"/>
			<Append resname="GLY"/>
			<Append resname="THR"/>
			<Append resname="CYS"/>
			<Append resname="ASN"/>
			<Append resname="THR"/>
			<Append resname="PRO"/>
			<Append resname="GLY"/>
			<Append resname="CYS"/>
			<Append resname="THR"/>
			<Append resname="CYS"/>
			<Append resname="SER"/>
			<Append resname="TRP"/>
			<Append resname="PRO"/>
			<Append resname="VAL"/>
			<Append resname="CYS"/>
			<Append resname="GLY"/>
			<Append resname="HIS"/>
			<Append resname="PHE"/>
			<Append resname="ARG"/>
			<Append resname="TRP"/>
			<Append resname="GLY"/>
			<Append resname="VAL"/>
		</PeptideStubMover>
		<TryDisulfPermutations consider_already_bonded="false" min_tolerance="0.001" min_type="dfpmin" name="add_disulfide1" selector="cys1"/>
		<TryDisulfPermutations consider_already_bonded="false" min_tolerance="0.001" min_type="dfpmin" name="add_disulfide2" selector="cys2"/>
		<TryDisulfPermutations consider_already_bonded="false" min_tolerance="0.001" min_type="dfpmin" name="add_disulfide3" selector="cys3"/>
		<DeclareBond atom1="N" atom2="C" name="CN_bond" rebuild_fold_tree="1" res1="1" res2="29"/>
		<DeclareBond atom1="SG" atom2="SG" name="SS_bond1" rebuild_fold_tree="1" res1="1" res2="15"/>
		<DeclareBond atom1="SG" atom2="SG" name="SS_bond2" rebuild_fold_tree="1" res1="5" res2="17"/>
		<DeclareBond atom1="SG" atom2="SG" name="SS_bond3" rebuild_fold_tree="1" res1="10" res2="22"/>
		<PeptideCyclizeMover name="cyc_bond" residue_selector="termini"/>
		<FastRelax name="relax" ramp_down_constraints="false" repeats="3" scorefxn="r15" task_operations="rtr"/>
		<GeneralizedKIC closure_attempts="1000" name="gkic" selector="random_selector">
			<AddResidue res_index="1"/>
			<AddResidue res_index="2"/>
			<AddResidue res_index="3"/>
			<AddResidue res_index="4"/>
			<AddResidue res_index="5"/>
			<AddResidue res_index="6"/>
			<AddResidue res_index="7"/>
			<AddResidue res_index="8"/>
			<AddResidue res_index="9"/>
			<AddResidue res_index="10"/>
			<AddResidue res_index="11"/>
			<AddResidue res_index="12"/>
			<AddResidue res_index="13"/>
			<AddResidue res_index="14"/>
			<AddResidue res_index="15"/>
			<AddResidue res_index="16"/>
			<AddResidue res_index="17"/>
			<AddResidue res_index="18"/>
			<AddResidue res_index="19"/>
			<AddResidue res_index="20"/>
			<AddResidue res_index="21"/>
			<AddResidue res_index="22"/>
			<AddResidue res_index="23"/>
			<AddResidue res_index="24"/>
			<AddResidue res_index="25"/>
			<AddResidue res_index="26"/>
			<AddResidue res_index="27"/>
			<AddResidue res_index="28"/>
			<AddResidue res_index="29"/>
			<SetPivots atom1="CA" atom2="CA" atom3="CA" res1="1" res2="16" res3="29"/>
			<AddPerturber effect="randomize_backbone_by_rama_prepro">
				<AddResidue index="1"/>
				<AddResidue index="2"/>
				<AddResidue index="3"/>
				<AddResidue index="4"/>
				<AddResidue index="5"/>
				<AddResidue index="6"/>
				<AddResidue index="7"/>
				<AddResidue index="8"/>
				<AddResidue index="9"/>
				<AddResidue index="10"/>
				<AddResidue index="11"/>
				<AddResidue index="12"/>
				<AddResidue index="13"/>
				<AddResidue index="14"/>
				<AddResidue index="15"/>
				<AddResidue index="16"/>
				<AddResidue index="17"/>
				<AddResidue index="18"/>
				<AddResidue index="19"/>
				<AddResidue index="20"/>
				<AddResidue index="21"/>
				<AddResidue index="22"/>
				<AddResidue index="23"/>
				<AddResidue index="24"/>
				<AddResidue index="25"/>
				<AddResidue index="26"/>
				<AddResidue index="27"/>
				<AddResidue index="28"/>
				<AddResidue index="29"/>
			</AddPerturber>
			<AddFilter rama_cutoff_energy="2.0" residue="1" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="2" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="3" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="4" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="5" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="6" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="7" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="8" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="9" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="10" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="11" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="12" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="13" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="14" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="15" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="16" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="17" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="18" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="19" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="20" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="21" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="22" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="23" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="24" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="25" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="26" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="27" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="28" type="rama_prepro_check"/>
			<AddFilter rama_cutoff_energy="2.0" residue="29" type="rama_prepro_check"/>
		</GeneralizedKIC>
	</MOVERS>
	<PROTOCOLS>
		<Add mover="generate_conf"/>
		<Add mover="CN_bond"/>
		<Add mover="gkic"/>
	</PROTOCOLS>
	<OUTPUT scorefxn="r15"/>
</ROSETTASCRIPTS>
core.scoring.ScoreFunctionFactory: (0) SCOREFUNCTION: ref2015
core.scoring.etable: (0) Starting energy table calculation
core.scoring.etable: (0) smooth_etable: changing atr/rep split to bottom of energy well
core.scoring.etable: (0) smooth_etable: spline smoothing lj etables (maxdis = 6)
core.scoring.etable: (0) smooth_etable: spline smoothing solvation etables (max_dis = 6)
core.scoring.etable: (0) Finished calculating energy tables.
basic.io.database: (0) Database file opened: scoring/score_functions/hbonds/ref2015_params/HBPoly1D.csv
basic.io.database: (0) Database file opened: scoring/score_functions/hbonds/ref2015_params/HBFadeIntervals.csv
basic.io.database: (0) Database file opened: scoring/score_functions/hbonds/ref2015_params/HBEval.csv
basic.io.database: (0) Database file opened: scoring/score_functions/hbonds/ref2015_params/DonStrength.csv
basic.io.database: (0) Database file opened: scoring/score_functions/hbonds/ref2015_params/AccStrength.csv
basic.io.database: (0) Database file opened: scoring/score_functions/rama/fd/all.ramaProb
basic.io.database: (0) Database file opened: scoring/score_functions/rama/fd/prepro.ramaProb
basic.io.database: (0) Database file opened: scoring/score_functions/omega/omega_ppdep.all.txt
basic.io.database: (0) Database file opened: scoring/score_functions/omega/omega_ppdep.gly.txt
basic.io.database: (0) Database file opened: scoring/score_functions/omega/omega_ppdep.pro.txt
basic.io.database: (0) Database file opened: scoring/score_functions/omega/omega_ppdep.valile.txt
basic.io.database: (0) Database file opened: scoring/score_functions/P_AA_pp/P_AA
basic.io.database: (0) Database file opened: scoring/score_functions/P_AA_pp/P_AA_n
core.scoring.P_AA: (0) shapovalov_lib::shap_p_aa_pp_smooth_level of 1( aka low_smooth ) got activated.
basic.io.database: (0) Database file opened: scoring/score_functions/P_AA_pp/shapovalov/10deg/kappa131/a20.prop
core.scoring.etable: (0) Starting energy table calculation
core.scoring.etable: (0) smooth_etable: changing atr/rep split to bottom of energy well
core.scoring.etable: (0) smooth_etable: spline smoothing lj etables (maxdis = 6)
core.scoring.etable: (0) smooth_etable: spline smoothing solvation etables (max_dis = 6)
core.scoring.etable: (0) Finished calculating energy tables.
basic.io.database: (0) Database file opened: scoring/score_functions/PairEPotential/pdb_pair_stats_fine
basic.io.database: (0) Database file opened: scoring/score_functions/InterchainPotential/interchain_env_log.txt
basic.io.database: (0) Database file opened: scoring/score_functions/InterchainPotential/interchain_pair_log.txt
basic.io.database: (0) Database file opened: scoring/score_functions/EnvPairPotential/env_log.txt
basic.io.database: (0) Database file opened: scoring/score_functions/EnvPairPotential/cbeta_den.txt
basic.io.database: (0) Database file opened: scoring/score_functions/EnvPairPotential/pair_log.txt
basic.io.database: (0) Database file opened: scoring/score_functions/EnvPairPotential/cenpack_log.txt
core.scoring.ramachandran: (0) shapovalov_lib::shap_rama_smooth_level of 4( aka highest_smooth ) got activated.
basic.io.database: (0) Database file opened: scoring/score_functions/rama/shapovalov/kappa25/all.ramaProb
protocols.jd2.parser.ScoreFunctionLoader: (0) defined score function "r15" with weights "ref2015.wts"
protocols.jd2.parser.ScoreFunctionLoader: (0)  setting r15 weight chainbreak to 25
protocols.jd2.parser.TaskOperationLoader: (0) Defined TaskOperation named "rtr" of type RestrictToRepacking
core.select.residue_selector.util: (0) [ WARNING ] Selector name is empty!
core.select.residue_selector.util: (0) [ WARNING ] Selector name is empty!
protocols.rosetta_scripts.RosettaScriptsParser: (0) Defined filter named "oversat" of type OversaturatedHbondAcceptorFilter
protocols.rosetta_scripts.RosettaScriptsParser: (0) Defined mover named "generate_conf" of type PeptideStubMover
protocols.cyclic_peptide.TryDisulfPermutations: (0) Parsing options for TryDisulfPermutations ("add_disulfide1") mover.
protocols.cyclic_peptide.TryDisulfPermutations: (0) Mover will consider disulfides involving only those disulfide-forming residues not already in disulfides.
protocols.cyclic_peptide.TryDisulfPermutations: (0) Set minimization type to dfpmin.
protocols.cyclic_peptide.TryDisulfPermutations: (0) Set minimization tolerance to 0.001
protocols.cyclic_peptide.TryDisulfPermutations: (0) Added ResidueSelector "cys1".
protocols.rosetta_scripts.RosettaScriptsParser: (0) Defined mover named "add_disulfide1" of type TryDisulfPermutations
protocols.cyclic_peptide.TryDisulfPermutations: (0) Parsing options for TryDisulfPermutations ("add_disulfide2") mover.
protocols.cyclic_peptide.TryDisulfPermutations: (0) Mover will consider disulfides involving only those disulfide-forming residues not already in disulfides.
protocols.cyclic_peptide.TryDisulfPermutations: (0) Set minimization type to dfpmin.
protocols.cyclic_peptide.TryDisulfPermutations: (0) Set minimization tolerance to 0.001
protocols.cyclic_peptide.TryDisulfPermutations: (0) Added ResidueSelector "cys2".
protocols.rosetta_scripts.RosettaScriptsParser: (0) Defined mover named "add_disulfide2" of type TryDisulfPermutations
protocols.cyclic_peptide.TryDisulfPermutations: (0) Parsing options for TryDisulfPermutations ("add_disulfide3") mover.
protocols.cyclic_peptide.TryDisulfPermutations: (0) Mover will consider disulfides involving only those disulfide-forming residues not already in disulfides.
protocols.cyclic_peptide.TryDisulfPermutations: (0) Set minimization type to dfpmin.
protocols.cyclic_peptide.TryDisulfPermutations: (0) Set minimization tolerance to 0.001
protocols.cyclic_peptide.TryDisulfPermutations: (0) Added ResidueSelector "cys3".
protocols.rosetta_scripts.RosettaScriptsParser: (0) Defined mover named "add_disulfide3" of type TryDisulfPermutations
protocols.rosetta_scripts.RosettaScriptsParser: (0) Defined mover named "CN_bond" of type DeclareBond
protocols.rosetta_scripts.RosettaScriptsParser: (0) Defined mover named "SS_bond1" of type DeclareBond
protocols.rosetta_scripts.RosettaScriptsParser: (0) Defined mover named "SS_bond2" of type DeclareBond
protocols.rosetta_scripts.RosettaScriptsParser: (0) Defined mover named "SS_bond3" of type DeclareBond
core.select.residue_selector.util: (0) Found residue selector termini
protocols.rosetta_scripts.RosettaScriptsParser: (0) Defined mover named "cyc_bond" of type PeptideCyclizeMover
protocols.relax.RelaxScriptManager: (0) Reading relax scripts list from database.
core.scoring.ScoreFunctionFactory: (0) SCOREFUNCTION: ref2015
protocols.relax.RelaxScriptManager: (0) Looking for MonomerRelax2019.txt
protocols.relax.RelaxScriptManager: (0) ================== Reading script file: /home/apps/centos7/Rosetta/2020.03/main/database/sampling/relax_scripts/MonomerRelax2019.txt ==================
protocols.relax.RelaxScriptManager: (0) repeat %%nrepeats%%
protocols.relax.RelaxScriptManager: (0) coord_cst_weight 1.0
protocols.relax.RelaxScriptManager: (0) scale:fa_rep 0.040
protocols.relax.RelaxScriptManager: (0) repack
protocols.relax.RelaxScriptManager: (0) scale:fa_rep 0.051
protocols.relax.RelaxScriptManager: (0) min 0.01
protocols.relax.RelaxScriptManager: (0) coord_cst_weight 0.5
protocols.relax.RelaxScriptManager: (0) scale:fa_rep 0.265
protocols.relax.RelaxScriptManager: (0) repack
protocols.relax.RelaxScriptManager: (0) scale:fa_rep 0.280
protocols.relax.RelaxScriptManager: (0) min 0.01
protocols.relax.RelaxScriptManager: (0) coord_cst_weight 0.0
protocols.relax.RelaxScriptManager: (0) scale:fa_rep 0.559
protocols.relax.RelaxScriptManager: (0) repack
protocols.relax.RelaxScriptManager: (0) scale:fa_rep 0.581
protocols.relax.RelaxScriptManager: (0) min 0.01
protocols.relax.RelaxScriptManager: (0) coord_cst_weight 0.0
protocols.relax.RelaxScriptManager: (0) scale:fa_rep 1
protocols.relax.RelaxScriptManager: (0) repack
protocols.relax.RelaxScriptManager: (0) min 0.00001
protocols.relax.RelaxScriptManager: (0) accept_to_best
protocols.relax.RelaxScriptManager: (0) endrepeat
core.pack.task.xml_util: (0) Object relax reading the following task_operations: Adding the following task operations
rtr 
protocols.rosetta_scripts.RosettaScriptsParser: (0) Defined mover named "relax" of type FastRelax
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Parsing options for GeneralizedKIC ("gkic") mover.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 1.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 2.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 3.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 4.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 5.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 6.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 7.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 8.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 9.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 10.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 11.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 12.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 13.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 14.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 15.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 16.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 17.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 18.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 19.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 20.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 21.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 22.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 23.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 24.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 25.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 26.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 27.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 28.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the residue number for rama_prepro_check filter to 29.
protocols.generalized_kinematic_closure.GeneralizedKIC: (0) Set the rama_prepro term cutoff energy for the rama_prepro_check filter to 2
protocols.rosetta_scripts.RosettaScriptsParser: (0) Defined mover named "gkic" of type GeneralizedKIC
protocols.rosetta_scripts.ParsedProtocol: (0) ParsedProtocol mover with the following movers and filters
protocols.rosetta_scripts.ParsedProtocol: (0) added mover "generate_conf" with filter "true_filter"
protocols.rosetta_scripts.ParsedProtocol: (0) added mover "CN_bond" with filter "true_filter"
protocols.rosetta_scripts.ParsedProtocol: (0) added mover "gkic" with filter "true_filter"
protocols.jd2.PDBJobInputter: (0) PDBJobInputter::pose_from_job
protocols.jd2.PDBJobInputter: (0) filling pose from saved copy 2LUR0.pdb
protocols.rosetta_scripts.ParsedProtocol: (0) =======================BEGIN MOVER PeptideStubMover - generate_conf=======================
protocols.rosetta_scripts.ParsedProtocol: (0) =======================BEGIN MOVER DeclareBond - CN_bond=======================
protocols.cyclic_peptide.DeclareBond: (0) Adding connection Res 1 to Residue 29
protocols.rosetta_scripts.ParsedProtocol: (0) =======================BEGIN MOVER GeneralizedKIC - gkic=======================

ERROR: Unable to auto-assign a lower anchor for the loop to be closed.  Check that the first residue is connected to something that isn't in the loop to be closed and isn't a tail residue.
ERROR:: Exit from: src/protocols/generalized_kinematic_closure/GeneralizedKIC.cc line: 1323
protocols.rosetta_scripts.ParsedProtocol: (0) [ ERROR ] Exception while processing procotol: 

File: src/protocols/generalized_kinematic_closure/GeneralizedKIC.cc:1323
[ ERROR ] UtilityExitException
ERROR: Unable to auto-assign a lower anchor for the loop to be closed.  Check that the first residue is connected to something that isn't in the loop to be closed and isn't a tail residue.


protocols.jd2.JobDistributor: (0) [ ERROR ] 

[ERROR] Exception caught by JobDistributor for job 2LUR0_0001

[ ERROR ]: Caught exception:


File: src/protocols/generalized_kinematic_closure/GeneralizedKIC.cc:1323
[ ERROR ] UtilityExitException
ERROR: Unable to auto-assign a lower anchor for the loop to be closed.  Check that the first residue is connected to something that isn't in the loop to be closed and isn't a tail residue.




AN INTERNAL ERROR HAS OCCURED. PLEASE SEE THE CONTENTS OF ROSETTA_CRASH.log FOR DETAILS.


protocols.jd2.JobDistributor: (0) [ WARNING ] 2LUR0_0001 reported failure and will NOT retry
protocols.jd2.JobDistributor: (0) no more batches to process... 
protocols.jd2.JobDistributor: (0) 1 jobs considered, 1 jobs attempted in 26 seconds

[ ERROR ]: Caught exception:


File: src/protocols/jd2/JobDistributor.cc:329
1 jobs failed; check output for error messages


AN INTERNAL ERROR HAS OCCURED. PLEASE SEE THE CONTENTS OF ROSETTA_CRASH.log FOR DETAILS.