/projects/compbio/experiments/protein-predict/casp7/starter-directory/Make.main:725: SECONDARY_TARGET = T0300.t06.str2 mkdir -p decoys rm decoys/read-pdb+servers.under cd decoys; shopt -s nullglob ; for x in ../*.ts-submitted* ; do echo ReadConformPDB $x >> read-pdb+servers.under ; done cd decoys; shopt -s nullglob ; for x in *.pdb* ; do echo ReadConformPDB $x >> read-pdb+servers.under ; done cd decoys; shopt -s nullglob ; for x in ../*mer/decoys/*.pdb* ; \ do echo ReadConformPDB $x chain A >> read-pdb+servers.under ; \ y=${x#../} ;\ z=${y/decoys} ;\ a=${z/T0300.} ;\ b=${a%.gz} ;\ c=${b%.pdb} ;\ echo NameConform $c >> read-pdb+servers.under ; \ done cd decoys; shopt -s nullglob ; for x in servers/*.pdb.gz ; do \ echo ReadConformPDB $x >> read-pdb+servers.under ; \ y=${x%.pdb.gz} ; \ z=${y#servers/} ; \ echo NameConform $z >> read-pdb+servers.under ; \ echo SCWRLConform >> read-pdb+servers.under ; \ echo NameConform $z-scwrl >> read-pdb+servers.under ; \ done chgrp protein decoys/read-pdb+servers.under chmod g+w decoys/read-pdb+servers.under rm -f decoys/evaluate.rdb sed -e s/XXX0000/T0300/ -e s/START_COL/1/ \ -e s/REAL_PDB/2h3rA/ \ -e s/_domain// \ -e s/read-pdb/read-pdb+servers/ \ -e 's/include COSTFCN.costfcn//' \ -e s/.COSTFCN// \ < /projects/compbio/experiments/protein-predict/casp7/starter-directory/evaluate.under \ | nice -2 /projects/compbio/programs/undertaker/undertaker # command:# Seed set to 1175237753 # command:# Prefix for input files set to /projects/compbio/experiments/undertaker/atoms-inputs/ # command:# reading monomeric-50pc.atoms # trans (non-proline) backbone unit: # CA= -2.2088 1.0126 -0.0031 # O= -0.1499 2.2440 0.0017 # C= -0.6889 1.1368 0.0000 # N+1= 0.0000 0.0000 0.0000 # CA+1= 1.4581 0.0000 0.0000 # cis backbone unit: # CA= -0.1462 2.4515 0.0018 # O= -2.0272 0.9713 0.0022 # C= -0.8006 1.0755 0.0000 # N+1= 0.0000 0.0000 0.0000 # CA+1= 1.4659 0.0000 0.0000 # trans backbone unit before proline: # CA= -2.2099 1.0634 -0.0014 # O= -0.1233 2.2459 0.0075 # C= -0.6871 1.1518 0.0000 # N+1= 0.0000 0.0000 0.0000 # CA+1= 1.4660 0.0000 0.0000 # After reading monomeric-50pc.atoms have 448 chains in training database # Count of chains,residues,atoms: 448,112605,876684 # 109826 residues have no bad marker # 665 residues lack atoms needed to compute omega # 322 residues have cis peptide # number of each bad type: # NON_STANDARD_RESIDUE 6 # HAS_OXT 325 # TOO_MANY_ATOMS 1 # TOO_FEW_ATOMS 523 # HAS_UNKNOWN_ATOMS 2 # HAS_DUPLICATE_ATOMS 0 # CHAIN_BREAK_BEFORE 208 # NON_PLANAR_PEPTIDE 143 # BAD_PEPTIDE 1959 # Note: may sum to more than number of residues, # because one residue may have multiple problems # command:# Reading rotamer library from dunbrack-1332.rot # command:# Prefix for input files set to /projects/compbio/experiments/undertaker/spots/ # command:# ReadAtomType exp-pdb.types Read AtomType exp-pdb with 49 types. # command:# ReadClashTable exp-pdb-2191-2symm.clash # Read ClashTable exp-pdb-2191-2symm checking bonds symmetric at MaxSep 2 # command:# command:CPU_time= 5.83111 sec, elapsed time= 6.25312 sec) # command:# Reading spots from monomeric-50pc-dry-5.spot Read prototypes from /projects/compbio/experiments/undertaker/spots/../normalize_prototypes/prototypes # reading histogram from smoothed-monomeric-50pc-dry-5.hist # created burial cost function dry5 with radius 5 with spots at monomeric-50pc-dry-5.spot # command:# Reading spots from monomeric-50pc-wet-6.5.spot Read prototypes from /projects/compbio/experiments/undertaker/spots/../normalize_prototypes/prototypes # reading histogram from smoothed-monomeric-50pc-wet-6.5.hist # created burial cost function wet6.5 with radius 6.5 with spots at monomeric-50pc-wet-6.5.spot # command:# Reading spots from monomeric-50pc-dry-6.5.spot Read prototypes from /projects/compbio/experiments/undertaker/spots/../normalize_prototypes/prototypes # reading histogram from smoothed-monomeric-50pc-dry-6.5.hist # created burial cost function dry6.5 with radius 6.5 with spots at monomeric-50pc-dry-6.5.spot # command:# Reading spots from monomeric-50pc-generic-6.5.spot Read prototypes from /projects/compbio/experiments/undertaker/spots/../normalize_prototypes/prototypes # reading histogram from smoothed-monomeric-50pc-generic-6.5.hist # created burial cost function gen6.5 with radius 6.5 with spots at monomeric-50pc-generic-6.5.spot # command:# Reading spots from near-backbone-center.spot # reading histogram from smoothed-near-backbone-2spot.hist # Reading spots from near-backbone-count.spot # created burial cost function near_backbone with radius 9.65 with spots at near-backbone-center.spot counting only near-backbone-count.spot # command:# Reading spots from way-back-center.spot # reading histogram from smoothed-way-back-2spot.hist # Reading spots from way-back-count.spot # created burial cost function way_back with radius 8.9 with spots at way-back-center.spot counting only way-back-count.spot # command:# Reading spots from monomeric-50pc-dry-8.spot Read prototypes from /projects/compbio/experiments/undertaker/spots/../normalize_prototypes/prototypes # reading histogram from smoothed-monomeric-50pc-dry-8.hist # created burial cost function dry8 with radius 8 with spots at monomeric-50pc-dry-8.spot # command:# Reading spots from monomeric-50pc-dry-10.spot Read prototypes from /projects/compbio/experiments/undertaker/spots/../normalize_prototypes/prototypes # reading histogram from smoothed-monomeric-50pc-dry-10.hist # created burial cost function dry10 with radius 10 with spots at monomeric-50pc-dry-10.spot # command:# Reading spots from monomeric-50pc-dry-12.spot Read prototypes from /projects/compbio/experiments/undertaker/spots/../normalize_prototypes/prototypes # reading histogram from smoothed-monomeric-50pc-dry-12.hist # created burial cost function dry12 with radius 12 with spots at monomeric-50pc-dry-12.spot # command:# reading histogram from dunbrack-2191-alpha.hist # created alpha cost function alpha with offset 0 and 360 bins # command:# reading histogram from dunbrack-2191-alpha-1.hist # created alpha cost function alpha_prev with offset -1 and 360 bins # command:# Prefix for input files set to /projects/compbio/lib/alphabet/ # command:# Read 3 alphabets from alpha.alphabet # command:CPU_time= 5.9061 sec, elapsed time= 6.35297 sec) # command:# Prefix for input files set to # command:# Making conformation for sequence T0300 numbered 1 through 102 Created new target T0300 from T0300.a2m # command:# command:# No conformations to remove in PopConform # command:# cleared Id set # command:# command:2h3rA expands to /projects/compbio/data/pdb/2h3r.pdb.gz 2h3rA:Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Read 90 residues and 703 atoms. # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # command:# Saving current conformation as real # command:# Prefix for output files set to decoys/ # command:# SetRealCost created real_cost = # ( 50 * real_hbond + 50 * real_hbond_u + 50 * decoy_hbond + 50 * decoy_hbond_u + 10 * real_NO_hbond + 10 * real_NO_hbond_u + 10 * decoy_NO_hbond + 10 * decoy_NO_hbond_u + 10 * knot + 200 * clens + 0 * rmsd + 35 * log_rmsd + 0 * rmsd_ca + 30 * log_rmsd_ca + 1 * GDT + 1 * smooth_GDT + 0.2 * missing_atoms ) # command:# SetCost created cost = # ) # command:CPU_time= 8.12677 sec, elapsed time= 8.61075 sec) # command:# Prefix for input files set to # command:# ReadConformPDB reading from PDB file model1.ts-submitted looking for model 1 # choosing archetypes in rotamer library # Found a chain break before 97 # copying to AlignedFragments data structure # command:# fraction of real conformation used = 1 # GDT_score = -44.1011 # GDT_score(maxd=8,maxw=2.9)= -43.7953 # GDT_score(maxd=8,maxw=3.2)= -43.1656 # GDT_score(maxd=8,maxw=3.5)= -42.6017 # GDT_score(maxd=10,maxw=3.8)= -44.0291 # GDT_score(maxd=10,maxw=4)= -43.5031 # GDT_score(maxd=10,maxw=4.2)= -42.9296 # GDT_score(maxd=12,maxw=4.3)= -44.4596 # GDT_score(maxd=12,maxw=4.5)= -43.8567 # GDT_score(maxd=12,maxw=4.7)= -43.1895 # GDT_score(maxd=14,maxw=5.2)= -43.1715 # GDT_score(maxd=14,maxw=5.5)= -41.8469 # command:# Prefix for output files set to # command:superimposing iter= 0 total_weight= 1.0510000e+03 rmsd (weighted)= 1.4046384e+01 (unweighted)= 1.7129806e+01 superimposing iter= 1 total_weight= 9.6128246e+02 rmsd (weighted)= 1.1720116e+01 (unweighted)= 1.7000465e+01 superimposing iter= 2 total_weight= 8.1319260e+02 rmsd (weighted)= 1.0647678e+01 (unweighted)= 1.7194059e+01 superimposing iter= 3 total_weight= 8.6694219e+02 rmsd (weighted)= 9.3694765e+00 (unweighted)= 1.7571413e+01 superimposing iter= 4 total_weight= 9.1507952e+02 rmsd (weighted)= 8.0663931e+00 (unweighted)= 1.7976109e+01 superimposing iter= 5 total_weight= 8.4943386e+02 rmsd (weighted)= 7.2265016e+00 (unweighted)= 1.8352106e+01 # command:# Prefix for output files set to decoys/ # command:# request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_715605856.pdb -s /var/tmp/to_scwrl_715605856.seq -o /var/tmp/from_scwrl_715605856.pdb > /var/tmp/scwrl_715605856.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_715605856.pdb # conformation set from SCWRL output # command:# naming current conformation model1-scwrl # command:# ReadConformPDB reading from PDB file model2.ts-submitted looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # command:# fraction of real conformation used = 1 # GDT_score = -34.5506 # GDT_score(maxd=8,maxw=2.9)= -34.7648 # GDT_score(maxd=8,maxw=3.2)= -33.7345 # GDT_score(maxd=8,maxw=3.5)= -32.689 # GDT_score(maxd=10,maxw=3.8)= -33.802 # GDT_score(maxd=10,maxw=4)= -33.0721 # GDT_score(maxd=10,maxw=4.2)= -32.3455 # GDT_score(maxd=12,maxw=4.3)= -33.7587 # GDT_score(maxd=12,maxw=4.5)= -33.0408 # GDT_score(maxd=12,maxw=4.7)= -32.3377 # GDT_score(maxd=14,maxw=5.2)= -32.5137 # GDT_score(maxd=14,maxw=5.5)= -31.3696 # command:# request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_432917812.pdb -s /var/tmp/to_scwrl_432917812.seq -o /var/tmp/from_scwrl_432917812.pdb > /var/tmp/scwrl_432917812.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_432917812.pdb # conformation set from SCWRL output # command:# naming current conformation model2-scwrl # command:# ReadConformPDB reading from PDB file model3.ts-submitted looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # command:# fraction of real conformation used = 1 # GDT_score = -44.6629 # GDT_score(maxd=8,maxw=2.9)= -44.1053 # GDT_score(maxd=8,maxw=3.2)= -43.4465 # GDT_score(maxd=8,maxw=3.5)= -42.8063 # GDT_score(maxd=10,maxw=3.8)= -44.1282 # GDT_score(maxd=10,maxw=4)= -43.5667 # GDT_score(maxd=10,maxw=4.2)= -42.9156 # GDT_score(maxd=12,maxw=4.3)= -44.5162 # GDT_score(maxd=12,maxw=4.5)= -43.8516 # GDT_score(maxd=12,maxw=4.7)= -43.1231 # GDT_score(maxd=14,maxw=5.2)= -43.3906 # GDT_score(maxd=14,maxw=5.5)= -42.0206 # command:# request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_85636003.pdb -s /var/tmp/to_scwrl_85636003.seq -o /var/tmp/from_scwrl_85636003.pdb > /var/tmp/scwrl_85636003.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_85636003.pdb # conformation set from SCWRL output # command:# naming current conformation model3-scwrl # command:# ReadConformPDB reading from PDB file model4.ts-submitted looking for model 1 # Found a chain break before 44 # copying to AlignedFragments data structure # command:# fraction of real conformation used = 1 # GDT_score = -39.0449 # GDT_score(maxd=8,maxw=2.9)= -38.418 # GDT_score(maxd=8,maxw=3.2)= -36.8622 # GDT_score(maxd=8,maxw=3.5)= -35.3873 # GDT_score(maxd=10,maxw=3.8)= -37.7348 # GDT_score(maxd=10,maxw=4)= -36.7518 # GDT_score(maxd=10,maxw=4.2)= -35.7745 # GDT_score(maxd=12,maxw=4.3)= -38.9783 # GDT_score(maxd=12,maxw=4.5)= -37.953 # GDT_score(maxd=12,maxw=4.7)= -36.9208 # GDT_score(maxd=14,maxw=5.2)= -37.7968 # GDT_score(maxd=14,maxw=5.5)= -36.2747 # command:# request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_284022574.pdb -s /var/tmp/to_scwrl_284022574.seq -o /var/tmp/from_scwrl_284022574.pdb > /var/tmp/scwrl_284022574.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_284022574.pdb # conformation set from SCWRL output # command:# naming current conformation model4-scwrl # command:# ReadConformPDB reading from PDB file model5.ts-submitted looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # command:# fraction of real conformation used = 1 # GDT_score = -46.9101 # GDT_score(maxd=8,maxw=2.9)= -46.998 # GDT_score(maxd=8,maxw=3.2)= -46.0681 # GDT_score(maxd=8,maxw=3.5)= -45.2033 # GDT_score(maxd=10,maxw=3.8)= -46.4156 # GDT_score(maxd=10,maxw=4)= -45.7683 # GDT_score(maxd=10,maxw=4.2)= -45.0089 # GDT_score(maxd=12,maxw=4.3)= -46.4981 # GDT_score(maxd=12,maxw=4.5)= -45.7477 # GDT_score(maxd=12,maxw=4.7)= -45.0155 # GDT_score(maxd=14,maxw=5.2)= -44.8517 # GDT_score(maxd=14,maxw=5.5)= -43.4248 # command:# request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_130533514.pdb -s /var/tmp/to_scwrl_130533514.seq -o /var/tmp/from_scwrl_130533514.pdb > /var/tmp/scwrl_130533514.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_130533514.pdb # conformation set from SCWRL output # command:# naming current conformation model5-scwrl # command:# Prefix for input files set to decoys/ # command:# ReadConformPDB reading from PDB file T0300.try1-opt2.pdb looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # command:# fraction of real conformation used = 1 # GDT_score = -30.8989 # GDT_score(maxd=8,maxw=2.9)= -29.44 # GDT_score(maxd=8,maxw=3.2)= -28.2601 # GDT_score(maxd=8,maxw=3.5)= -27.2824 # GDT_score(maxd=10,maxw=3.8)= -29.7053 # GDT_score(maxd=10,maxw=4)= -28.9947 # GDT_score(maxd=10,maxw=4.2)= -28.2674 # GDT_score(maxd=12,maxw=4.3)= -30.822 # GDT_score(maxd=12,maxw=4.5)= -30.0527 # GDT_score(maxd=12,maxw=4.7)= -29.3476 # GDT_score(maxd=14,maxw=5.2)= -30.0647 # GDT_score(maxd=14,maxw=5.5)= -29.1037 # command:# Prefix for output files set to # command:superimposing iter= 0 total_weight= 1.0510000e+03 rmsd (weighted)= 1.7837951e+01 (unweighted)= 1.9211942e+01 superimposing iter= 1 total_weight= 1.6860398e+03 rmsd (weighted)= 1.0759040e+01 (unweighted)= 1.9888966e+01 superimposing iter= 2 total_weight= 1.0117540e+03 rmsd (weighted)= 8.7604916e+00 (unweighted)= 2.0348746e+01 superimposing iter= 3 total_weight= 8.1957625e+02 rmsd (weighted)= 7.9907628e+00 (unweighted)= 2.0643333e+01 superimposing iter= 4 total_weight= 7.5197872e+02 rmsd (weighted)= 7.6221289e+00 (unweighted)= 2.0854810e+01 superimposing iter= 5 total_weight= 7.2513422e+02 rmsd (weighted)= 7.4084485e+00 (unweighted)= 2.1014782e+01 # command:# Prefix for output files set to decoys/ # command:# Prefix for input files set to # command:# ReadConformPDB reading from PDB file T0300.undertaker-align.pdb looking for model 1 WARNING: atoms too close: (T0300)S33.C and (T0300)S55.C only 0.0000000e+00 apart, marking (T0300)S55.C as missing WARNING: atoms too close: (T0300)S34.N and (T0300)S56.N only 0.0000000e+00 apart, marking (T0300)S34.N as missing WARNING: atoms too close: (T0300)S34.CA and (T0300)S56.CA only 0.0000000e+00 apart, marking (T0300)S34.CA as missing # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # command:# naming current conformation align1 # command:# fraction of real conformation used = 0.52809 # GDT_score = -27.5281 # GDT_score(maxd=8,maxw=2.9)= -27.4364 # GDT_score(maxd=8,maxw=3.2)= -27.0628 # GDT_score(maxd=8,maxw=3.5)= -26.651 # GDT_score(maxd=10,maxw=3.8)= -27.1274 # GDT_score(maxd=10,maxw=4)= -26.7895 # GDT_score(maxd=10,maxw=4.2)= -26.4728 # GDT_score(maxd=12,maxw=4.3)= -27.1423 # GDT_score(maxd=12,maxw=4.5)= -26.8217 # GDT_score(maxd=12,maxw=4.7)= -26.4637 # GDT_score(maxd=14,maxw=5.2)= -26.3789 # GDT_score(maxd=14,maxw=5.5)= -25.746 # command:# ReadConformPDB reading from PDB file T0300.undertaker-align.pdb looking for model 2 WARNING: atoms too close: (T0300)S39.C and (T0300)I43.C only 0.0000000e+00 apart, marking (T0300)I43.C as missing WARNING: atoms too close: (T0300)D40.N and (T0300)L44.N only 0.0000000e+00 apart, marking (T0300)D40.N as missing WARNING: atoms too close: (T0300)D40.CA and (T0300)L44.CA only 0.0000000e+00 apart, marking (T0300)D40.CA as missing # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # command:# naming current conformation align2 # command:# fraction of real conformation used = 0.561798 # GDT_score = -21.3483 # GDT_score(maxd=8,maxw=2.9)= -20.2559 # GDT_score(maxd=8,maxw=3.2)= -20.0423 # GDT_score(maxd=8,maxw=3.5)= -19.8009 # GDT_score(maxd=10,maxw=3.8)= -20.6553 # GDT_score(maxd=10,maxw=4)= -20.4652 # GDT_score(maxd=10,maxw=4.2)= -20.2932 # GDT_score(maxd=12,maxw=4.3)= -21.5079 # GDT_score(maxd=12,maxw=4.5)= -21.3011 # GDT_score(maxd=12,maxw=4.7)= -21.0819 # GDT_score(maxd=14,maxw=5.2)= -21.6165 # GDT_score(maxd=14,maxw=5.5)= -21.0842 # command:# ReadConformPDB reading from PDB file T0300.undertaker-align.pdb looking for model 3 WARNING: atoms too close: (T0300)R19.C and (T0300)L22.C only 0.0000000e+00 apart, marking (T0300)L22.C as missing WARNING: atoms too close: (T0300)L20.N and (T0300)E23.N only 0.0000000e+00 apart, marking (T0300)L20.N as missing WARNING: atoms too close: (T0300)L20.CA and (T0300)E23.CA only 0.0000000e+00 apart, marking (T0300)L20.CA as missing # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # command:# naming current conformation align3 # command:# ReadConformPDB reading from PDB file T0300.undertaker-align.pdb looking for model 4 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # command:# naming current conformation align4 # command:# ReadConformPDB reading from PDB file T0300.undertaker-align.pdb looking for model 5 WARNING: atoms too close: (T0300)V63.C and (T0300)A64.C only 0.0000000e+00 apart, marking (T0300)A64.C as missing WARNING: atoms too close: (T0300)A64.N and (T0300)M65.N only 0.0000000e+00 apart, marking (T0300)A64.N as missing WARNING: atoms too close: (T0300)A64.CA and (T0300)M65.CA only 0.0000000e+00 apart, marking (T0300)A64.CA as missing # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # command:# naming current conformation align5 # command:# Prefix for input files set to decoys/ # command:# reading script from file read-pdb+servers.under # ReadConformPDB reading from PDB file ../model1.ts-submitted looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file ../model2.ts-submitted looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file ../model3.ts-submitted looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file ../model4.ts-submitted looking for model 1 # Found a chain break before 44 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file ../model5.ts-submitted looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try1-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try1-opt1.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try1-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 61 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try1-opt2.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try1-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try10-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try10-opt1.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try10-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 1 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try10-opt2.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try10-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try11-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 66 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try11-opt1.pdb.gz looking for model 1 # Found a chain break before 66 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try11-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 96 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try11-opt2.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try11-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try12-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try12-opt1.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try12-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 81 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try12-opt2.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try12-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try13-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try13-opt1.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try13-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 95 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try13-opt2.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try13-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try14-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try14-opt1.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try14-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 78 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try14-opt2.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try15-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try15-opt1.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try15-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try15-opt2.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try15-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try16-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try16-opt1.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try16-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try16-opt2.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try16-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try2-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try2-opt1.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try2-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try2-opt2.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try2-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try3-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try3-opt1.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try3-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try3-opt2.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try3-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try4-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try4-opt1.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try4-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try4-opt2.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try4-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try5-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try5-opt1.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try5-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try5-opt2.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try5-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try6-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try6-opt1.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try6-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try6-opt2.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try6-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try7-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try7-opt1.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try7-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try7-opt2.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try7-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try8-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try8-opt1.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try8-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 10 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try8-opt2.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try8-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try9-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 96 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try9-opt1.pdb.gz looking for model 1 # Found a chain break before 96 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try9-opt2.gromacs0.pdb.gz looking for model 1 # ReadConformPDB reading from PDB file T0300.try9-opt2.pdb.gz looking for model 1 # Found a chain break before 96 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try9-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 96 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file georgesuggestion.renum.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file rotate5monomer.renum.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file rotate5monomerFixed2.renum.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file rotateFromTry2attempt1.renum.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file rotateFromTry2attempt2.renum.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file rotateFromTry3attempt1.renum.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file rotateFromTry3attempt2.renum.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file rotateFromTry3attempt3.fix.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file rotateFromTry3attempt3.renum.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file rotateNterm2FromTry3.renum.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try1-opt1-scwrl.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try1-opt1-scwrl # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try1-opt1.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try1-opt1 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try1-opt2.gromacs0.pdb.gz looking for chain 'A' model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation dimer//try1-opt2.gromacs0 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try1-opt2.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try1-opt2 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try1-opt2.repack-nonPC.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try1-opt2.repack-nonPC # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try1-opt2.unpack.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try1-opt2.unpack # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try2-opt1-scwrl.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try2-opt1-scwrl # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try2-opt1.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try2-opt1 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try2-opt2.gromacs0.pdb.gz looking for chain 'A' model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation dimer//try2-opt2.gromacs0 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try2-opt2.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try2-opt2 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try2-opt2.repack-nonPC.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try2-opt2.repack-nonPC # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try2-opt2.unpack.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try2-opt2.unpack # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try3-opt1-scwrl.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try3-opt1-scwrl # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try3-opt1.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try3-opt1 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try3-opt2.gromacs0.pdb.gz looking for chain 'A' model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation dimer//try3-opt2.gromacs0 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try3-opt2.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try3-opt2 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try3-opt2.repack-nonPC.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try3-opt2.repack-nonPC # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try3-opt2.unpack.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try3-opt2.unpack # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try4-opt1-scwrl.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try4-opt1-scwrl # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try4-opt1.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try4-opt1 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try4-opt2.gromacs0.pdb.gz looking for chain 'A' model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation dimer//try4-opt2.gromacs0 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try4-opt2.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try4-opt2 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try4-opt2.repack-nonPC.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try4-opt2.repack-nonPC # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try4-opt2.unpack.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try4-opt2.unpack # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try5-opt1-scwrl.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try5-opt1-scwrl # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try5-opt1.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try5-opt1 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try5-opt2.gromacs0.pdb.gz looking for chain 'A' model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation dimer//try5-opt2.gromacs0 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try5-opt2.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try5-opt2 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try5-opt2.repack-nonPC.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try5-opt2.repack-nonPC # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try5-opt2.unpack.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try5-opt2.unpack # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try6-opt1-scwrl.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try6-opt1-scwrl # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try6-opt1.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try6-opt1 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try6-opt2.gromacs0.pdb.gz looking for chain 'A' model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation dimer//try6-opt2.gromacs0 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try6-opt2.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try6-opt2 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try6-opt2.repack-nonPC.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try6-opt2.repack-nonPC # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try6-opt2.unpack.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try6-opt2.unpack # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try7-opt1-scwrl.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try7-opt1-scwrl # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try7-opt1.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try7-opt1 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try7-opt2.gromacs0.pdb.gz looking for chain 'A' model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation dimer//try7-opt2.gromacs0 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try7-opt2.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try7-opt2 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try7-opt2.repack-nonPC.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try7-opt2.repack-nonPC # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try7-opt2.unpack.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try7-opt2.unpack # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try8-opt1-scwrl.pdb.gz looking for chain 'A' model 1 # Found a chain break before 44 # copying to AlignedFragments data structure # naming current conformation dimer//try8-opt1-scwrl # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try8-opt1.pdb.gz looking for chain 'A' model 1 # Found a chain break before 44 # copying to AlignedFragments data structure # naming current conformation dimer//try8-opt1 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try8-opt2.gromacs0.pdb.gz looking for chain 'A' model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation dimer//try8-opt2.gromacs0 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try8-opt2.pdb.gz looking for chain 'A' model 1 # Found a chain break before 44 # copying to AlignedFragments data structure # naming current conformation dimer//try8-opt2 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try8-opt2.repack-nonPC.pdb.gz looking for chain 'A' model 1 # Found a chain break before 44 # copying to AlignedFragments data structure # naming current conformation dimer//try8-opt2.repack-nonPC # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try8-opt2.unpack.pdb.gz looking for chain 'A' model 1 # Found a chain break before 44 # copying to AlignedFragments data structure # naming current conformation dimer//try8-opt2.unpack # ReadConformPDB reading from PDB file ../dimer/decoys/dimer-rotate5.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//dimer-rotate5 # ReadConformPDB reading from PDB file ../dimer/decoys/dimer-rotate5fixed.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//dimer-rotate5fixed # ReadConformPDB reading from PDB file ../dimer/decoys/dimer-rotateNterm2.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//dimer-rotateNterm2 # ReadConformPDB reading from PDB file ../dimer/decoys/dimer-try3-1jm0A.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//dimer-try3-1jm0A # ReadConformPDB reading from PDB file ../dimer/decoys/dimer.flipped180.renum.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//dimer.flipped180.renum # ReadConformPDB reading from PDB file ../dimer/decoys/dimer.rot5.renum.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//dimer.rot5.renum # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_48620909.pdb -s /var/tmp/to_scwrl_48620909.seq -o /var/tmp/from_scwrl_48620909.pdb > /var/tmp/scwrl_48620909.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_48620909.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_POPULUS_TS1-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_795361627.pdb -s /var/tmp/to_scwrl_795361627.seq -o /var/tmp/from_scwrl_795361627.pdb > /var/tmp/scwrl_795361627.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_795361627.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_POPULUS_TS2-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_998011066.pdb -s /var/tmp/to_scwrl_998011066.seq -o /var/tmp/from_scwrl_998011066.pdb > /var/tmp/scwrl_998011066.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_998011066.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_POPULUS_TS3-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_541490840.pdb -s /var/tmp/to_scwrl_541490840.seq -o /var/tmp/from_scwrl_541490840.pdb > /var/tmp/scwrl_541490840.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_541490840.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_POPULUS_TS4-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1699686202.pdb -s /var/tmp/to_scwrl_1699686202.seq -o /var/tmp/from_scwrl_1699686202.pdb > /var/tmp/scwrl_1699686202.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1699686202.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_POPULUS_TS5-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_RECOM_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_RECOM_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1587831073.pdb -s /var/tmp/to_scwrl_1587831073.seq -o /var/tmp/from_scwrl_1587831073.pdb > /var/tmp/scwrl_1587831073.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1587831073.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_RECOM_TS1-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1435867905.pdb -s /var/tmp/to_scwrl_1435867905.seq -o /var/tmp/from_scwrl_1435867905.pdb > /var/tmp/scwrl_1435867905.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1435867905.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_TS1-scwrl # ReadConformPDB reading from PDB file servers/3Dpro_TS1.pdb.gz looking for model 1 # Found a chain break before 55 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1916219201.pdb -s /var/tmp/to_scwrl_1916219201.seq -o /var/tmp/from_scwrl_1916219201.pdb > /var/tmp/scwrl_1916219201.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1916219201.pdb # conformation set from SCWRL output # naming current conformation 3Dpro_TS1-scwrl # ReadConformPDB reading from PDB file servers/3Dpro_TS2.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_112622215.pdb -s /var/tmp/to_scwrl_112622215.seq -o /var/tmp/from_scwrl_112622215.pdb > /var/tmp/scwrl_112622215.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_112622215.pdb # conformation set from SCWRL output # naming current conformation 3Dpro_TS2-scwrl # ReadConformPDB reading from PDB file servers/3Dpro_TS3.pdb.gz looking for model 1 # Found a chain break before 94 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_781951956.pdb -s /var/tmp/to_scwrl_781951956.seq -o /var/tmp/from_scwrl_781951956.pdb > /var/tmp/scwrl_781951956.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_781951956.pdb # conformation set from SCWRL output # naming current conformation 3Dpro_TS3-scwrl # ReadConformPDB reading from PDB file servers/3Dpro_TS4.pdb.gz looking for model 1 # Found a chain break before 77 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1317460211.pdb -s /var/tmp/to_scwrl_1317460211.seq -o /var/tmp/from_scwrl_1317460211.pdb > /var/tmp/scwrl_1317460211.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1317460211.pdb # conformation set from SCWRL output # naming current conformation 3Dpro_TS4-scwrl # ReadConformPDB reading from PDB file servers/3Dpro_TS5.pdb.gz looking for model 1 # Found a chain break before 37 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_850884723.pdb -s /var/tmp/to_scwrl_850884723.seq -o /var/tmp/from_scwrl_850884723.pdb > /var/tmp/scwrl_850884723.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_850884723.pdb # conformation set from SCWRL output # naming current conformation 3Dpro_TS5-scwrl # ReadConformPDB reading from PDB file servers/ABIpro_TS1.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_675251420.pdb -s /var/tmp/to_scwrl_675251420.seq -o /var/tmp/from_scwrl_675251420.pdb > /var/tmp/scwrl_675251420.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_675251420.pdb # conformation set from SCWRL output # naming current conformation ABIpro_TS1-scwrl # ReadConformPDB reading from PDB file servers/ABIpro_TS2.pdb.gz looking for model 1 # Found a chain break before 94 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_895685085.pdb -s /var/tmp/to_scwrl_895685085.seq -o /var/tmp/from_scwrl_895685085.pdb > /var/tmp/scwrl_895685085.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_895685085.pdb # conformation set from SCWRL output # naming current conformation ABIpro_TS2-scwrl # ReadConformPDB reading from PDB file servers/ABIpro_TS3.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1007785752.pdb -s /var/tmp/to_scwrl_1007785752.seq -o /var/tmp/from_scwrl_1007785752.pdb > /var/tmp/scwrl_1007785752.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1007785752.pdb # conformation set from SCWRL output # naming current conformation ABIpro_TS3-scwrl # ReadConformPDB reading from PDB file servers/ABIpro_TS4.pdb.gz looking for model 1 # Found a chain break before 96 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2028425078.pdb -s /var/tmp/to_scwrl_2028425078.seq -o /var/tmp/from_scwrl_2028425078.pdb > /var/tmp/scwrl_2028425078.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2028425078.pdb # conformation set from SCWRL output # naming current conformation ABIpro_TS4-scwrl # ReadConformPDB reading from PDB file servers/ABIpro_TS5.pdb.gz looking for model 1 # Found a chain break before 93 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_286111694.pdb -s /var/tmp/to_scwrl_286111694.seq -o /var/tmp/from_scwrl_286111694.pdb > /var/tmp/scwrl_286111694.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_286111694.pdb # conformation set from SCWRL output # naming current conformation ABIpro_TS5-scwrl # ReadConformPDB reading from PDB file servers/BayesHH_TS1.pdb.gz looking for model 1 # Found a chain break before 96 # copying to AlignedFragments data structure # naming current conformation BayesHH_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_890301682.pdb -s /var/tmp/to_scwrl_890301682.seq -o /var/tmp/from_scwrl_890301682.pdb > /var/tmp/scwrl_890301682.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_890301682.pdb # conformation set from SCWRL output # naming current conformation BayesHH_TS1-scwrl # ReadConformPDB reading from PDB file servers/Bilab-ENABLE_TS1.pdb.gz looking for model 1 # Found a chain break before 41 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2073766812.pdb -s /var/tmp/to_scwrl_2073766812.seq -o /var/tmp/from_scwrl_2073766812.pdb > /var/tmp/scwrl_2073766812.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2073766812.pdb # conformation set from SCWRL output # naming current conformation Bilab-ENABLE_TS1-scwrl # ReadConformPDB reading from PDB file servers/CIRCLE_TS1.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_545664148.pdb -s /var/tmp/to_scwrl_545664148.seq -o /var/tmp/from_scwrl_545664148.pdb > /var/tmp/scwrl_545664148.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_545664148.pdb # conformation set from SCWRL output # naming current conformation CIRCLE_TS1-scwrl # ReadConformPDB reading from PDB file servers/CIRCLE_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_380892191.pdb -s /var/tmp/to_scwrl_380892191.seq -o /var/tmp/from_scwrl_380892191.pdb > /var/tmp/scwrl_380892191.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_380892191.pdb # conformation set from SCWRL output # naming current conformation CIRCLE_TS2-scwrl # ReadConformPDB reading from PDB file servers/CIRCLE_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1349209734.pdb -s /var/tmp/to_scwrl_1349209734.seq -o /var/tmp/from_scwrl_1349209734.pdb > /var/tmp/scwrl_1349209734.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1349209734.pdb # conformation set from SCWRL output # naming current conformation CIRCLE_TS3-scwrl # ReadConformPDB reading from PDB file servers/CIRCLE_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1838928503.pdb -s /var/tmp/to_scwrl_1838928503.seq -o /var/tmp/from_scwrl_1838928503.pdb > /var/tmp/scwrl_1838928503.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1838928503.pdb # conformation set from SCWRL output # naming current conformation CIRCLE_TS4-scwrl # ReadConformPDB reading from PDB file servers/CIRCLE_TS5.pdb.gz looking for model 1 # Found a chain break before 96 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1443249433.pdb -s /var/tmp/to_scwrl_1443249433.seq -o /var/tmp/from_scwrl_1443249433.pdb > /var/tmp/scwrl_1443249433.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1443249433.pdb # conformation set from SCWRL output # naming current conformation CIRCLE_TS5-scwrl # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_422994049.pdb -s /var/tmp/to_scwrl_422994049.seq -o /var/tmp/from_scwrl_422994049.pdb > /var/tmp/scwrl_422994049.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_422994049.pdb # conformation set from SCWRL output # naming current conformation CaspIta-FOX_TS1-scwrl # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS2.pdb.gz looking for model 1 # Found a chain break before 12 # copying to AlignedFragments data structure # naming current conformation CaspIta-FOX_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_659751060.pdb -s /var/tmp/to_scwrl_659751060.seq -o /var/tmp/from_scwrl_659751060.pdb > /var/tmp/scwrl_659751060.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_659751060.pdb # conformation set from SCWRL output # naming current conformation CaspIta-FOX_TS2-scwrl # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_11371642.pdb -s /var/tmp/to_scwrl_11371642.seq -o /var/tmp/from_scwrl_11371642.pdb > /var/tmp/scwrl_11371642.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_11371642.pdb # conformation set from SCWRL output # naming current conformation CaspIta-FOX_TS3-scwrl # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_855911861.pdb -s /var/tmp/to_scwrl_855911861.seq -o /var/tmp/from_scwrl_855911861.pdb > /var/tmp/scwrl_855911861.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_855911861.pdb # conformation set from SCWRL output # naming current conformation CaspIta-FOX_TS4-scwrl # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_745387064.pdb -s /var/tmp/to_scwrl_745387064.seq -o /var/tmp/from_scwrl_745387064.pdb > /var/tmp/scwrl_745387064.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_745387064.pdb # conformation set from SCWRL output # naming current conformation CaspIta-FOX_TS5-scwrl # ReadConformPDB reading from PDB file servers/Distill_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Distill_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_295394216.pdb -s /var/tmp/to_scwrl_295394216.seq -o /var/tmp/from_scwrl_295394216.pdb > /var/tmp/scwrl_295394216.log Error: Couldn't open file /var/tmp/from_scwrl_295394216.pdb or /var/tmp/from_scwrl_295394216.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_295394216_b.pdb or decoys//var/tmp/from_scwrl_295394216_b.pdb.gz for input Trying /var/tmp/from_scwrl_295394216_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_295394216_b.pdb or /var/tmp/from_scwrl_295394216_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_295394216_a.pdb or decoys//var/tmp/from_scwrl_295394216_a.pdb.gz for input Trying /var/tmp/from_scwrl_295394216_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_295394216_a.pdb or /var/tmp/from_scwrl_295394216_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_295394216.pdb or /var/tmp/from_scwrl_295394216_b.pdb or /var/tmp/from_scwrl_295394216_a.pdb Error: no new SCWRL conformation added # naming current conformation Distill_TS1-scwrl # ReadConformPDB reading from PDB file servers/Distill_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Distill_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_986445375.pdb -s /var/tmp/to_scwrl_986445375.seq -o /var/tmp/from_scwrl_986445375.pdb > /var/tmp/scwrl_986445375.log Error: Couldn't open file /var/tmp/from_scwrl_986445375.pdb or /var/tmp/from_scwrl_986445375.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_986445375_b.pdb or decoys//var/tmp/from_scwrl_986445375_b.pdb.gz for input Trying /var/tmp/from_scwrl_986445375_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_986445375_b.pdb or /var/tmp/from_scwrl_986445375_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_986445375_a.pdb or decoys//var/tmp/from_scwrl_986445375_a.pdb.gz for input Trying /var/tmp/from_scwrl_986445375_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_986445375_a.pdb or /var/tmp/from_scwrl_986445375_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_986445375.pdb or /var/tmp/from_scwrl_986445375_b.pdb or /var/tmp/from_scwrl_986445375_a.pdb Error: no new SCWRL conformation added # naming current conformation Distill_TS2-scwrl # ReadConformPDB reading from PDB file servers/Distill_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Distill_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_794007973.pdb -s /var/tmp/to_scwrl_794007973.seq -o /var/tmp/from_scwrl_794007973.pdb > /var/tmp/scwrl_794007973.log Error: Couldn't open file /var/tmp/from_scwrl_794007973.pdb or /var/tmp/from_scwrl_794007973.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_794007973_b.pdb or decoys//var/tmp/from_scwrl_794007973_b.pdb.gz for input Trying /var/tmp/from_scwrl_794007973_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_794007973_b.pdb or /var/tmp/from_scwrl_794007973_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_794007973_a.pdb or decoys//var/tmp/from_scwrl_794007973_a.pdb.gz for input Trying /var/tmp/from_scwrl_794007973_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_794007973_a.pdb or /var/tmp/from_scwrl_794007973_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_794007973.pdb or /var/tmp/from_scwrl_794007973_b.pdb or /var/tmp/from_scwrl_794007973_a.pdb Error: no new SCWRL conformation added # naming current conformation Distill_TS3-scwrl # ReadConformPDB reading from PDB file servers/Distill_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Distill_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1090755842.pdb -s /var/tmp/to_scwrl_1090755842.seq -o /var/tmp/from_scwrl_1090755842.pdb > /var/tmp/scwrl_1090755842.log Error: Couldn't open file /var/tmp/from_scwrl_1090755842.pdb or /var/tmp/from_scwrl_1090755842.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_1090755842_b.pdb or decoys//var/tmp/from_scwrl_1090755842_b.pdb.gz for input Trying /var/tmp/from_scwrl_1090755842_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_1090755842_b.pdb or /var/tmp/from_scwrl_1090755842_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_1090755842_a.pdb or decoys//var/tmp/from_scwrl_1090755842_a.pdb.gz for input Trying /var/tmp/from_scwrl_1090755842_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_1090755842_a.pdb or /var/tmp/from_scwrl_1090755842_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_1090755842.pdb or /var/tmp/from_scwrl_1090755842_b.pdb or /var/tmp/from_scwrl_1090755842_a.pdb Error: no new SCWRL conformation added # naming current conformation Distill_TS4-scwrl # ReadConformPDB reading from PDB file servers/Distill_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Distill_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1984456440.pdb -s /var/tmp/to_scwrl_1984456440.seq -o /var/tmp/from_scwrl_1984456440.pdb > /var/tmp/scwrl_1984456440.log Error: Couldn't open file /var/tmp/from_scwrl_1984456440.pdb or /var/tmp/from_scwrl_1984456440.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_1984456440_b.pdb or decoys//var/tmp/from_scwrl_1984456440_b.pdb.gz for input Trying /var/tmp/from_scwrl_1984456440_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_1984456440_b.pdb or /var/tmp/from_scwrl_1984456440_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_1984456440_a.pdb or decoys//var/tmp/from_scwrl_1984456440_a.pdb.gz for input Trying /var/tmp/from_scwrl_1984456440_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_1984456440_a.pdb or /var/tmp/from_scwrl_1984456440_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_1984456440.pdb or /var/tmp/from_scwrl_1984456440_b.pdb or /var/tmp/from_scwrl_1984456440_a.pdb Error: no new SCWRL conformation added # naming current conformation Distill_TS5-scwrl # ReadConformPDB reading from PDB file servers/FAMSD_TS1.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # naming current conformation FAMSD_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1335498813.pdb -s /var/tmp/to_scwrl_1335498813.seq -o /var/tmp/from_scwrl_1335498813.pdb > /var/tmp/scwrl_1335498813.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1335498813.pdb # conformation set from SCWRL output # naming current conformation FAMSD_TS1-scwrl # ReadConformPDB reading from PDB file servers/FAMSD_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FAMSD_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_642958399.pdb -s /var/tmp/to_scwrl_642958399.seq -o /var/tmp/from_scwrl_642958399.pdb > /var/tmp/scwrl_642958399.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_642958399.pdb # conformation set from SCWRL output # naming current conformation FAMSD_TS2-scwrl # ReadConformPDB reading from PDB file servers/FAMSD_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FAMSD_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1424803866.pdb -s /var/tmp/to_scwrl_1424803866.seq -o /var/tmp/from_scwrl_1424803866.pdb > /var/tmp/scwrl_1424803866.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1424803866.pdb # conformation set from SCWRL output # naming current conformation FAMSD_TS3-scwrl # ReadConformPDB reading from PDB file servers/FAMSD_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FAMSD_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_623883072.pdb -s /var/tmp/to_scwrl_623883072.seq -o /var/tmp/from_scwrl_623883072.pdb > /var/tmp/scwrl_623883072.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_623883072.pdb # conformation set from SCWRL output # naming current conformation FAMSD_TS4-scwrl # ReadConformPDB reading from PDB file servers/FAMSD_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FAMSD_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_411693953.pdb -s /var/tmp/to_scwrl_411693953.seq -o /var/tmp/from_scwrl_411693953.pdb > /var/tmp/scwrl_411693953.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_411693953.pdb # conformation set from SCWRL output # naming current conformation FAMSD_TS5-scwrl # ReadConformPDB reading from PDB file servers/FAMS_TS1.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation FAMS_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1537426082.pdb -s /var/tmp/to_scwrl_1537426082.seq -o /var/tmp/from_scwrl_1537426082.pdb > /var/tmp/scwrl_1537426082.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1537426082.pdb # conformation set from SCWRL output # naming current conformation FAMS_TS1-scwrl # ReadConformPDB reading from PDB file servers/FAMS_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FAMS_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1405835027.pdb -s /var/tmp/to_scwrl_1405835027.seq -o /var/tmp/from_scwrl_1405835027.pdb > /var/tmp/scwrl_1405835027.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1405835027.pdb # conformation set from SCWRL output # naming current conformation FAMS_TS2-scwrl # ReadConformPDB reading from PDB file servers/FAMS_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FAMS_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1729154164.pdb -s /var/tmp/to_scwrl_1729154164.seq -o /var/tmp/from_scwrl_1729154164.pdb > /var/tmp/scwrl_1729154164.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1729154164.pdb # conformation set from SCWRL output # naming current conformation FAMS_TS3-scwrl # ReadConformPDB reading from PDB file servers/FAMS_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FAMS_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_240827158.pdb -s /var/tmp/to_scwrl_240827158.seq -o /var/tmp/from_scwrl_240827158.pdb > /var/tmp/scwrl_240827158.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_240827158.pdb # conformation set from SCWRL output # naming current conformation FAMS_TS4-scwrl # ReadConformPDB reading from PDB file servers/FAMS_TS5.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation FAMS_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2081086447.pdb -s /var/tmp/to_scwrl_2081086447.seq -o /var/tmp/from_scwrl_2081086447.pdb > /var/tmp/scwrl_2081086447.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2081086447.pdb # conformation set from SCWRL output # naming current conformation FAMS_TS5-scwrl # ReadConformPDB reading from PDB file servers/FOLDpro_TS1.pdb.gz looking for model 1 # naming current conformation FOLDpro_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_477355602.pdb -s /var/tmp/to_scwrl_477355602.seq -o /var/tmp/from_scwrl_477355602.pdb > /var/tmp/scwrl_477355602.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_477355602.pdb # conformation set from SCWRL output # naming current conformation FOLDpro_TS1-scwrl # ReadConformPDB reading from PDB file servers/FOLDpro_TS2.pdb.gz looking for model 1 # Found a chain break before 63 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1248612910.pdb -s /var/tmp/to_scwrl_1248612910.seq -o /var/tmp/from_scwrl_1248612910.pdb > /var/tmp/scwrl_1248612910.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1248612910.pdb # conformation set from SCWRL output # naming current conformation FOLDpro_TS2-scwrl # ReadConformPDB reading from PDB file servers/FOLDpro_TS3.pdb.gz looking for model 1 # Found a chain break before 34 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1962027878.pdb -s /var/tmp/to_scwrl_1962027878.seq -o /var/tmp/from_scwrl_1962027878.pdb > /var/tmp/scwrl_1962027878.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1962027878.pdb # conformation set from SCWRL output # naming current conformation FOLDpro_TS3-scwrl # ReadConformPDB reading from PDB file servers/FOLDpro_TS4.pdb.gz looking for model 1 # Found a chain break before 67 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_763467296.pdb -s /var/tmp/to_scwrl_763467296.seq -o /var/tmp/from_scwrl_763467296.pdb > /var/tmp/scwrl_763467296.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_763467296.pdb # conformation set from SCWRL output # naming current conformation FOLDpro_TS4-scwrl # ReadConformPDB reading from PDB file servers/FOLDpro_TS5.pdb.gz looking for model 1 # naming current conformation FOLDpro_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2138914592.pdb -s /var/tmp/to_scwrl_2138914592.seq -o /var/tmp/from_scwrl_2138914592.pdb > /var/tmp/scwrl_2138914592.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2138914592.pdb # conformation set from SCWRL output # naming current conformation FOLDpro_TS5-scwrl # ReadConformPDB reading from PDB file servers/FORTE1_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE1_AL1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1888311043.pdb -s /var/tmp/to_scwrl_1888311043.seq -o /var/tmp/from_scwrl_1888311043.pdb > /var/tmp/scwrl_1888311043.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1888311043.pdb # conformation set from SCWRL output # naming current conformation FORTE1_AL1-scwrl # ReadConformPDB reading from PDB file servers/FORTE1_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE1_AL2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1309131444.pdb -s /var/tmp/to_scwrl_1309131444.seq -o /var/tmp/from_scwrl_1309131444.pdb > /var/tmp/scwrl_1309131444.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1309131444.pdb # conformation set from SCWRL output # naming current conformation FORTE1_AL2-scwrl # ReadConformPDB reading from PDB file servers/FORTE1_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE1_AL3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_372323136.pdb -s /var/tmp/to_scwrl_372323136.seq -o /var/tmp/from_scwrl_372323136.pdb > /var/tmp/scwrl_372323136.log Error: Couldn't open file /var/tmp/from_scwrl_372323136.pdb or /var/tmp/from_scwrl_372323136.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_372323136_b.pdb or decoys//var/tmp/from_scwrl_372323136_b.pdb.gz for input Trying /var/tmp/from_scwrl_372323136_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_372323136_b.pdb or /var/tmp/from_scwrl_372323136_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_372323136_a.pdb or decoys//var/tmp/from_scwrl_372323136_a.pdb.gz for input Trying /var/tmp/from_scwrl_372323136_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_372323136_a.pdb or /var/tmp/from_scwrl_372323136_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_372323136.pdb or /var/tmp/from_scwrl_372323136_b.pdb or /var/tmp/from_scwrl_372323136_a.pdb Error: no new SCWRL conformation added # naming current conformation FORTE1_AL3-scwrl # ReadConformPDB reading from PDB file servers/FORTE1_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE1_AL4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1090037131.pdb -s /var/tmp/to_scwrl_1090037131.seq -o /var/tmp/from_scwrl_1090037131.pdb > /var/tmp/scwrl_1090037131.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1090037131.pdb # conformation set from SCWRL output # naming current conformation FORTE1_AL4-scwrl # ReadConformPDB reading from PDB file servers/FORTE1_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE1_AL5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1000576301.pdb -s /var/tmp/to_scwrl_1000576301.seq -o /var/tmp/from_scwrl_1000576301.pdb > /var/tmp/scwrl_1000576301.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1000576301.pdb # conformation set from SCWRL output # naming current conformation FORTE1_AL5-scwrl # ReadConformPDB reading from PDB file servers/FORTE2_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE2_AL1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1815572569.pdb -s /var/tmp/to_scwrl_1815572569.seq -o /var/tmp/from_scwrl_1815572569.pdb > /var/tmp/scwrl_1815572569.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1815572569.pdb # conformation set from SCWRL output # naming current conformation FORTE2_AL1-scwrl # ReadConformPDB reading from PDB file servers/FORTE2_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE2_AL2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1513031180.pdb -s /var/tmp/to_scwrl_1513031180.seq -o /var/tmp/from_scwrl_1513031180.pdb > /var/tmp/scwrl_1513031180.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1513031180.pdb # conformation set from SCWRL output # naming current conformation FORTE2_AL2-scwrl # ReadConformPDB reading from PDB file servers/FORTE2_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE2_AL3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1660327361.pdb -s /var/tmp/to_scwrl_1660327361.seq -o /var/tmp/from_scwrl_1660327361.pdb > /var/tmp/scwrl_1660327361.log Error: Couldn't open file /var/tmp/from_scwrl_1660327361.pdb or /var/tmp/from_scwrl_1660327361.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_1660327361_b.pdb or decoys//var/tmp/from_scwrl_1660327361_b.pdb.gz for input Trying /var/tmp/from_scwrl_1660327361_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_1660327361_b.pdb or /var/tmp/from_scwrl_1660327361_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_1660327361_a.pdb or decoys//var/tmp/from_scwrl_1660327361_a.pdb.gz for input Trying /var/tmp/from_scwrl_1660327361_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_1660327361_a.pdb or /var/tmp/from_scwrl_1660327361_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_1660327361.pdb or /var/tmp/from_scwrl_1660327361_b.pdb or /var/tmp/from_scwrl_1660327361_a.pdb Error: no new SCWRL conformation added # naming current conformation FORTE2_AL3-scwrl # ReadConformPDB reading from PDB file servers/FORTE2_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE2_AL4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1826944211.pdb -s /var/tmp/to_scwrl_1826944211.seq -o /var/tmp/from_scwrl_1826944211.pdb > /var/tmp/scwrl_1826944211.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1826944211.pdb # conformation set from SCWRL output # naming current conformation FORTE2_AL4-scwrl # ReadConformPDB reading from PDB file servers/FORTE2_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE2_AL5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_221459394.pdb -s /var/tmp/to_scwrl_221459394.seq -o /var/tmp/from_scwrl_221459394.pdb > /var/tmp/scwrl_221459394.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_221459394.pdb # conformation set from SCWRL output # naming current conformation FORTE2_AL5-scwrl # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS1.pdb.gz looking for model 1 # Found a chain break before 91 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_258230778.pdb -s /var/tmp/to_scwrl_258230778.seq -o /var/tmp/from_scwrl_258230778.pdb > /var/tmp/scwrl_258230778.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_258230778.pdb # conformation set from SCWRL output # naming current conformation FPSOLVER-SERVER_TS1-scwrl # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS2.pdb.gz looking for model 1 # naming current conformation FPSOLVER-SERVER_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2122338427.pdb -s /var/tmp/to_scwrl_2122338427.seq -o /var/tmp/from_scwrl_2122338427.pdb > /var/tmp/scwrl_2122338427.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2122338427.pdb # conformation set from SCWRL output # naming current conformation FPSOLVER-SERVER_TS2-scwrl # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS3.pdb.gz looking for model 1 # naming current conformation FPSOLVER-SERVER_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1207904769.pdb -s /var/tmp/to_scwrl_1207904769.seq -o /var/tmp/from_scwrl_1207904769.pdb > /var/tmp/scwrl_1207904769.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1207904769.pdb # conformation set from SCWRL output # naming current conformation FPSOLVER-SERVER_TS3-scwrl # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS4.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1052238751.pdb -s /var/tmp/to_scwrl_1052238751.seq -o /var/tmp/from_scwrl_1052238751.pdb > /var/tmp/scwrl_1052238751.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1052238751.pdb # conformation set from SCWRL output # naming current conformation FPSOLVER-SERVER_TS4-scwrl # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS5.pdb.gz looking for model 1 # Found a chain break before 94 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1065610624.pdb -s /var/tmp/to_scwrl_1065610624.seq -o /var/tmp/from_scwrl_1065610624.pdb > /var/tmp/scwrl_1065610624.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1065610624.pdb # conformation set from SCWRL output # naming current conformation FPSOLVER-SERVER_TS5-scwrl # ReadConformPDB reading from PDB file servers/FUGMOD_TS1.pdb.gz looking for model 1 # Found a chain break before 21 # copying to AlignedFragments data structure # naming current conformation FUGMOD_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1044877563.pdb -s /var/tmp/to_scwrl_1044877563.seq -o /var/tmp/from_scwrl_1044877563.pdb > /var/tmp/scwrl_1044877563.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1044877563.pdb # conformation set from SCWRL output # naming current conformation FUGMOD_TS1-scwrl # ReadConformPDB reading from PDB file servers/FUGMOD_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FUGMOD_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_240253917.pdb -s /var/tmp/to_scwrl_240253917.seq -o /var/tmp/from_scwrl_240253917.pdb > /var/tmp/scwrl_240253917.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_240253917.pdb # conformation set from SCWRL output # naming current conformation FUGMOD_TS2-scwrl # ReadConformPDB reading from PDB file servers/FUGMOD_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FUGMOD_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1708569022.pdb -s /var/tmp/to_scwrl_1708569022.seq -o /var/tmp/from_scwrl_1708569022.pdb > /var/tmp/scwrl_1708569022.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1708569022.pdb # conformation set from SCWRL output # naming current conformation FUGMOD_TS3-scwrl # ReadConformPDB reading from PDB file servers/FUGMOD_TS4.pdb.gz looking for model 1 # Found a chain break before 72 # copying to AlignedFragments data structure # naming current conformation FUGMOD_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_322197783.pdb -s /var/tmp/to_scwrl_322197783.seq -o /var/tmp/from_scwrl_322197783.pdb > /var/tmp/scwrl_322197783.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_322197783.pdb # conformation set from SCWRL output # naming current conformation FUGMOD_TS4-scwrl # ReadConformPDB reading from PDB file servers/FUGMOD_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FUGMOD_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_864136989.pdb -s /var/tmp/to_scwrl_864136989.seq -o /var/tmp/from_scwrl_864136989.pdb > /var/tmp/scwrl_864136989.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_864136989.pdb # conformation set from SCWRL output # naming current conformation FUGMOD_TS5-scwrl # ReadConformPDB reading from PDB file servers/FUGUE_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FUGUE_AL1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2120262975.pdb -s /var/tmp/to_scwrl_2120262975.seq -o /var/tmp/from_scwrl_2120262975.pdb > /var/tmp/scwrl_2120262975.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2120262975.pdb # conformation set from SCWRL output # naming current conformation FUGUE_AL1-scwrl # ReadConformPDB reading from PDB file servers/FUGUE_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FUGUE_AL2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1859623865.pdb -s /var/tmp/to_scwrl_1859623865.seq -o /var/tmp/from_scwrl_1859623865.pdb > /var/tmp/scwrl_1859623865.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1859623865.pdb # conformation set from SCWRL output # naming current conformation FUGUE_AL2-scwrl # ReadConformPDB reading from PDB file servers/FUGUE_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FUGUE_AL3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_122488369.pdb -s /var/tmp/to_scwrl_122488369.seq -o /var/tmp/from_scwrl_122488369.pdb > /var/tmp/scwrl_122488369.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_122488369.pdb # conformation set from SCWRL output # naming current conformation FUGUE_AL3-scwrl # ReadConformPDB reading from PDB file servers/FUGUE_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FUGUE_AL4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1701933493.pdb -s /var/tmp/to_scwrl_1701933493.seq -o /var/tmp/from_scwrl_1701933493.pdb > /var/tmp/scwrl_1701933493.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1701933493.pdb # conformation set from SCWRL output # naming current conformation FUGUE_AL4-scwrl # ReadConformPDB reading from PDB file servers/FUGUE_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FUGUE_AL5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2100451023.pdb -s /var/tmp/to_scwrl_2100451023.seq -o /var/tmp/from_scwrl_2100451023.pdb > /var/tmp/scwrl_2100451023.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2100451023.pdb # conformation set from SCWRL output # naming current conformation FUGUE_AL5-scwrl # ReadConformPDB reading from PDB file servers/FUNCTION_TS1.pdb.gz looking for model 1 # Found a chain break before 94 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_56091169.pdb -s /var/tmp/to_scwrl_56091169.seq -o /var/tmp/from_scwrl_56091169.pdb > /var/tmp/scwrl_56091169.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_56091169.pdb # conformation set from SCWRL output # naming current conformation FUNCTION_TS1-scwrl # ReadConformPDB reading from PDB file servers/FUNCTION_TS2.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_31805448.pdb -s /var/tmp/to_scwrl_31805448.seq -o /var/tmp/from_scwrl_31805448.pdb > /var/tmp/scwrl_31805448.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_31805448.pdb # conformation set from SCWRL output # naming current conformation FUNCTION_TS2-scwrl # ReadConformPDB reading from PDB file servers/FUNCTION_TS3.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1201580286.pdb -s /var/tmp/to_scwrl_1201580286.seq -o /var/tmp/from_scwrl_1201580286.pdb > /var/tmp/scwrl_1201580286.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1201580286.pdb # conformation set from SCWRL output # naming current conformation FUNCTION_TS3-scwrl # ReadConformPDB reading from PDB file servers/FUNCTION_TS4.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2018119047.pdb -s /var/tmp/to_scwrl_2018119047.seq -o /var/tmp/from_scwrl_2018119047.pdb > /var/tmp/scwrl_2018119047.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2018119047.pdb # conformation set from SCWRL output # naming current conformation FUNCTION_TS4-scwrl # ReadConformPDB reading from PDB file servers/FUNCTION_TS5.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_795272745.pdb -s /var/tmp/to_scwrl_795272745.seq -o /var/tmp/from_scwrl_795272745.pdb > /var/tmp/scwrl_795272745.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_795272745.pdb # conformation set from SCWRL output # naming current conformation FUNCTION_TS5-scwrl # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS1.pdb.gz looking for model 1 # Found a chain break before 67 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1193011232.pdb -s /var/tmp/to_scwrl_1193011232.seq -o /var/tmp/from_scwrl_1193011232.pdb > /var/tmp/scwrl_1193011232.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1193011232.pdb # conformation set from SCWRL output # naming current conformation GeneSilicoMetaServer_TS1-scwrl # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS2.pdb.gz looking for model 1 # naming current conformation GeneSilicoMetaServer_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1758946444.pdb -s /var/tmp/to_scwrl_1758946444.seq -o /var/tmp/from_scwrl_1758946444.pdb > /var/tmp/scwrl_1758946444.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1758946444.pdb # conformation set from SCWRL output # naming current conformation GeneSilicoMetaServer_TS2-scwrl # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS3.pdb.gz looking for model 1 # Found a chain break before 53 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2104404189.pdb -s /var/tmp/to_scwrl_2104404189.seq -o /var/tmp/from_scwrl_2104404189.pdb > /var/tmp/scwrl_2104404189.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2104404189.pdb # conformation set from SCWRL output # naming current conformation GeneSilicoMetaServer_TS3-scwrl # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation GeneSilicoMetaServer_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1565334368.pdb -s /var/tmp/to_scwrl_1565334368.seq -o /var/tmp/from_scwrl_1565334368.pdb > /var/tmp/scwrl_1565334368.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1565334368.pdb # conformation set from SCWRL output # naming current conformation GeneSilicoMetaServer_TS4-scwrl # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS5.pdb.gz looking for model 1 # Found a chain break before 78 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_701499929.pdb -s /var/tmp/to_scwrl_701499929.seq -o /var/tmp/from_scwrl_701499929.pdb > /var/tmp/scwrl_701499929.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_701499929.pdb # conformation set from SCWRL output # naming current conformation GeneSilicoMetaServer_TS5-scwrl # ReadConformPDB reading from PDB file servers/HHpred1_TS1.pdb.gz looking for model 1 # naming current conformation HHpred1_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_957496843.pdb -s /var/tmp/to_scwrl_957496843.seq -o /var/tmp/from_scwrl_957496843.pdb > /var/tmp/scwrl_957496843.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_957496843.pdb # conformation set from SCWRL output # naming current conformation HHpred1_TS1-scwrl # ReadConformPDB reading from PDB file servers/HHpred2_TS1.pdb.gz looking for model 1 # Found a chain break before 31 # copying to AlignedFragments data structure # naming current conformation HHpred2_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1233423291.pdb -s /var/tmp/to_scwrl_1233423291.seq -o /var/tmp/from_scwrl_1233423291.pdb > /var/tmp/scwrl_1233423291.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1233423291.pdb # conformation set from SCWRL output # naming current conformation HHpred2_TS1-scwrl # ReadConformPDB reading from PDB file servers/HHpred3_TS1.pdb.gz looking for model 1 # naming current conformation HHpred3_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_67047462.pdb -s /var/tmp/to_scwrl_67047462.seq -o /var/tmp/from_scwrl_67047462.pdb > /var/tmp/scwrl_67047462.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_67047462.pdb # conformation set from SCWRL output # naming current conformation HHpred3_TS1-scwrl # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_470340557.pdb -s /var/tmp/to_scwrl_470340557.seq -o /var/tmp/from_scwrl_470340557.pdb > /var/tmp/scwrl_470340557.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_470340557.pdb # conformation set from SCWRL output # naming current conformation Huber-Torda-Server_TS1-scwrl # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_912883856.pdb -s /var/tmp/to_scwrl_912883856.seq -o /var/tmp/from_scwrl_912883856.pdb > /var/tmp/scwrl_912883856.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_912883856.pdb # conformation set from SCWRL output # naming current conformation Huber-Torda-Server_TS2-scwrl # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_288506856.pdb -s /var/tmp/to_scwrl_288506856.seq -o /var/tmp/from_scwrl_288506856.pdb > /var/tmp/scwrl_288506856.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_288506856.pdb # conformation set from SCWRL output # naming current conformation Huber-Torda-Server_TS3-scwrl # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_728571335.pdb -s /var/tmp/to_scwrl_728571335.seq -o /var/tmp/from_scwrl_728571335.pdb > /var/tmp/scwrl_728571335.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_728571335.pdb # conformation set from SCWRL output # naming current conformation Huber-Torda-Server_TS4-scwrl # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_887738637.pdb -s /var/tmp/to_scwrl_887738637.seq -o /var/tmp/from_scwrl_887738637.pdb > /var/tmp/scwrl_887738637.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_887738637.pdb # conformation set from SCWRL output # naming current conformation Huber-Torda-Server_TS5-scwrl # ReadConformPDB reading from PDB file servers/LOOPP_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation LOOPP_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1496411625.pdb -s /var/tmp/to_scwrl_1496411625.seq -o /var/tmp/from_scwrl_1496411625.pdb > /var/tmp/scwrl_1496411625.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1496411625.pdb # conformation set from SCWRL output # naming current conformation LOOPP_TS1-scwrl # ReadConformPDB reading from PDB file servers/LOOPP_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation LOOPP_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1780810086.pdb -s /var/tmp/to_scwrl_1780810086.seq -o /var/tmp/from_scwrl_1780810086.pdb > /var/tmp/scwrl_1780810086.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1780810086.pdb # conformation set from SCWRL output # naming current conformation LOOPP_TS2-scwrl # ReadConformPDB reading from PDB file servers/LOOPP_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation LOOPP_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1953349260.pdb -s /var/tmp/to_scwrl_1953349260.seq -o /var/tmp/from_scwrl_1953349260.pdb > /var/tmp/scwrl_1953349260.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1953349260.pdb # conformation set from SCWRL output # naming current conformation LOOPP_TS3-scwrl # ReadConformPDB reading from PDB file servers/LOOPP_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation LOOPP_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_393805542.pdb -s /var/tmp/to_scwrl_393805542.seq -o /var/tmp/from_scwrl_393805542.pdb > /var/tmp/scwrl_393805542.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_393805542.pdb # conformation set from SCWRL output # naming current conformation LOOPP_TS4-scwrl # ReadConformPDB reading from PDB file servers/LOOPP_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation LOOPP_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2021064003.pdb -s /var/tmp/to_scwrl_2021064003.seq -o /var/tmp/from_scwrl_2021064003.pdb > /var/tmp/scwrl_2021064003.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2021064003.pdb # conformation set from SCWRL output # naming current conformation LOOPP_TS5-scwrl # ReadConformPDB reading from PDB file servers/MIG_FROST_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation MIG_FROST_AL1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1514434635.pdb -s /var/tmp/to_scwrl_1514434635.seq -o /var/tmp/from_scwrl_1514434635.pdb > /var/tmp/scwrl_1514434635.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1514434635.pdb # conformation set from SCWRL output # naming current conformation MIG_FROST_AL1-scwrl # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS1.pdb.gz looking for model 1 # naming current conformation Ma-OPUS-server_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_716003325.pdb -s /var/tmp/to_scwrl_716003325.seq -o /var/tmp/from_scwrl_716003325.pdb > /var/tmp/scwrl_716003325.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_716003325.pdb # conformation set from SCWRL output # naming current conformation Ma-OPUS-server_TS1-scwrl # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS2.pdb.gz looking for model 1 # naming current conformation Ma-OPUS-server_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_737717346.pdb -s /var/tmp/to_scwrl_737717346.seq -o /var/tmp/from_scwrl_737717346.pdb > /var/tmp/scwrl_737717346.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_737717346.pdb # conformation set from SCWRL output # naming current conformation Ma-OPUS-server_TS2-scwrl # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS3.pdb.gz looking for model 1 # Found a chain break before 65 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1487213963.pdb -s /var/tmp/to_scwrl_1487213963.seq -o /var/tmp/from_scwrl_1487213963.pdb > /var/tmp/scwrl_1487213963.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1487213963.pdb # conformation set from SCWRL output # naming current conformation Ma-OPUS-server_TS3-scwrl # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS4.pdb.gz looking for model 1 # Found a chain break before 24 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_428143543.pdb -s /var/tmp/to_scwrl_428143543.seq -o /var/tmp/from_scwrl_428143543.pdb > /var/tmp/scwrl_428143543.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_428143543.pdb # conformation set from SCWRL output # naming current conformation Ma-OPUS-server_TS4-scwrl # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS5.pdb.gz looking for model 1 # naming current conformation Ma-OPUS-server_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_860205715.pdb -s /var/tmp/to_scwrl_860205715.seq -o /var/tmp/from_scwrl_860205715.pdb > /var/tmp/scwrl_860205715.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_860205715.pdb # conformation set from SCWRL output # naming current conformation Ma-OPUS-server_TS5-scwrl # ReadConformPDB reading from PDB file servers/MetaTasser_TS1.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1041663810.pdb -s /var/tmp/to_scwrl_1041663810.seq -o /var/tmp/from_scwrl_1041663810.pdb > /var/tmp/scwrl_1041663810.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1041663810.pdb # conformation set from SCWRL output # naming current conformation MetaTasser_TS1-scwrl # ReadConformPDB reading from PDB file servers/MetaTasser_TS2.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_381110919.pdb -s /var/tmp/to_scwrl_381110919.seq -o /var/tmp/from_scwrl_381110919.pdb > /var/tmp/scwrl_381110919.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_381110919.pdb # conformation set from SCWRL output # naming current conformation MetaTasser_TS2-scwrl # ReadConformPDB reading from PDB file servers/MetaTasser_TS3.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_916296885.pdb -s /var/tmp/to_scwrl_916296885.seq -o /var/tmp/from_scwrl_916296885.pdb > /var/tmp/scwrl_916296885.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_916296885.pdb # conformation set from SCWRL output # naming current conformation MetaTasser_TS3-scwrl # ReadConformPDB reading from PDB file servers/MetaTasser_TS4.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1073469259.pdb -s /var/tmp/to_scwrl_1073469259.seq -o /var/tmp/from_scwrl_1073469259.pdb > /var/tmp/scwrl_1073469259.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1073469259.pdb # conformation set from SCWRL output # naming current conformation MetaTasser_TS4-scwrl # ReadConformPDB reading from PDB file servers/MetaTasser_TS5.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1582691206.pdb -s /var/tmp/to_scwrl_1582691206.seq -o /var/tmp/from_scwrl_1582691206.pdb > /var/tmp/scwrl_1582691206.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1582691206.pdb # conformation set from SCWRL output # naming current conformation MetaTasser_TS5-scwrl # ReadConformPDB reading from PDB file servers/NN_PUT_lab_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation NN_PUT_lab_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_786932285.pdb -s /var/tmp/to_scwrl_786932285.seq -o /var/tmp/from_scwrl_786932285.pdb > /var/tmp/scwrl_786932285.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_786932285.pdb # conformation set from SCWRL output # naming current conformation NN_PUT_lab_TS1-scwrl # ReadConformPDB reading from PDB file servers/POMYSL_TS1.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1868742003.pdb -s /var/tmp/to_scwrl_1868742003.seq -o /var/tmp/from_scwrl_1868742003.pdb > /var/tmp/scwrl_1868742003.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1868742003.pdb # conformation set from SCWRL output # naming current conformation POMYSL_TS1-scwrl # ReadConformPDB reading from PDB file servers/POMYSL_TS2.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_628218792.pdb -s /var/tmp/to_scwrl_628218792.seq -o /var/tmp/from_scwrl_628218792.pdb > /var/tmp/scwrl_628218792.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_628218792.pdb # conformation set from SCWRL output # naming current conformation POMYSL_TS2-scwrl # ReadConformPDB reading from PDB file servers/POMYSL_TS3.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_398395082.pdb -s /var/tmp/to_scwrl_398395082.seq -o /var/tmp/from_scwrl_398395082.pdb > /var/tmp/scwrl_398395082.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_398395082.pdb # conformation set from SCWRL output # naming current conformation POMYSL_TS3-scwrl # ReadConformPDB reading from PDB file servers/POMYSL_TS4.pdb.gz looking for model 1 # Found a chain break before 76 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1825662545.pdb -s /var/tmp/to_scwrl_1825662545.seq -o /var/tmp/from_scwrl_1825662545.pdb > /var/tmp/scwrl_1825662545.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1825662545.pdb # conformation set from SCWRL output # naming current conformation POMYSL_TS4-scwrl # ReadConformPDB reading from PDB file servers/POMYSL_TS5.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_46069513.pdb -s /var/tmp/to_scwrl_46069513.seq -o /var/tmp/from_scwrl_46069513.pdb > /var/tmp/scwrl_46069513.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_46069513.pdb # conformation set from SCWRL output # naming current conformation POMYSL_TS5-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS1.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1099895010.pdb -s /var/tmp/to_scwrl_1099895010.seq -o /var/tmp/from_scwrl_1099895010.pdb > /var/tmp/scwrl_1099895010.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1099895010.pdb # conformation set from SCWRL output # naming current conformation PROTINFO-AB_TS1-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS2.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_635675741.pdb -s /var/tmp/to_scwrl_635675741.seq -o /var/tmp/from_scwrl_635675741.pdb > /var/tmp/scwrl_635675741.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_635675741.pdb # conformation set from SCWRL output # naming current conformation PROTINFO-AB_TS2-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS3.pdb.gz looking for model 1 # Found a chain break before 89 # copying to AlignedFragments data structure # naming current conformation PROTINFO-AB_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1279492804.pdb -s /var/tmp/to_scwrl_1279492804.seq -o /var/tmp/from_scwrl_1279492804.pdb > /var/tmp/scwrl_1279492804.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1279492804.pdb # conformation set from SCWRL output # naming current conformation PROTINFO-AB_TS3-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation PROTINFO-AB_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1166942472.pdb -s /var/tmp/to_scwrl_1166942472.seq -o /var/tmp/from_scwrl_1166942472.pdb > /var/tmp/scwrl_1166942472.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1166942472.pdb # conformation set from SCWRL output # naming current conformation PROTINFO-AB_TS4-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS5.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1106016298.pdb -s /var/tmp/to_scwrl_1106016298.seq -o /var/tmp/from_scwrl_1106016298.pdb > /var/tmp/scwrl_1106016298.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1106016298.pdb # conformation set from SCWRL output # naming current conformation PROTINFO-AB_TS5-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation PROTINFO_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_44893014.pdb -s /var/tmp/to_scwrl_44893014.seq -o /var/tmp/from_scwrl_44893014.pdb > /var/tmp/scwrl_44893014.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_44893014.pdb # conformation set from SCWRL output # naming current conformation PROTINFO_TS1-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO_TS2.pdb.gz looking for model 1 # Found a chain break before 60 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1455449329.pdb -s /var/tmp/to_scwrl_1455449329.seq -o /var/tmp/from_scwrl_1455449329.pdb > /var/tmp/scwrl_1455449329.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1455449329.pdb # conformation set from SCWRL output # naming current conformation PROTINFO_TS2-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO_TS3.pdb.gz looking for model 1 # Found a chain break before 82 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1834587633.pdb -s /var/tmp/to_scwrl_1834587633.seq -o /var/tmp/from_scwrl_1834587633.pdb > /var/tmp/scwrl_1834587633.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1834587633.pdb # conformation set from SCWRL output # naming current conformation PROTINFO_TS3-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO_TS4.pdb.gz looking for model 1 # naming current conformation PROTINFO_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_932631651.pdb -s /var/tmp/to_scwrl_932631651.seq -o /var/tmp/from_scwrl_932631651.pdb > /var/tmp/scwrl_932631651.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_932631651.pdb # conformation set from SCWRL output # naming current conformation PROTINFO_TS4-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO_TS5.pdb.gz looking for model 1 # naming current conformation PROTINFO_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_804377308.pdb -s /var/tmp/to_scwrl_804377308.seq -o /var/tmp/from_scwrl_804377308.pdb > /var/tmp/scwrl_804377308.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_804377308.pdb # conformation set from SCWRL output # naming current conformation PROTINFO_TS5-scwrl # ReadConformPDB reading from PDB file servers/Pcons6_TS1.pdb.gz looking for model 1 # Found a chain break before 76 # copying to AlignedFragments data structure # naming current conformation Pcons6_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1467914072.pdb -s /var/tmp/to_scwrl_1467914072.seq -o /var/tmp/from_scwrl_1467914072.pdb > /var/tmp/scwrl_1467914072.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1467914072.pdb # conformation set from SCWRL output # naming current conformation Pcons6_TS1-scwrl # ReadConformPDB reading from PDB file servers/Pcons6_TS2.pdb.gz looking for model 1 # Found a chain break before 79 # copying to AlignedFragments data structure # naming current conformation Pcons6_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_738497264.pdb -s /var/tmp/to_scwrl_738497264.seq -o /var/tmp/from_scwrl_738497264.pdb > /var/tmp/scwrl_738497264.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_738497264.pdb # conformation set from SCWRL output # naming current conformation Pcons6_TS2-scwrl # ReadConformPDB reading from PDB file servers/Pcons6_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Pcons6_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1198182849.pdb -s /var/tmp/to_scwrl_1198182849.seq -o /var/tmp/from_scwrl_1198182849.pdb > /var/tmp/scwrl_1198182849.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1198182849.pdb # conformation set from SCWRL output # naming current conformation Pcons6_TS3-scwrl # ReadConformPDB reading from PDB file servers/Pcons6_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Pcons6_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1341494429.pdb -s /var/tmp/to_scwrl_1341494429.seq -o /var/tmp/from_scwrl_1341494429.pdb > /var/tmp/scwrl_1341494429.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1341494429.pdb # conformation set from SCWRL output # naming current conformation Pcons6_TS4-scwrl # ReadConformPDB reading from PDB file servers/Pcons6_TS5.pdb.gz looking for model 1 # Found a chain break before 90 # copying to AlignedFragments data structure # naming current conformation Pcons6_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_105448252.pdb -s /var/tmp/to_scwrl_105448252.seq -o /var/tmp/from_scwrl_105448252.pdb > /var/tmp/scwrl_105448252.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_105448252.pdb # conformation set from SCWRL output # naming current conformation Pcons6_TS5-scwrl # ReadConformPDB reading from PDB file servers/Phyre-1_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Phyre-1_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1914186174.pdb -s /var/tmp/to_scwrl_1914186174.seq -o /var/tmp/from_scwrl_1914186174.pdb > /var/tmp/scwrl_1914186174.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1914186174.pdb # conformation set from SCWRL output # naming current conformation Phyre-1_TS1-scwrl # ReadConformPDB reading from PDB file servers/Phyre-2_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2079211775.pdb -s /var/tmp/to_scwrl_2079211775.seq -o /var/tmp/from_scwrl_2079211775.pdb > /var/tmp/scwrl_2079211775.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2079211775.pdb # conformation set from SCWRL output # naming current conformation Phyre-2_TS1-scwrl # ReadConformPDB reading from PDB file servers/Phyre-2_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1592662215.pdb -s /var/tmp/to_scwrl_1592662215.seq -o /var/tmp/from_scwrl_1592662215.pdb > /var/tmp/scwrl_1592662215.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1592662215.pdb # conformation set from SCWRL output # naming current conformation Phyre-2_TS2-scwrl # ReadConformPDB reading from PDB file servers/Phyre-2_TS3.pdb.gz looking for model 1 # naming current conformation Phyre-2_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_194846070.pdb -s /var/tmp/to_scwrl_194846070.seq -o /var/tmp/from_scwrl_194846070.pdb > /var/tmp/scwrl_194846070.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_194846070.pdb # conformation set from SCWRL output # naming current conformation Phyre-2_TS3-scwrl # ReadConformPDB reading from PDB file servers/Phyre-2_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_791933843.pdb -s /var/tmp/to_scwrl_791933843.seq -o /var/tmp/from_scwrl_791933843.pdb > /var/tmp/scwrl_791933843.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_791933843.pdb # conformation set from SCWRL output # naming current conformation Phyre-2_TS4-scwrl # ReadConformPDB reading from PDB file servers/Phyre-2_TS5.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_486842379.pdb -s /var/tmp/to_scwrl_486842379.seq -o /var/tmp/from_scwrl_486842379.pdb > /var/tmp/scwrl_486842379.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_486842379.pdb # conformation set from SCWRL output # naming current conformation Phyre-2_TS5-scwrl # ReadConformPDB reading from PDB file servers/Pmodeller6_TS1.pdb.gz looking for model 1 # naming current conformation Pmodeller6_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_575956990.pdb -s /var/tmp/to_scwrl_575956990.seq -o /var/tmp/from_scwrl_575956990.pdb > /var/tmp/scwrl_575956990.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_575956990.pdb # conformation set from SCWRL output # naming current conformation Pmodeller6_TS1-scwrl # ReadConformPDB reading from PDB file servers/Pmodeller6_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Pmodeller6_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1708230727.pdb -s /var/tmp/to_scwrl_1708230727.seq -o /var/tmp/from_scwrl_1708230727.pdb > /var/tmp/scwrl_1708230727.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1708230727.pdb # conformation set from SCWRL output # naming current conformation Pmodeller6_TS2-scwrl # ReadConformPDB reading from PDB file servers/Pmodeller6_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Pmodeller6_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1560311637.pdb -s /var/tmp/to_scwrl_1560311637.seq -o /var/tmp/from_scwrl_1560311637.pdb > /var/tmp/scwrl_1560311637.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1560311637.pdb # conformation set from SCWRL output # naming current conformation Pmodeller6_TS3-scwrl # ReadConformPDB reading from PDB file servers/Pmodeller6_TS4.pdb.gz looking for model 1 # Found a chain break before 91 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_11164549.pdb -s /var/tmp/to_scwrl_11164549.seq -o /var/tmp/from_scwrl_11164549.pdb > /var/tmp/scwrl_11164549.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_11164549.pdb # conformation set from SCWRL output # naming current conformation Pmodeller6_TS4-scwrl # ReadConformPDB reading from PDB file servers/Pmodeller6_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Pmodeller6_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_347679366.pdb -s /var/tmp/to_scwrl_347679366.seq -o /var/tmp/from_scwrl_347679366.pdb > /var/tmp/scwrl_347679366.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_347679366.pdb # conformation set from SCWRL output # naming current conformation Pmodeller6_TS5-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS1.pdb.gz looking for model 1 # Found a chain break before 9 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1281569993.pdb -s /var/tmp/to_scwrl_1281569993.seq -o /var/tmp/from_scwrl_1281569993.pdb > /var/tmp/scwrl_1281569993.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1281569993.pdb # conformation set from SCWRL output # naming current conformation RAPTOR-ACE_TS1-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS2.pdb.gz looking for model 1 # Found a chain break before 32 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_639383341.pdb -s /var/tmp/to_scwrl_639383341.seq -o /var/tmp/from_scwrl_639383341.pdb > /var/tmp/scwrl_639383341.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_639383341.pdb # conformation set from SCWRL output # naming current conformation RAPTOR-ACE_TS2-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS3.pdb.gz looking for model 1 # naming current conformation RAPTOR-ACE_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_746074448.pdb -s /var/tmp/to_scwrl_746074448.seq -o /var/tmp/from_scwrl_746074448.pdb > /var/tmp/scwrl_746074448.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_746074448.pdb # conformation set from SCWRL output # naming current conformation RAPTOR-ACE_TS3-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS4.pdb.gz looking for model 1 # Found a chain break before 52 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_959748892.pdb -s /var/tmp/to_scwrl_959748892.seq -o /var/tmp/from_scwrl_959748892.pdb > /var/tmp/scwrl_959748892.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_959748892.pdb # conformation set from SCWRL output # naming current conformation RAPTOR-ACE_TS4-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS5.pdb.gz looking for model 1 # Found a chain break before 43 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_685452854.pdb -s /var/tmp/to_scwrl_685452854.seq -o /var/tmp/from_scwrl_685452854.pdb > /var/tmp/scwrl_685452854.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_685452854.pdb # conformation set from SCWRL output # naming current conformation RAPTOR-ACE_TS5-scwrl # ReadConformPDB reading from PDB file servers/RAPTORESS_TS1.pdb.gz looking for model 1 # Found a chain break before 85 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1845969459.pdb -s /var/tmp/to_scwrl_1845969459.seq -o /var/tmp/from_scwrl_1845969459.pdb > /var/tmp/scwrl_1845969459.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1845969459.pdb # conformation set from SCWRL output # naming current conformation RAPTORESS_TS1-scwrl # ReadConformPDB reading from PDB file servers/RAPTORESS_TS2.pdb.gz looking for model 1 # Found a chain break before 67 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1595424632.pdb -s /var/tmp/to_scwrl_1595424632.seq -o /var/tmp/from_scwrl_1595424632.pdb > /var/tmp/scwrl_1595424632.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1595424632.pdb # conformation set from SCWRL output # naming current conformation RAPTORESS_TS2-scwrl # ReadConformPDB reading from PDB file servers/RAPTORESS_TS3.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1964945659.pdb -s /var/tmp/to_scwrl_1964945659.seq -o /var/tmp/from_scwrl_1964945659.pdb > /var/tmp/scwrl_1964945659.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1964945659.pdb # conformation set from SCWRL output # naming current conformation RAPTORESS_TS3-scwrl # ReadConformPDB reading from PDB file servers/RAPTORESS_TS4.pdb.gz looking for model 1 # naming current conformation RAPTORESS_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_865428285.pdb -s /var/tmp/to_scwrl_865428285.seq -o /var/tmp/from_scwrl_865428285.pdb > /var/tmp/scwrl_865428285.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_865428285.pdb # conformation set from SCWRL output # naming current conformation RAPTORESS_TS4-scwrl # ReadConformPDB reading from PDB file servers/RAPTORESS_TS5.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_553957284.pdb -s /var/tmp/to_scwrl_553957284.seq -o /var/tmp/from_scwrl_553957284.pdb > /var/tmp/scwrl_553957284.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_553957284.pdb # conformation set from SCWRL output # naming current conformation RAPTORESS_TS5-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR_TS1.pdb.gz looking for model 1 # Found a chain break before 75 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2009838673.pdb -s /var/tmp/to_scwrl_2009838673.seq -o /var/tmp/from_scwrl_2009838673.pdb > /var/tmp/scwrl_2009838673.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2009838673.pdb # conformation set from SCWRL output # naming current conformation RAPTOR_TS1-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR_TS2.pdb.gz looking for model 1 # Found a chain break before 9 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_173393967.pdb -s /var/tmp/to_scwrl_173393967.seq -o /var/tmp/from_scwrl_173393967.pdb > /var/tmp/scwrl_173393967.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_173393967.pdb # conformation set from SCWRL output # naming current conformation RAPTOR_TS2-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR_TS3.pdb.gz looking for model 1 # Found a chain break before 60 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_241061271.pdb -s /var/tmp/to_scwrl_241061271.seq -o /var/tmp/from_scwrl_241061271.pdb > /var/tmp/scwrl_241061271.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_241061271.pdb # conformation set from SCWRL output # naming current conformation RAPTOR_TS3-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR_TS4.pdb.gz looking for model 1 # naming current conformation RAPTOR_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_794986677.pdb -s /var/tmp/to_scwrl_794986677.seq -o /var/tmp/from_scwrl_794986677.pdb > /var/tmp/scwrl_794986677.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_794986677.pdb # conformation set from SCWRL output # naming current conformation RAPTOR_TS4-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR_TS5.pdb.gz looking for model 1 # Found a chain break before 93 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_977771276.pdb -s /var/tmp/to_scwrl_977771276.seq -o /var/tmp/from_scwrl_977771276.pdb > /var/tmp/scwrl_977771276.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_977771276.pdb # conformation set from SCWRL output # naming current conformation RAPTOR_TS5-scwrl # ReadConformPDB reading from PDB file servers/ROBETTA_TS1.pdb.gz looking for model 1 # naming current conformation ROBETTA_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1708975343.pdb -s /var/tmp/to_scwrl_1708975343.seq -o /var/tmp/from_scwrl_1708975343.pdb > /var/tmp/scwrl_1708975343.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1708975343.pdb # conformation set from SCWRL output # naming current conformation ROBETTA_TS1-scwrl # ReadConformPDB reading from PDB file servers/ROBETTA_TS2.pdb.gz looking for model 1 # Found a chain break before 79 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1533483940.pdb -s /var/tmp/to_scwrl_1533483940.seq -o /var/tmp/from_scwrl_1533483940.pdb > /var/tmp/scwrl_1533483940.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1533483940.pdb # conformation set from SCWRL output # naming current conformation ROBETTA_TS2-scwrl # ReadConformPDB reading from PDB file servers/ROBETTA_TS3.pdb.gz looking for model 1 # naming current conformation ROBETTA_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_28470478.pdb -s /var/tmp/to_scwrl_28470478.seq -o /var/tmp/from_scwrl_28470478.pdb > /var/tmp/scwrl_28470478.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_28470478.pdb # conformation set from SCWRL output # naming current conformation ROBETTA_TS3-scwrl # ReadConformPDB reading from PDB file servers/ROBETTA_TS4.pdb.gz looking for model 1 # Found a chain break before 7 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_902986126.pdb -s /var/tmp/to_scwrl_902986126.seq -o /var/tmp/from_scwrl_902986126.pdb > /var/tmp/scwrl_902986126.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_902986126.pdb # conformation set from SCWRL output # naming current conformation ROBETTA_TS4-scwrl # ReadConformPDB reading from PDB file servers/ROBETTA_TS5.pdb.gz looking for model 1 # naming current conformation ROBETTA_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1638932192.pdb -s /var/tmp/to_scwrl_1638932192.seq -o /var/tmp/from_scwrl_1638932192.pdb > /var/tmp/scwrl_1638932192.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1638932192.pdb # conformation set from SCWRL output # naming current conformation ROBETTA_TS5-scwrl # ReadConformPDB reading from PDB file servers/ROKKY_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation ROKKY_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1942656653.pdb -s /var/tmp/to_scwrl_1942656653.seq -o /var/tmp/from_scwrl_1942656653.pdb > /var/tmp/scwrl_1942656653.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1942656653.pdb # conformation set from SCWRL output # naming current conformation ROKKY_TS1-scwrl # ReadConformPDB reading from PDB file servers/ROKKY_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation ROKKY_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_834714254.pdb -s /var/tmp/to_scwrl_834714254.seq -o /var/tmp/from_scwrl_834714254.pdb > /var/tmp/scwrl_834714254.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_834714254.pdb # conformation set from SCWRL output # naming current conformation ROKKY_TS2-scwrl # ReadConformPDB reading from PDB file servers/ROKKY_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation ROKKY_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1084110760.pdb -s /var/tmp/to_scwrl_1084110760.seq -o /var/tmp/from_scwrl_1084110760.pdb > /var/tmp/scwrl_1084110760.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1084110760.pdb # conformation set from SCWRL output # naming current conformation ROKKY_TS3-scwrl # ReadConformPDB reading from PDB file servers/ROKKY_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation ROKKY_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2137502723.pdb -s /var/tmp/to_scwrl_2137502723.seq -o /var/tmp/from_scwrl_2137502723.pdb > /var/tmp/scwrl_2137502723.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2137502723.pdb # conformation set from SCWRL output # naming current conformation ROKKY_TS4-scwrl # ReadConformPDB reading from PDB file servers/ROKKY_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation ROKKY_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1626648097.pdb -s /var/tmp/to_scwrl_1626648097.seq -o /var/tmp/from_scwrl_1626648097.pdb > /var/tmp/scwrl_1626648097.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1626648097.pdb # conformation set from SCWRL output # naming current conformation ROKKY_TS5-scwrl # ReadConformPDB reading from PDB file servers/SAM-T02_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1570953139.pdb -s /var/tmp/to_scwrl_1570953139.seq -o /var/tmp/from_scwrl_1570953139.pdb > /var/tmp/scwrl_1570953139.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1570953139.pdb # conformation set from SCWRL output # naming current conformation SAM-T02_AL1-scwrl # ReadConformPDB reading from PDB file servers/SAM-T02_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_565976066.pdb -s /var/tmp/to_scwrl_565976066.seq -o /var/tmp/from_scwrl_565976066.pdb > /var/tmp/scwrl_565976066.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_565976066.pdb # conformation set from SCWRL output # naming current conformation SAM-T02_AL2-scwrl # ReadConformPDB reading from PDB file servers/SAM-T02_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1187395177.pdb -s /var/tmp/to_scwrl_1187395177.seq -o /var/tmp/from_scwrl_1187395177.pdb > /var/tmp/scwrl_1187395177.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1187395177.pdb # conformation set from SCWRL output # naming current conformation SAM-T02_AL3-scwrl # ReadConformPDB reading from PDB file servers/SAM-T02_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_983781130.pdb -s /var/tmp/to_scwrl_983781130.seq -o /var/tmp/from_scwrl_983781130.pdb > /var/tmp/scwrl_983781130.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_983781130.pdb # conformation set from SCWRL output # naming current conformation SAM-T02_AL4-scwrl # ReadConformPDB reading from PDB file servers/SAM-T02_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_577140615.pdb -s /var/tmp/to_scwrl_577140615.seq -o /var/tmp/from_scwrl_577140615.pdb > /var/tmp/scwrl_577140615.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_577140615.pdb # conformation set from SCWRL output # naming current conformation SAM-T02_AL5-scwrl # ReadConformPDB reading from PDB file servers/SAM-T99_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1535074543.pdb -s /var/tmp/to_scwrl_1535074543.seq -o /var/tmp/from_scwrl_1535074543.pdb > /var/tmp/scwrl_1535074543.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1535074543.pdb # conformation set from SCWRL output # naming current conformation SAM-T99_AL1-scwrl # ReadConformPDB reading from PDB file servers/SAM-T99_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_117867476.pdb -s /var/tmp/to_scwrl_117867476.seq -o /var/tmp/from_scwrl_117867476.pdb > /var/tmp/scwrl_117867476.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_117867476.pdb # conformation set from SCWRL output # naming current conformation SAM-T99_AL2-scwrl # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS1.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # naming current conformation SAM_T06_server_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1216523955.pdb -s /var/tmp/to_scwrl_1216523955.seq -o /var/tmp/from_scwrl_1216523955.pdb > /var/tmp/scwrl_1216523955.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1216523955.pdb # conformation set from SCWRL output # naming current conformation SAM_T06_server_TS1-scwrl # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_133665345.pdb -s /var/tmp/to_scwrl_133665345.seq -o /var/tmp/from_scwrl_133665345.pdb > /var/tmp/scwrl_133665345.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_133665345.pdb # conformation set from SCWRL output # naming current conformation SAM_T06_server_TS2-scwrl # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1077616367.pdb -s /var/tmp/to_scwrl_1077616367.seq -o /var/tmp/from_scwrl_1077616367.pdb > /var/tmp/scwrl_1077616367.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1077616367.pdb # conformation set from SCWRL output # naming current conformation SAM_T06_server_TS3-scwrl # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1901976810.pdb -s /var/tmp/to_scwrl_1901976810.seq -o /var/tmp/from_scwrl_1901976810.pdb > /var/tmp/scwrl_1901976810.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1901976810.pdb # conformation set from SCWRL output # naming current conformation SAM_T06_server_TS4-scwrl # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1979634804.pdb -s /var/tmp/to_scwrl_1979634804.seq -o /var/tmp/from_scwrl_1979634804.pdb > /var/tmp/scwrl_1979634804.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1979634804.pdb # conformation set from SCWRL output # naming current conformation SAM_T06_server_TS5-scwrl # ReadConformPDB reading from PDB file servers/SP3_TS1.pdb.gz looking for model 1 # naming current conformation SP3_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_525557354.pdb -s /var/tmp/to_scwrl_525557354.seq -o /var/tmp/from_scwrl_525557354.pdb > /var/tmp/scwrl_525557354.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_525557354.pdb # conformation set from SCWRL output # naming current conformation SP3_TS1-scwrl # ReadConformPDB reading from PDB file servers/SP3_TS2.pdb.gz looking for model 1 # Found a chain break before 82 # copying to AlignedFragments data structure # naming current conformation SP3_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1719438822.pdb -s /var/tmp/to_scwrl_1719438822.seq -o /var/tmp/from_scwrl_1719438822.pdb > /var/tmp/scwrl_1719438822.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1719438822.pdb # conformation set from SCWRL output # naming current conformation SP3_TS2-scwrl # ReadConformPDB reading from PDB file servers/SP3_TS3.pdb.gz looking for model 1 # Found a chain break before 80 # copying to AlignedFragments data structure # naming current conformation SP3_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_697579442.pdb -s /var/tmp/to_scwrl_697579442.seq -o /var/tmp/from_scwrl_697579442.pdb > /var/tmp/scwrl_697579442.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_697579442.pdb # conformation set from SCWRL output # naming current conformation SP3_TS3-scwrl # ReadConformPDB reading from PDB file servers/SP3_TS4.pdb.gz looking for model 1 # Found a chain break before 23 # copying to AlignedFragments data structure # naming current conformation SP3_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1079514637.pdb -s /var/tmp/to_scwrl_1079514637.seq -o /var/tmp/from_scwrl_1079514637.pdb > /var/tmp/scwrl_1079514637.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1079514637.pdb # conformation set from SCWRL output # naming current conformation SP3_TS4-scwrl # ReadConformPDB reading from PDB file servers/SP3_TS5.pdb.gz looking for model 1 # naming current conformation SP3_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1581793848.pdb -s /var/tmp/to_scwrl_1581793848.seq -o /var/tmp/from_scwrl_1581793848.pdb > /var/tmp/scwrl_1581793848.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1581793848.pdb # conformation set from SCWRL output # naming current conformation SP3_TS5-scwrl # ReadConformPDB reading from PDB file servers/SP4_TS1.pdb.gz looking for model 1 # Found a chain break before 79 # copying to AlignedFragments data structure # naming current conformation SP4_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_870973410.pdb -s /var/tmp/to_scwrl_870973410.seq -o /var/tmp/from_scwrl_870973410.pdb > /var/tmp/scwrl_870973410.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_870973410.pdb # conformation set from SCWRL output # naming current conformation SP4_TS1-scwrl # ReadConformPDB reading from PDB file servers/SP4_TS2.pdb.gz looking for model 1 # Found a chain break before 82 # copying to AlignedFragments data structure # naming current conformation SP4_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1320575908.pdb -s /var/tmp/to_scwrl_1320575908.seq -o /var/tmp/from_scwrl_1320575908.pdb > /var/tmp/scwrl_1320575908.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1320575908.pdb # conformation set from SCWRL output # naming current conformation SP4_TS2-scwrl # ReadConformPDB reading from PDB file servers/SP4_TS3.pdb.gz looking for model 1 # naming current conformation SP4_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_229296878.pdb -s /var/tmp/to_scwrl_229296878.seq -o /var/tmp/from_scwrl_229296878.pdb > /var/tmp/scwrl_229296878.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_229296878.pdb # conformation set from SCWRL output # naming current conformation SP4_TS3-scwrl # ReadConformPDB reading from PDB file servers/SP4_TS4.pdb.gz looking for model 1 # Found a chain break before 43 # copying to AlignedFragments data structure # naming current conformation SP4_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1848744685.pdb -s /var/tmp/to_scwrl_1848744685.seq -o /var/tmp/from_scwrl_1848744685.pdb > /var/tmp/scwrl_1848744685.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1848744685.pdb # conformation set from SCWRL output # naming current conformation SP4_TS4-scwrl # ReadConformPDB reading from PDB file servers/SP4_TS5.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation SP4_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_882067606.pdb -s /var/tmp/to_scwrl_882067606.seq -o /var/tmp/from_scwrl_882067606.pdb > /var/tmp/scwrl_882067606.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_882067606.pdb # conformation set from SCWRL output # naming current conformation SP4_TS5-scwrl # ReadConformPDB reading from PDB file servers/SPARKS2_TS1.pdb.gz looking for model 1 # naming current conformation SPARKS2_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1762780818.pdb -s /var/tmp/to_scwrl_1762780818.seq -o /var/tmp/from_scwrl_1762780818.pdb > /var/tmp/scwrl_1762780818.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1762780818.pdb # conformation set from SCWRL output # naming current conformation SPARKS2_TS1-scwrl # ReadConformPDB reading from PDB file servers/SPARKS2_TS2.pdb.gz looking for model 1 # naming current conformation SPARKS2_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1877215163.pdb -s /var/tmp/to_scwrl_1877215163.seq -o /var/tmp/from_scwrl_1877215163.pdb > /var/tmp/scwrl_1877215163.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1877215163.pdb # conformation set from SCWRL output # naming current conformation SPARKS2_TS2-scwrl # ReadConformPDB reading from PDB file servers/SPARKS2_TS3.pdb.gz looking for model 1 # Found a chain break before 91 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1785053731.pdb -s /var/tmp/to_scwrl_1785053731.seq -o /var/tmp/from_scwrl_1785053731.pdb > /var/tmp/scwrl_1785053731.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1785053731.pdb # conformation set from SCWRL output # naming current conformation SPARKS2_TS3-scwrl # ReadConformPDB reading from PDB file servers/SPARKS2_TS4.pdb.gz looking for model 1 # naming current conformation SPARKS2_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1254229363.pdb -s /var/tmp/to_scwrl_1254229363.seq -o /var/tmp/from_scwrl_1254229363.pdb > /var/tmp/scwrl_1254229363.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1254229363.pdb # conformation set from SCWRL output # naming current conformation SPARKS2_TS4-scwrl # ReadConformPDB reading from PDB file servers/SPARKS2_TS5.pdb.gz looking for model 1 # naming current conformation SPARKS2_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1672388169.pdb -s /var/tmp/to_scwrl_1672388169.seq -o /var/tmp/from_scwrl_1672388169.pdb > /var/tmp/scwrl_1672388169.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1672388169.pdb # conformation set from SCWRL output # naming current conformation SPARKS2_TS5-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_472284339.pdb -s /var/tmp/to_scwrl_472284339.seq -o /var/tmp/from_scwrl_472284339.pdb > /var/tmp/scwrl_472284339.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_472284339.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_bnmx_TS1-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_190856477.pdb -s /var/tmp/to_scwrl_190856477.seq -o /var/tmp/from_scwrl_190856477.pdb > /var/tmp/scwrl_190856477.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_190856477.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_bnmx_TS2-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1662407246.pdb -s /var/tmp/to_scwrl_1662407246.seq -o /var/tmp/from_scwrl_1662407246.pdb > /var/tmp/scwrl_1662407246.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1662407246.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_bnmx_TS3-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2098932436.pdb -s /var/tmp/to_scwrl_2098932436.seq -o /var/tmp/from_scwrl_2098932436.pdb > /var/tmp/scwrl_2098932436.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2098932436.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_bnmx_TS4-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1761809617.pdb -s /var/tmp/to_scwrl_1761809617.seq -o /var/tmp/from_scwrl_1761809617.pdb > /var/tmp/scwrl_1761809617.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1761809617.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_bnmx_TS5-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_expm_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_expm_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_80899665.pdb -s /var/tmp/to_scwrl_80899665.seq -o /var/tmp/from_scwrl_80899665.pdb > /var/tmp/scwrl_80899665.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_80899665.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_expm_TS1-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1138843966.pdb -s /var/tmp/to_scwrl_1138843966.seq -o /var/tmp/from_scwrl_1138843966.pdb > /var/tmp/scwrl_1138843966.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1138843966.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_sfst_AL1-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_598107100.pdb -s /var/tmp/to_scwrl_598107100.seq -o /var/tmp/from_scwrl_598107100.pdb > /var/tmp/scwrl_598107100.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_598107100.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_sfst_AL2-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_658040281.pdb -s /var/tmp/to_scwrl_658040281.seq -o /var/tmp/from_scwrl_658040281.pdb > /var/tmp/scwrl_658040281.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_658040281.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_sfst_AL3-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_526434864.pdb -s /var/tmp/to_scwrl_526434864.seq -o /var/tmp/from_scwrl_526434864.pdb > /var/tmp/scwrl_526434864.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_526434864.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_sfst_AL4-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_715974577.pdb -s /var/tmp/to_scwrl_715974577.seq -o /var/tmp/from_scwrl_715974577.pdb > /var/tmp/scwrl_715974577.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_715974577.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_sfst_AL5-scwrl # ReadConformPDB reading from PDB file servers/Zhang-Server_TS1.pdb.gz looking for model 1 # Found a chain break before 95 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1874564236.pdb -s /var/tmp/to_scwrl_1874564236.seq -o /var/tmp/from_scwrl_1874564236.pdb > /var/tmp/scwrl_1874564236.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1874564236.pdb # conformation set from SCWRL output # naming current conformation Zhang-Server_TS1-scwrl # ReadConformPDB reading from PDB file servers/Zhang-Server_TS2.pdb.gz looking for model 1 # Found a chain break before 93 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_660100209.pdb -s /var/tmp/to_scwrl_660100209.seq -o /var/tmp/from_scwrl_660100209.pdb > /var/tmp/scwrl_660100209.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_660100209.pdb # conformation set from SCWRL output # naming current conformation Zhang-Server_TS2-scwrl # ReadConformPDB reading from PDB file servers/Zhang-Server_TS3.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1793590944.pdb -s /var/tmp/to_scwrl_1793590944.seq -o /var/tmp/from_scwrl_1793590944.pdb > /var/tmp/scwrl_1793590944.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1793590944.pdb # conformation set from SCWRL output # naming current conformation Zhang-Server_TS3-scwrl # ReadConformPDB reading from PDB file servers/Zhang-Server_TS4.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1629057399.pdb -s /var/tmp/to_scwrl_1629057399.seq -o /var/tmp/from_scwrl_1629057399.pdb > /var/tmp/scwrl_1629057399.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1629057399.pdb # conformation set from SCWRL output # naming current conformation Zhang-Server_TS4-scwrl # ReadConformPDB reading from PDB file servers/Zhang-Server_TS5.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_492251366.pdb -s /var/tmp/to_scwrl_492251366.seq -o /var/tmp/from_scwrl_492251366.pdb > /var/tmp/scwrl_492251366.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_492251366.pdb # conformation set from SCWRL output # naming current conformation Zhang-Server_TS5-scwrl # ReadConformPDB reading from PDB file servers/beautshot_TS1.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation beautshot_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_171664651.pdb -s /var/tmp/to_scwrl_171664651.seq -o /var/tmp/from_scwrl_171664651.pdb > /var/tmp/scwrl_171664651.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_171664651.pdb # conformation set from SCWRL output # naming current conformation beautshot_TS1-scwrl # ReadConformPDB reading from PDB file servers/beautshotbase_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation beautshotbase_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1201012574.pdb -s /var/tmp/to_scwrl_1201012574.seq -o /var/tmp/from_scwrl_1201012574.pdb > /var/tmp/scwrl_1201012574.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1201012574.pdb # conformation set from SCWRL output # naming current conformation beautshotbase_TS1-scwrl # ReadConformPDB reading from PDB file servers/forecast-s_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation forecast-s_AL1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1189830807.pdb -s /var/tmp/to_scwrl_1189830807.seq -o /var/tmp/from_scwrl_1189830807.pdb > /var/tmp/scwrl_1189830807.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1189830807.pdb # conformation set from SCWRL output # naming current conformation forecast-s_AL1-scwrl # ReadConformPDB reading from PDB file servers/forecast-s_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation forecast-s_AL2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1251179289.pdb -s /var/tmp/to_scwrl_1251179289.seq -o /var/tmp/from_scwrl_1251179289.pdb > /var/tmp/scwrl_1251179289.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1251179289.pdb # conformation set from SCWRL output # naming current conformation forecast-s_AL2-scwrl # ReadConformPDB reading from PDB file servers/forecast-s_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation forecast-s_AL3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_635322776.pdb -s /var/tmp/to_scwrl_635322776.seq -o /var/tmp/from_scwrl_635322776.pdb > /var/tmp/scwrl_635322776.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_635322776.pdb # conformation set from SCWRL output # naming current conformation forecast-s_AL3-scwrl # ReadConformPDB reading from PDB file servers/forecast-s_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation forecast-s_AL4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2060804217.pdb -s /var/tmp/to_scwrl_2060804217.seq -o /var/tmp/from_scwrl_2060804217.pdb > /var/tmp/scwrl_2060804217.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2060804217.pdb # conformation set from SCWRL output # naming current conformation forecast-s_AL4-scwrl # ReadConformPDB reading from PDB file servers/forecast-s_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation forecast-s_AL5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_424271551.pdb -s /var/tmp/to_scwrl_424271551.seq -o /var/tmp/from_scwrl_424271551.pdb > /var/tmp/scwrl_424271551.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_424271551.pdb # conformation set from SCWRL output # naming current conformation forecast-s_AL5-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS1.pdb.gz looking for model 1 # Found a chain break before 46 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_864619654.pdb -s /var/tmp/to_scwrl_864619654.seq -o /var/tmp/from_scwrl_864619654.pdb > /var/tmp/scwrl_864619654.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_864619654.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.2_TS1-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS2.pdb.gz looking for model 1 # Found a chain break before 82 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1762065255.pdb -s /var/tmp/to_scwrl_1762065255.seq -o /var/tmp/from_scwrl_1762065255.pdb > /var/tmp/scwrl_1762065255.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1762065255.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.2_TS2-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS3.pdb.gz looking for model 1 # Found a chain break before 79 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1306339156.pdb -s /var/tmp/to_scwrl_1306339156.seq -o /var/tmp/from_scwrl_1306339156.pdb > /var/tmp/scwrl_1306339156.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1306339156.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.2_TS3-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS4.pdb.gz looking for model 1 # Found a chain break before 89 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_479916825.pdb -s /var/tmp/to_scwrl_479916825.seq -o /var/tmp/from_scwrl_479916825.pdb > /var/tmp/scwrl_479916825.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_479916825.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.2_TS4-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS5.pdb.gz looking for model 1 # Found a chain break before 63 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1491796772.pdb -s /var/tmp/to_scwrl_1491796772.seq -o /var/tmp/from_scwrl_1491796772.pdb > /var/tmp/scwrl_1491796772.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1491796772.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.2_TS5-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS1.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_943909242.pdb -s /var/tmp/to_scwrl_943909242.seq -o /var/tmp/from_scwrl_943909242.pdb > /var/tmp/scwrl_943909242.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_943909242.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.4_TS1-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS2.pdb.gz looking for model 1 WARNING: atoms too close: (T0300)S3.O and (T0300)K4.N only 0.0000000e+00 apart, marking (T0300)K4.N as missing WARNING: atoms too close: (T0300)L27.O and (T0300)K28.N only 0.0000000e+00 apart, marking (T0300)K28.N as missing # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1734146188.pdb -s /var/tmp/to_scwrl_1734146188.seq -o /var/tmp/from_scwrl_1734146188.pdb > /var/tmp/scwrl_1734146188.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1734146188.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.4_TS2-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS3.pdb.gz looking for model 1 WARNING: atoms too close: (T0300)K30.O and (T0300)V31.N only 0.0000000e+00 apart, marking (T0300)V31.N as missing WARNING: atoms too close: (T0300)E82.O and (T0300)Q83.N only 0.0000000e+00 apart, marking (T0300)Q83.N as missing # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1016701295.pdb -s /var/tmp/to_scwrl_1016701295.seq -o /var/tmp/from_scwrl_1016701295.pdb > /var/tmp/scwrl_1016701295.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1016701295.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.4_TS3-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS4.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1416193580.pdb -s /var/tmp/to_scwrl_1416193580.seq -o /var/tmp/from_scwrl_1416193580.pdb > /var/tmp/scwrl_1416193580.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1416193580.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.4_TS4-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS5.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1925002666.pdb -s /var/tmp/to_scwrl_1925002666.seq -o /var/tmp/from_scwrl_1925002666.pdb > /var/tmp/scwrl_1925002666.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1925002666.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.4_TS5-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_531624894.pdb -s /var/tmp/to_scwrl_531624894.seq -o /var/tmp/from_scwrl_531624894.pdb > /var/tmp/scwrl_531624894.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_531624894.pdb # conformation set from SCWRL output # naming current conformation karypis.srv_TS1-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1367642369.pdb -s /var/tmp/to_scwrl_1367642369.seq -o /var/tmp/from_scwrl_1367642369.pdb > /var/tmp/scwrl_1367642369.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1367642369.pdb # conformation set from SCWRL output # naming current conformation karypis.srv_TS2-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1539328636.pdb -s /var/tmp/to_scwrl_1539328636.seq -o /var/tmp/from_scwrl_1539328636.pdb > /var/tmp/scwrl_1539328636.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1539328636.pdb # conformation set from SCWRL output # naming current conformation karypis.srv_TS3-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_612524560.pdb -s /var/tmp/to_scwrl_612524560.seq -o /var/tmp/from_scwrl_612524560.pdb > /var/tmp/scwrl_612524560.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_612524560.pdb # conformation set from SCWRL output # naming current conformation karypis.srv_TS4-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_359002689.pdb -s /var/tmp/to_scwrl_359002689.seq -o /var/tmp/from_scwrl_359002689.pdb > /var/tmp/scwrl_359002689.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_359002689.pdb # conformation set from SCWRL output # naming current conformation karypis.srv_TS5-scwrl # ReadConformPDB reading from PDB file servers/keasar-server_TS1.pdb.gz looking for model 1 # Found a chain break before 94 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2137435736.pdb -s /var/tmp/to_scwrl_2137435736.seq -o /var/tmp/from_scwrl_2137435736.pdb > /var/tmp/scwrl_2137435736.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2137435736.pdb # conformation set from SCWRL output # naming current conformation keasar-server_TS1-scwrl # ReadConformPDB reading from PDB file servers/keasar-server_TS2.pdb.gz looking for model 1 # Found a chain break before 94 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1270564840.pdb -s /var/tmp/to_scwrl_1270564840.seq -o /var/tmp/from_scwrl_1270564840.pdb > /var/tmp/scwrl_1270564840.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1270564840.pdb # conformation set from SCWRL output # naming current conformation keasar-server_TS2-scwrl # ReadConformPDB reading from PDB file servers/keasar-server_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation keasar-server_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_885437553.pdb -s /var/tmp/to_scwrl_885437553.seq -o /var/tmp/from_scwrl_885437553.pdb > /var/tmp/scwrl_885437553.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_885437553.pdb # conformation set from SCWRL output # naming current conformation keasar-server_TS3-scwrl # ReadConformPDB reading from PDB file servers/keasar-server_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation keasar-server_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_705926666.pdb -s /var/tmp/to_scwrl_705926666.seq -o /var/tmp/from_scwrl_705926666.pdb > /var/tmp/scwrl_705926666.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_705926666.pdb # conformation set from SCWRL output # naming current conformation keasar-server_TS4-scwrl # ReadConformPDB reading from PDB file servers/keasar-server_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation keasar-server_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_997645430.pdb -s /var/tmp/to_scwrl_997645430.seq -o /var/tmp/from_scwrl_997645430.pdb > /var/tmp/scwrl_997645430.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_997645430.pdb # conformation set from SCWRL output # naming current conformation keasar-server_TS5-scwrl # ReadConformPDB reading from PDB file servers/mGen-3D_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation mGen-3D_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1545537761.pdb -s /var/tmp/to_scwrl_1545537761.seq -o /var/tmp/from_scwrl_1545537761.pdb > /var/tmp/scwrl_1545537761.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1545537761.pdb # conformation set from SCWRL output # naming current conformation mGen-3D_TS1-scwrl # ReadConformPDB reading from PDB file servers/nFOLD_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation nFOLD_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_352033964.pdb -s /var/tmp/to_scwrl_352033964.seq -o /var/tmp/from_scwrl_352033964.pdb > /var/tmp/scwrl_352033964.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_352033964.pdb # conformation set from SCWRL output # naming current conformation nFOLD_TS1-scwrl # ReadConformPDB reading from PDB file servers/nFOLD_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation nFOLD_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_479219183.pdb -s /var/tmp/to_scwrl_479219183.seq -o /var/tmp/from_scwrl_479219183.pdb > /var/tmp/scwrl_479219183.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_479219183.pdb # conformation set from SCWRL output # naming current conformation nFOLD_TS2-scwrl # ReadConformPDB reading from PDB file servers/nFOLD_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation nFOLD_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2037789127.pdb -s /var/tmp/to_scwrl_2037789127.seq -o /var/tmp/from_scwrl_2037789127.pdb > /var/tmp/scwrl_2037789127.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2037789127.pdb # conformation set from SCWRL output # naming current conformation nFOLD_TS3-scwrl # ReadConformPDB reading from PDB file servers/nFOLD_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation nFOLD_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_523698615.pdb -s /var/tmp/to_scwrl_523698615.seq -o /var/tmp/from_scwrl_523698615.pdb > /var/tmp/scwrl_523698615.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_523698615.pdb # conformation set from SCWRL output # naming current conformation nFOLD_TS4-scwrl # ReadConformPDB reading from PDB file servers/nFOLD_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation nFOLD_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1680231757.pdb -s /var/tmp/to_scwrl_1680231757.seq -o /var/tmp/from_scwrl_1680231757.pdb > /var/tmp/scwrl_1680231757.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1680231757.pdb # conformation set from SCWRL output # naming current conformation nFOLD_TS5-scwrl # ReadConformPDB reading from PDB file servers/panther2_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation panther2_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1080136288.pdb -s /var/tmp/to_scwrl_1080136288.seq -o /var/tmp/from_scwrl_1080136288.pdb > /var/tmp/scwrl_1080136288.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1080136288.pdb # conformation set from SCWRL output # naming current conformation panther2_TS1-scwrl # ReadConformPDB reading from PDB file servers/shub_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation shub_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1774877904.pdb -s /var/tmp/to_scwrl_1774877904.seq -o /var/tmp/from_scwrl_1774877904.pdb > /var/tmp/scwrl_1774877904.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1774877904.pdb # conformation set from SCWRL output # naming current conformation shub_TS1-scwrl # command:CPU_time= 24.7572 sec, elapsed time= 217.594 sec) # command:# Prefix for output files set to decoys/ # command:# Will now start reporting costs to decoys/evaluate.rdb # command:# CostConform Warning: Couldn't open file decoys//projects/compbio/experiments/undertaker/spots/near-backbone-center.spot or decoys//projects/compbio/experiments/undertaker/spots/near-backbone-center.spot.gz for input Trying /projects/compbio/experiments/undertaker/spots/near-backbone-center.spot # Reading spots from /projects/compbio/experiments/undertaker/spots/near-backbone-center.spot shub_TS1-scwrl costs 0 real_cost = 128.059 shub_TS1 costs 0 real_cost = 129.65 panther2_TS1-scwrl costs 0 real_cost = 203.559 panther2_TS1 costs 0 real_cost = 221.241 nFOLD_TS5-scwrl costs 0 real_cost = 198.939 nFOLD_TS5 costs 0 real_cost = 198.941 nFOLD_TS4-scwrl costs 0 real_cost = 169.453 nFOLD_TS4 costs 0 real_cost = 200.614 nFOLD_TS3-scwrl costs 0 real_cost = 168.339 nFOLD_TS3 costs 0 real_cost = 168.344 nFOLD_TS2-scwrl costs 0 real_cost = 197.633 nFOLD_TS2 costs 0 real_cost = 238.35 nFOLD_TS1-scwrl costs 0 real_cost = 185.196 nFOLD_TS1 costs 0 real_cost = 225.543 mGen-3D_TS1-scwrl costs 0 real_cost = 102.244 mGen-3D_TS1 costs 0 real_cost = 116.927 keasar-server_TS5-scwrl costs 0 real_cost = 101.37 keasar-server_TS5 costs 0 real_cost = 123.048 keasar-server_TS4-scwrl costs 0 real_cost = 255.469 keasar-server_TS4 costs 0 real_cost = 266.367 keasar-server_TS3-scwrl costs 0 real_cost = 246.112 keasar-server_TS3 costs 0 real_cost = 255.782 keasar-server_TS2-scwrl costs 0 real_cost = 255.405 keasar-server_TS2 costs 0 real_cost = 271.109 keasar-server_TS1-scwrl costs 0 real_cost = 271.154 keasar-server_TS1 costs 0 real_cost = 273.487 karypis.srv_TS5-scwrl costs 0 real_cost = 209.389 karypis.srv_TS5 costs 0 real_cost = 205.14 karypis.srv_TS4-scwrl costs 0 real_cost = 203.75 karypis.srv_TS4 costs 0 real_cost = 202.167 karypis.srv_TS3-scwrl costs 0 real_cost = 215.245 karypis.srv_TS3 costs 0 real_cost = 212.49 karypis.srv_TS2-scwrl costs 0 real_cost = 155.812 karypis.srv_TS2 costs 0 real_cost = 151.972 karypis.srv_TS1-scwrl costs 0 real_cost = 244.583 karypis.srv_TS1 costs 0 real_cost = 241.969 karypis.srv.4_TS5-scwrl costs 0 real_cost = 253.614 karypis.srv.4_TS5 costs 0 real_cost = 255.589 karypis.srv.4_TS4-scwrl costs 0 real_cost = 219.338 karypis.srv.4_TS4 costs 0 real_cost = 212.68 karypis.srv.4_TS3-scwrl costs 0 real_cost = 277.894 karypis.srv.4_TS3 costs 0 real_cost = 278.63 karypis.srv.4_TS2-scwrl costs 0 real_cost = 262.064 karypis.srv.4_TS2 costs 0 real_cost = 256.416 karypis.srv.4_TS1-scwrl costs 0 real_cost = 210.716 karypis.srv.4_TS1 costs 0 real_cost = 210.711 karypis.srv.2_TS5-scwrl costs 0 real_cost = 228.544 karypis.srv.2_TS5 costs 0 real_cost = 228.544 karypis.srv.2_TS4-scwrl costs 0 real_cost = 199.059 karypis.srv.2_TS4 costs 0 real_cost = 198.317 karypis.srv.2_TS3-scwrl costs 0 real_cost = 270.143 karypis.srv.2_TS3 costs 0 real_cost = 270.143 karypis.srv.2_TS2-scwrl costs 0 real_cost = 232.856 karypis.srv.2_TS2 costs 0 real_cost = 232.856 karypis.srv.2_TS1-scwrl costs 0 real_cost = 161.75 karypis.srv.2_TS1 costs 0 real_cost = 161.75 forecast-s_AL5-scwrl costs 0 real_cost = 291.59 forecast-s_AL5 costs 0 real_cost = 314.444 forecast-s_AL4-scwrl costs 0 real_cost = 280.408 forecast-s_AL4 costs 0 real_cost = 315.667 forecast-s_AL3-scwrl costs 0 real_cost = 284.145 forecast-s_AL3 costs 0 real_cost = 345.234 forecast-s_AL2-scwrl costs 0 real_cost = 328.067 forecast-s_AL2 costs 0 real_cost = 364.774 forecast-s_AL1-scwrl costs 0 real_cost = 332.558 forecast-s_AL1 costs 0 real_cost = 352.413 beautshotbase_TS1-scwrl costs 0 real_cost = 116.416 beautshotbase_TS1 costs 0 real_cost = 103.583 beautshot_TS1-scwrl costs 0 real_cost = 120.742 beautshot_TS1 costs 0 real_cost = 118.89 Zhang-Server_TS5-scwrl costs 0 real_cost = 58.7037 Zhang-Server_TS5 costs 0 real_cost = 67.8513 Zhang-Server_TS4-scwrl costs 0 real_cost = 73.1471 Zhang-Server_TS4 costs 0 real_cost = 85.2797 Zhang-Server_TS3-scwrl costs 0 real_cost = 82.3289 Zhang-Server_TS3 costs 0 real_cost = 82.9042 Zhang-Server_TS2-scwrl costs 0 real_cost = 50.9264 Zhang-Server_TS2 costs 0 real_cost = 59.0157 Zhang-Server_TS1-scwrl costs 0 real_cost = 45.0008 Zhang-Server_TS1 costs 0 real_cost = 61.856 UNI-EID_sfst_AL5-scwrl costs 0 real_cost = 229.516 UNI-EID_sfst_AL5 costs 0 real_cost = 242.372 UNI-EID_sfst_AL4-scwrl costs 0 real_cost = 131.905 UNI-EID_sfst_AL4 costs 0 real_cost = 168.317 UNI-EID_sfst_AL3-scwrl costs 0 real_cost = 116.335 UNI-EID_sfst_AL3 costs 0 real_cost = 163.896 UNI-EID_sfst_AL2-scwrl costs 0 real_cost = 189.314 UNI-EID_sfst_AL2 costs 0 real_cost = 221.364 UNI-EID_sfst_AL1-scwrl costs 0 real_cost = 235.63 UNI-EID_sfst_AL1 costs 0 real_cost = 265.758 UNI-EID_expm_TS1-scwrl costs 0 real_cost = 166.9 UNI-EID_expm_TS1 costs 0 real_cost = 199.317 UNI-EID_bnmx_TS5-scwrl costs 0 real_cost = 203.406 UNI-EID_bnmx_TS5 costs 0 real_cost = 244.623 UNI-EID_bnmx_TS4-scwrl costs 0 real_cost = 131.509 UNI-EID_bnmx_TS4 costs 0 real_cost = 174.826 UNI-EID_bnmx_TS3-scwrl costs 0 real_cost = 109.067 UNI-EID_bnmx_TS3 costs 0 real_cost = 163.127 UNI-EID_bnmx_TS2-scwrl costs 0 real_cost = 159.867 UNI-EID_bnmx_TS2 costs 0 real_cost = 208.724 UNI-EID_bnmx_TS1-scwrl costs 0 real_cost = 140.555 UNI-EID_bnmx_TS1 costs 0 real_cost = 185.83 SPARKS2_TS5-scwrl costs 0 real_cost = 204.398 SPARKS2_TS5 costs 0 real_cost = 207.593 SPARKS2_TS4-scwrl costs 0 real_cost = 99.6699 SPARKS2_TS4 costs 0 real_cost = 102.407 SPARKS2_TS3-scwrl costs 0 real_cost = 190.849 SPARKS2_TS3 costs 0 real_cost = 197.341 SPARKS2_TS2-scwrl costs 0 real_cost = 97.1317 SPARKS2_TS2 costs 0 real_cost = 97.16 SPARKS2_TS1-scwrl costs 0 real_cost = 125.166 SPARKS2_TS1 costs 0 real_cost = 128.977 SP4_TS5-scwrl costs 0 real_cost = 90.2456 SP4_TS5 costs 0 real_cost = 90.617 SP4_TS4-scwrl costs 0 real_cost = 203.616 SP4_TS4 costs 0 real_cost = 206.65 SP4_TS3-scwrl costs 0 real_cost = 77.5971 SP4_TS3 costs 0 real_cost = 79.6155 SP4_TS2-scwrl costs 0 real_cost = 198.496 SP4_TS2 costs 0 real_cost = 188.106 SP4_TS1-scwrl costs 0 real_cost = 149.622 SP4_TS1 costs 0 real_cost = 152.688 SP3_TS5-scwrl costs 0 real_cost = 95.3532 SP3_TS5 costs 0 real_cost = 106.61 SP3_TS4-scwrl costs 0 real_cost = 172.924 SP3_TS4 costs 0 real_cost = 173.607 SP3_TS3-scwrl costs 0 real_cost = 201.255 SP3_TS3 costs 0 real_cost = 206.733 SP3_TS2-scwrl costs 0 real_cost = 193.119 SP3_TS2 costs 0 real_cost = 195.649 SP3_TS1-scwrl costs 0 real_cost = 99.6699 SP3_TS1 costs 0 real_cost = 102.407 SAM_T06_server_TS5-scwrl costs 0 real_cost = 259.573 SAM_T06_server_TS5 costs 0 real_cost = 255.207 SAM_T06_server_TS4-scwrl costs 0 real_cost = 222.864 SAM_T06_server_TS4 costs 0 real_cost = 210.778 SAM_T06_server_TS3-scwrl costs 0 real_cost = 302.511 SAM_T06_server_TS3 costs 0 real_cost = 298.757 SAM_T06_server_TS2-scwrl costs 0 real_cost = 236.165 SAM_T06_server_TS2 costs 0 real_cost = 231.55 SAM_T06_server_TS1-scwrl costs 0 real_cost = 173.38 SAM_T06_server_TS1 costs 0 real_cost = 174.894 SAM-T99_AL2-scwrl costs 0 real_cost = 117.247 SAM-T99_AL2 costs 0 real_cost = 97.4908 SAM-T99_AL1-scwrl costs 0 real_cost = 123.648 SAM-T99_AL1 costs 0 real_cost = 95.9077 SAM-T02_AL5-scwrl costs 0 real_cost = 231.149 SAM-T02_AL5 costs 0 real_cost = 284.452 SAM-T02_AL4-scwrl costs 0 real_cost = 233.906 SAM-T02_AL4 costs 0 real_cost = 283.445 SAM-T02_AL3-scwrl costs 0 real_cost = 167.222 SAM-T02_AL3 costs 0 real_cost = 148.031 SAM-T02_AL2-scwrl costs 0 real_cost = 162.633 SAM-T02_AL2 costs 0 real_cost = 281.004 SAM-T02_AL1-scwrl costs 0 real_cost = 273.801 SAM-T02_AL1 costs 0 real_cost = 279.118 ROKKY_TS5-scwrl costs 0 real_cost = 65.6338 ROKKY_TS5 costs 0 real_cost = 140.634 ROKKY_TS4-scwrl costs 0 real_cost = 56.5229 ROKKY_TS4 costs 0 real_cost = 130.153 ROKKY_TS3-scwrl costs 0 real_cost = 66.2802 ROKKY_TS3 costs 0 real_cost = 133.276 ROKKY_TS2-scwrl costs 0 real_cost = 58.3494 ROKKY_TS2 costs 0 real_cost = 129.378 ROKKY_TS1-scwrl costs 0 real_cost = 53.1677 ROKKY_TS1 costs 0 real_cost = 128.434 ROBETTA_TS5-scwrl costs 0 real_cost = 84.0305 ROBETTA_TS5 costs 0 real_cost = 79.4018 ROBETTA_TS4-scwrl costs 0 real_cost = 92.6866 ROBETTA_TS4 costs 0 real_cost = 93.0116 ROBETTA_TS3-scwrl costs 0 real_cost = 81.219 ROBETTA_TS3 costs 0 real_cost = 76.1352 ROBETTA_TS2-scwrl costs 0 real_cost = 88.4366 ROBETTA_TS2 costs 0 real_cost = 87.1099 ROBETTA_TS1-scwrl costs 0 real_cost = 84.704 ROBETTA_TS1 costs 0 real_cost = 79.8958 RAPTOR_TS5-scwrl costs 0 real_cost = 131.104 RAPTOR_TS5 costs 0 real_cost = 147.917 RAPTOR_TS4-scwrl costs 0 real_cost = 109.547 RAPTOR_TS4 costs 0 real_cost = 108.014 RAPTOR_TS3-scwrl costs 0 real_cost = 155.284 RAPTOR_TS3 costs 0 real_cost = 168.146 RAPTOR_TS2-scwrl costs 0 real_cost = 163.28 RAPTOR_TS2 costs 0 real_cost = 172.89 RAPTOR_TS1-scwrl costs 0 real_cost = 167.384 RAPTOR_TS1 costs 0 real_cost = 168.327 RAPTORESS_TS5-scwrl costs 0 real_cost = 173.446 RAPTORESS_TS5 costs 0 real_cost = 177.432 RAPTORESS_TS4-scwrl costs 0 real_cost = 131.541 RAPTORESS_TS4 costs 0 real_cost = 138.952 RAPTORESS_TS3-scwrl costs 0 real_cost = 186.989 RAPTORESS_TS3 costs 0 real_cost = 191.81 RAPTORESS_TS2-scwrl costs 0 real_cost = 240.735 RAPTORESS_TS2 costs 0 real_cost = 244.368 RAPTORESS_TS1-scwrl costs 0 real_cost = 170.231 RAPTORESS_TS1 costs 0 real_cost = 176.094 RAPTOR-ACE_TS5-scwrl costs 0 real_cost = 121.354 RAPTOR-ACE_TS5 costs 0 real_cost = 129.878 RAPTOR-ACE_TS4-scwrl costs 0 real_cost = 134.398 RAPTOR-ACE_TS4 costs 0 real_cost = 128.392 RAPTOR-ACE_TS3-scwrl costs 0 real_cost = 95.3532 RAPTOR-ACE_TS3 costs 0 real_cost = 106.61 RAPTOR-ACE_TS2-scwrl costs 0 real_cost = 104.447 RAPTOR-ACE_TS2 costs 0 real_cost = 114.442 RAPTOR-ACE_TS1-scwrl costs 0 real_cost = 95.4222 RAPTOR-ACE_TS1 costs 0 real_cost = 100.686 Pmodeller6_TS5-scwrl costs 0 real_cost = 97.8328 Pmodeller6_TS5 costs 0 real_cost = 95.9685 Pmodeller6_TS4-scwrl costs 0 real_cost = 122.077 Pmodeller6_TS4 costs 0 real_cost = 120.743 Pmodeller6_TS3-scwrl costs 0 real_cost = 128.235 Pmodeller6_TS3 costs 0 real_cost = 128.158 Pmodeller6_TS2-scwrl costs 0 real_cost = 60.4056 Pmodeller6_TS2 costs 0 real_cost = 57.7579 Pmodeller6_TS1-scwrl costs 0 real_cost = 4.41303 Pmodeller6_TS1 costs 0 real_cost = 8.22784 Phyre-2_TS5-scwrl costs 0 real_cost = 124.477 Phyre-2_TS5 costs 0 real_cost = 126.682 Phyre-2_TS4-scwrl costs 0 real_cost = 118.931 Phyre-2_TS4 costs 0 real_cost = 121.442 Phyre-2_TS3-scwrl costs 0 real_cost = 89.6173 Phyre-2_TS3 costs 0 real_cost = 90.0419 Phyre-2_TS2-scwrl costs 0 real_cost = 114.592 Phyre-2_TS2 costs 0 real_cost = 117.447 Phyre-2_TS1-scwrl costs 0 real_cost = 97.0291 Phyre-2_TS1 costs 0 real_cost = 99.4927 Phyre-1_TS1-scwrl costs 0 real_cost = 277.558 Phyre-1_TS1 costs 0 real_cost = 270.234 Pcons6_TS5-scwrl costs 0 real_cost = 91.8537 Pcons6_TS5 costs 0 real_cost = 91.8537 Pcons6_TS4-scwrl costs 0 real_cost = 164.117 Pcons6_TS4 costs 0 real_cost = 162.49 Pcons6_TS3-scwrl costs 0 real_cost = 247.271 Pcons6_TS3 costs 0 real_cost = 244.98 Pcons6_TS2-scwrl costs 0 real_cost = 88.4366 Pcons6_TS2 costs 0 real_cost = 87.1099 Pcons6_TS1-scwrl costs 0 real_cost = 76.2489 Pcons6_TS1 costs 0 real_cost = 79.1507 PROTINFO_TS5-scwrl costs 0 real_cost = 132.738 PROTINFO_TS5 costs 0 real_cost = 125.134 PROTINFO_TS4-scwrl costs 0 real_cost = 133.49 PROTINFO_TS4 costs 0 real_cost = 129.976 PROTINFO_TS3-scwrl costs 0 real_cost = 261.862 PROTINFO_TS3 costs 0 real_cost = 263.045 PROTINFO_TS2-scwrl costs 0 real_cost = 267.527 PROTINFO_TS2 costs 0 real_cost = 269.513 PROTINFO_TS1-scwrl costs 0 real_cost = 69.2988 PROTINFO_TS1 costs 0 real_cost = 63.7246 PROTINFO-AB_TS5-scwrl costs 0 real_cost = 141.892 PROTINFO-AB_TS5 costs 0 real_cost = 145.538 PROTINFO-AB_TS4-scwrl costs 0 real_cost = 182.647 PROTINFO-AB_TS4 costs 0 real_cost = 172.068 PROTINFO-AB_TS3-scwrl costs 0 real_cost = 155.972 PROTINFO-AB_TS3 costs 0 real_cost = 162.296 PROTINFO-AB_TS2-scwrl costs 0 real_cost = 132.512 PROTINFO-AB_TS2 costs 0 real_cost = 131.844 PROTINFO-AB_TS1-scwrl costs 0 real_cost = 133.49 PROTINFO-AB_TS1 costs 0 real_cost = 129.976 POMYSL_TS5-scwrl costs 0 real_cost = 282.302 POMYSL_TS5 costs 0 real_cost = 297.279 POMYSL_TS4-scwrl costs 0 real_cost = 237.782 POMYSL_TS4 costs 0 real_cost = 260.572 POMYSL_TS3-scwrl costs 0 real_cost = 227.426 POMYSL_TS3 costs 0 real_cost = 244.988 POMYSL_TS2-scwrl costs 0 real_cost = 236.067 POMYSL_TS2 costs 0 real_cost = 253.727 POMYSL_TS1-scwrl costs 0 real_cost = 246.668 POMYSL_TS1 costs 0 real_cost = 254.33 NN_PUT_lab_TS1-scwrl costs 0 real_cost = 149.299 NN_PUT_lab_TS1 costs 0 real_cost = 143.74 MetaTasser_TS5-scwrl costs 0 real_cost = 162.526 MetaTasser_TS5 costs 0 real_cost = 173.64 MetaTasser_TS4-scwrl costs 0 real_cost = 223.949 MetaTasser_TS4 costs 0 real_cost = 214.911 MetaTasser_TS3-scwrl costs 0 real_cost = 145.428 MetaTasser_TS3 costs 0 real_cost = 152.262 MetaTasser_TS2-scwrl costs 0 real_cost = 159.451 MetaTasser_TS2 costs 0 real_cost = 164.887 MetaTasser_TS1-scwrl costs 0 real_cost = 174.387 MetaTasser_TS1 costs 0 real_cost = 164.83 Ma-OPUS-server_TS5-scwrl costs 0 real_cost = 141.713 Ma-OPUS-server_TS5 costs 0 real_cost = 149.068 Ma-OPUS-server_TS4-scwrl costs 0 real_cost = 177.619 Ma-OPUS-server_TS4 costs 0 real_cost = 180.343 Ma-OPUS-server_TS3-scwrl costs 0 real_cost = 135.141 Ma-OPUS-server_TS3 costs 0 real_cost = 140.897 Ma-OPUS-server_TS2-scwrl costs 0 real_cost = 116.115 Ma-OPUS-server_TS2 costs 0 real_cost = 125.847 Ma-OPUS-server_TS1-scwrl costs 0 real_cost = 120.33 Ma-OPUS-server_TS1 costs 0 real_cost = 133.086 MIG_FROST_AL1-scwrl costs 0 real_cost = 364.932 MIG_FROST_AL1 costs 0 real_cost = 342.603 LOOPP_TS5-scwrl costs 0 real_cost = 146.314 LOOPP_TS5 costs 0 real_cost = 147.748 LOOPP_TS4-scwrl costs 0 real_cost = 143.254 LOOPP_TS4 costs 0 real_cost = 140.657 LOOPP_TS3-scwrl costs 0 real_cost = 207.037 LOOPP_TS3 costs 0 real_cost = 206.652 LOOPP_TS2-scwrl costs 0 real_cost = 109.116 LOOPP_TS2 costs 0 real_cost = 111.139 LOOPP_TS1-scwrl costs 0 real_cost = 149.299 LOOPP_TS1 costs 0 real_cost = 143.74 Huber-Torda-Server_TS5-scwrl costs 0 real_cost = 233.439 Huber-Torda-Server_TS5 costs 0 real_cost = 265.58 Huber-Torda-Server_TS4-scwrl costs 0 real_cost = 297.082 Huber-Torda-Server_TS4 costs 0 real_cost = 312.255 Huber-Torda-Server_TS3-scwrl costs 0 real_cost = 249.597 Huber-Torda-Server_TS3 costs 0 real_cost = 267.768 Huber-Torda-Server_TS2-scwrl costs 0 real_cost = 265.026 Huber-Torda-Server_TS2 costs 0 real_cost = 285.745 Huber-Torda-Server_TS1-scwrl costs 0 real_cost = 225.799 Huber-Torda-Server_TS1 costs 0 real_cost = 273.455 HHpred3_TS1-scwrl costs 0 real_cost = 220.467 HHpred3_TS1 costs 0 real_cost = 231.278 HHpred2_TS1-scwrl costs 0 real_cost = 201.268 HHpred2_TS1 costs 0 real_cost = 199.486 HHpred1_TS1-scwrl costs 0 real_cost = 162.056 HHpred1_TS1 costs 0 real_cost = 157.519 GeneSilicoMetaServer_TS5-scwrl costs 0 real_cost = 136.769 GeneSilicoMetaServer_TS5 costs 0 real_cost = 150.382 GeneSilicoMetaServer_TS4-scwrl costs 0 real_cost = 81.2776 GeneSilicoMetaServer_TS4 costs 0 real_cost = 87.021 GeneSilicoMetaServer_TS3-scwrl costs 0 real_cost = 149.676 GeneSilicoMetaServer_TS3 costs 0 real_cost = 145.414 GeneSilicoMetaServer_TS2-scwrl costs 0 real_cost = 162.263 GeneSilicoMetaServer_TS2 costs 0 real_cost = 164.316 GeneSilicoMetaServer_TS1-scwrl costs 0 real_cost = 146.515 GeneSilicoMetaServer_TS1 costs 0 real_cost = 156.326 FUNCTION_TS5-scwrl costs 0 real_cost = 99.321 FUNCTION_TS5 costs 0 real_cost = 106.275 FUNCTION_TS4-scwrl costs 0 real_cost = 180.692 FUNCTION_TS4 costs 0 real_cost = 176.99 FUNCTION_TS3-scwrl costs 0 real_cost = 137.539 FUNCTION_TS3 costs 0 real_cost = 142.74 FUNCTION_TS2-scwrl costs 0 real_cost = 125.858 FUNCTION_TS2 costs 0 real_cost = 126.735 FUNCTION_TS1-scwrl costs 0 real_cost = 102.34 FUNCTION_TS1 costs 0 real_cost = 115.662 FUGUE_AL5-scwrl costs 0 real_cost = 207.914 FUGUE_AL5 costs 0 real_cost = 243.082 FUGUE_AL4-scwrl costs 0 real_cost = 307.955 FUGUE_AL4 costs 0 real_cost = 307.955 FUGUE_AL3-scwrl costs 0 real_cost = 205.522 FUGUE_AL3 costs 0 real_cost = 253.815 FUGUE_AL2-scwrl costs 0 real_cost = 272.579 FUGUE_AL2 costs 0 real_cost = 306.096 FUGUE_AL1-scwrl costs 0 real_cost = 251.299 FUGUE_AL1 costs 0 real_cost = 251.299 FUGMOD_TS5-scwrl costs 0 real_cost = 206.845 FUGMOD_TS5 costs 0 real_cost = 244.257 FUGMOD_TS4-scwrl costs 0 real_cost = 243.837 FUGMOD_TS4 costs 0 real_cost = 243.205 FUGMOD_TS3-scwrl costs 0 real_cost = 178.93 FUGMOD_TS3 costs 0 real_cost = 176.894 FUGMOD_TS2-scwrl costs 0 real_cost = 248.242 FUGMOD_TS2 costs 0 real_cost = 242.835 FUGMOD_TS1-scwrl costs 0 real_cost = 182.474 FUGMOD_TS1 costs 0 real_cost = 180.31 FPSOLVER-SERVER_TS5-scwrl costs 0 real_cost = 214.789 FPSOLVER-SERVER_TS5 costs 0 real_cost = 216.787 FPSOLVER-SERVER_TS4-scwrl costs 0 real_cost = 209.405 FPSOLVER-SERVER_TS4 costs 0 real_cost = 208.587 FPSOLVER-SERVER_TS3-scwrl costs 0 real_cost = 174.288 FPSOLVER-SERVER_TS3 costs 0 real_cost = 174.28 FPSOLVER-SERVER_TS2-scwrl costs 0 real_cost = 198.753 FPSOLVER-SERVER_TS2 costs 0 real_cost = 197.154 FPSOLVER-SERVER_TS1-scwrl costs 0 real_cost = 141.249 FPSOLVER-SERVER_TS1 costs 0 real_cost = 143.354 FORTE2_AL5-scwrl costs 0 real_cost = 271.513 FORTE2_AL5 costs 0 real_cost = 327.477 FORTE2_AL4-scwrl costs 0 real_cost = 276.957 FORTE2_AL4 costs 0 real_cost = 331.031 FORTE2_AL3-scwrl costs 0 real_cost = 377.404 FORTE2_AL2-scwrl costs 0 real_cost = 262.997 FORTE2_AL2 costs 0 real_cost = 320.496 FORTE2_AL1-scwrl costs 0 real_cost = 290.273 FORTE2_AL1 costs 0 real_cost = 309.654 FORTE1_AL5-scwrl costs 0 real_cost = 271.513 FORTE1_AL5 costs 0 real_cost = 327.477 FORTE1_AL4-scwrl costs 0 real_cost = 276.957 FORTE1_AL4 costs 0 real_cost = 331.031 FORTE1_AL3-scwrl costs 0 real_cost = 377.404 FORTE1_AL2-scwrl costs 0 real_cost = 262.997 FORTE1_AL2 costs 0 real_cost = 320.496 FORTE1_AL1-scwrl costs 0 real_cost = 290.273 FORTE1_AL1 costs 0 real_cost = 309.654 FOLDpro_TS5-scwrl costs 0 real_cost = 215.298 FOLDpro_TS5 costs 0 real_cost = 223.321 FOLDpro_TS4-scwrl costs 0 real_cost = 318.334 FOLDpro_TS4 costs 0 real_cost = 318.453 FOLDpro_TS3-scwrl costs 0 real_cost = 172.574 FOLDpro_TS3 costs 0 real_cost = 174.538 FOLDpro_TS2-scwrl costs 0 real_cost = 190.187 FOLDpro_TS2 costs 0 real_cost = 221.8 FOLDpro_TS1-scwrl costs 0 real_cost = 153.506 FOLDpro_TS1 costs 0 real_cost = 166.017 FAMS_TS5-scwrl costs 0 real_cost = 188.986 FAMS_TS5 costs 0 real_cost = 201.064 FAMS_TS4-scwrl costs 0 real_cost = 98.156 FAMS_TS4 costs 0 real_cost = 98.6051 FAMS_TS3-scwrl costs 0 real_cost = 98.156 FAMS_TS3 costs 0 real_cost = 98.6051 FAMS_TS2-scwrl costs 0 real_cost = 97.4065 FAMS_TS2 costs 0 real_cost = 106.644 FAMS_TS1-scwrl costs 0 real_cost = 137.539 FAMS_TS1 costs 0 real_cost = 142.74 FAMSD_TS5-scwrl costs 0 real_cost = 202.706 FAMSD_TS5 costs 0 real_cost = 201.818 FAMSD_TS4-scwrl costs 0 real_cost = 210.013 FAMSD_TS4 costs 0 real_cost = 205.555 FAMSD_TS3-scwrl costs 0 real_cost = 192.95 FAMSD_TS3 costs 0 real_cost = 195.375 FAMSD_TS2-scwrl costs 0 real_cost = 97.0571 FAMSD_TS2 costs 0 real_cost = 99.0422 FAMSD_TS1-scwrl costs 0 real_cost = 106.089 FAMSD_TS1 costs 0 real_cost = 111.768 Distill_TS5-scwrl costs 0 real_cost = 325.411 Distill_TS4-scwrl costs 0 real_cost = 326.084 Distill_TS3-scwrl costs 0 real_cost = 323.951 Distill_TS2-scwrl costs 0 real_cost = 319.615 Distill_TS1-scwrl costs 0 real_cost = 319.133 CaspIta-FOX_TS5-scwrl costs 0 real_cost = 250.375 CaspIta-FOX_TS5 costs 0 real_cost = 249.806 CaspIta-FOX_TS4-scwrl costs 0 real_cost = 166.343 CaspIta-FOX_TS4 costs 0 real_cost = 163.509 CaspIta-FOX_TS3-scwrl costs 0 real_cost = 157.621 CaspIta-FOX_TS3 costs 0 real_cost = 150.983 CaspIta-FOX_TS2-scwrl costs 0 real_cost = 123.033 CaspIta-FOX_TS2 costs 0 real_cost = 125.228 CaspIta-FOX_TS1-scwrl costs 0 real_cost = 111.249 CaspIta-FOX_TS1 costs 0 real_cost = 109.957 CIRCLE_TS5-scwrl costs 0 real_cost = 95.109 CIRCLE_TS5 costs 0 real_cost = 91.0467 CIRCLE_TS4-scwrl costs 0 real_cost = 97.0571 CIRCLE_TS4 costs 0 real_cost = 99.0422 CIRCLE_TS3-scwrl costs 0 real_cost = 98.156 CIRCLE_TS3 costs 0 real_cost = 98.6051 CIRCLE_TS2-scwrl costs 0 real_cost = 97.4065 CIRCLE_TS2 costs 0 real_cost = 106.644 CIRCLE_TS1-scwrl costs 0 real_cost = 93.3747 CIRCLE_TS1 costs 0 real_cost = 91.6398 Bilab-ENABLE_TS1-scwrl costs 0 real_cost = 193.365 Bilab-ENABLE_TS1 costs 0 real_cost = 193.365 BayesHH_TS1-scwrl costs 0 real_cost = 168.254 BayesHH_TS1 costs 0 real_cost = 148.785 ABIpro_TS5-scwrl costs 0 real_cost = 114.145 ABIpro_TS5 costs 0 real_cost = 114.145 ABIpro_TS4-scwrl costs 0 real_cost = 133.356 ABIpro_TS4 costs 0 real_cost = 133.356 ABIpro_TS3-scwrl costs 0 real_cost = 143.358 ABIpro_TS3 costs 0 real_cost = 143.358 ABIpro_TS2-scwrl costs 0 real_cost = 111.493 ABIpro_TS2 costs 0 real_cost = 111.493 ABIpro_TS1-scwrl costs 0 real_cost = 175.113 ABIpro_TS1 costs 0 real_cost = 177.114 3Dpro_TS5-scwrl costs 0 real_cost = 224.255 3Dpro_TS5 costs 0 real_cost = 219.318 3Dpro_TS4-scwrl costs 0 real_cost = 230.326 3Dpro_TS4 costs 0 real_cost = 227.463 3Dpro_TS3-scwrl costs 0 real_cost = 111.493 3Dpro_TS3 costs 0 real_cost = 111.493 3Dpro_TS2-scwrl costs 0 real_cost = 175.113 3Dpro_TS2 costs 0 real_cost = 177.114 3Dpro_TS1-scwrl costs 0 real_cost = 217.951 3Dpro_TS1 costs 0 real_cost = 218.362 3D-JIGSAW_TS1-scwrl costs 0 real_cost = 228.636 3D-JIGSAW_TS1 costs 0 real_cost = 242.873 3D-JIGSAW_RECOM_TS1-scwrl costs 0 real_cost = 228.636 3D-JIGSAW_RECOM_TS1 costs 0 real_cost = 242.873 3D-JIGSAW_POPULUS_TS5-scwrl costs 0 real_cost = 228.636 3D-JIGSAW_POPULUS_TS5 costs 0 real_cost = 242.873 3D-JIGSAW_POPULUS_TS4-scwrl costs 0 real_cost = 228.636 3D-JIGSAW_POPULUS_TS4 costs 0 real_cost = 242.873 3D-JIGSAW_POPULUS_TS3-scwrl costs 0 real_cost = 228.636 3D-JIGSAW_POPULUS_TS3 costs 0 real_cost = 242.873 3D-JIGSAW_POPULUS_TS2-scwrl costs 0 real_cost = 228.636 3D-JIGSAW_POPULUS_TS2 costs 0 real_cost = 242.873 3D-JIGSAW_POPULUS_TS1-scwrl costs 0 real_cost = 228.636 3D-JIGSAW_POPULUS_TS1 costs 0 real_cost = 242.873 dimer//dimer.rot5.renum costs 0 real_cost = 87.9843 dimer//dimer.flipped180.renum costs 0 real_cost = 67.6063 dimer//dimer-try3-1jm0A costs 0 real_cost = 72.7813 dimer//dimer-rotateNterm2 costs 0 real_cost = 67.6063 dimer//dimer-rotate5fixed costs 0 real_cost = 88.7543 dimer//dimer-rotate5 costs 0 real_cost = 99.9646 dimer//try8-opt2.unpack costs 0 real_cost = 63.979 dimer//try8-opt2.repack-nonPC costs 0 real_cost = 62.0393 dimer//try8-opt2 costs 0 real_cost = 63.979 dimer//try8-opt2.gromacs0 costs 0 real_cost = 60.5258 dimer//try8-opt1 costs 0 real_cost = 64.7943 dimer//try8-opt1-scwrl costs 0 real_cost = 63.1478 dimer//try7-opt2.unpack costs 0 real_cost = 76.4595 dimer//try7-opt2.repack-nonPC costs 0 real_cost = 71.121 dimer//try7-opt2 costs 0 real_cost = 76.4595 dimer//try7-opt2.gromacs0 costs 0 real_cost = 80.7644 dimer//try7-opt1 costs 0 real_cost = 75.7343 dimer//try7-opt1-scwrl costs 0 real_cost = 72.889 dimer//try6-opt2.unpack costs 0 real_cost = 71.0762 dimer//try6-opt2.repack-nonPC costs 0 real_cost = 69.2683 dimer//try6-opt2 costs 0 real_cost = 71.0762 dimer//try6-opt2.gromacs0 costs 0 real_cost = 69.9345 dimer//try6-opt1 costs 0 real_cost = 73.4723 dimer//try6-opt1-scwrl costs 0 real_cost = 68.3617 dimer//try5-opt2.unpack costs 0 real_cost = 76.9369 dimer//try5-opt2.repack-nonPC costs 0 real_cost = 72.1798 dimer//try5-opt2 costs 0 real_cost = 76.9369 dimer//try5-opt2.gromacs0 costs 0 real_cost = 82.9026 dimer//try5-opt1 costs 0 real_cost = 75.2596 dimer//try5-opt1-scwrl costs 0 real_cost = 71.3513 dimer//try4-opt2.unpack costs 0 real_cost = 68.6099 dimer//try4-opt2.repack-nonPC costs 0 real_cost = 67.5236 dimer//try4-opt2 costs 0 real_cost = 68.6099 dimer//try4-opt2.gromacs0 costs 0 real_cost = 71.5845 dimer//try4-opt1 costs 0 real_cost = 69.2149 dimer//try4-opt1-scwrl costs 0 real_cost = 66.1443 dimer//try3-opt2.unpack costs 0 real_cost = 69.4777 dimer//try3-opt2.repack-nonPC costs 0 real_cost = 64.1473 dimer//try3-opt2 costs 0 real_cost = 69.4777 dimer//try3-opt2.gromacs0 costs 0 real_cost = 68.7184 dimer//try3-opt1 costs 0 real_cost = 66.8633 dimer//try3-opt1-scwrl costs 0 real_cost = 61.6974 dimer//try2-opt2.unpack costs 0 real_cost = 72.7523 dimer//try2-opt2.repack-nonPC costs 0 real_cost = 77.8009 dimer//try2-opt2 costs 0 real_cost = 72.7523 dimer//try2-opt2.gromacs0 costs 0 real_cost = 75.1552 dimer//try2-opt1 costs 0 real_cost = 71.5084 dimer//try2-opt1-scwrl costs 0 real_cost = 67.407 dimer//try1-opt2.unpack costs 0 real_cost = 75.9513 dimer//try1-opt2.repack-nonPC costs 0 real_cost = 76.7635 dimer//try1-opt2 costs 0 real_cost = 75.9513 dimer//try1-opt2.gromacs0 costs 0 real_cost = 73.6752 dimer//try1-opt1 costs 0 real_cost = 73.4757 dimer//try1-opt1-scwrl costs 0 real_cost = 70.7112 rotateNterm2FromTry3.renum.pdb.gz costs 0 real_cost = 67.6741 rotateFromTry3attempt3.renum.pdb.gz costs 0 real_cost = 69.8937 rotateFromTry3attempt3.fix.pdb.gz costs 0 real_cost = 70.1341 rotateFromTry3attempt2.renum.pdb.gz costs 0 real_cost = 53.7131 rotateFromTry3attempt1.renum.pdb.gz costs 0 real_cost = 69.2866 rotateFromTry2attempt2.renum.pdb.gz costs 0 real_cost = 87.1374 rotateFromTry2attempt1.renum.pdb.gz costs 0 real_cost = 78.697 rotate5monomerFixed2.renum.pdb.gz costs 0 real_cost = 88.29 rotate5monomer.renum.pdb.gz costs 0 real_cost = 99.9533 georgesuggestion.renum.pdb.gz costs 0 real_cost = 61.5594 T0300.try9-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 59.7859 T0300.try9-opt2.pdb.gz costs 0 real_cost = 65.9485 T0300.try9-opt2.gromacs0.pdb.gz costs 0 real_cost = 63.9889 T0300.try9-opt1.pdb.gz costs 0 real_cost = 68.5331 T0300.try9-opt1-scwrl.pdb.gz costs 0 real_cost = 64.8589 T0300.try8-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 53.6703 T0300.try8-opt2.pdb.gz costs 0 real_cost = 55.1418 T0300.try8-opt2.gromacs0.pdb.gz costs 0 real_cost = 57.3888 T0300.try8-opt1.pdb.gz costs 0 real_cost = 58.9379 T0300.try8-opt1-scwrl.pdb.gz costs 0 real_cost = 59.4584 T0300.try7-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 71.4076 T0300.try7-opt2.pdb.gz costs 0 real_cost = 70.8034 T0300.try7-opt2.gromacs0.pdb.gz costs 0 real_cost = 71.5562 T0300.try7-opt1.pdb.gz costs 0 real_cost = 70.2118 T0300.try7-opt1-scwrl.pdb.gz costs 0 real_cost = 70.1525 T0300.try6-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 63.9443 T0300.try6-opt2.pdb.gz costs 0 real_cost = 68.9274 T0300.try6-opt2.gromacs0.pdb.gz costs 0 real_cost = 70.1458 T0300.try6-opt1.pdb.gz costs 0 real_cost = 66.489 T0300.try6-opt1-scwrl.pdb.gz costs 0 real_cost = 60.3243 T0300.try5-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 71.8555 T0300.try5-opt2.pdb.gz costs 0 real_cost = 79.0416 T0300.try5-opt2.gromacs0.pdb.gz costs 0 real_cost = 81.5777 T0300.try5-opt1.pdb.gz costs 0 real_cost = 74.1622 T0300.try5-opt1-scwrl.pdb.gz costs 0 real_cost = 68.2577 T0300.try4-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 62.9577 T0300.try4-opt2.pdb.gz costs 0 real_cost = 66.0798 T0300.try4-opt2.gromacs0.pdb.gz costs 0 real_cost = 65.284 T0300.try4-opt1.pdb.gz costs 0 real_cost = 59.6763 T0300.try4-opt1-scwrl.pdb.gz costs 0 real_cost = 62.3926 T0300.try3-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 72.7037 T0300.try3-opt2.pdb.gz costs 0 real_cost = 72.8825 T0300.try3-opt2.gromacs0.pdb.gz costs 0 real_cost = 74.929 T0300.try3-opt1.pdb.gz costs 0 real_cost = 74.885 T0300.try3-opt1-scwrl.pdb.gz costs 0 real_cost = 73.3989 T0300.try2-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 104.445 T0300.try2-opt2.pdb.gz costs 0 real_cost = 106.175 T0300.try2-opt2.gromacs0.pdb.gz costs 0 real_cost = 107.933 T0300.try2-opt1.pdb.gz costs 0 real_cost = 109.68 T0300.try2-opt1-scwrl.pdb.gz costs 0 real_cost = 109.16 T0300.try16-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 65.9997 T0300.try16-opt2.pdb.gz costs 0 real_cost = 69.6466 T0300.try16-opt2.gromacs0.pdb.gz costs 0 real_cost = 71.9989 T0300.try16-opt1.pdb.gz costs 0 real_cost = 71.5697 T0300.try16-opt1-scwrl.pdb.gz costs 0 real_cost = 65.0971 T0300.try15-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 69.1925 T0300.try15-opt2.pdb.gz costs 0 real_cost = 74.1242 T0300.try15-opt2.gromacs0.pdb.gz costs 0 real_cost = 75.5187 T0300.try15-opt1.pdb.gz costs 0 real_cost = 67.9605 T0300.try15-opt1-scwrl.pdb.gz costs 0 real_cost = 66.6698 T0300.try14-opt2.pdb.gz costs 0 real_cost = 119.934 T0300.try14-opt2.gromacs0.pdb.gz costs 0 real_cost = 117.61 T0300.try14-opt1.pdb.gz costs 0 real_cost = 114.007 T0300.try14-opt1-scwrl.pdb.gz costs 0 real_cost = 111.022 T0300.try13-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 91.0689 T0300.try13-opt2.pdb.gz costs 0 real_cost = 97.4636 T0300.try13-opt2.gromacs0.pdb.gz costs 0 real_cost = 92.8917 T0300.try13-opt1.pdb.gz costs 0 real_cost = 95.9954 T0300.try13-opt1-scwrl.pdb.gz costs 0 real_cost = 95.4381 T0300.try12-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 78.4819 T0300.try12-opt2.pdb.gz costs 0 real_cost = 84.2564 T0300.try12-opt2.gromacs0.pdb.gz costs 0 real_cost = 86.1348 T0300.try12-opt1.pdb.gz costs 0 real_cost = 89.7089 T0300.try12-opt1-scwrl.pdb.gz costs 0 real_cost = 86.7012 T0300.try11-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 107.631 T0300.try11-opt2.pdb.gz costs 0 real_cost = 110.009 T0300.try11-opt2.gromacs0.pdb.gz costs 0 real_cost = 107.421 T0300.try11-opt1.pdb.gz costs 0 real_cost = 109.56 T0300.try11-opt1-scwrl.pdb.gz costs 0 real_cost = 110.119 T0300.try10-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 51.8399 T0300.try10-opt2.pdb.gz costs 0 real_cost = 52.9103 T0300.try10-opt2.gromacs0.pdb.gz costs 0 real_cost = 53.0818 T0300.try10-opt1.pdb.gz costs 0 real_cost = 53.0366 T0300.try10-opt1-scwrl.pdb.gz costs 0 real_cost = 57.4268 T0300.try1-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 143.303 T0300.try1-opt2.pdb.gz costs 0 real_cost = 146.105 T0300.try1-opt2.gromacs0.pdb.gz costs 0 real_cost = 147.994 T0300.try1-opt1.pdb.gz costs 0 real_cost = 144.835 T0300.try1-opt1-scwrl.pdb.gz costs 0 real_cost = 143.298 ../model5.ts-submitted costs 0 real_cost = 74.1432 ../model4.ts-submitted costs 0 real_cost = 63.7218 ../model3.ts-submitted costs 0 real_cost = 68.1617 ../model2.ts-submitted costs 0 real_cost = 106.179 ../model1.ts-submitted costs 0 real_cost = 72.8067 align5 costs 0 real_cost = 138.792 align4 costs 0 real_cost = 119.297 align3 costs 0 real_cost = 201.568 align2 costs 0 real_cost = 213.975 align1 costs 0 real_cost = 240.82 T0300.try1-opt2.pdb costs 0 real_cost = 146.105 model5-scwrl costs 0 real_cost = 68.1524 model5.ts-submitted costs 0 real_cost = 74.1432 model4-scwrl costs 0 real_cost = 61.9261 model4.ts-submitted costs 0 real_cost = 63.7218 model3-scwrl costs 0 real_cost = 65.4079 model3.ts-submitted costs 0 real_cost = 68.1617 model2-scwrl costs 0 real_cost = 104.946 model2.ts-submitted costs 0 real_cost = 106.179 model1-scwrl costs 0 real_cost = 71.3459 model1.ts-submitted costs 0 real_cost = 72.8777 2h3rA costs 0 real_cost = -877.6 # command:CPU_time= 153.813 sec, elapsed time= 346.759 sec) # command:rm -f sort.tmp /projects/compbio/bin/sorttbl real_cost < decoys/evaluate.rdb > sort.tmp mv -f sort.tmp decoys/evaluate.rdb mv -f decoys/evaluate.pretty decoys/evaluate.pretty.old /projects/compbio/experiments/protein-predict/casp7/scripts/prettyscore -terse -targpfx -decpoint < decoys/evaluate.rdb > decoys/evaluate.pretty rm -f decoys/evaluate_1.rdb sed -e s/XXX0000/T0300/ -e s/START_COL/1/ \ -e s/REAL_PDB/2h3rA/ \ -e s/_domain/_1/ \ -e s/read-pdb/read-pdb+servers/ \ -e 's/ReadConformPDBids/# ReadConformPDBids/' \ -e 's/# ReadConformPDB /ReadConformPDB /' \ -e 's/include COSTFCN.costfcn//' \ -e s/.COSTFCN// \ < /projects/compbio/experiments/protein-predict/casp7/starter-directory/evaluate.under \ | nice -2 /projects/compbio/programs/undertaker/undertaker # command:# Seed set to 1174600417 # command:# Prefix for input files set to /projects/compbio/experiments/undertaker/atoms-inputs/ # command:# reading monomeric-50pc.atoms # trans (non-proline) backbone unit: # CA= -2.2088 1.0126 -0.0031 # O= -0.1499 2.2440 0.0017 # C= -0.6889 1.1368 0.0000 # N+1= 0.0000 0.0000 0.0000 # CA+1= 1.4581 0.0000 0.0000 # cis backbone unit: # CA= -0.1462 2.4515 0.0018 # O= -2.0272 0.9713 0.0022 # C= -0.8006 1.0755 0.0000 # N+1= 0.0000 0.0000 0.0000 # CA+1= 1.4659 0.0000 0.0000 # trans backbone unit before proline: # CA= -2.2099 1.0634 -0.0014 # O= -0.1233 2.2459 0.0075 # C= -0.6871 1.1518 0.0000 # N+1= 0.0000 0.0000 0.0000 # CA+1= 1.4660 0.0000 0.0000 # After reading monomeric-50pc.atoms have 448 chains in training database # Count of chains,residues,atoms: 448,112605,876684 # 109826 residues have no bad marker # 665 residues lack atoms needed to compute omega # 322 residues have cis peptide # number of each bad type: # NON_STANDARD_RESIDUE 6 # HAS_OXT 325 # TOO_MANY_ATOMS 1 # TOO_FEW_ATOMS 523 # HAS_UNKNOWN_ATOMS 2 # HAS_DUPLICATE_ATOMS 0 # CHAIN_BREAK_BEFORE 208 # NON_PLANAR_PEPTIDE 143 # BAD_PEPTIDE 1959 # Note: may sum to more than number of residues, # because one residue may have multiple problems # command:# Reading rotamer library from dunbrack-1332.rot # command:# Prefix for input files set to /projects/compbio/experiments/undertaker/spots/ # command:# ReadAtomType exp-pdb.types Read AtomType exp-pdb with 49 types. # command:# ReadClashTable exp-pdb-2191-2symm.clash # Read ClashTable exp-pdb-2191-2symm checking bonds symmetric at MaxSep 2 # command:# command:CPU_time= 5.79412 sec, elapsed time= 5.82719 sec) # command:# Reading spots from monomeric-50pc-dry-5.spot Read prototypes from /projects/compbio/experiments/undertaker/spots/../normalize_prototypes/prototypes # reading histogram from smoothed-monomeric-50pc-dry-5.hist # created burial cost function dry5 with radius 5 with spots at monomeric-50pc-dry-5.spot # command:# Reading spots from monomeric-50pc-wet-6.5.spot Read prototypes from /projects/compbio/experiments/undertaker/spots/../normalize_prototypes/prototypes # reading histogram from smoothed-monomeric-50pc-wet-6.5.hist # created burial cost function wet6.5 with radius 6.5 with spots at monomeric-50pc-wet-6.5.spot # command:# Reading spots from monomeric-50pc-dry-6.5.spot Read prototypes from /projects/compbio/experiments/undertaker/spots/../normalize_prototypes/prototypes # reading histogram from smoothed-monomeric-50pc-dry-6.5.hist # created burial cost function dry6.5 with radius 6.5 with spots at monomeric-50pc-dry-6.5.spot # command:# Reading spots from monomeric-50pc-generic-6.5.spot Read prototypes from /projects/compbio/experiments/undertaker/spots/../normalize_prototypes/prototypes # reading histogram from smoothed-monomeric-50pc-generic-6.5.hist # created burial cost function gen6.5 with radius 6.5 with spots at monomeric-50pc-generic-6.5.spot # command:# Reading spots from near-backbone-center.spot # reading histogram from smoothed-near-backbone-2spot.hist # Reading spots from near-backbone-count.spot # created burial cost function near_backbone with radius 9.65 with spots at near-backbone-center.spot counting only near-backbone-count.spot # command:# Reading spots from way-back-center.spot # reading histogram from smoothed-way-back-2spot.hist # Reading spots from way-back-count.spot # created burial cost function way_back with radius 8.9 with spots at way-back-center.spot counting only way-back-count.spot # command:# Reading spots from monomeric-50pc-dry-8.spot Read prototypes from /projects/compbio/experiments/undertaker/spots/../normalize_prototypes/prototypes # reading histogram from smoothed-monomeric-50pc-dry-8.hist # created burial cost function dry8 with radius 8 with spots at monomeric-50pc-dry-8.spot # command:# Reading spots from monomeric-50pc-dry-10.spot Read prototypes from /projects/compbio/experiments/undertaker/spots/../normalize_prototypes/prototypes # reading histogram from smoothed-monomeric-50pc-dry-10.hist # created burial cost function dry10 with radius 10 with spots at monomeric-50pc-dry-10.spot # command:# Reading spots from monomeric-50pc-dry-12.spot Read prototypes from /projects/compbio/experiments/undertaker/spots/../normalize_prototypes/prototypes # reading histogram from smoothed-monomeric-50pc-dry-12.hist # created burial cost function dry12 with radius 12 with spots at monomeric-50pc-dry-12.spot # command:# reading histogram from dunbrack-2191-alpha.hist # created alpha cost function alpha with offset 0 and 360 bins # command:# reading histogram from dunbrack-2191-alpha-1.hist # created alpha cost function alpha_prev with offset -1 and 360 bins # command:# Prefix for input files set to /projects/compbio/lib/alphabet/ # command:# Read 3 alphabets from alpha.alphabet # command:CPU_time= 5.86911 sec, elapsed time= 5.91778 sec) # command:# Prefix for input files set to # command:# Making conformation for sequence T0300 numbered 1 through 102 Created new target T0300 from T0300.a2m # command:# command:# No conformations to remove in PopConform # command:# cleared Id set # command:# command:# ReadConformPDB reading from PDB file T0300_1.real.pdb looking for model 1 Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # command:# Saving current conformation as real # command:# Prefix for output files set to decoys/ # command:# SetRealCost created real_cost = # ( 50 * real_hbond + 50 * real_hbond_u + 50 * decoy_hbond + 50 * decoy_hbond_u + 10 * real_NO_hbond + 10 * real_NO_hbond_u + 10 * decoy_NO_hbond + 10 * decoy_NO_hbond_u + 10 * knot + 200 * clens + 0 * rmsd + 35 * log_rmsd + 0 * rmsd_ca + 30 * log_rmsd_ca + 1 * GDT + 1 * smooth_GDT + 0.2 * missing_atoms ) # command:# SetCost created cost = # ) # command:CPU_time= 8.06777 sec, elapsed time= 8.12849 sec) # command:# Prefix for input files set to # command:# ReadConformPDB reading from PDB file model1.ts-submitted looking for model 1 # choosing archetypes in rotamer library # Found a chain break before 97 # copying to AlignedFragments data structure # command:# fraction of real conformation used = 1 # GDT_score = -44.1011 # GDT_score(maxd=8,maxw=2.9)= -43.7953 # GDT_score(maxd=8,maxw=3.2)= -43.1656 # GDT_score(maxd=8,maxw=3.5)= -42.6017 # GDT_score(maxd=10,maxw=3.8)= -44.0291 # GDT_score(maxd=10,maxw=4)= -43.5031 # GDT_score(maxd=10,maxw=4.2)= -42.9296 # GDT_score(maxd=12,maxw=4.3)= -44.4596 # GDT_score(maxd=12,maxw=4.5)= -43.8567 # GDT_score(maxd=12,maxw=4.7)= -43.1895 # GDT_score(maxd=14,maxw=5.2)= -43.1715 # GDT_score(maxd=14,maxw=5.5)= -41.8469 # command:# Prefix for output files set to # command:superimposing iter= 0 total_weight= 1.0510000e+03 rmsd (weighted)= 1.4046384e+01 (unweighted)= 2.0953281e+01 superimposing iter= 1 total_weight= 9.6128246e+02 rmsd (weighted)= 1.1720116e+01 (unweighted)= 2.1145044e+01 superimposing iter= 2 total_weight= 8.1319260e+02 rmsd (weighted)= 1.0647678e+01 (unweighted)= 2.1546094e+01 superimposing iter= 3 total_weight= 8.6694219e+02 rmsd (weighted)= 9.3694765e+00 (unweighted)= 2.2055804e+01 superimposing iter= 4 total_weight= 9.1507952e+02 rmsd (weighted)= 8.0663931e+00 (unweighted)= 2.2540017e+01 superimposing iter= 5 total_weight= 8.4943386e+02 rmsd (weighted)= 7.2265016e+00 (unweighted)= 2.2971939e+01 # command:# Prefix for output files set to decoys/ # command:# request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1671224958.pdb -s /var/tmp/to_scwrl_1671224958.seq -o /var/tmp/from_scwrl_1671224958.pdb > /var/tmp/scwrl_1671224958.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1671224958.pdb # conformation set from SCWRL output # command:# naming current conformation model1-scwrl # command:# ReadConformPDB reading from PDB file model2.ts-submitted looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # command:# fraction of real conformation used = 1 # GDT_score = -34.5506 # GDT_score(maxd=8,maxw=2.9)= -34.7648 # GDT_score(maxd=8,maxw=3.2)= -33.7345 # GDT_score(maxd=8,maxw=3.5)= -32.689 # GDT_score(maxd=10,maxw=3.8)= -33.802 # GDT_score(maxd=10,maxw=4)= -33.0721 # GDT_score(maxd=10,maxw=4.2)= -32.3455 # GDT_score(maxd=12,maxw=4.3)= -33.7587 # GDT_score(maxd=12,maxw=4.5)= -33.0408 # GDT_score(maxd=12,maxw=4.7)= -32.3377 # GDT_score(maxd=14,maxw=5.2)= -32.5137 # GDT_score(maxd=14,maxw=5.5)= -31.3696 # command:# request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_298154611.pdb -s /var/tmp/to_scwrl_298154611.seq -o /var/tmp/from_scwrl_298154611.pdb > /var/tmp/scwrl_298154611.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_298154611.pdb # conformation set from SCWRL output # command:# naming current conformation model2-scwrl # command:# ReadConformPDB reading from PDB file model3.ts-submitted looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # command:# fraction of real conformation used = 1 # GDT_score = -44.6629 # GDT_score(maxd=8,maxw=2.9)= -44.1053 # GDT_score(maxd=8,maxw=3.2)= -43.4465 # GDT_score(maxd=8,maxw=3.5)= -42.8063 # GDT_score(maxd=10,maxw=3.8)= -44.1282 # GDT_score(maxd=10,maxw=4)= -43.5667 # GDT_score(maxd=10,maxw=4.2)= -42.9156 # GDT_score(maxd=12,maxw=4.3)= -44.5162 # GDT_score(maxd=12,maxw=4.5)= -43.8516 # GDT_score(maxd=12,maxw=4.7)= -43.1231 # GDT_score(maxd=14,maxw=5.2)= -43.3906 # GDT_score(maxd=14,maxw=5.5)= -42.0206 # command:# request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1025012122.pdb -s /var/tmp/to_scwrl_1025012122.seq -o /var/tmp/from_scwrl_1025012122.pdb > /var/tmp/scwrl_1025012122.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1025012122.pdb # conformation set from SCWRL output # command:# naming current conformation model3-scwrl # command:# ReadConformPDB reading from PDB file model4.ts-submitted looking for model 1 # Found a chain break before 44 # copying to AlignedFragments data structure # command:# fraction of real conformation used = 1 # GDT_score = -39.0449 # GDT_score(maxd=8,maxw=2.9)= -38.418 # GDT_score(maxd=8,maxw=3.2)= -36.8622 # GDT_score(maxd=8,maxw=3.5)= -35.3873 # GDT_score(maxd=10,maxw=3.8)= -37.7348 # GDT_score(maxd=10,maxw=4)= -36.7518 # GDT_score(maxd=10,maxw=4.2)= -35.7745 # GDT_score(maxd=12,maxw=4.3)= -38.9783 # GDT_score(maxd=12,maxw=4.5)= -37.953 # GDT_score(maxd=12,maxw=4.7)= -36.9208 # GDT_score(maxd=14,maxw=5.2)= -37.7968 # GDT_score(maxd=14,maxw=5.5)= -36.2747 # command:# request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2095862290.pdb -s /var/tmp/to_scwrl_2095862290.seq -o /var/tmp/from_scwrl_2095862290.pdb > /var/tmp/scwrl_2095862290.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2095862290.pdb # conformation set from SCWRL output # command:# naming current conformation model4-scwrl # command:# ReadConformPDB reading from PDB file model5.ts-submitted looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # command:# fraction of real conformation used = 1 # GDT_score = -46.9101 # GDT_score(maxd=8,maxw=2.9)= -46.998 # GDT_score(maxd=8,maxw=3.2)= -46.0681 # GDT_score(maxd=8,maxw=3.5)= -45.2033 # GDT_score(maxd=10,maxw=3.8)= -46.4156 # GDT_score(maxd=10,maxw=4)= -45.7683 # GDT_score(maxd=10,maxw=4.2)= -45.0089 # GDT_score(maxd=12,maxw=4.3)= -46.4981 # GDT_score(maxd=12,maxw=4.5)= -45.7477 # GDT_score(maxd=12,maxw=4.7)= -45.0155 # GDT_score(maxd=14,maxw=5.2)= -44.8517 # GDT_score(maxd=14,maxw=5.5)= -43.4248 # command:# request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_635786485.pdb -s /var/tmp/to_scwrl_635786485.seq -o /var/tmp/from_scwrl_635786485.pdb > /var/tmp/scwrl_635786485.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_635786485.pdb # conformation set from SCWRL output # command:# naming current conformation model5-scwrl # command:# Prefix for input files set to decoys/ # command:# ReadConformPDB reading from PDB file T0300.try1-opt2.pdb looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # command:# fraction of real conformation used = 1 # GDT_score = -30.8989 # GDT_score(maxd=8,maxw=2.9)= -29.44 # GDT_score(maxd=8,maxw=3.2)= -28.2601 # GDT_score(maxd=8,maxw=3.5)= -27.2824 # GDT_score(maxd=10,maxw=3.8)= -29.7053 # GDT_score(maxd=10,maxw=4)= -28.9947 # GDT_score(maxd=10,maxw=4.2)= -28.2674 # GDT_score(maxd=12,maxw=4.3)= -30.822 # GDT_score(maxd=12,maxw=4.5)= -30.0527 # GDT_score(maxd=12,maxw=4.7)= -29.3476 # GDT_score(maxd=14,maxw=5.2)= -30.0647 # GDT_score(maxd=14,maxw=5.5)= -29.1037 # command:# Prefix for output files set to # command:superimposing iter= 0 total_weight= 1.0510000e+03 rmsd (weighted)= 1.7837951e+01 (unweighted)= 2.0704177e+01 superimposing iter= 1 total_weight= 1.6860398e+03 rmsd (weighted)= 1.0759040e+01 (unweighted)= 2.1606988e+01 superimposing iter= 2 total_weight= 1.0117540e+03 rmsd (weighted)= 8.7604916e+00 (unweighted)= 2.2145358e+01 superimposing iter= 3 total_weight= 8.1957625e+02 rmsd (weighted)= 7.9907628e+00 (unweighted)= 2.2471917e+01 superimposing iter= 4 total_weight= 7.5197872e+02 rmsd (weighted)= 7.6221289e+00 (unweighted)= 2.2697769e+01 superimposing iter= 5 total_weight= 7.2513422e+02 rmsd (weighted)= 7.4084485e+00 (unweighted)= 2.2862695e+01 # command:# Prefix for output files set to decoys/ # command:# Prefix for input files set to # command:# ReadConformPDB reading from PDB file T0300.undertaker-align.pdb looking for model 1 WARNING: atoms too close: (T0300)S33.C and (T0300)S55.C only 0.0000000e+00 apart, marking (T0300)S55.C as missing WARNING: atoms too close: (T0300)S34.N and (T0300)S56.N only 0.0000000e+00 apart, marking (T0300)S34.N as missing WARNING: atoms too close: (T0300)S34.CA and (T0300)S56.CA only 0.0000000e+00 apart, marking (T0300)S34.CA as missing # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # command:# naming current conformation align1 # command:# fraction of real conformation used = 0.52809 # GDT_score = -27.5281 # GDT_score(maxd=8,maxw=2.9)= -27.4364 # GDT_score(maxd=8,maxw=3.2)= -27.0628 # GDT_score(maxd=8,maxw=3.5)= -26.651 # GDT_score(maxd=10,maxw=3.8)= -27.1274 # GDT_score(maxd=10,maxw=4)= -26.7895 # GDT_score(maxd=10,maxw=4.2)= -26.4728 # GDT_score(maxd=12,maxw=4.3)= -27.1423 # GDT_score(maxd=12,maxw=4.5)= -26.8217 # GDT_score(maxd=12,maxw=4.7)= -26.4637 # GDT_score(maxd=14,maxw=5.2)= -26.3789 # GDT_score(maxd=14,maxw=5.5)= -25.746 # command:# ReadConformPDB reading from PDB file T0300.undertaker-align.pdb looking for model 2 WARNING: atoms too close: (T0300)S39.C and (T0300)I43.C only 0.0000000e+00 apart, marking (T0300)I43.C as missing WARNING: atoms too close: (T0300)D40.N and (T0300)L44.N only 0.0000000e+00 apart, marking (T0300)D40.N as missing WARNING: atoms too close: (T0300)D40.CA and (T0300)L44.CA only 0.0000000e+00 apart, marking (T0300)D40.CA as missing # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # command:# naming current conformation align2 # command:# fraction of real conformation used = 0.561798 # GDT_score = -21.3483 # GDT_score(maxd=8,maxw=2.9)= -20.2559 # GDT_score(maxd=8,maxw=3.2)= -20.0423 # GDT_score(maxd=8,maxw=3.5)= -19.8009 # GDT_score(maxd=10,maxw=3.8)= -20.6553 # GDT_score(maxd=10,maxw=4)= -20.4652 # GDT_score(maxd=10,maxw=4.2)= -20.2932 # GDT_score(maxd=12,maxw=4.3)= -21.5079 # GDT_score(maxd=12,maxw=4.5)= -21.3011 # GDT_score(maxd=12,maxw=4.7)= -21.0819 # GDT_score(maxd=14,maxw=5.2)= -21.6165 # GDT_score(maxd=14,maxw=5.5)= -21.0842 # command:# ReadConformPDB reading from PDB file T0300.undertaker-align.pdb looking for model 3 WARNING: atoms too close: (T0300)R19.C and (T0300)L22.C only 0.0000000e+00 apart, marking (T0300)L22.C as missing WARNING: atoms too close: (T0300)L20.N and (T0300)E23.N only 0.0000000e+00 apart, marking (T0300)L20.N as missing WARNING: atoms too close: (T0300)L20.CA and (T0300)E23.CA only 0.0000000e+00 apart, marking (T0300)L20.CA as missing # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # command:# naming current conformation align3 # command:# ReadConformPDB reading from PDB file T0300.undertaker-align.pdb looking for model 4 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # command:# naming current conformation align4 # command:# ReadConformPDB reading from PDB file T0300.undertaker-align.pdb looking for model 5 WARNING: atoms too close: (T0300)V63.C and (T0300)A64.C only 0.0000000e+00 apart, marking (T0300)A64.C as missing WARNING: atoms too close: (T0300)A64.N and (T0300)M65.N only 0.0000000e+00 apart, marking (T0300)A64.N as missing WARNING: atoms too close: (T0300)A64.CA and (T0300)M65.CA only 0.0000000e+00 apart, marking (T0300)A64.CA as missing # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # command:# naming current conformation align5 # command:# Prefix for input files set to decoys/ # command:# reading script from file read-pdb+servers.under # ReadConformPDB reading from PDB file ../model1.ts-submitted looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file ../model2.ts-submitted looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file ../model3.ts-submitted looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file ../model4.ts-submitted looking for model 1 # Found a chain break before 44 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file ../model5.ts-submitted looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try1-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try1-opt1.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try1-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 61 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try1-opt2.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try1-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try10-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try10-opt1.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try10-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 1 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try10-opt2.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try10-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try11-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 66 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try11-opt1.pdb.gz looking for model 1 # Found a chain break before 66 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try11-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 96 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try11-opt2.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try11-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try12-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try12-opt1.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try12-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 81 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try12-opt2.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try12-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try13-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try13-opt1.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try13-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 95 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try13-opt2.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try13-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try14-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try14-opt1.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try14-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 78 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try14-opt2.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try15-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try15-opt1.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try15-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try15-opt2.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try15-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try16-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try16-opt1.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try16-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try16-opt2.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try16-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try2-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try2-opt1.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try2-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try2-opt2.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try2-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try3-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try3-opt1.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try3-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try3-opt2.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try3-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try4-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try4-opt1.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try4-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try4-opt2.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try4-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try5-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try5-opt1.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try5-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try5-opt2.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try5-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try6-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try6-opt1.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try6-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try6-opt2.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try6-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try7-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try7-opt1.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try7-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try7-opt2.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try7-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try8-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try8-opt1.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try8-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 10 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try8-opt2.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try8-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try9-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 96 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try9-opt1.pdb.gz looking for model 1 # Found a chain break before 96 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try9-opt2.gromacs0.pdb.gz looking for model 1 # ReadConformPDB reading from PDB file T0300.try9-opt2.pdb.gz looking for model 1 # Found a chain break before 96 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0300.try9-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 96 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file georgesuggestion.renum.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file rotate5monomer.renum.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file rotate5monomerFixed2.renum.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file rotateFromTry2attempt1.renum.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file rotateFromTry2attempt2.renum.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file rotateFromTry3attempt1.renum.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file rotateFromTry3attempt2.renum.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file rotateFromTry3attempt3.fix.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file rotateFromTry3attempt3.renum.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file rotateNterm2FromTry3.renum.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try1-opt1-scwrl.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try1-opt1-scwrl # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try1-opt1.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try1-opt1 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try1-opt2.gromacs0.pdb.gz looking for chain 'A' model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation dimer//try1-opt2.gromacs0 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try1-opt2.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try1-opt2 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try1-opt2.repack-nonPC.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try1-opt2.repack-nonPC # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try1-opt2.unpack.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try1-opt2.unpack # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try2-opt1-scwrl.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try2-opt1-scwrl # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try2-opt1.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try2-opt1 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try2-opt2.gromacs0.pdb.gz looking for chain 'A' model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation dimer//try2-opt2.gromacs0 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try2-opt2.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try2-opt2 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try2-opt2.repack-nonPC.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try2-opt2.repack-nonPC # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try2-opt2.unpack.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try2-opt2.unpack # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try3-opt1-scwrl.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try3-opt1-scwrl # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try3-opt1.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try3-opt1 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try3-opt2.gromacs0.pdb.gz looking for chain 'A' model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation dimer//try3-opt2.gromacs0 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try3-opt2.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try3-opt2 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try3-opt2.repack-nonPC.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try3-opt2.repack-nonPC # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try3-opt2.unpack.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try3-opt2.unpack # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try4-opt1-scwrl.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try4-opt1-scwrl # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try4-opt1.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try4-opt1 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try4-opt2.gromacs0.pdb.gz looking for chain 'A' model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation dimer//try4-opt2.gromacs0 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try4-opt2.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try4-opt2 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try4-opt2.repack-nonPC.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try4-opt2.repack-nonPC # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try4-opt2.unpack.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try4-opt2.unpack # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try5-opt1-scwrl.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try5-opt1-scwrl # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try5-opt1.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try5-opt1 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try5-opt2.gromacs0.pdb.gz looking for chain 'A' model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation dimer//try5-opt2.gromacs0 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try5-opt2.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try5-opt2 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try5-opt2.repack-nonPC.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try5-opt2.repack-nonPC # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try5-opt2.unpack.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try5-opt2.unpack # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try6-opt1-scwrl.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try6-opt1-scwrl # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try6-opt1.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//try6-opt1 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try6-opt2.gromacs0.pdb.gz looking for chain 'A' model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation dimer//try6-opt2.gromacs0 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try6-opt2.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try6-opt2 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try6-opt2.repack-nonPC.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try6-opt2.repack-nonPC # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try6-opt2.unpack.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try6-opt2.unpack # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try7-opt1-scwrl.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try7-opt1-scwrl # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try7-opt1.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try7-opt1 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try7-opt2.gromacs0.pdb.gz looking for chain 'A' model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation dimer//try7-opt2.gromacs0 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try7-opt2.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try7-opt2 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try7-opt2.repack-nonPC.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try7-opt2.repack-nonPC # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try7-opt2.unpack.pdb.gz looking for chain 'A' model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation dimer//try7-opt2.unpack # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try8-opt1-scwrl.pdb.gz looking for chain 'A' model 1 # Found a chain break before 44 # copying to AlignedFragments data structure # naming current conformation dimer//try8-opt1-scwrl # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try8-opt1.pdb.gz looking for chain 'A' model 1 # Found a chain break before 44 # copying to AlignedFragments data structure # naming current conformation dimer//try8-opt1 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try8-opt2.gromacs0.pdb.gz looking for chain 'A' model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation dimer//try8-opt2.gromacs0 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try8-opt2.pdb.gz looking for chain 'A' model 1 # Found a chain break before 44 # copying to AlignedFragments data structure # naming current conformation dimer//try8-opt2 # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try8-opt2.repack-nonPC.pdb.gz looking for chain 'A' model 1 # Found a chain break before 44 # copying to AlignedFragments data structure # naming current conformation dimer//try8-opt2.repack-nonPC # ReadConformPDB reading from PDB file ../dimer/decoys/T0300.try8-opt2.unpack.pdb.gz looking for chain 'A' model 1 # Found a chain break before 44 # copying to AlignedFragments data structure # naming current conformation dimer//try8-opt2.unpack # ReadConformPDB reading from PDB file ../dimer/decoys/dimer-rotate5.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//dimer-rotate5 # ReadConformPDB reading from PDB file ../dimer/decoys/dimer-rotate5fixed.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//dimer-rotate5fixed # ReadConformPDB reading from PDB file ../dimer/decoys/dimer-rotateNterm2.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//dimer-rotateNterm2 # ReadConformPDB reading from PDB file ../dimer/decoys/dimer-try3-1jm0A.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//dimer-try3-1jm0A # ReadConformPDB reading from PDB file ../dimer/decoys/dimer.flipped180.renum.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//dimer.flipped180.renum # ReadConformPDB reading from PDB file ../dimer/decoys/dimer.rot5.renum.pdb.gz looking for chain 'A' model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation dimer//dimer.rot5.renum # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_106769132.pdb -s /var/tmp/to_scwrl_106769132.seq -o /var/tmp/from_scwrl_106769132.pdb > /var/tmp/scwrl_106769132.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_106769132.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_POPULUS_TS1-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_39234296.pdb -s /var/tmp/to_scwrl_39234296.seq -o /var/tmp/from_scwrl_39234296.pdb > /var/tmp/scwrl_39234296.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_39234296.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_POPULUS_TS2-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2045961210.pdb -s /var/tmp/to_scwrl_2045961210.seq -o /var/tmp/from_scwrl_2045961210.pdb > /var/tmp/scwrl_2045961210.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2045961210.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_POPULUS_TS3-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_679949641.pdb -s /var/tmp/to_scwrl_679949641.seq -o /var/tmp/from_scwrl_679949641.pdb > /var/tmp/scwrl_679949641.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_679949641.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_POPULUS_TS4-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1478149180.pdb -s /var/tmp/to_scwrl_1478149180.seq -o /var/tmp/from_scwrl_1478149180.pdb > /var/tmp/scwrl_1478149180.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1478149180.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_POPULUS_TS5-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_RECOM_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_RECOM_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1743453024.pdb -s /var/tmp/to_scwrl_1743453024.seq -o /var/tmp/from_scwrl_1743453024.pdb > /var/tmp/scwrl_1743453024.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1743453024.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_RECOM_TS1-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_48170074.pdb -s /var/tmp/to_scwrl_48170074.seq -o /var/tmp/from_scwrl_48170074.pdb > /var/tmp/scwrl_48170074.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_48170074.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_TS1-scwrl # ReadConformPDB reading from PDB file servers/3Dpro_TS1.pdb.gz looking for model 1 # Found a chain break before 55 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_741738740.pdb -s /var/tmp/to_scwrl_741738740.seq -o /var/tmp/from_scwrl_741738740.pdb > /var/tmp/scwrl_741738740.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_741738740.pdb # conformation set from SCWRL output # naming current conformation 3Dpro_TS1-scwrl # ReadConformPDB reading from PDB file servers/3Dpro_TS2.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1775744213.pdb -s /var/tmp/to_scwrl_1775744213.seq -o /var/tmp/from_scwrl_1775744213.pdb > /var/tmp/scwrl_1775744213.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1775744213.pdb # conformation set from SCWRL output # naming current conformation 3Dpro_TS2-scwrl # ReadConformPDB reading from PDB file servers/3Dpro_TS3.pdb.gz looking for model 1 # Found a chain break before 94 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_175635754.pdb -s /var/tmp/to_scwrl_175635754.seq -o /var/tmp/from_scwrl_175635754.pdb > /var/tmp/scwrl_175635754.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_175635754.pdb # conformation set from SCWRL output # naming current conformation 3Dpro_TS3-scwrl # ReadConformPDB reading from PDB file servers/3Dpro_TS4.pdb.gz looking for model 1 # Found a chain break before 77 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_925872382.pdb -s /var/tmp/to_scwrl_925872382.seq -o /var/tmp/from_scwrl_925872382.pdb > /var/tmp/scwrl_925872382.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_925872382.pdb # conformation set from SCWRL output # naming current conformation 3Dpro_TS4-scwrl # ReadConformPDB reading from PDB file servers/3Dpro_TS5.pdb.gz looking for model 1 # Found a chain break before 37 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_325098600.pdb -s /var/tmp/to_scwrl_325098600.seq -o /var/tmp/from_scwrl_325098600.pdb > /var/tmp/scwrl_325098600.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_325098600.pdb # conformation set from SCWRL output # naming current conformation 3Dpro_TS5-scwrl # ReadConformPDB reading from PDB file servers/ABIpro_TS1.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_907823163.pdb -s /var/tmp/to_scwrl_907823163.seq -o /var/tmp/from_scwrl_907823163.pdb > /var/tmp/scwrl_907823163.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_907823163.pdb # conformation set from SCWRL output # naming current conformation ABIpro_TS1-scwrl # ReadConformPDB reading from PDB file servers/ABIpro_TS2.pdb.gz looking for model 1 # Found a chain break before 94 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1561521828.pdb -s /var/tmp/to_scwrl_1561521828.seq -o /var/tmp/from_scwrl_1561521828.pdb > /var/tmp/scwrl_1561521828.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1561521828.pdb # conformation set from SCWRL output # naming current conformation ABIpro_TS2-scwrl # ReadConformPDB reading from PDB file servers/ABIpro_TS3.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1039512802.pdb -s /var/tmp/to_scwrl_1039512802.seq -o /var/tmp/from_scwrl_1039512802.pdb > /var/tmp/scwrl_1039512802.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1039512802.pdb # conformation set from SCWRL output # naming current conformation ABIpro_TS3-scwrl # ReadConformPDB reading from PDB file servers/ABIpro_TS4.pdb.gz looking for model 1 # Found a chain break before 96 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1882493985.pdb -s /var/tmp/to_scwrl_1882493985.seq -o /var/tmp/from_scwrl_1882493985.pdb > /var/tmp/scwrl_1882493985.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1882493985.pdb # conformation set from SCWRL output # naming current conformation ABIpro_TS4-scwrl # ReadConformPDB reading from PDB file servers/ABIpro_TS5.pdb.gz looking for model 1 # Found a chain break before 93 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1220068318.pdb -s /var/tmp/to_scwrl_1220068318.seq -o /var/tmp/from_scwrl_1220068318.pdb > /var/tmp/scwrl_1220068318.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1220068318.pdb # conformation set from SCWRL output # naming current conformation ABIpro_TS5-scwrl # ReadConformPDB reading from PDB file servers/BayesHH_TS1.pdb.gz looking for model 1 # Found a chain break before 96 # copying to AlignedFragments data structure # naming current conformation BayesHH_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1914020833.pdb -s /var/tmp/to_scwrl_1914020833.seq -o /var/tmp/from_scwrl_1914020833.pdb > /var/tmp/scwrl_1914020833.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1914020833.pdb # conformation set from SCWRL output # naming current conformation BayesHH_TS1-scwrl # ReadConformPDB reading from PDB file servers/Bilab-ENABLE_TS1.pdb.gz looking for model 1 # Found a chain break before 41 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2013107878.pdb -s /var/tmp/to_scwrl_2013107878.seq -o /var/tmp/from_scwrl_2013107878.pdb > /var/tmp/scwrl_2013107878.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2013107878.pdb # conformation set from SCWRL output # naming current conformation Bilab-ENABLE_TS1-scwrl # ReadConformPDB reading from PDB file servers/CIRCLE_TS1.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1582451431.pdb -s /var/tmp/to_scwrl_1582451431.seq -o /var/tmp/from_scwrl_1582451431.pdb > /var/tmp/scwrl_1582451431.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1582451431.pdb # conformation set from SCWRL output # naming current conformation CIRCLE_TS1-scwrl # ReadConformPDB reading from PDB file servers/CIRCLE_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1011285770.pdb -s /var/tmp/to_scwrl_1011285770.seq -o /var/tmp/from_scwrl_1011285770.pdb > /var/tmp/scwrl_1011285770.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1011285770.pdb # conformation set from SCWRL output # naming current conformation CIRCLE_TS2-scwrl # ReadConformPDB reading from PDB file servers/CIRCLE_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_410371954.pdb -s /var/tmp/to_scwrl_410371954.seq -o /var/tmp/from_scwrl_410371954.pdb > /var/tmp/scwrl_410371954.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_410371954.pdb # conformation set from SCWRL output # naming current conformation CIRCLE_TS3-scwrl # ReadConformPDB reading from PDB file servers/CIRCLE_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1551862030.pdb -s /var/tmp/to_scwrl_1551862030.seq -o /var/tmp/from_scwrl_1551862030.pdb > /var/tmp/scwrl_1551862030.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1551862030.pdb # conformation set from SCWRL output # naming current conformation CIRCLE_TS4-scwrl # ReadConformPDB reading from PDB file servers/CIRCLE_TS5.pdb.gz looking for model 1 # Found a chain break before 96 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_252907755.pdb -s /var/tmp/to_scwrl_252907755.seq -o /var/tmp/from_scwrl_252907755.pdb > /var/tmp/scwrl_252907755.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_252907755.pdb # conformation set from SCWRL output # naming current conformation CIRCLE_TS5-scwrl # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1547684340.pdb -s /var/tmp/to_scwrl_1547684340.seq -o /var/tmp/from_scwrl_1547684340.pdb > /var/tmp/scwrl_1547684340.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1547684340.pdb # conformation set from SCWRL output # naming current conformation CaspIta-FOX_TS1-scwrl # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS2.pdb.gz looking for model 1 # Found a chain break before 12 # copying to AlignedFragments data structure # naming current conformation CaspIta-FOX_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1306093386.pdb -s /var/tmp/to_scwrl_1306093386.seq -o /var/tmp/from_scwrl_1306093386.pdb > /var/tmp/scwrl_1306093386.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1306093386.pdb # conformation set from SCWRL output # naming current conformation CaspIta-FOX_TS2-scwrl # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1924132713.pdb -s /var/tmp/to_scwrl_1924132713.seq -o /var/tmp/from_scwrl_1924132713.pdb > /var/tmp/scwrl_1924132713.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1924132713.pdb # conformation set from SCWRL output # naming current conformation CaspIta-FOX_TS3-scwrl # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1845838951.pdb -s /var/tmp/to_scwrl_1845838951.seq -o /var/tmp/from_scwrl_1845838951.pdb > /var/tmp/scwrl_1845838951.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1845838951.pdb # conformation set from SCWRL output # naming current conformation CaspIta-FOX_TS4-scwrl # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_183621861.pdb -s /var/tmp/to_scwrl_183621861.seq -o /var/tmp/from_scwrl_183621861.pdb > /var/tmp/scwrl_183621861.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_183621861.pdb # conformation set from SCWRL output # naming current conformation CaspIta-FOX_TS5-scwrl # ReadConformPDB reading from PDB file servers/Distill_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Distill_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1872511357.pdb -s /var/tmp/to_scwrl_1872511357.seq -o /var/tmp/from_scwrl_1872511357.pdb > /var/tmp/scwrl_1872511357.log Error: Couldn't open file /var/tmp/from_scwrl_1872511357.pdb or /var/tmp/from_scwrl_1872511357.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_1872511357_b.pdb or decoys//var/tmp/from_scwrl_1872511357_b.pdb.gz for input Trying /var/tmp/from_scwrl_1872511357_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_1872511357_b.pdb or /var/tmp/from_scwrl_1872511357_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_1872511357_a.pdb or decoys//var/tmp/from_scwrl_1872511357_a.pdb.gz for input Trying /var/tmp/from_scwrl_1872511357_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_1872511357_a.pdb or /var/tmp/from_scwrl_1872511357_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_1872511357.pdb or /var/tmp/from_scwrl_1872511357_b.pdb or /var/tmp/from_scwrl_1872511357_a.pdb Error: no new SCWRL conformation added # naming current conformation Distill_TS1-scwrl # ReadConformPDB reading from PDB file servers/Distill_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Distill_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_334141789.pdb -s /var/tmp/to_scwrl_334141789.seq -o /var/tmp/from_scwrl_334141789.pdb > /var/tmp/scwrl_334141789.log Error: Couldn't open file /var/tmp/from_scwrl_334141789.pdb or /var/tmp/from_scwrl_334141789.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_334141789_b.pdb or decoys//var/tmp/from_scwrl_334141789_b.pdb.gz for input Trying /var/tmp/from_scwrl_334141789_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_334141789_b.pdb or /var/tmp/from_scwrl_334141789_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_334141789_a.pdb or decoys//var/tmp/from_scwrl_334141789_a.pdb.gz for input Trying /var/tmp/from_scwrl_334141789_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_334141789_a.pdb or /var/tmp/from_scwrl_334141789_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_334141789.pdb or /var/tmp/from_scwrl_334141789_b.pdb or /var/tmp/from_scwrl_334141789_a.pdb Error: no new SCWRL conformation added # naming current conformation Distill_TS2-scwrl # ReadConformPDB reading from PDB file servers/Distill_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Distill_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_290390993.pdb -s /var/tmp/to_scwrl_290390993.seq -o /var/tmp/from_scwrl_290390993.pdb > /var/tmp/scwrl_290390993.log Error: Couldn't open file /var/tmp/from_scwrl_290390993.pdb or /var/tmp/from_scwrl_290390993.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_290390993_b.pdb or decoys//var/tmp/from_scwrl_290390993_b.pdb.gz for input Trying /var/tmp/from_scwrl_290390993_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_290390993_b.pdb or /var/tmp/from_scwrl_290390993_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_290390993_a.pdb or decoys//var/tmp/from_scwrl_290390993_a.pdb.gz for input Trying /var/tmp/from_scwrl_290390993_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_290390993_a.pdb or /var/tmp/from_scwrl_290390993_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_290390993.pdb or /var/tmp/from_scwrl_290390993_b.pdb or /var/tmp/from_scwrl_290390993_a.pdb Error: no new SCWRL conformation added # naming current conformation Distill_TS3-scwrl # ReadConformPDB reading from PDB file servers/Distill_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Distill_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1911745653.pdb -s /var/tmp/to_scwrl_1911745653.seq -o /var/tmp/from_scwrl_1911745653.pdb > /var/tmp/scwrl_1911745653.log Error: Couldn't open file /var/tmp/from_scwrl_1911745653.pdb or /var/tmp/from_scwrl_1911745653.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_1911745653_b.pdb or decoys//var/tmp/from_scwrl_1911745653_b.pdb.gz for input Trying /var/tmp/from_scwrl_1911745653_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_1911745653_b.pdb or /var/tmp/from_scwrl_1911745653_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_1911745653_a.pdb or decoys//var/tmp/from_scwrl_1911745653_a.pdb.gz for input Trying /var/tmp/from_scwrl_1911745653_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_1911745653_a.pdb or /var/tmp/from_scwrl_1911745653_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_1911745653.pdb or /var/tmp/from_scwrl_1911745653_b.pdb or /var/tmp/from_scwrl_1911745653_a.pdb Error: no new SCWRL conformation added # naming current conformation Distill_TS4-scwrl # ReadConformPDB reading from PDB file servers/Distill_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Distill_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_232619352.pdb -s /var/tmp/to_scwrl_232619352.seq -o /var/tmp/from_scwrl_232619352.pdb > /var/tmp/scwrl_232619352.log Error: Couldn't open file /var/tmp/from_scwrl_232619352.pdb or /var/tmp/from_scwrl_232619352.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_232619352_b.pdb or decoys//var/tmp/from_scwrl_232619352_b.pdb.gz for input Trying /var/tmp/from_scwrl_232619352_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_232619352_b.pdb or /var/tmp/from_scwrl_232619352_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_232619352_a.pdb or decoys//var/tmp/from_scwrl_232619352_a.pdb.gz for input Trying /var/tmp/from_scwrl_232619352_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_232619352_a.pdb or /var/tmp/from_scwrl_232619352_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_232619352.pdb or /var/tmp/from_scwrl_232619352_b.pdb or /var/tmp/from_scwrl_232619352_a.pdb Error: no new SCWRL conformation added # naming current conformation Distill_TS5-scwrl # ReadConformPDB reading from PDB file servers/FAMSD_TS1.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # naming current conformation FAMSD_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_970340635.pdb -s /var/tmp/to_scwrl_970340635.seq -o /var/tmp/from_scwrl_970340635.pdb > /var/tmp/scwrl_970340635.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_970340635.pdb # conformation set from SCWRL output # naming current conformation FAMSD_TS1-scwrl # ReadConformPDB reading from PDB file servers/FAMSD_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FAMSD_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1242411186.pdb -s /var/tmp/to_scwrl_1242411186.seq -o /var/tmp/from_scwrl_1242411186.pdb > /var/tmp/scwrl_1242411186.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1242411186.pdb # conformation set from SCWRL output # naming current conformation FAMSD_TS2-scwrl # ReadConformPDB reading from PDB file servers/FAMSD_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FAMSD_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1976072377.pdb -s /var/tmp/to_scwrl_1976072377.seq -o /var/tmp/from_scwrl_1976072377.pdb > /var/tmp/scwrl_1976072377.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1976072377.pdb # conformation set from SCWRL output # naming current conformation FAMSD_TS3-scwrl # ReadConformPDB reading from PDB file servers/FAMSD_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FAMSD_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1018510709.pdb -s /var/tmp/to_scwrl_1018510709.seq -o /var/tmp/from_scwrl_1018510709.pdb > /var/tmp/scwrl_1018510709.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1018510709.pdb # conformation set from SCWRL output # naming current conformation FAMSD_TS4-scwrl # ReadConformPDB reading from PDB file servers/FAMSD_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FAMSD_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1984149926.pdb -s /var/tmp/to_scwrl_1984149926.seq -o /var/tmp/from_scwrl_1984149926.pdb > /var/tmp/scwrl_1984149926.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1984149926.pdb # conformation set from SCWRL output # naming current conformation FAMSD_TS5-scwrl # ReadConformPDB reading from PDB file servers/FAMS_TS1.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation FAMS_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1604332943.pdb -s /var/tmp/to_scwrl_1604332943.seq -o /var/tmp/from_scwrl_1604332943.pdb > /var/tmp/scwrl_1604332943.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1604332943.pdb # conformation set from SCWRL output # naming current conformation FAMS_TS1-scwrl # ReadConformPDB reading from PDB file servers/FAMS_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FAMS_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1194146462.pdb -s /var/tmp/to_scwrl_1194146462.seq -o /var/tmp/from_scwrl_1194146462.pdb > /var/tmp/scwrl_1194146462.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1194146462.pdb # conformation set from SCWRL output # naming current conformation FAMS_TS2-scwrl # ReadConformPDB reading from PDB file servers/FAMS_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FAMS_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_762538662.pdb -s /var/tmp/to_scwrl_762538662.seq -o /var/tmp/from_scwrl_762538662.pdb > /var/tmp/scwrl_762538662.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_762538662.pdb # conformation set from SCWRL output # naming current conformation FAMS_TS3-scwrl # ReadConformPDB reading from PDB file servers/FAMS_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FAMS_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1929431544.pdb -s /var/tmp/to_scwrl_1929431544.seq -o /var/tmp/from_scwrl_1929431544.pdb > /var/tmp/scwrl_1929431544.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1929431544.pdb # conformation set from SCWRL output # naming current conformation FAMS_TS4-scwrl # ReadConformPDB reading from PDB file servers/FAMS_TS5.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation FAMS_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2101969626.pdb -s /var/tmp/to_scwrl_2101969626.seq -o /var/tmp/from_scwrl_2101969626.pdb > /var/tmp/scwrl_2101969626.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2101969626.pdb # conformation set from SCWRL output # naming current conformation FAMS_TS5-scwrl # ReadConformPDB reading from PDB file servers/FOLDpro_TS1.pdb.gz looking for model 1 # naming current conformation FOLDpro_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_176576843.pdb -s /var/tmp/to_scwrl_176576843.seq -o /var/tmp/from_scwrl_176576843.pdb > /var/tmp/scwrl_176576843.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_176576843.pdb # conformation set from SCWRL output # naming current conformation FOLDpro_TS1-scwrl # ReadConformPDB reading from PDB file servers/FOLDpro_TS2.pdb.gz looking for model 1 # Found a chain break before 63 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_821460699.pdb -s /var/tmp/to_scwrl_821460699.seq -o /var/tmp/from_scwrl_821460699.pdb > /var/tmp/scwrl_821460699.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_821460699.pdb # conformation set from SCWRL output # naming current conformation FOLDpro_TS2-scwrl # ReadConformPDB reading from PDB file servers/FOLDpro_TS3.pdb.gz looking for model 1 # Found a chain break before 34 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1836979964.pdb -s /var/tmp/to_scwrl_1836979964.seq -o /var/tmp/from_scwrl_1836979964.pdb > /var/tmp/scwrl_1836979964.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1836979964.pdb # conformation set from SCWRL output # naming current conformation FOLDpro_TS3-scwrl # ReadConformPDB reading from PDB file servers/FOLDpro_TS4.pdb.gz looking for model 1 # Found a chain break before 67 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1396645161.pdb -s /var/tmp/to_scwrl_1396645161.seq -o /var/tmp/from_scwrl_1396645161.pdb > /var/tmp/scwrl_1396645161.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1396645161.pdb # conformation set from SCWRL output # naming current conformation FOLDpro_TS4-scwrl # ReadConformPDB reading from PDB file servers/FOLDpro_TS5.pdb.gz looking for model 1 # naming current conformation FOLDpro_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_587997885.pdb -s /var/tmp/to_scwrl_587997885.seq -o /var/tmp/from_scwrl_587997885.pdb > /var/tmp/scwrl_587997885.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_587997885.pdb # conformation set from SCWRL output # naming current conformation FOLDpro_TS5-scwrl # ReadConformPDB reading from PDB file servers/FORTE1_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE1_AL1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1702604195.pdb -s /var/tmp/to_scwrl_1702604195.seq -o /var/tmp/from_scwrl_1702604195.pdb > /var/tmp/scwrl_1702604195.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1702604195.pdb # conformation set from SCWRL output # naming current conformation FORTE1_AL1-scwrl # ReadConformPDB reading from PDB file servers/FORTE1_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE1_AL2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_831612946.pdb -s /var/tmp/to_scwrl_831612946.seq -o /var/tmp/from_scwrl_831612946.pdb > /var/tmp/scwrl_831612946.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_831612946.pdb # conformation set from SCWRL output # naming current conformation FORTE1_AL2-scwrl # ReadConformPDB reading from PDB file servers/FORTE1_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE1_AL3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1599283654.pdb -s /var/tmp/to_scwrl_1599283654.seq -o /var/tmp/from_scwrl_1599283654.pdb > /var/tmp/scwrl_1599283654.log Error: Couldn't open file /var/tmp/from_scwrl_1599283654.pdb or /var/tmp/from_scwrl_1599283654.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_1599283654_b.pdb or decoys//var/tmp/from_scwrl_1599283654_b.pdb.gz for input Trying /var/tmp/from_scwrl_1599283654_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_1599283654_b.pdb or /var/tmp/from_scwrl_1599283654_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_1599283654_a.pdb or decoys//var/tmp/from_scwrl_1599283654_a.pdb.gz for input Trying /var/tmp/from_scwrl_1599283654_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_1599283654_a.pdb or /var/tmp/from_scwrl_1599283654_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_1599283654.pdb or /var/tmp/from_scwrl_1599283654_b.pdb or /var/tmp/from_scwrl_1599283654_a.pdb Error: no new SCWRL conformation added # naming current conformation FORTE1_AL3-scwrl # ReadConformPDB reading from PDB file servers/FORTE1_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE1_AL4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2112976149.pdb -s /var/tmp/to_scwrl_2112976149.seq -o /var/tmp/from_scwrl_2112976149.pdb > /var/tmp/scwrl_2112976149.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2112976149.pdb # conformation set from SCWRL output # naming current conformation FORTE1_AL4-scwrl # ReadConformPDB reading from PDB file servers/FORTE1_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE1_AL5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_235991330.pdb -s /var/tmp/to_scwrl_235991330.seq -o /var/tmp/from_scwrl_235991330.pdb > /var/tmp/scwrl_235991330.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_235991330.pdb # conformation set from SCWRL output # naming current conformation FORTE1_AL5-scwrl # ReadConformPDB reading from PDB file servers/FORTE2_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE2_AL1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1852191409.pdb -s /var/tmp/to_scwrl_1852191409.seq -o /var/tmp/from_scwrl_1852191409.pdb > /var/tmp/scwrl_1852191409.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1852191409.pdb # conformation set from SCWRL output # naming current conformation FORTE2_AL1-scwrl # ReadConformPDB reading from PDB file servers/FORTE2_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE2_AL2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1513176843.pdb -s /var/tmp/to_scwrl_1513176843.seq -o /var/tmp/from_scwrl_1513176843.pdb > /var/tmp/scwrl_1513176843.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1513176843.pdb # conformation set from SCWRL output # naming current conformation FORTE2_AL2-scwrl # ReadConformPDB reading from PDB file servers/FORTE2_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE2_AL3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1542084716.pdb -s /var/tmp/to_scwrl_1542084716.seq -o /var/tmp/from_scwrl_1542084716.pdb > /var/tmp/scwrl_1542084716.log Error: Couldn't open file /var/tmp/from_scwrl_1542084716.pdb or /var/tmp/from_scwrl_1542084716.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_1542084716_b.pdb or decoys//var/tmp/from_scwrl_1542084716_b.pdb.gz for input Trying /var/tmp/from_scwrl_1542084716_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_1542084716_b.pdb or /var/tmp/from_scwrl_1542084716_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_1542084716_a.pdb or decoys//var/tmp/from_scwrl_1542084716_a.pdb.gz for input Trying /var/tmp/from_scwrl_1542084716_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_1542084716_a.pdb or /var/tmp/from_scwrl_1542084716_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_1542084716.pdb or /var/tmp/from_scwrl_1542084716_b.pdb or /var/tmp/from_scwrl_1542084716_a.pdb Error: no new SCWRL conformation added # naming current conformation FORTE2_AL3-scwrl # ReadConformPDB reading from PDB file servers/FORTE2_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE2_AL4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1628840476.pdb -s /var/tmp/to_scwrl_1628840476.seq -o /var/tmp/from_scwrl_1628840476.pdb > /var/tmp/scwrl_1628840476.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1628840476.pdb # conformation set from SCWRL output # naming current conformation FORTE2_AL4-scwrl # ReadConformPDB reading from PDB file servers/FORTE2_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FORTE2_AL5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1211532147.pdb -s /var/tmp/to_scwrl_1211532147.seq -o /var/tmp/from_scwrl_1211532147.pdb > /var/tmp/scwrl_1211532147.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1211532147.pdb # conformation set from SCWRL output # naming current conformation FORTE2_AL5-scwrl # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS1.pdb.gz looking for model 1 # Found a chain break before 91 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1725706577.pdb -s /var/tmp/to_scwrl_1725706577.seq -o /var/tmp/from_scwrl_1725706577.pdb > /var/tmp/scwrl_1725706577.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1725706577.pdb # conformation set from SCWRL output # naming current conformation FPSOLVER-SERVER_TS1-scwrl # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS2.pdb.gz looking for model 1 # naming current conformation FPSOLVER-SERVER_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1353868186.pdb -s /var/tmp/to_scwrl_1353868186.seq -o /var/tmp/from_scwrl_1353868186.pdb > /var/tmp/scwrl_1353868186.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1353868186.pdb # conformation set from SCWRL output # naming current conformation FPSOLVER-SERVER_TS2-scwrl # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS3.pdb.gz looking for model 1 # naming current conformation FPSOLVER-SERVER_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1545673937.pdb -s /var/tmp/to_scwrl_1545673937.seq -o /var/tmp/from_scwrl_1545673937.pdb > /var/tmp/scwrl_1545673937.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1545673937.pdb # conformation set from SCWRL output # naming current conformation FPSOLVER-SERVER_TS3-scwrl # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS4.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2016097570.pdb -s /var/tmp/to_scwrl_2016097570.seq -o /var/tmp/from_scwrl_2016097570.pdb > /var/tmp/scwrl_2016097570.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2016097570.pdb # conformation set from SCWRL output # naming current conformation FPSOLVER-SERVER_TS4-scwrl # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS5.pdb.gz looking for model 1 # Found a chain break before 94 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1118130192.pdb -s /var/tmp/to_scwrl_1118130192.seq -o /var/tmp/from_scwrl_1118130192.pdb > /var/tmp/scwrl_1118130192.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1118130192.pdb # conformation set from SCWRL output # naming current conformation FPSOLVER-SERVER_TS5-scwrl # ReadConformPDB reading from PDB file servers/FUGMOD_TS1.pdb.gz looking for model 1 # Found a chain break before 21 # copying to AlignedFragments data structure # naming current conformation FUGMOD_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1778293289.pdb -s /var/tmp/to_scwrl_1778293289.seq -o /var/tmp/from_scwrl_1778293289.pdb > /var/tmp/scwrl_1778293289.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1778293289.pdb # conformation set from SCWRL output # naming current conformation FUGMOD_TS1-scwrl # ReadConformPDB reading from PDB file servers/FUGMOD_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FUGMOD_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_838954558.pdb -s /var/tmp/to_scwrl_838954558.seq -o /var/tmp/from_scwrl_838954558.pdb > /var/tmp/scwrl_838954558.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_838954558.pdb # conformation set from SCWRL output # naming current conformation FUGMOD_TS2-scwrl # ReadConformPDB reading from PDB file servers/FUGMOD_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FUGMOD_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_213057732.pdb -s /var/tmp/to_scwrl_213057732.seq -o /var/tmp/from_scwrl_213057732.pdb > /var/tmp/scwrl_213057732.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_213057732.pdb # conformation set from SCWRL output # naming current conformation FUGMOD_TS3-scwrl # ReadConformPDB reading from PDB file servers/FUGMOD_TS4.pdb.gz looking for model 1 # Found a chain break before 72 # copying to AlignedFragments data structure # naming current conformation FUGMOD_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1606882019.pdb -s /var/tmp/to_scwrl_1606882019.seq -o /var/tmp/from_scwrl_1606882019.pdb > /var/tmp/scwrl_1606882019.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1606882019.pdb # conformation set from SCWRL output # naming current conformation FUGMOD_TS4-scwrl # ReadConformPDB reading from PDB file servers/FUGMOD_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FUGMOD_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1857465267.pdb -s /var/tmp/to_scwrl_1857465267.seq -o /var/tmp/from_scwrl_1857465267.pdb > /var/tmp/scwrl_1857465267.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1857465267.pdb # conformation set from SCWRL output # naming current conformation FUGMOD_TS5-scwrl # ReadConformPDB reading from PDB file servers/FUGUE_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FUGUE_AL1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_49724011.pdb -s /var/tmp/to_scwrl_49724011.seq -o /var/tmp/from_scwrl_49724011.pdb > /var/tmp/scwrl_49724011.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_49724011.pdb # conformation set from SCWRL output # naming current conformation FUGUE_AL1-scwrl # ReadConformPDB reading from PDB file servers/FUGUE_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FUGUE_AL2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1063731317.pdb -s /var/tmp/to_scwrl_1063731317.seq -o /var/tmp/from_scwrl_1063731317.pdb > /var/tmp/scwrl_1063731317.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1063731317.pdb # conformation set from SCWRL output # naming current conformation FUGUE_AL2-scwrl # ReadConformPDB reading from PDB file servers/FUGUE_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FUGUE_AL3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_904128083.pdb -s /var/tmp/to_scwrl_904128083.seq -o /var/tmp/from_scwrl_904128083.pdb > /var/tmp/scwrl_904128083.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_904128083.pdb # conformation set from SCWRL output # naming current conformation FUGUE_AL3-scwrl # ReadConformPDB reading from PDB file servers/FUGUE_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FUGUE_AL4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_812262673.pdb -s /var/tmp/to_scwrl_812262673.seq -o /var/tmp/from_scwrl_812262673.pdb > /var/tmp/scwrl_812262673.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_812262673.pdb # conformation set from SCWRL output # naming current conformation FUGUE_AL4-scwrl # ReadConformPDB reading from PDB file servers/FUGUE_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation FUGUE_AL5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_845679214.pdb -s /var/tmp/to_scwrl_845679214.seq -o /var/tmp/from_scwrl_845679214.pdb > /var/tmp/scwrl_845679214.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_845679214.pdb # conformation set from SCWRL output # naming current conformation FUGUE_AL5-scwrl # ReadConformPDB reading from PDB file servers/FUNCTION_TS1.pdb.gz looking for model 1 # Found a chain break before 94 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_858614062.pdb -s /var/tmp/to_scwrl_858614062.seq -o /var/tmp/from_scwrl_858614062.pdb > /var/tmp/scwrl_858614062.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_858614062.pdb # conformation set from SCWRL output # naming current conformation FUNCTION_TS1-scwrl # ReadConformPDB reading from PDB file servers/FUNCTION_TS2.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_988839517.pdb -s /var/tmp/to_scwrl_988839517.seq -o /var/tmp/from_scwrl_988839517.pdb > /var/tmp/scwrl_988839517.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_988839517.pdb # conformation set from SCWRL output # naming current conformation FUNCTION_TS2-scwrl # ReadConformPDB reading from PDB file servers/FUNCTION_TS3.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1667139912.pdb -s /var/tmp/to_scwrl_1667139912.seq -o /var/tmp/from_scwrl_1667139912.pdb > /var/tmp/scwrl_1667139912.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1667139912.pdb # conformation set from SCWRL output # naming current conformation FUNCTION_TS3-scwrl # ReadConformPDB reading from PDB file servers/FUNCTION_TS4.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_548110379.pdb -s /var/tmp/to_scwrl_548110379.seq -o /var/tmp/from_scwrl_548110379.pdb > /var/tmp/scwrl_548110379.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_548110379.pdb # conformation set from SCWRL output # naming current conformation FUNCTION_TS4-scwrl # ReadConformPDB reading from PDB file servers/FUNCTION_TS5.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_238001031.pdb -s /var/tmp/to_scwrl_238001031.seq -o /var/tmp/from_scwrl_238001031.pdb > /var/tmp/scwrl_238001031.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_238001031.pdb # conformation set from SCWRL output # naming current conformation FUNCTION_TS5-scwrl # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS1.pdb.gz looking for model 1 # Found a chain break before 67 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_107654151.pdb -s /var/tmp/to_scwrl_107654151.seq -o /var/tmp/from_scwrl_107654151.pdb > /var/tmp/scwrl_107654151.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_107654151.pdb # conformation set from SCWRL output # naming current conformation GeneSilicoMetaServer_TS1-scwrl # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS2.pdb.gz looking for model 1 # naming current conformation GeneSilicoMetaServer_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_103230928.pdb -s /var/tmp/to_scwrl_103230928.seq -o /var/tmp/from_scwrl_103230928.pdb > /var/tmp/scwrl_103230928.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_103230928.pdb # conformation set from SCWRL output # naming current conformation GeneSilicoMetaServer_TS2-scwrl # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS3.pdb.gz looking for model 1 # Found a chain break before 53 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1069613978.pdb -s /var/tmp/to_scwrl_1069613978.seq -o /var/tmp/from_scwrl_1069613978.pdb > /var/tmp/scwrl_1069613978.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1069613978.pdb # conformation set from SCWRL output # naming current conformation GeneSilicoMetaServer_TS3-scwrl # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation GeneSilicoMetaServer_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1706937805.pdb -s /var/tmp/to_scwrl_1706937805.seq -o /var/tmp/from_scwrl_1706937805.pdb > /var/tmp/scwrl_1706937805.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1706937805.pdb # conformation set from SCWRL output # naming current conformation GeneSilicoMetaServer_TS4-scwrl # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS5.pdb.gz looking for model 1 # Found a chain break before 78 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_68723430.pdb -s /var/tmp/to_scwrl_68723430.seq -o /var/tmp/from_scwrl_68723430.pdb > /var/tmp/scwrl_68723430.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_68723430.pdb # conformation set from SCWRL output # naming current conformation GeneSilicoMetaServer_TS5-scwrl # ReadConformPDB reading from PDB file servers/HHpred1_TS1.pdb.gz looking for model 1 # naming current conformation HHpred1_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1305605307.pdb -s /var/tmp/to_scwrl_1305605307.seq -o /var/tmp/from_scwrl_1305605307.pdb > /var/tmp/scwrl_1305605307.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1305605307.pdb # conformation set from SCWRL output # naming current conformation HHpred1_TS1-scwrl # ReadConformPDB reading from PDB file servers/HHpred2_TS1.pdb.gz looking for model 1 # Found a chain break before 31 # copying to AlignedFragments data structure # naming current conformation HHpred2_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1411645568.pdb -s /var/tmp/to_scwrl_1411645568.seq -o /var/tmp/from_scwrl_1411645568.pdb > /var/tmp/scwrl_1411645568.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1411645568.pdb # conformation set from SCWRL output # naming current conformation HHpred2_TS1-scwrl # ReadConformPDB reading from PDB file servers/HHpred3_TS1.pdb.gz looking for model 1 # naming current conformation HHpred3_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1581900273.pdb -s /var/tmp/to_scwrl_1581900273.seq -o /var/tmp/from_scwrl_1581900273.pdb > /var/tmp/scwrl_1581900273.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1581900273.pdb # conformation set from SCWRL output # naming current conformation HHpred3_TS1-scwrl # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_700206377.pdb -s /var/tmp/to_scwrl_700206377.seq -o /var/tmp/from_scwrl_700206377.pdb > /var/tmp/scwrl_700206377.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_700206377.pdb # conformation set from SCWRL output # naming current conformation Huber-Torda-Server_TS1-scwrl # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_893002398.pdb -s /var/tmp/to_scwrl_893002398.seq -o /var/tmp/from_scwrl_893002398.pdb > /var/tmp/scwrl_893002398.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_893002398.pdb # conformation set from SCWRL output # naming current conformation Huber-Torda-Server_TS2-scwrl # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_645948775.pdb -s /var/tmp/to_scwrl_645948775.seq -o /var/tmp/from_scwrl_645948775.pdb > /var/tmp/scwrl_645948775.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_645948775.pdb # conformation set from SCWRL output # naming current conformation Huber-Torda-Server_TS3-scwrl # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_278429307.pdb -s /var/tmp/to_scwrl_278429307.seq -o /var/tmp/from_scwrl_278429307.pdb > /var/tmp/scwrl_278429307.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_278429307.pdb # conformation set from SCWRL output # naming current conformation Huber-Torda-Server_TS4-scwrl # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_99386937.pdb -s /var/tmp/to_scwrl_99386937.seq -o /var/tmp/from_scwrl_99386937.pdb > /var/tmp/scwrl_99386937.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_99386937.pdb # conformation set from SCWRL output # naming current conformation Huber-Torda-Server_TS5-scwrl # ReadConformPDB reading from PDB file servers/LOOPP_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation LOOPP_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_44139065.pdb -s /var/tmp/to_scwrl_44139065.seq -o /var/tmp/from_scwrl_44139065.pdb > /var/tmp/scwrl_44139065.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_44139065.pdb # conformation set from SCWRL output # naming current conformation LOOPP_TS1-scwrl # ReadConformPDB reading from PDB file servers/LOOPP_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation LOOPP_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_147043230.pdb -s /var/tmp/to_scwrl_147043230.seq -o /var/tmp/from_scwrl_147043230.pdb > /var/tmp/scwrl_147043230.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_147043230.pdb # conformation set from SCWRL output # naming current conformation LOOPP_TS2-scwrl # ReadConformPDB reading from PDB file servers/LOOPP_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation LOOPP_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1217517129.pdb -s /var/tmp/to_scwrl_1217517129.seq -o /var/tmp/from_scwrl_1217517129.pdb > /var/tmp/scwrl_1217517129.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1217517129.pdb # conformation set from SCWRL output # naming current conformation LOOPP_TS3-scwrl # ReadConformPDB reading from PDB file servers/LOOPP_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation LOOPP_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1822432354.pdb -s /var/tmp/to_scwrl_1822432354.seq -o /var/tmp/from_scwrl_1822432354.pdb > /var/tmp/scwrl_1822432354.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1822432354.pdb # conformation set from SCWRL output # naming current conformation LOOPP_TS4-scwrl # ReadConformPDB reading from PDB file servers/LOOPP_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation LOOPP_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_985997789.pdb -s /var/tmp/to_scwrl_985997789.seq -o /var/tmp/from_scwrl_985997789.pdb > /var/tmp/scwrl_985997789.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_985997789.pdb # conformation set from SCWRL output # naming current conformation LOOPP_TS5-scwrl # ReadConformPDB reading from PDB file servers/MIG_FROST_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation MIG_FROST_AL1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1430574861.pdb -s /var/tmp/to_scwrl_1430574861.seq -o /var/tmp/from_scwrl_1430574861.pdb > /var/tmp/scwrl_1430574861.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1430574861.pdb # conformation set from SCWRL output # naming current conformation MIG_FROST_AL1-scwrl # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS1.pdb.gz looking for model 1 # naming current conformation Ma-OPUS-server_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1281830727.pdb -s /var/tmp/to_scwrl_1281830727.seq -o /var/tmp/from_scwrl_1281830727.pdb > /var/tmp/scwrl_1281830727.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1281830727.pdb # conformation set from SCWRL output # naming current conformation Ma-OPUS-server_TS1-scwrl # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS2.pdb.gz looking for model 1 # naming current conformation Ma-OPUS-server_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_695979409.pdb -s /var/tmp/to_scwrl_695979409.seq -o /var/tmp/from_scwrl_695979409.pdb > /var/tmp/scwrl_695979409.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_695979409.pdb # conformation set from SCWRL output # naming current conformation Ma-OPUS-server_TS2-scwrl # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS3.pdb.gz looking for model 1 # Found a chain break before 65 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1480298872.pdb -s /var/tmp/to_scwrl_1480298872.seq -o /var/tmp/from_scwrl_1480298872.pdb > /var/tmp/scwrl_1480298872.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1480298872.pdb # conformation set from SCWRL output # naming current conformation Ma-OPUS-server_TS3-scwrl # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS4.pdb.gz looking for model 1 # Found a chain break before 24 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_198078397.pdb -s /var/tmp/to_scwrl_198078397.seq -o /var/tmp/from_scwrl_198078397.pdb > /var/tmp/scwrl_198078397.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_198078397.pdb # conformation set from SCWRL output # naming current conformation Ma-OPUS-server_TS4-scwrl # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS5.pdb.gz looking for model 1 # naming current conformation Ma-OPUS-server_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1600107491.pdb -s /var/tmp/to_scwrl_1600107491.seq -o /var/tmp/from_scwrl_1600107491.pdb > /var/tmp/scwrl_1600107491.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1600107491.pdb # conformation set from SCWRL output # naming current conformation Ma-OPUS-server_TS5-scwrl # ReadConformPDB reading from PDB file servers/MetaTasser_TS1.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_145077899.pdb -s /var/tmp/to_scwrl_145077899.seq -o /var/tmp/from_scwrl_145077899.pdb > /var/tmp/scwrl_145077899.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_145077899.pdb # conformation set from SCWRL output # naming current conformation MetaTasser_TS1-scwrl # ReadConformPDB reading from PDB file servers/MetaTasser_TS2.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1043757611.pdb -s /var/tmp/to_scwrl_1043757611.seq -o /var/tmp/from_scwrl_1043757611.pdb > /var/tmp/scwrl_1043757611.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1043757611.pdb # conformation set from SCWRL output # naming current conformation MetaTasser_TS2-scwrl # ReadConformPDB reading from PDB file servers/MetaTasser_TS3.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_311237907.pdb -s /var/tmp/to_scwrl_311237907.seq -o /var/tmp/from_scwrl_311237907.pdb > /var/tmp/scwrl_311237907.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_311237907.pdb # conformation set from SCWRL output # naming current conformation MetaTasser_TS3-scwrl # ReadConformPDB reading from PDB file servers/MetaTasser_TS4.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1133917415.pdb -s /var/tmp/to_scwrl_1133917415.seq -o /var/tmp/from_scwrl_1133917415.pdb > /var/tmp/scwrl_1133917415.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1133917415.pdb # conformation set from SCWRL output # naming current conformation MetaTasser_TS4-scwrl # ReadConformPDB reading from PDB file servers/MetaTasser_TS5.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_563413876.pdb -s /var/tmp/to_scwrl_563413876.seq -o /var/tmp/from_scwrl_563413876.pdb > /var/tmp/scwrl_563413876.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_563413876.pdb # conformation set from SCWRL output # naming current conformation MetaTasser_TS5-scwrl # ReadConformPDB reading from PDB file servers/NN_PUT_lab_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation NN_PUT_lab_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_859348286.pdb -s /var/tmp/to_scwrl_859348286.seq -o /var/tmp/from_scwrl_859348286.pdb > /var/tmp/scwrl_859348286.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_859348286.pdb # conformation set from SCWRL output # naming current conformation NN_PUT_lab_TS1-scwrl # ReadConformPDB reading from PDB file servers/POMYSL_TS1.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1371918446.pdb -s /var/tmp/to_scwrl_1371918446.seq -o /var/tmp/from_scwrl_1371918446.pdb > /var/tmp/scwrl_1371918446.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1371918446.pdb # conformation set from SCWRL output # naming current conformation POMYSL_TS1-scwrl # ReadConformPDB reading from PDB file servers/POMYSL_TS2.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_671068027.pdb -s /var/tmp/to_scwrl_671068027.seq -o /var/tmp/from_scwrl_671068027.pdb > /var/tmp/scwrl_671068027.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_671068027.pdb # conformation set from SCWRL output # naming current conformation POMYSL_TS2-scwrl # ReadConformPDB reading from PDB file servers/POMYSL_TS3.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_962579214.pdb -s /var/tmp/to_scwrl_962579214.seq -o /var/tmp/from_scwrl_962579214.pdb > /var/tmp/scwrl_962579214.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_962579214.pdb # conformation set from SCWRL output # naming current conformation POMYSL_TS3-scwrl # ReadConformPDB reading from PDB file servers/POMYSL_TS4.pdb.gz looking for model 1 # Found a chain break before 76 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_294048777.pdb -s /var/tmp/to_scwrl_294048777.seq -o /var/tmp/from_scwrl_294048777.pdb > /var/tmp/scwrl_294048777.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_294048777.pdb # conformation set from SCWRL output # naming current conformation POMYSL_TS4-scwrl # ReadConformPDB reading from PDB file servers/POMYSL_TS5.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_230522186.pdb -s /var/tmp/to_scwrl_230522186.seq -o /var/tmp/from_scwrl_230522186.pdb > /var/tmp/scwrl_230522186.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_230522186.pdb # conformation set from SCWRL output # naming current conformation POMYSL_TS5-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS1.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1031302645.pdb -s /var/tmp/to_scwrl_1031302645.seq -o /var/tmp/from_scwrl_1031302645.pdb > /var/tmp/scwrl_1031302645.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1031302645.pdb # conformation set from SCWRL output # naming current conformation PROTINFO-AB_TS1-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS2.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1599654084.pdb -s /var/tmp/to_scwrl_1599654084.seq -o /var/tmp/from_scwrl_1599654084.pdb > /var/tmp/scwrl_1599654084.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1599654084.pdb # conformation set from SCWRL output # naming current conformation PROTINFO-AB_TS2-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS3.pdb.gz looking for model 1 # Found a chain break before 89 # copying to AlignedFragments data structure # naming current conformation PROTINFO-AB_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1642167754.pdb -s /var/tmp/to_scwrl_1642167754.seq -o /var/tmp/from_scwrl_1642167754.pdb > /var/tmp/scwrl_1642167754.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1642167754.pdb # conformation set from SCWRL output # naming current conformation PROTINFO-AB_TS3-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation PROTINFO-AB_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_465719271.pdb -s /var/tmp/to_scwrl_465719271.seq -o /var/tmp/from_scwrl_465719271.pdb > /var/tmp/scwrl_465719271.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_465719271.pdb # conformation set from SCWRL output # naming current conformation PROTINFO-AB_TS4-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS5.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_152376814.pdb -s /var/tmp/to_scwrl_152376814.seq -o /var/tmp/from_scwrl_152376814.pdb > /var/tmp/scwrl_152376814.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_152376814.pdb # conformation set from SCWRL output # naming current conformation PROTINFO-AB_TS5-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation PROTINFO_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_387686505.pdb -s /var/tmp/to_scwrl_387686505.seq -o /var/tmp/from_scwrl_387686505.pdb > /var/tmp/scwrl_387686505.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_387686505.pdb # conformation set from SCWRL output # naming current conformation PROTINFO_TS1-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO_TS2.pdb.gz looking for model 1 # Found a chain break before 60 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1111668045.pdb -s /var/tmp/to_scwrl_1111668045.seq -o /var/tmp/from_scwrl_1111668045.pdb > /var/tmp/scwrl_1111668045.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1111668045.pdb # conformation set from SCWRL output # naming current conformation PROTINFO_TS2-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO_TS3.pdb.gz looking for model 1 # Found a chain break before 82 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_430806121.pdb -s /var/tmp/to_scwrl_430806121.seq -o /var/tmp/from_scwrl_430806121.pdb > /var/tmp/scwrl_430806121.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_430806121.pdb # conformation set from SCWRL output # naming current conformation PROTINFO_TS3-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO_TS4.pdb.gz looking for model 1 # naming current conformation PROTINFO_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_487073442.pdb -s /var/tmp/to_scwrl_487073442.seq -o /var/tmp/from_scwrl_487073442.pdb > /var/tmp/scwrl_487073442.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_487073442.pdb # conformation set from SCWRL output # naming current conformation PROTINFO_TS4-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO_TS5.pdb.gz looking for model 1 # naming current conformation PROTINFO_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1155807110.pdb -s /var/tmp/to_scwrl_1155807110.seq -o /var/tmp/from_scwrl_1155807110.pdb > /var/tmp/scwrl_1155807110.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1155807110.pdb # conformation set from SCWRL output # naming current conformation PROTINFO_TS5-scwrl # ReadConformPDB reading from PDB file servers/Pcons6_TS1.pdb.gz looking for model 1 # Found a chain break before 76 # copying to AlignedFragments data structure # naming current conformation Pcons6_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_577849352.pdb -s /var/tmp/to_scwrl_577849352.seq -o /var/tmp/from_scwrl_577849352.pdb > /var/tmp/scwrl_577849352.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_577849352.pdb # conformation set from SCWRL output # naming current conformation Pcons6_TS1-scwrl # ReadConformPDB reading from PDB file servers/Pcons6_TS2.pdb.gz looking for model 1 # Found a chain break before 79 # copying to AlignedFragments data structure # naming current conformation Pcons6_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1704590571.pdb -s /var/tmp/to_scwrl_1704590571.seq -o /var/tmp/from_scwrl_1704590571.pdb > /var/tmp/scwrl_1704590571.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1704590571.pdb # conformation set from SCWRL output # naming current conformation Pcons6_TS2-scwrl # ReadConformPDB reading from PDB file servers/Pcons6_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Pcons6_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_830755819.pdb -s /var/tmp/to_scwrl_830755819.seq -o /var/tmp/from_scwrl_830755819.pdb > /var/tmp/scwrl_830755819.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_830755819.pdb # conformation set from SCWRL output # naming current conformation Pcons6_TS3-scwrl # ReadConformPDB reading from PDB file servers/Pcons6_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Pcons6_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1563847140.pdb -s /var/tmp/to_scwrl_1563847140.seq -o /var/tmp/from_scwrl_1563847140.pdb > /var/tmp/scwrl_1563847140.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1563847140.pdb # conformation set from SCWRL output # naming current conformation Pcons6_TS4-scwrl # ReadConformPDB reading from PDB file servers/Pcons6_TS5.pdb.gz looking for model 1 # Found a chain break before 90 # copying to AlignedFragments data structure # naming current conformation Pcons6_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_987681786.pdb -s /var/tmp/to_scwrl_987681786.seq -o /var/tmp/from_scwrl_987681786.pdb > /var/tmp/scwrl_987681786.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_987681786.pdb # conformation set from SCWRL output # naming current conformation Pcons6_TS5-scwrl # ReadConformPDB reading from PDB file servers/Phyre-1_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Phyre-1_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2112586546.pdb -s /var/tmp/to_scwrl_2112586546.seq -o /var/tmp/from_scwrl_2112586546.pdb > /var/tmp/scwrl_2112586546.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2112586546.pdb # conformation set from SCWRL output # naming current conformation Phyre-1_TS1-scwrl # ReadConformPDB reading from PDB file servers/Phyre-2_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_112342902.pdb -s /var/tmp/to_scwrl_112342902.seq -o /var/tmp/from_scwrl_112342902.pdb > /var/tmp/scwrl_112342902.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_112342902.pdb # conformation set from SCWRL output # naming current conformation Phyre-2_TS1-scwrl # ReadConformPDB reading from PDB file servers/Phyre-2_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_320497011.pdb -s /var/tmp/to_scwrl_320497011.seq -o /var/tmp/from_scwrl_320497011.pdb > /var/tmp/scwrl_320497011.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_320497011.pdb # conformation set from SCWRL output # naming current conformation Phyre-2_TS2-scwrl # ReadConformPDB reading from PDB file servers/Phyre-2_TS3.pdb.gz looking for model 1 # naming current conformation Phyre-2_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_163181296.pdb -s /var/tmp/to_scwrl_163181296.seq -o /var/tmp/from_scwrl_163181296.pdb > /var/tmp/scwrl_163181296.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_163181296.pdb # conformation set from SCWRL output # naming current conformation Phyre-2_TS3-scwrl # ReadConformPDB reading from PDB file servers/Phyre-2_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1712450393.pdb -s /var/tmp/to_scwrl_1712450393.seq -o /var/tmp/from_scwrl_1712450393.pdb > /var/tmp/scwrl_1712450393.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1712450393.pdb # conformation set from SCWRL output # naming current conformation Phyre-2_TS4-scwrl # ReadConformPDB reading from PDB file servers/Phyre-2_TS5.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_465574910.pdb -s /var/tmp/to_scwrl_465574910.seq -o /var/tmp/from_scwrl_465574910.pdb > /var/tmp/scwrl_465574910.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_465574910.pdb # conformation set from SCWRL output # naming current conformation Phyre-2_TS5-scwrl # ReadConformPDB reading from PDB file servers/Pmodeller6_TS1.pdb.gz looking for model 1 # naming current conformation Pmodeller6_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1206938906.pdb -s /var/tmp/to_scwrl_1206938906.seq -o /var/tmp/from_scwrl_1206938906.pdb > /var/tmp/scwrl_1206938906.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1206938906.pdb # conformation set from SCWRL output # naming current conformation Pmodeller6_TS1-scwrl # ReadConformPDB reading from PDB file servers/Pmodeller6_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Pmodeller6_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2023688300.pdb -s /var/tmp/to_scwrl_2023688300.seq -o /var/tmp/from_scwrl_2023688300.pdb > /var/tmp/scwrl_2023688300.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2023688300.pdb # conformation set from SCWRL output # naming current conformation Pmodeller6_TS2-scwrl # ReadConformPDB reading from PDB file servers/Pmodeller6_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Pmodeller6_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1599492325.pdb -s /var/tmp/to_scwrl_1599492325.seq -o /var/tmp/from_scwrl_1599492325.pdb > /var/tmp/scwrl_1599492325.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1599492325.pdb # conformation set from SCWRL output # naming current conformation Pmodeller6_TS3-scwrl # ReadConformPDB reading from PDB file servers/Pmodeller6_TS4.pdb.gz looking for model 1 # Found a chain break before 91 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1770352782.pdb -s /var/tmp/to_scwrl_1770352782.seq -o /var/tmp/from_scwrl_1770352782.pdb > /var/tmp/scwrl_1770352782.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1770352782.pdb # conformation set from SCWRL output # naming current conformation Pmodeller6_TS4-scwrl # ReadConformPDB reading from PDB file servers/Pmodeller6_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation Pmodeller6_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_735552940.pdb -s /var/tmp/to_scwrl_735552940.seq -o /var/tmp/from_scwrl_735552940.pdb > /var/tmp/scwrl_735552940.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_735552940.pdb # conformation set from SCWRL output # naming current conformation Pmodeller6_TS5-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS1.pdb.gz looking for model 1 # Found a chain break before 9 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_823927126.pdb -s /var/tmp/to_scwrl_823927126.seq -o /var/tmp/from_scwrl_823927126.pdb > /var/tmp/scwrl_823927126.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_823927126.pdb # conformation set from SCWRL output # naming current conformation RAPTOR-ACE_TS1-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS2.pdb.gz looking for model 1 # Found a chain break before 32 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_293937163.pdb -s /var/tmp/to_scwrl_293937163.seq -o /var/tmp/from_scwrl_293937163.pdb > /var/tmp/scwrl_293937163.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_293937163.pdb # conformation set from SCWRL output # naming current conformation RAPTOR-ACE_TS2-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS3.pdb.gz looking for model 1 # naming current conformation RAPTOR-ACE_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1698132153.pdb -s /var/tmp/to_scwrl_1698132153.seq -o /var/tmp/from_scwrl_1698132153.pdb > /var/tmp/scwrl_1698132153.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1698132153.pdb # conformation set from SCWRL output # naming current conformation RAPTOR-ACE_TS3-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS4.pdb.gz looking for model 1 # Found a chain break before 52 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1117975902.pdb -s /var/tmp/to_scwrl_1117975902.seq -o /var/tmp/from_scwrl_1117975902.pdb > /var/tmp/scwrl_1117975902.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1117975902.pdb # conformation set from SCWRL output # naming current conformation RAPTOR-ACE_TS4-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS5.pdb.gz looking for model 1 # Found a chain break before 43 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_524459349.pdb -s /var/tmp/to_scwrl_524459349.seq -o /var/tmp/from_scwrl_524459349.pdb > /var/tmp/scwrl_524459349.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_524459349.pdb # conformation set from SCWRL output # naming current conformation RAPTOR-ACE_TS5-scwrl # ReadConformPDB reading from PDB file servers/RAPTORESS_TS1.pdb.gz looking for model 1 # Found a chain break before 85 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_581951151.pdb -s /var/tmp/to_scwrl_581951151.seq -o /var/tmp/from_scwrl_581951151.pdb > /var/tmp/scwrl_581951151.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_581951151.pdb # conformation set from SCWRL output # naming current conformation RAPTORESS_TS1-scwrl # ReadConformPDB reading from PDB file servers/RAPTORESS_TS2.pdb.gz looking for model 1 # Found a chain break before 67 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_570146341.pdb -s /var/tmp/to_scwrl_570146341.seq -o /var/tmp/from_scwrl_570146341.pdb > /var/tmp/scwrl_570146341.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_570146341.pdb # conformation set from SCWRL output # naming current conformation RAPTORESS_TS2-scwrl # ReadConformPDB reading from PDB file servers/RAPTORESS_TS3.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_19143456.pdb -s /var/tmp/to_scwrl_19143456.seq -o /var/tmp/from_scwrl_19143456.pdb > /var/tmp/scwrl_19143456.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_19143456.pdb # conformation set from SCWRL output # naming current conformation RAPTORESS_TS3-scwrl # ReadConformPDB reading from PDB file servers/RAPTORESS_TS4.pdb.gz looking for model 1 # naming current conformation RAPTORESS_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1047670423.pdb -s /var/tmp/to_scwrl_1047670423.seq -o /var/tmp/from_scwrl_1047670423.pdb > /var/tmp/scwrl_1047670423.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1047670423.pdb # conformation set from SCWRL output # naming current conformation RAPTORESS_TS4-scwrl # ReadConformPDB reading from PDB file servers/RAPTORESS_TS5.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_722523155.pdb -s /var/tmp/to_scwrl_722523155.seq -o /var/tmp/from_scwrl_722523155.pdb > /var/tmp/scwrl_722523155.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_722523155.pdb # conformation set from SCWRL output # naming current conformation RAPTORESS_TS5-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR_TS1.pdb.gz looking for model 1 # Found a chain break before 75 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_406829961.pdb -s /var/tmp/to_scwrl_406829961.seq -o /var/tmp/from_scwrl_406829961.pdb > /var/tmp/scwrl_406829961.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_406829961.pdb # conformation set from SCWRL output # naming current conformation RAPTOR_TS1-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR_TS2.pdb.gz looking for model 1 # Found a chain break before 9 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_11854821.pdb -s /var/tmp/to_scwrl_11854821.seq -o /var/tmp/from_scwrl_11854821.pdb > /var/tmp/scwrl_11854821.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_11854821.pdb # conformation set from SCWRL output # naming current conformation RAPTOR_TS2-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR_TS3.pdb.gz looking for model 1 # Found a chain break before 60 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1153329276.pdb -s /var/tmp/to_scwrl_1153329276.seq -o /var/tmp/from_scwrl_1153329276.pdb > /var/tmp/scwrl_1153329276.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1153329276.pdb # conformation set from SCWRL output # naming current conformation RAPTOR_TS3-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR_TS4.pdb.gz looking for model 1 # naming current conformation RAPTOR_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_893903403.pdb -s /var/tmp/to_scwrl_893903403.seq -o /var/tmp/from_scwrl_893903403.pdb > /var/tmp/scwrl_893903403.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_893903403.pdb # conformation set from SCWRL output # naming current conformation RAPTOR_TS4-scwrl # ReadConformPDB reading from PDB file servers/RAPTOR_TS5.pdb.gz looking for model 1 # Found a chain break before 93 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1167661932.pdb -s /var/tmp/to_scwrl_1167661932.seq -o /var/tmp/from_scwrl_1167661932.pdb > /var/tmp/scwrl_1167661932.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1167661932.pdb # conformation set from SCWRL output # naming current conformation RAPTOR_TS5-scwrl # ReadConformPDB reading from PDB file servers/ROBETTA_TS1.pdb.gz looking for model 1 # naming current conformation ROBETTA_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1731178628.pdb -s /var/tmp/to_scwrl_1731178628.seq -o /var/tmp/from_scwrl_1731178628.pdb > /var/tmp/scwrl_1731178628.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1731178628.pdb # conformation set from SCWRL output # naming current conformation ROBETTA_TS1-scwrl # ReadConformPDB reading from PDB file servers/ROBETTA_TS2.pdb.gz looking for model 1 # Found a chain break before 79 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_451010327.pdb -s /var/tmp/to_scwrl_451010327.seq -o /var/tmp/from_scwrl_451010327.pdb > /var/tmp/scwrl_451010327.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_451010327.pdb # conformation set from SCWRL output # naming current conformation ROBETTA_TS2-scwrl # ReadConformPDB reading from PDB file servers/ROBETTA_TS3.pdb.gz looking for model 1 # naming current conformation ROBETTA_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1998417751.pdb -s /var/tmp/to_scwrl_1998417751.seq -o /var/tmp/from_scwrl_1998417751.pdb > /var/tmp/scwrl_1998417751.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1998417751.pdb # conformation set from SCWRL output # naming current conformation ROBETTA_TS3-scwrl # ReadConformPDB reading from PDB file servers/ROBETTA_TS4.pdb.gz looking for model 1 # Found a chain break before 7 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1147542121.pdb -s /var/tmp/to_scwrl_1147542121.seq -o /var/tmp/from_scwrl_1147542121.pdb > /var/tmp/scwrl_1147542121.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1147542121.pdb # conformation set from SCWRL output # naming current conformation ROBETTA_TS4-scwrl # ReadConformPDB reading from PDB file servers/ROBETTA_TS5.pdb.gz looking for model 1 # naming current conformation ROBETTA_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1438692112.pdb -s /var/tmp/to_scwrl_1438692112.seq -o /var/tmp/from_scwrl_1438692112.pdb > /var/tmp/scwrl_1438692112.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1438692112.pdb # conformation set from SCWRL output # naming current conformation ROBETTA_TS5-scwrl # ReadConformPDB reading from PDB file servers/ROKKY_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation ROKKY_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1963520650.pdb -s /var/tmp/to_scwrl_1963520650.seq -o /var/tmp/from_scwrl_1963520650.pdb > /var/tmp/scwrl_1963520650.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1963520650.pdb # conformation set from SCWRL output # naming current conformation ROKKY_TS1-scwrl # ReadConformPDB reading from PDB file servers/ROKKY_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation ROKKY_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1259885023.pdb -s /var/tmp/to_scwrl_1259885023.seq -o /var/tmp/from_scwrl_1259885023.pdb > /var/tmp/scwrl_1259885023.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1259885023.pdb # conformation set from SCWRL output # naming current conformation ROKKY_TS2-scwrl # ReadConformPDB reading from PDB file servers/ROKKY_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation ROKKY_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1759189123.pdb -s /var/tmp/to_scwrl_1759189123.seq -o /var/tmp/from_scwrl_1759189123.pdb > /var/tmp/scwrl_1759189123.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1759189123.pdb # conformation set from SCWRL output # naming current conformation ROKKY_TS3-scwrl # ReadConformPDB reading from PDB file servers/ROKKY_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation ROKKY_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2126701946.pdb -s /var/tmp/to_scwrl_2126701946.seq -o /var/tmp/from_scwrl_2126701946.pdb > /var/tmp/scwrl_2126701946.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2126701946.pdb # conformation set from SCWRL output # naming current conformation ROKKY_TS4-scwrl # ReadConformPDB reading from PDB file servers/ROKKY_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation ROKKY_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_824851770.pdb -s /var/tmp/to_scwrl_824851770.seq -o /var/tmp/from_scwrl_824851770.pdb > /var/tmp/scwrl_824851770.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_824851770.pdb # conformation set from SCWRL output # naming current conformation ROKKY_TS5-scwrl # ReadConformPDB reading from PDB file servers/SAM-T02_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_77280387.pdb -s /var/tmp/to_scwrl_77280387.seq -o /var/tmp/from_scwrl_77280387.pdb > /var/tmp/scwrl_77280387.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_77280387.pdb # conformation set from SCWRL output # naming current conformation SAM-T02_AL1-scwrl # ReadConformPDB reading from PDB file servers/SAM-T02_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1186157205.pdb -s /var/tmp/to_scwrl_1186157205.seq -o /var/tmp/from_scwrl_1186157205.pdb > /var/tmp/scwrl_1186157205.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1186157205.pdb # conformation set from SCWRL output # naming current conformation SAM-T02_AL2-scwrl # ReadConformPDB reading from PDB file servers/SAM-T02_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_701056424.pdb -s /var/tmp/to_scwrl_701056424.seq -o /var/tmp/from_scwrl_701056424.pdb > /var/tmp/scwrl_701056424.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_701056424.pdb # conformation set from SCWRL output # naming current conformation SAM-T02_AL3-scwrl # ReadConformPDB reading from PDB file servers/SAM-T02_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1676772712.pdb -s /var/tmp/to_scwrl_1676772712.seq -o /var/tmp/from_scwrl_1676772712.pdb > /var/tmp/scwrl_1676772712.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1676772712.pdb # conformation set from SCWRL output # naming current conformation SAM-T02_AL4-scwrl # ReadConformPDB reading from PDB file servers/SAM-T02_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_809026341.pdb -s /var/tmp/to_scwrl_809026341.seq -o /var/tmp/from_scwrl_809026341.pdb > /var/tmp/scwrl_809026341.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_809026341.pdb # conformation set from SCWRL output # naming current conformation SAM-T02_AL5-scwrl # ReadConformPDB reading from PDB file servers/SAM-T99_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1436609363.pdb -s /var/tmp/to_scwrl_1436609363.seq -o /var/tmp/from_scwrl_1436609363.pdb > /var/tmp/scwrl_1436609363.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1436609363.pdb # conformation set from SCWRL output # naming current conformation SAM-T99_AL1-scwrl # ReadConformPDB reading from PDB file servers/SAM-T99_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_353216191.pdb -s /var/tmp/to_scwrl_353216191.seq -o /var/tmp/from_scwrl_353216191.pdb > /var/tmp/scwrl_353216191.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_353216191.pdb # conformation set from SCWRL output # naming current conformation SAM-T99_AL2-scwrl # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS1.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # naming current conformation SAM_T06_server_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1102963503.pdb -s /var/tmp/to_scwrl_1102963503.seq -o /var/tmp/from_scwrl_1102963503.pdb > /var/tmp/scwrl_1102963503.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1102963503.pdb # conformation set from SCWRL output # naming current conformation SAM_T06_server_TS1-scwrl # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_987257870.pdb -s /var/tmp/to_scwrl_987257870.seq -o /var/tmp/from_scwrl_987257870.pdb > /var/tmp/scwrl_987257870.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_987257870.pdb # conformation set from SCWRL output # naming current conformation SAM_T06_server_TS2-scwrl # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1471192094.pdb -s /var/tmp/to_scwrl_1471192094.seq -o /var/tmp/from_scwrl_1471192094.pdb > /var/tmp/scwrl_1471192094.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1471192094.pdb # conformation set from SCWRL output # naming current conformation SAM_T06_server_TS3-scwrl # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1627422852.pdb -s /var/tmp/to_scwrl_1627422852.seq -o /var/tmp/from_scwrl_1627422852.pdb > /var/tmp/scwrl_1627422852.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1627422852.pdb # conformation set from SCWRL output # naming current conformation SAM_T06_server_TS4-scwrl # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1569209021.pdb -s /var/tmp/to_scwrl_1569209021.seq -o /var/tmp/from_scwrl_1569209021.pdb > /var/tmp/scwrl_1569209021.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1569209021.pdb # conformation set from SCWRL output # naming current conformation SAM_T06_server_TS5-scwrl # ReadConformPDB reading from PDB file servers/SP3_TS1.pdb.gz looking for model 1 # naming current conformation SP3_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2041338435.pdb -s /var/tmp/to_scwrl_2041338435.seq -o /var/tmp/from_scwrl_2041338435.pdb > /var/tmp/scwrl_2041338435.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2041338435.pdb # conformation set from SCWRL output # naming current conformation SP3_TS1-scwrl # ReadConformPDB reading from PDB file servers/SP3_TS2.pdb.gz looking for model 1 # Found a chain break before 82 # copying to AlignedFragments data structure # naming current conformation SP3_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1646566308.pdb -s /var/tmp/to_scwrl_1646566308.seq -o /var/tmp/from_scwrl_1646566308.pdb > /var/tmp/scwrl_1646566308.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1646566308.pdb # conformation set from SCWRL output # naming current conformation SP3_TS2-scwrl # ReadConformPDB reading from PDB file servers/SP3_TS3.pdb.gz looking for model 1 # Found a chain break before 80 # copying to AlignedFragments data structure # naming current conformation SP3_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_469395797.pdb -s /var/tmp/to_scwrl_469395797.seq -o /var/tmp/from_scwrl_469395797.pdb > /var/tmp/scwrl_469395797.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_469395797.pdb # conformation set from SCWRL output # naming current conformation SP3_TS3-scwrl # ReadConformPDB reading from PDB file servers/SP3_TS4.pdb.gz looking for model 1 # Found a chain break before 23 # copying to AlignedFragments data structure # naming current conformation SP3_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_616377943.pdb -s /var/tmp/to_scwrl_616377943.seq -o /var/tmp/from_scwrl_616377943.pdb > /var/tmp/scwrl_616377943.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_616377943.pdb # conformation set from SCWRL output # naming current conformation SP3_TS4-scwrl # ReadConformPDB reading from PDB file servers/SP3_TS5.pdb.gz looking for model 1 # naming current conformation SP3_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2053396269.pdb -s /var/tmp/to_scwrl_2053396269.seq -o /var/tmp/from_scwrl_2053396269.pdb > /var/tmp/scwrl_2053396269.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2053396269.pdb # conformation set from SCWRL output # naming current conformation SP3_TS5-scwrl # ReadConformPDB reading from PDB file servers/SP4_TS1.pdb.gz looking for model 1 # Found a chain break before 79 # copying to AlignedFragments data structure # naming current conformation SP4_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_481250618.pdb -s /var/tmp/to_scwrl_481250618.seq -o /var/tmp/from_scwrl_481250618.pdb > /var/tmp/scwrl_481250618.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_481250618.pdb # conformation set from SCWRL output # naming current conformation SP4_TS1-scwrl # ReadConformPDB reading from PDB file servers/SP4_TS2.pdb.gz looking for model 1 # Found a chain break before 82 # copying to AlignedFragments data structure # naming current conformation SP4_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1769707219.pdb -s /var/tmp/to_scwrl_1769707219.seq -o /var/tmp/from_scwrl_1769707219.pdb > /var/tmp/scwrl_1769707219.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1769707219.pdb # conformation set from SCWRL output # naming current conformation SP4_TS2-scwrl # ReadConformPDB reading from PDB file servers/SP4_TS3.pdb.gz looking for model 1 # naming current conformation SP4_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_799816025.pdb -s /var/tmp/to_scwrl_799816025.seq -o /var/tmp/from_scwrl_799816025.pdb > /var/tmp/scwrl_799816025.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_799816025.pdb # conformation set from SCWRL output # naming current conformation SP4_TS3-scwrl # ReadConformPDB reading from PDB file servers/SP4_TS4.pdb.gz looking for model 1 # Found a chain break before 43 # copying to AlignedFragments data structure # naming current conformation SP4_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1648912550.pdb -s /var/tmp/to_scwrl_1648912550.seq -o /var/tmp/from_scwrl_1648912550.pdb > /var/tmp/scwrl_1648912550.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1648912550.pdb # conformation set from SCWRL output # naming current conformation SP4_TS4-scwrl # ReadConformPDB reading from PDB file servers/SP4_TS5.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation SP4_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1353402200.pdb -s /var/tmp/to_scwrl_1353402200.seq -o /var/tmp/from_scwrl_1353402200.pdb > /var/tmp/scwrl_1353402200.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1353402200.pdb # conformation set from SCWRL output # naming current conformation SP4_TS5-scwrl # ReadConformPDB reading from PDB file servers/SPARKS2_TS1.pdb.gz looking for model 1 # naming current conformation SPARKS2_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1250826351.pdb -s /var/tmp/to_scwrl_1250826351.seq -o /var/tmp/from_scwrl_1250826351.pdb > /var/tmp/scwrl_1250826351.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1250826351.pdb # conformation set from SCWRL output # naming current conformation SPARKS2_TS1-scwrl # ReadConformPDB reading from PDB file servers/SPARKS2_TS2.pdb.gz looking for model 1 # naming current conformation SPARKS2_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1499846654.pdb -s /var/tmp/to_scwrl_1499846654.seq -o /var/tmp/from_scwrl_1499846654.pdb > /var/tmp/scwrl_1499846654.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1499846654.pdb # conformation set from SCWRL output # naming current conformation SPARKS2_TS2-scwrl # ReadConformPDB reading from PDB file servers/SPARKS2_TS3.pdb.gz looking for model 1 # Found a chain break before 91 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_353460675.pdb -s /var/tmp/to_scwrl_353460675.seq -o /var/tmp/from_scwrl_353460675.pdb > /var/tmp/scwrl_353460675.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_353460675.pdb # conformation set from SCWRL output # naming current conformation SPARKS2_TS3-scwrl # ReadConformPDB reading from PDB file servers/SPARKS2_TS4.pdb.gz looking for model 1 # naming current conformation SPARKS2_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_542034817.pdb -s /var/tmp/to_scwrl_542034817.seq -o /var/tmp/from_scwrl_542034817.pdb > /var/tmp/scwrl_542034817.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_542034817.pdb # conformation set from SCWRL output # naming current conformation SPARKS2_TS4-scwrl # ReadConformPDB reading from PDB file servers/SPARKS2_TS5.pdb.gz looking for model 1 # naming current conformation SPARKS2_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1315883657.pdb -s /var/tmp/to_scwrl_1315883657.seq -o /var/tmp/from_scwrl_1315883657.pdb > /var/tmp/scwrl_1315883657.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1315883657.pdb # conformation set from SCWRL output # naming current conformation SPARKS2_TS5-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1613345698.pdb -s /var/tmp/to_scwrl_1613345698.seq -o /var/tmp/from_scwrl_1613345698.pdb > /var/tmp/scwrl_1613345698.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1613345698.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_bnmx_TS1-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_153740294.pdb -s /var/tmp/to_scwrl_153740294.seq -o /var/tmp/from_scwrl_153740294.pdb > /var/tmp/scwrl_153740294.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_153740294.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_bnmx_TS2-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1295101956.pdb -s /var/tmp/to_scwrl_1295101956.seq -o /var/tmp/from_scwrl_1295101956.pdb > /var/tmp/scwrl_1295101956.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1295101956.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_bnmx_TS3-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_290713822.pdb -s /var/tmp/to_scwrl_290713822.seq -o /var/tmp/from_scwrl_290713822.pdb > /var/tmp/scwrl_290713822.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_290713822.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_bnmx_TS4-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_231020681.pdb -s /var/tmp/to_scwrl_231020681.seq -o /var/tmp/from_scwrl_231020681.pdb > /var/tmp/scwrl_231020681.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_231020681.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_bnmx_TS5-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_expm_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_expm_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_333775515.pdb -s /var/tmp/to_scwrl_333775515.seq -o /var/tmp/from_scwrl_333775515.pdb > /var/tmp/scwrl_333775515.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_333775515.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_expm_TS1-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_991770246.pdb -s /var/tmp/to_scwrl_991770246.seq -o /var/tmp/from_scwrl_991770246.pdb > /var/tmp/scwrl_991770246.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_991770246.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_sfst_AL1-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1907793393.pdb -s /var/tmp/to_scwrl_1907793393.seq -o /var/tmp/from_scwrl_1907793393.pdb > /var/tmp/scwrl_1907793393.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1907793393.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_sfst_AL2-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1142801856.pdb -s /var/tmp/to_scwrl_1142801856.seq -o /var/tmp/from_scwrl_1142801856.pdb > /var/tmp/scwrl_1142801856.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1142801856.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_sfst_AL3-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_280895962.pdb -s /var/tmp/to_scwrl_280895962.seq -o /var/tmp/from_scwrl_280895962.pdb > /var/tmp/scwrl_280895962.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_280895962.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_sfst_AL4-scwrl # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_113525938.pdb -s /var/tmp/to_scwrl_113525938.seq -o /var/tmp/from_scwrl_113525938.pdb > /var/tmp/scwrl_113525938.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_113525938.pdb # conformation set from SCWRL output # naming current conformation UNI-EID_sfst_AL5-scwrl # ReadConformPDB reading from PDB file servers/Zhang-Server_TS1.pdb.gz looking for model 1 # Found a chain break before 95 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_98281713.pdb -s /var/tmp/to_scwrl_98281713.seq -o /var/tmp/from_scwrl_98281713.pdb > /var/tmp/scwrl_98281713.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_98281713.pdb # conformation set from SCWRL output # naming current conformation Zhang-Server_TS1-scwrl # ReadConformPDB reading from PDB file servers/Zhang-Server_TS2.pdb.gz looking for model 1 # Found a chain break before 93 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1268153831.pdb -s /var/tmp/to_scwrl_1268153831.seq -o /var/tmp/from_scwrl_1268153831.pdb > /var/tmp/scwrl_1268153831.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1268153831.pdb # conformation set from SCWRL output # naming current conformation Zhang-Server_TS2-scwrl # ReadConformPDB reading from PDB file servers/Zhang-Server_TS3.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1584718032.pdb -s /var/tmp/to_scwrl_1584718032.seq -o /var/tmp/from_scwrl_1584718032.pdb > /var/tmp/scwrl_1584718032.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1584718032.pdb # conformation set from SCWRL output # naming current conformation Zhang-Server_TS3-scwrl # ReadConformPDB reading from PDB file servers/Zhang-Server_TS4.pdb.gz looking for model 1 # Found a chain break before 98 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1725704566.pdb -s /var/tmp/to_scwrl_1725704566.seq -o /var/tmp/from_scwrl_1725704566.pdb > /var/tmp/scwrl_1725704566.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1725704566.pdb # conformation set from SCWRL output # naming current conformation Zhang-Server_TS4-scwrl # ReadConformPDB reading from PDB file servers/Zhang-Server_TS5.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_689879206.pdb -s /var/tmp/to_scwrl_689879206.seq -o /var/tmp/from_scwrl_689879206.pdb > /var/tmp/scwrl_689879206.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_689879206.pdb # conformation set from SCWRL output # naming current conformation Zhang-Server_TS5-scwrl # ReadConformPDB reading from PDB file servers/beautshot_TS1.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation beautshot_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1478572820.pdb -s /var/tmp/to_scwrl_1478572820.seq -o /var/tmp/from_scwrl_1478572820.pdb > /var/tmp/scwrl_1478572820.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1478572820.pdb # conformation set from SCWRL output # naming current conformation beautshot_TS1-scwrl # ReadConformPDB reading from PDB file servers/beautshotbase_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation beautshotbase_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1224787227.pdb -s /var/tmp/to_scwrl_1224787227.seq -o /var/tmp/from_scwrl_1224787227.pdb > /var/tmp/scwrl_1224787227.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1224787227.pdb # conformation set from SCWRL output # naming current conformation beautshotbase_TS1-scwrl # ReadConformPDB reading from PDB file servers/forecast-s_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation forecast-s_AL1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1159275002.pdb -s /var/tmp/to_scwrl_1159275002.seq -o /var/tmp/from_scwrl_1159275002.pdb > /var/tmp/scwrl_1159275002.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1159275002.pdb # conformation set from SCWRL output # naming current conformation forecast-s_AL1-scwrl # ReadConformPDB reading from PDB file servers/forecast-s_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation forecast-s_AL2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2094950763.pdb -s /var/tmp/to_scwrl_2094950763.seq -o /var/tmp/from_scwrl_2094950763.pdb > /var/tmp/scwrl_2094950763.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2094950763.pdb # conformation set from SCWRL output # naming current conformation forecast-s_AL2-scwrl # ReadConformPDB reading from PDB file servers/forecast-s_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation forecast-s_AL3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1130699850.pdb -s /var/tmp/to_scwrl_1130699850.seq -o /var/tmp/from_scwrl_1130699850.pdb > /var/tmp/scwrl_1130699850.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1130699850.pdb # conformation set from SCWRL output # naming current conformation forecast-s_AL3-scwrl # ReadConformPDB reading from PDB file servers/forecast-s_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation forecast-s_AL4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1640525621.pdb -s /var/tmp/to_scwrl_1640525621.seq -o /var/tmp/from_scwrl_1640525621.pdb > /var/tmp/scwrl_1640525621.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1640525621.pdb # conformation set from SCWRL output # naming current conformation forecast-s_AL4-scwrl # ReadConformPDB reading from PDB file servers/forecast-s_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation forecast-s_AL5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1717174336.pdb -s /var/tmp/to_scwrl_1717174336.seq -o /var/tmp/from_scwrl_1717174336.pdb > /var/tmp/scwrl_1717174336.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1717174336.pdb # conformation set from SCWRL output # naming current conformation forecast-s_AL5-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS1.pdb.gz looking for model 1 # Found a chain break before 46 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1930515875.pdb -s /var/tmp/to_scwrl_1930515875.seq -o /var/tmp/from_scwrl_1930515875.pdb > /var/tmp/scwrl_1930515875.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1930515875.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.2_TS1-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS2.pdb.gz looking for model 1 # Found a chain break before 82 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1141954524.pdb -s /var/tmp/to_scwrl_1141954524.seq -o /var/tmp/from_scwrl_1141954524.pdb > /var/tmp/scwrl_1141954524.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1141954524.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.2_TS2-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS3.pdb.gz looking for model 1 # Found a chain break before 79 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_923092890.pdb -s /var/tmp/to_scwrl_923092890.seq -o /var/tmp/from_scwrl_923092890.pdb > /var/tmp/scwrl_923092890.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_923092890.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.2_TS3-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS4.pdb.gz looking for model 1 # Found a chain break before 89 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1033858581.pdb -s /var/tmp/to_scwrl_1033858581.seq -o /var/tmp/from_scwrl_1033858581.pdb > /var/tmp/scwrl_1033858581.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1033858581.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.2_TS4-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS5.pdb.gz looking for model 1 # Found a chain break before 63 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_494317533.pdb -s /var/tmp/to_scwrl_494317533.seq -o /var/tmp/from_scwrl_494317533.pdb > /var/tmp/scwrl_494317533.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_494317533.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.2_TS5-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS1.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1276553565.pdb -s /var/tmp/to_scwrl_1276553565.seq -o /var/tmp/from_scwrl_1276553565.pdb > /var/tmp/scwrl_1276553565.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1276553565.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.4_TS1-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS2.pdb.gz looking for model 1 WARNING: atoms too close: (T0300)S3.O and (T0300)K4.N only 0.0000000e+00 apart, marking (T0300)K4.N as missing WARNING: atoms too close: (T0300)L27.O and (T0300)K28.N only 0.0000000e+00 apart, marking (T0300)K28.N as missing # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1575893397.pdb -s /var/tmp/to_scwrl_1575893397.seq -o /var/tmp/from_scwrl_1575893397.pdb > /var/tmp/scwrl_1575893397.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1575893397.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.4_TS2-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS3.pdb.gz looking for model 1 WARNING: atoms too close: (T0300)K30.O and (T0300)V31.N only 0.0000000e+00 apart, marking (T0300)V31.N as missing WARNING: atoms too close: (T0300)E82.O and (T0300)Q83.N only 0.0000000e+00 apart, marking (T0300)Q83.N as missing # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1810201190.pdb -s /var/tmp/to_scwrl_1810201190.seq -o /var/tmp/from_scwrl_1810201190.pdb > /var/tmp/scwrl_1810201190.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1810201190.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.4_TS3-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS4.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_742415617.pdb -s /var/tmp/to_scwrl_742415617.seq -o /var/tmp/from_scwrl_742415617.pdb > /var/tmp/scwrl_742415617.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_742415617.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.4_TS4-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS5.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1729633691.pdb -s /var/tmp/to_scwrl_1729633691.seq -o /var/tmp/from_scwrl_1729633691.pdb > /var/tmp/scwrl_1729633691.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1729633691.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.4_TS5-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_957819501.pdb -s /var/tmp/to_scwrl_957819501.seq -o /var/tmp/from_scwrl_957819501.pdb > /var/tmp/scwrl_957819501.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_957819501.pdb # conformation set from SCWRL output # naming current conformation karypis.srv_TS1-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1033129439.pdb -s /var/tmp/to_scwrl_1033129439.seq -o /var/tmp/from_scwrl_1033129439.pdb > /var/tmp/scwrl_1033129439.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1033129439.pdb # conformation set from SCWRL output # naming current conformation karypis.srv_TS2-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1960654372.pdb -s /var/tmp/to_scwrl_1960654372.seq -o /var/tmp/from_scwrl_1960654372.pdb > /var/tmp/scwrl_1960654372.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1960654372.pdb # conformation set from SCWRL output # naming current conformation karypis.srv_TS3-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1291595015.pdb -s /var/tmp/to_scwrl_1291595015.seq -o /var/tmp/from_scwrl_1291595015.pdb > /var/tmp/scwrl_1291595015.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1291595015.pdb # conformation set from SCWRL output # naming current conformation karypis.srv_TS4-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2024899684.pdb -s /var/tmp/to_scwrl_2024899684.seq -o /var/tmp/from_scwrl_2024899684.pdb > /var/tmp/scwrl_2024899684.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2024899684.pdb # conformation set from SCWRL output # naming current conformation karypis.srv_TS5-scwrl # ReadConformPDB reading from PDB file servers/keasar-server_TS1.pdb.gz looking for model 1 # Found a chain break before 94 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1720964119.pdb -s /var/tmp/to_scwrl_1720964119.seq -o /var/tmp/from_scwrl_1720964119.pdb > /var/tmp/scwrl_1720964119.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1720964119.pdb # conformation set from SCWRL output # naming current conformation keasar-server_TS1-scwrl # ReadConformPDB reading from PDB file servers/keasar-server_TS2.pdb.gz looking for model 1 # Found a chain break before 94 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_286913225.pdb -s /var/tmp/to_scwrl_286913225.seq -o /var/tmp/from_scwrl_286913225.pdb > /var/tmp/scwrl_286913225.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_286913225.pdb # conformation set from SCWRL output # naming current conformation keasar-server_TS2-scwrl # ReadConformPDB reading from PDB file servers/keasar-server_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation keasar-server_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_158311999.pdb -s /var/tmp/to_scwrl_158311999.seq -o /var/tmp/from_scwrl_158311999.pdb > /var/tmp/scwrl_158311999.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_158311999.pdb # conformation set from SCWRL output # naming current conformation keasar-server_TS3-scwrl # ReadConformPDB reading from PDB file servers/keasar-server_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation keasar-server_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1834490057.pdb -s /var/tmp/to_scwrl_1834490057.seq -o /var/tmp/from_scwrl_1834490057.pdb > /var/tmp/scwrl_1834490057.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1834490057.pdb # conformation set from SCWRL output # naming current conformation keasar-server_TS4-scwrl # ReadConformPDB reading from PDB file servers/keasar-server_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation keasar-server_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_385194939.pdb -s /var/tmp/to_scwrl_385194939.seq -o /var/tmp/from_scwrl_385194939.pdb > /var/tmp/scwrl_385194939.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_385194939.pdb # conformation set from SCWRL output # naming current conformation keasar-server_TS5-scwrl # ReadConformPDB reading from PDB file servers/mGen-3D_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation mGen-3D_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1426465831.pdb -s /var/tmp/to_scwrl_1426465831.seq -o /var/tmp/from_scwrl_1426465831.pdb > /var/tmp/scwrl_1426465831.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1426465831.pdb # conformation set from SCWRL output # naming current conformation mGen-3D_TS1-scwrl # ReadConformPDB reading from PDB file servers/nFOLD_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation nFOLD_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1271724442.pdb -s /var/tmp/to_scwrl_1271724442.seq -o /var/tmp/from_scwrl_1271724442.pdb > /var/tmp/scwrl_1271724442.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1271724442.pdb # conformation set from SCWRL output # naming current conformation nFOLD_TS1-scwrl # ReadConformPDB reading from PDB file servers/nFOLD_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation nFOLD_TS2 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2110899505.pdb -s /var/tmp/to_scwrl_2110899505.seq -o /var/tmp/from_scwrl_2110899505.pdb > /var/tmp/scwrl_2110899505.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2110899505.pdb # conformation set from SCWRL output # naming current conformation nFOLD_TS2-scwrl # ReadConformPDB reading from PDB file servers/nFOLD_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation nFOLD_TS3 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_2116345037.pdb -s /var/tmp/to_scwrl_2116345037.seq -o /var/tmp/from_scwrl_2116345037.pdb > /var/tmp/scwrl_2116345037.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2116345037.pdb # conformation set from SCWRL output # naming current conformation nFOLD_TS3-scwrl # ReadConformPDB reading from PDB file servers/nFOLD_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation nFOLD_TS4 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_602813616.pdb -s /var/tmp/to_scwrl_602813616.seq -o /var/tmp/from_scwrl_602813616.pdb > /var/tmp/scwrl_602813616.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_602813616.pdb # conformation set from SCWRL output # naming current conformation nFOLD_TS4-scwrl # ReadConformPDB reading from PDB file servers/nFOLD_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation nFOLD_TS5 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1188203085.pdb -s /var/tmp/to_scwrl_1188203085.seq -o /var/tmp/from_scwrl_1188203085.pdb > /var/tmp/scwrl_1188203085.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1188203085.pdb # conformation set from SCWRL output # naming current conformation nFOLD_TS5-scwrl # ReadConformPDB reading from PDB file servers/panther2_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation panther2_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_1128136393.pdb -s /var/tmp/to_scwrl_1128136393.seq -o /var/tmp/from_scwrl_1128136393.pdb > /var/tmp/scwrl_1128136393.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1128136393.pdb # conformation set from SCWRL output # naming current conformation panther2_TS1-scwrl # ReadConformPDB reading from PDB file servers/shub_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0300 can't currently be optimized by undertaker # naming current conformation shub_TS1 # request to SCWRL produces command: ulimit -t 92 ; scwrl3 -i /var/tmp/to_scwrl_550280732.pdb -s /var/tmp/to_scwrl_550280732.seq -o /var/tmp/from_scwrl_550280732.pdb > /var/tmp/scwrl_550280732.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_550280732.pdb # conformation set from SCWRL output # naming current conformation shub_TS1-scwrl # command:CPU_time= 24.8972 sec, elapsed time= 208.978 sec) # command:# Prefix for output files set to decoys/ # command:# Will now start reporting costs to decoys/evaluate_1.rdb # command:# CostConform Warning: Couldn't open file decoys//projects/compbio/experiments/undertaker/spots/near-backbone-center.spot or decoys//projects/compbio/experiments/undertaker/spots/near-backbone-center.spot.gz for input Trying /projects/compbio/experiments/undertaker/spots/near-backbone-center.spot # Reading spots from /projects/compbio/experiments/undertaker/spots/near-backbone-center.spot shub_TS1-scwrl costs 0 real_cost = 128.059 shub_TS1 costs 0 real_cost = 129.65 panther2_TS1-scwrl costs 0 real_cost = 203.559 panther2_TS1 costs 0 real_cost = 221.241 nFOLD_TS5-scwrl costs 0 real_cost = 198.939 nFOLD_TS5 costs 0 real_cost = 198.941 nFOLD_TS4-scwrl costs 0 real_cost = 169.453 nFOLD_TS4 costs 0 real_cost = 200.614 nFOLD_TS3-scwrl costs 0 real_cost = 168.339 nFOLD_TS3 costs 0 real_cost = 168.344 nFOLD_TS2-scwrl costs 0 real_cost = 197.633 nFOLD_TS2 costs 0 real_cost = 238.35 nFOLD_TS1-scwrl costs 0 real_cost = 185.196 nFOLD_TS1 costs 0 real_cost = 225.543 mGen-3D_TS1-scwrl costs 0 real_cost = 102.244 mGen-3D_TS1 costs 0 real_cost = 116.927 keasar-server_TS5-scwrl costs 0 real_cost = 101.37 keasar-server_TS5 costs 0 real_cost = 123.048 keasar-server_TS4-scwrl costs 0 real_cost = 255.469 keasar-server_TS4 costs 0 real_cost = 266.367 keasar-server_TS3-scwrl costs 0 real_cost = 246.112 keasar-server_TS3 costs 0 real_cost = 255.782 keasar-server_TS2-scwrl costs 0 real_cost = 255.405 keasar-server_TS2 costs 0 real_cost = 271.109 keasar-server_TS1-scwrl costs 0 real_cost = 271.154 keasar-server_TS1 costs 0 real_cost = 273.487 karypis.srv_TS5-scwrl costs 0 real_cost = 209.389 karypis.srv_TS5 costs 0 real_cost = 205.14 karypis.srv_TS4-scwrl costs 0 real_cost = 203.75 karypis.srv_TS4 costs 0 real_cost = 202.167 karypis.srv_TS3-scwrl costs 0 real_cost = 215.245 karypis.srv_TS3 costs 0 real_cost = 212.49 karypis.srv_TS2-scwrl costs 0 real_cost = 155.812 karypis.srv_TS2 costs 0 real_cost = 151.972 karypis.srv_TS1-scwrl costs 0 real_cost = 244.583 karypis.srv_TS1 costs 0 real_cost = 241.969 karypis.srv.4_TS5-scwrl costs 0 real_cost = 253.614 karypis.srv.4_TS5 costs 0 real_cost = 255.589 karypis.srv.4_TS4-scwrl costs 0 real_cost = 219.338 karypis.srv.4_TS4 costs 0 real_cost = 212.68 karypis.srv.4_TS3-scwrl costs 0 real_cost = 277.894 karypis.srv.4_TS3 costs 0 real_cost = 278.63 karypis.srv.4_TS2-scwrl costs 0 real_cost = 262.064 karypis.srv.4_TS2 costs 0 real_cost = 256.416 karypis.srv.4_TS1-scwrl costs 0 real_cost = 210.716 karypis.srv.4_TS1 costs 0 real_cost = 210.711 karypis.srv.2_TS5-scwrl costs 0 real_cost = 228.544 karypis.srv.2_TS5 costs 0 real_cost = 228.544 karypis.srv.2_TS4-scwrl costs 0 real_cost = 199.059 karypis.srv.2_TS4 costs 0 real_cost = 198.317 karypis.srv.2_TS3-scwrl costs 0 real_cost = 270.143 karypis.srv.2_TS3 costs 0 real_cost = 270.143 karypis.srv.2_TS2-scwrl costs 0 real_cost = 232.856 karypis.srv.2_TS2 costs 0 real_cost = 232.856 karypis.srv.2_TS1-scwrl costs 0 real_cost = 161.75 karypis.srv.2_TS1 costs 0 real_cost = 161.75 forecast-s_AL5-scwrl costs 0 real_cost = 291.59 forecast-s_AL5 costs 0 real_cost = 314.444 forecast-s_AL4-scwrl costs 0 real_cost = 280.408 forecast-s_AL4 costs 0 real_cost = 315.667 forecast-s_AL3-scwrl costs 0 real_cost = 284.145 forecast-s_AL3 costs 0 real_cost = 345.234 forecast-s_AL2-scwrl costs 0 real_cost = 318.067 forecast-s_AL2 costs 0 real_cost = 354.774 forecast-s_AL1-scwrl costs 0 real_cost = 332.558 forecast-s_AL1 costs 0 real_cost = 352.413 beautshotbase_TS1-scwrl costs 0 real_cost = 116.416 beautshotbase_TS1 costs 0 real_cost = 103.583 beautshot_TS1-scwrl costs 0 real_cost = 120.742 beautshot_TS1 costs 0 real_cost = 118.89 Zhang-Server_TS5-scwrl costs 0 real_cost = 58.7037 Zhang-Server_TS5 costs 0 real_cost = 67.8513 Zhang-Server_TS4-scwrl costs 0 real_cost = 73.1471 Zhang-Server_TS4 costs 0 real_cost = 85.2797 Zhang-Server_TS3-scwrl costs 0 real_cost = 82.3289 Zhang-Server_TS3 costs 0 real_cost = 82.9042 Zhang-Server_TS2-scwrl costs 0 real_cost = 50.9264 Zhang-Server_TS2 costs 0 real_cost = 59.0157 Zhang-Server_TS1-scwrl costs 0 real_cost = 45.0008 Zhang-Server_TS1 costs 0 real_cost = 61.856 UNI-EID_sfst_AL5-scwrl costs 0 real_cost = 229.516 UNI-EID_sfst_AL5 costs 0 real_cost = 242.372 UNI-EID_sfst_AL4-scwrl costs 0 real_cost = 131.905 UNI-EID_sfst_AL4 costs 0 real_cost = 168.317 UNI-EID_sfst_AL3-scwrl costs 0 real_cost = 116.335 UNI-EID_sfst_AL3 costs 0 real_cost = 163.896 UNI-EID_sfst_AL2-scwrl costs 0 real_cost = 179.314 UNI-EID_sfst_AL2 costs 0 real_cost = 211.364 UNI-EID_sfst_AL1-scwrl costs 0 real_cost = 225.63 UNI-EID_sfst_AL1 costs 0 real_cost = 255.758 UNI-EID_expm_TS1-scwrl costs 0 real_cost = 166.9 UNI-EID_expm_TS1 costs 0 real_cost = 199.317 UNI-EID_bnmx_TS5-scwrl costs 0 real_cost = 203.406 UNI-EID_bnmx_TS5 costs 0 real_cost = 244.623 UNI-EID_bnmx_TS4-scwrl costs 0 real_cost = 131.509 UNI-EID_bnmx_TS4 costs 0 real_cost = 174.826 UNI-EID_bnmx_TS3-scwrl costs 0 real_cost = 109.067 UNI-EID_bnmx_TS3 costs 0 real_cost = 163.127 UNI-EID_bnmx_TS2-scwrl costs 0 real_cost = 159.867 UNI-EID_bnmx_TS2 costs 0 real_cost = 208.724 UNI-EID_bnmx_TS1-scwrl costs 0 real_cost = 140.555 UNI-EID_bnmx_TS1 costs 0 real_cost = 185.83 SPARKS2_TS5-scwrl costs 0 real_cost = 204.398 SPARKS2_TS5 costs 0 real_cost = 207.593 SPARKS2_TS4-scwrl costs 0 real_cost = 99.6699 SPARKS2_TS4 costs 0 real_cost = 102.407 SPARKS2_TS3-scwrl costs 0 real_cost = 190.849 SPARKS2_TS3 costs 0 real_cost = 197.341 SPARKS2_TS2-scwrl costs 0 real_cost = 97.1317 SPARKS2_TS2 costs 0 real_cost = 97.16 SPARKS2_TS1-scwrl costs 0 real_cost = 125.166 SPARKS2_TS1 costs 0 real_cost = 128.977 SP4_TS5-scwrl costs 0 real_cost = 90.2456 SP4_TS5 costs 0 real_cost = 90.617 SP4_TS4-scwrl costs 0 real_cost = 203.616 SP4_TS4 costs 0 real_cost = 206.65 SP4_TS3-scwrl costs 0 real_cost = 77.5971 SP4_TS3 costs 0 real_cost = 79.6155 SP4_TS2-scwrl costs 0 real_cost = 198.496 SP4_TS2 costs 0 real_cost = 188.106 SP4_TS1-scwrl costs 0 real_cost = 149.622 SP4_TS1 costs 0 real_cost = 152.688 SP3_TS5-scwrl costs 0 real_cost = 95.3532 SP3_TS5 costs 0 real_cost = 106.61 SP3_TS4-scwrl costs 0 real_cost = 172.924 SP3_TS4 costs 0 real_cost = 173.607 SP3_TS3-scwrl costs 0 real_cost = 201.255 SP3_TS3 costs 0 real_cost = 206.733 SP3_TS2-scwrl costs 0 real_cost = 193.119 SP3_TS2 costs 0 real_cost = 195.649 SP3_TS1-scwrl costs 0 real_cost = 99.6699 SP3_TS1 costs 0 real_cost = 102.407 SAM_T06_server_TS5-scwrl costs 0 real_cost = 259.573 SAM_T06_server_TS5 costs 0 real_cost = 255.207 SAM_T06_server_TS4-scwrl costs 0 real_cost = 222.864 SAM_T06_server_TS4 costs 0 real_cost = 210.778 SAM_T06_server_TS3-scwrl costs 0 real_cost = 302.511 SAM_T06_server_TS3 costs 0 real_cost = 298.757 SAM_T06_server_TS2-scwrl costs 0 real_cost = 236.165 SAM_T06_server_TS2 costs 0 real_cost = 231.55 SAM_T06_server_TS1-scwrl costs 0 real_cost = 173.38 SAM_T06_server_TS1 costs 0 real_cost = 174.894 SAM-T99_AL2-scwrl costs 0 real_cost = 117.247 SAM-T99_AL2 costs 0 real_cost = 97.4908 SAM-T99_AL1-scwrl costs 0 real_cost = 123.648 SAM-T99_AL1 costs 0 real_cost = 95.9077 SAM-T02_AL5-scwrl costs 0 real_cost = 231.149 SAM-T02_AL5 costs 0 real_cost = 284.452 SAM-T02_AL4-scwrl costs 0 real_cost = 233.906 SAM-T02_AL4 costs 0 real_cost = 283.445 SAM-T02_AL3-scwrl costs 0 real_cost = 167.222 SAM-T02_AL3 costs 0 real_cost = 148.031 SAM-T02_AL2-scwrl costs 0 real_cost = 162.633 SAM-T02_AL2 costs 0 real_cost = 281.004 SAM-T02_AL1-scwrl costs 0 real_cost = 273.801 SAM-T02_AL1 costs 0 real_cost = 279.118 ROKKY_TS5-scwrl costs 0 real_cost = 65.6338 ROKKY_TS5 costs 0 real_cost = 140.634 ROKKY_TS4-scwrl costs 0 real_cost = 56.5229 ROKKY_TS4 costs 0 real_cost = 130.153 ROKKY_TS3-scwrl costs 0 real_cost = 66.2802 ROKKY_TS3 costs 0 real_cost = 133.276 ROKKY_TS2-scwrl costs 0 real_cost = 58.3494 ROKKY_TS2 costs 0 real_cost = 129.378 ROKKY_TS1-scwrl costs 0 real_cost = 53.1677 ROKKY_TS1 costs 0 real_cost = 128.434 ROBETTA_TS5-scwrl costs 0 real_cost = 84.0305 ROBETTA_TS5 costs 0 real_cost = 79.4018 ROBETTA_TS4-scwrl costs 0 real_cost = 92.6866 ROBETTA_TS4 costs 0 real_cost = 93.0116 ROBETTA_TS3-scwrl costs 0 real_cost = 81.219 ROBETTA_TS3 costs 0 real_cost = 76.1352 ROBETTA_TS2-scwrl costs 0 real_cost = 88.4366 ROBETTA_TS2 costs 0 real_cost = 87.1099 ROBETTA_TS1-scwrl costs 0 real_cost = 84.704 ROBETTA_TS1 costs 0 real_cost = 79.8958 RAPTOR_TS5-scwrl costs 0 real_cost = 131.104 RAPTOR_TS5 costs 0 real_cost = 147.917 RAPTOR_TS4-scwrl costs 0 real_cost = 109.547 RAPTOR_TS4 costs 0 real_cost = 108.014 RAPTOR_TS3-scwrl costs 0 real_cost = 155.284 RAPTOR_TS3 costs 0 real_cost = 168.146 RAPTOR_TS2-scwrl costs 0 real_cost = 163.28 RAPTOR_TS2 costs 0 real_cost = 172.89 RAPTOR_TS1-scwrl costs 0 real_cost = 167.384 RAPTOR_TS1 costs 0 real_cost = 168.327 RAPTORESS_TS5-scwrl costs 0 real_cost = 173.446 RAPTORESS_TS5 costs 0 real_cost = 177.432 RAPTORESS_TS4-scwrl costs 0 real_cost = 131.541 RAPTORESS_TS4 costs 0 real_cost = 138.952 RAPTORESS_TS3-scwrl costs 0 real_cost = 186.989 RAPTORESS_TS3 costs 0 real_cost = 191.81 RAPTORESS_TS2-scwrl costs 0 real_cost = 240.735 RAPTORESS_TS2 costs 0 real_cost = 244.368 RAPTORESS_TS1-scwrl costs 0 real_cost = 170.231 RAPTORESS_TS1 costs 0 real_cost = 176.094 RAPTOR-ACE_TS5-scwrl costs 0 real_cost = 121.354 RAPTOR-ACE_TS5 costs 0 real_cost = 129.878 RAPTOR-ACE_TS4-scwrl costs 0 real_cost = 134.398 RAPTOR-ACE_TS4 costs 0 real_cost = 128.392 RAPTOR-ACE_TS3-scwrl costs 0 real_cost = 95.3532 RAPTOR-ACE_TS3 costs 0 real_cost = 106.61 RAPTOR-ACE_TS2-scwrl costs 0 real_cost = 104.447 RAPTOR-ACE_TS2 costs 0 real_cost = 114.442 RAPTOR-ACE_TS1-scwrl costs 0 real_cost = 95.4222 RAPTOR-ACE_TS1 costs 0 real_cost = 100.686 Pmodeller6_TS5-scwrl costs 0 real_cost = 97.8328 Pmodeller6_TS5 costs 0 real_cost = 95.9685 Pmodeller6_TS4-scwrl costs 0 real_cost = 122.077 Pmodeller6_TS4 costs 0 real_cost = 120.743 Pmodeller6_TS3-scwrl costs 0 real_cost = 128.235 Pmodeller6_TS3 costs 0 real_cost = 128.158 Pmodeller6_TS2-scwrl costs 0 real_cost = 60.4056 Pmodeller6_TS2 costs 0 real_cost = 57.7579 Pmodeller6_TS1-scwrl costs 0 real_cost = 4.41303 Pmodeller6_TS1 costs 0 real_cost = 8.22784 Phyre-2_TS5-scwrl costs 0 real_cost = 124.477 Phyre-2_TS5 costs 0 real_cost = 126.682 Phyre-2_TS4-scwrl costs 0 real_cost = 118.931 Phyre-2_TS4 costs 0 real_cost = 121.442 Phyre-2_TS3-scwrl costs 0 real_cost = 89.6173 Phyre-2_TS3 costs 0 real_cost = 90.0419 Phyre-2_TS2-scwrl costs 0 real_cost = 114.592 Phyre-2_TS2 costs 0 real_cost = 117.447 Phyre-2_TS1-scwrl costs 0 real_cost = 97.0291 Phyre-2_TS1 costs 0 real_cost = 99.4927 Phyre-1_TS1-scwrl costs 0 real_cost = 277.558 Phyre-1_TS1 costs 0 real_cost = 270.234 Pcons6_TS5-scwrl costs 0 real_cost = 91.8537 Pcons6_TS5 costs 0 real_cost = 91.8537 Pcons6_TS4-scwrl costs 0 real_cost = 164.117 Pcons6_TS4 costs 0 real_cost = 162.49 Pcons6_TS3-scwrl costs 0 real_cost = 247.271 Pcons6_TS3 costs 0 real_cost = 244.98 Pcons6_TS2-scwrl costs 0 real_cost = 88.4366 Pcons6_TS2 costs 0 real_cost = 87.1099 Pcons6_TS1-scwrl costs 0 real_cost = 76.2489 Pcons6_TS1 costs 0 real_cost = 79.1507 PROTINFO_TS5-scwrl costs 0 real_cost = 132.738 PROTINFO_TS5 costs 0 real_cost = 125.134 PROTINFO_TS4-scwrl costs 0 real_cost = 133.49 PROTINFO_TS4 costs 0 real_cost = 129.976 PROTINFO_TS3-scwrl costs 0 real_cost = 261.862 PROTINFO_TS3 costs 0 real_cost = 263.045 PROTINFO_TS2-scwrl costs 0 real_cost = 267.527 PROTINFO_TS2 costs 0 real_cost = 269.513 PROTINFO_TS1-scwrl costs 0 real_cost = 69.2988 PROTINFO_TS1 costs 0 real_cost = 63.7246 PROTINFO-AB_TS5-scwrl costs 0 real_cost = 141.892 PROTINFO-AB_TS5 costs 0 real_cost = 145.538 PROTINFO-AB_TS4-scwrl costs 0 real_cost = 182.647 PROTINFO-AB_TS4 costs 0 real_cost = 172.068 PROTINFO-AB_TS3-scwrl costs 0 real_cost = 155.972 PROTINFO-AB_TS3 costs 0 real_cost = 162.296 PROTINFO-AB_TS2-scwrl costs 0 real_cost = 132.512 PROTINFO-AB_TS2 costs 0 real_cost = 131.844 PROTINFO-AB_TS1-scwrl costs 0 real_cost = 133.49 PROTINFO-AB_TS1 costs 0 real_cost = 129.976 POMYSL_TS5-scwrl costs 0 real_cost = 282.302 POMYSL_TS5 costs 0 real_cost = 297.279 POMYSL_TS4-scwrl costs 0 real_cost = 237.782 POMYSL_TS4 costs 0 real_cost = 260.572 POMYSL_TS3-scwrl costs 0 real_cost = 227.426 POMYSL_TS3 costs 0 real_cost = 244.988 POMYSL_TS2-scwrl costs 0 real_cost = 236.067 POMYSL_TS2 costs 0 real_cost = 253.727 POMYSL_TS1-scwrl costs 0 real_cost = 246.668 POMYSL_TS1 costs 0 real_cost = 254.33 NN_PUT_lab_TS1-scwrl costs 0 real_cost = 149.299 NN_PUT_lab_TS1 costs 0 real_cost = 143.74 MetaTasser_TS5-scwrl costs 0 real_cost = 162.526 MetaTasser_TS5 costs 0 real_cost = 173.64 MetaTasser_TS4-scwrl costs 0 real_cost = 223.949 MetaTasser_TS4 costs 0 real_cost = 214.911 MetaTasser_TS3-scwrl costs 0 real_cost = 145.428 MetaTasser_TS3 costs 0 real_cost = 152.262 MetaTasser_TS2-scwrl costs 0 real_cost = 159.451 MetaTasser_TS2 costs 0 real_cost = 164.887 MetaTasser_TS1-scwrl costs 0 real_cost = 174.387 MetaTasser_TS1 costs 0 real_cost = 164.83 Ma-OPUS-server_TS5-scwrl costs 0 real_cost = 141.713 Ma-OPUS-server_TS5 costs 0 real_cost = 149.068 Ma-OPUS-server_TS4-scwrl costs 0 real_cost = 177.619 Ma-OPUS-server_TS4 costs 0 real_cost = 180.343 Ma-OPUS-server_TS3-scwrl costs 0 real_cost = 135.141 Ma-OPUS-server_TS3 costs 0 real_cost = 140.897 Ma-OPUS-server_TS2-scwrl costs 0 real_cost = 116.115 Ma-OPUS-server_TS2 costs 0 real_cost = 125.847 Ma-OPUS-server_TS1-scwrl costs 0 real_cost = 120.33 Ma-OPUS-server_TS1 costs 0 real_cost = 133.086 MIG_FROST_AL1-scwrl costs 0 real_cost = 364.932 MIG_FROST_AL1 costs 0 real_cost = 342.603 LOOPP_TS5-scwrl costs 0 real_cost = 146.314 LOOPP_TS5 costs 0 real_cost = 147.748 LOOPP_TS4-scwrl costs 0 real_cost = 143.254 LOOPP_TS4 costs 0 real_cost = 140.657 LOOPP_TS3-scwrl costs 0 real_cost = 207.037 LOOPP_TS3 costs 0 real_cost = 206.652 LOOPP_TS2-scwrl costs 0 real_cost = 109.116 LOOPP_TS2 costs 0 real_cost = 111.139 LOOPP_TS1-scwrl costs 0 real_cost = 149.299 LOOPP_TS1 costs 0 real_cost = 143.74 Huber-Torda-Server_TS5-scwrl costs 0 real_cost = 233.439 Huber-Torda-Server_TS5 costs 0 real_cost = 265.58 Huber-Torda-Server_TS4-scwrl costs 0 real_cost = 297.082 Huber-Torda-Server_TS4 costs 0 real_cost = 312.255 Huber-Torda-Server_TS3-scwrl costs 0 real_cost = 259.597 Huber-Torda-Server_TS3 costs 0 real_cost = 277.768 Huber-Torda-Server_TS2-scwrl costs 0 real_cost = 265.026 Huber-Torda-Server_TS2 costs 0 real_cost = 285.745 Huber-Torda-Server_TS1-scwrl costs 0 real_cost = 225.799 Huber-Torda-Server_TS1 costs 0 real_cost = 273.455 HHpred3_TS1-scwrl costs 0 real_cost = 220.467 HHpred3_TS1 costs 0 real_cost = 231.278 HHpred2_TS1-scwrl costs 0 real_cost = 201.268 HHpred2_TS1 costs 0 real_cost = 199.486 HHpred1_TS1-scwrl costs 0 real_cost = 162.056 HHpred1_TS1 costs 0 real_cost = 157.519 GeneSilicoMetaServer_TS5-scwrl costs 0 real_cost = 136.769 GeneSilicoMetaServer_TS5 costs 0 real_cost = 150.382 GeneSilicoMetaServer_TS4-scwrl costs 0 real_cost = 81.2776 GeneSilicoMetaServer_TS4 costs 0 real_cost = 87.021 GeneSilicoMetaServer_TS3-scwrl costs 0 real_cost = 149.676 GeneSilicoMetaServer_TS3 costs 0 real_cost = 145.414 GeneSilicoMetaServer_TS2-scwrl costs 0 real_cost = 162.263 GeneSilicoMetaServer_TS2 costs 0 real_cost = 164.316 GeneSilicoMetaServer_TS1-scwrl costs 0 real_cost = 146.515 GeneSilicoMetaServer_TS1 costs 0 real_cost = 156.326 FUNCTION_TS5-scwrl costs 0 real_cost = 99.321 FUNCTION_TS5 costs 0 real_cost = 106.275 FUNCTION_TS4-scwrl costs 0 real_cost = 180.692 FUNCTION_TS4 costs 0 real_cost = 176.99 FUNCTION_TS3-scwrl costs 0 real_cost = 137.539 FUNCTION_TS3 costs 0 real_cost = 142.74 FUNCTION_TS2-scwrl costs 0 real_cost = 125.858 FUNCTION_TS2 costs 0 real_cost = 126.735 FUNCTION_TS1-scwrl costs 0 real_cost = 102.34 FUNCTION_TS1 costs 0 real_cost = 115.662 FUGUE_AL5-scwrl costs 0 real_cost = 207.914 FUGUE_AL5 costs 0 real_cost = 243.082 FUGUE_AL4-scwrl costs 0 real_cost = 307.955 FUGUE_AL4 costs 0 real_cost = 307.955 FUGUE_AL3-scwrl costs 0 real_cost = 205.522 FUGUE_AL3 costs 0 real_cost = 253.815 FUGUE_AL2-scwrl costs 0 real_cost = 272.579 FUGUE_AL2 costs 0 real_cost = 306.096 FUGUE_AL1-scwrl costs 0 real_cost = 251.299 FUGUE_AL1 costs 0 real_cost = 251.299 FUGMOD_TS5-scwrl costs 0 real_cost = 206.845 FUGMOD_TS5 costs 0 real_cost = 244.257 FUGMOD_TS4-scwrl costs 0 real_cost = 243.837 FUGMOD_TS4 costs 0 real_cost = 243.205 FUGMOD_TS3-scwrl costs 0 real_cost = 178.93 FUGMOD_TS3 costs 0 real_cost = 176.894 FUGMOD_TS2-scwrl costs 0 real_cost = 248.242 FUGMOD_TS2 costs 0 real_cost = 242.835 FUGMOD_TS1-scwrl costs 0 real_cost = 182.474 FUGMOD_TS1 costs 0 real_cost = 180.31 FPSOLVER-SERVER_TS5-scwrl costs 0 real_cost = 214.789 FPSOLVER-SERVER_TS5 costs 0 real_cost = 216.787 FPSOLVER-SERVER_TS4-scwrl costs 0 real_cost = 209.405 FPSOLVER-SERVER_TS4 costs 0 real_cost = 208.587 FPSOLVER-SERVER_TS3-scwrl costs 0 real_cost = 174.288 FPSOLVER-SERVER_TS3 costs 0 real_cost = 174.28 FPSOLVER-SERVER_TS2-scwrl costs 0 real_cost = 198.753 FPSOLVER-SERVER_TS2 costs 0 real_cost = 197.154 FPSOLVER-SERVER_TS1-scwrl costs 0 real_cost = 141.249 FPSOLVER-SERVER_TS1 costs 0 real_cost = 143.354 FORTE2_AL5-scwrl costs 0 real_cost = 271.513 FORTE2_AL5 costs 0 real_cost = 327.477 FORTE2_AL4-scwrl costs 0 real_cost = 276.957 FORTE2_AL4 costs 0 real_cost = 331.031 FORTE2_AL3-scwrl costs 0 real_cost = 367.404 FORTE2_AL2-scwrl costs 0 real_cost = 262.997 FORTE2_AL2 costs 0 real_cost = 320.496 FORTE2_AL1-scwrl costs 0 real_cost = 290.273 FORTE2_AL1 costs 0 real_cost = 309.654 FORTE1_AL5-scwrl costs 0 real_cost = 271.513 FORTE1_AL5 costs 0 real_cost = 327.477 FORTE1_AL4-scwrl costs 0 real_cost = 276.957 FORTE1_AL4 costs 0 real_cost = 331.031 FORTE1_AL3-scwrl costs 0 real_cost = 367.404 FORTE1_AL2-scwrl costs 0 real_cost = 262.997 FORTE1_AL2 costs 0 real_cost = 320.496 FORTE1_AL1-scwrl costs 0 real_cost = 290.273 FORTE1_AL1 costs 0 real_cost = 309.654 FOLDpro_TS5-scwrl costs 0 real_cost = 215.298 FOLDpro_TS5 costs 0 real_cost = 223.321 FOLDpro_TS4-scwrl costs 0 real_cost = 318.334 FOLDpro_TS4 costs 0 real_cost = 318.453 FOLDpro_TS3-scwrl costs 0 real_cost = 172.574 FOLDpro_TS3 costs 0 real_cost = 174.538 FOLDpro_TS2-scwrl costs 0 real_cost = 190.187 FOLDpro_TS2 costs 0 real_cost = 221.8 FOLDpro_TS1-scwrl costs 0 real_cost = 153.506 FOLDpro_TS1 costs 0 real_cost = 166.017 FAMS_TS5-scwrl costs 0 real_cost = 188.986 FAMS_TS5 costs 0 real_cost = 201.064 FAMS_TS4-scwrl costs 0 real_cost = 98.156 FAMS_TS4 costs 0 real_cost = 98.6051 FAMS_TS3-scwrl costs 0 real_cost = 98.156 FAMS_TS3 costs 0 real_cost = 98.6051 FAMS_TS2-scwrl costs 0 real_cost = 97.4065 FAMS_TS2 costs 0 real_cost = 106.644 FAMS_TS1-scwrl costs 0 real_cost = 137.539 FAMS_TS1 costs 0 real_cost = 142.74 FAMSD_TS5-scwrl costs 0 real_cost = 202.706 FAMSD_TS5 costs 0 real_cost = 201.818 FAMSD_TS4-scwrl costs 0 real_cost = 210.013 FAMSD_TS4 costs 0 real_cost = 205.555 FAMSD_TS3-scwrl costs 0 real_cost = 192.95 FAMSD_TS3 costs 0 real_cost = 195.375 FAMSD_TS2-scwrl costs 0 real_cost = 97.0571 FAMSD_TS2 costs 0 real_cost = 99.0422 FAMSD_TS1-scwrl costs 0 real_cost = 106.089 FAMSD_TS1 costs 0 real_cost = 111.768 Distill_TS5-scwrl costs 0 real_cost = 325.411 Distill_TS4-scwrl costs 0 real_cost = 326.084 Distill_TS3-scwrl costs 0 real_cost = 323.951 Distill_TS2-scwrl costs 0 real_cost = 319.615 Distill_TS1-scwrl costs 0 real_cost = 319.133 CaspIta-FOX_TS5-scwrl costs 0 real_cost = 250.375 CaspIta-FOX_TS5 costs 0 real_cost = 249.806 CaspIta-FOX_TS4-scwrl costs 0 real_cost = 166.343 CaspIta-FOX_TS4 costs 0 real_cost = 163.509 CaspIta-FOX_TS3-scwrl costs 0 real_cost = 157.621 CaspIta-FOX_TS3 costs 0 real_cost = 150.983 CaspIta-FOX_TS2-scwrl costs 0 real_cost = 123.033 CaspIta-FOX_TS2 costs 0 real_cost = 125.228 CaspIta-FOX_TS1-scwrl costs 0 real_cost = 111.249 CaspIta-FOX_TS1 costs 0 real_cost = 109.957 CIRCLE_TS5-scwrl costs 0 real_cost = 95.109 CIRCLE_TS5 costs 0 real_cost = 91.0467 CIRCLE_TS4-scwrl costs 0 real_cost = 97.0571 CIRCLE_TS4 costs 0 real_cost = 99.0422 CIRCLE_TS3-scwrl costs 0 real_cost = 98.156 CIRCLE_TS3 costs 0 real_cost = 98.6051 CIRCLE_TS2-scwrl costs 0 real_cost = 97.4065 CIRCLE_TS2 costs 0 real_cost = 106.644 CIRCLE_TS1-scwrl costs 0 real_cost = 93.3747 CIRCLE_TS1 costs 0 real_cost = 91.6398 Bilab-ENABLE_TS1-scwrl costs 0 real_cost = 193.365 Bilab-ENABLE_TS1 costs 0 real_cost = 193.365 BayesHH_TS1-scwrl costs 0 real_cost = 168.254 BayesHH_TS1 costs 0 real_cost = 148.785 ABIpro_TS5-scwrl costs 0 real_cost = 114.145 ABIpro_TS5 costs 0 real_cost = 114.145 ABIpro_TS4-scwrl costs 0 real_cost = 133.356 ABIpro_TS4 costs 0 real_cost = 133.356 ABIpro_TS3-scwrl costs 0 real_cost = 143.358 ABIpro_TS3 costs 0 real_cost = 143.358 ABIpro_TS2-scwrl costs 0 real_cost = 111.493 ABIpro_TS2 costs 0 real_cost = 111.493 ABIpro_TS1-scwrl costs 0 real_cost = 175.113 ABIpro_TS1 costs 0 real_cost = 177.114 3Dpro_TS5-scwrl costs 0 real_cost = 224.255 3Dpro_TS5 costs 0 real_cost = 219.318 3Dpro_TS4-scwrl costs 0 real_cost = 230.326 3Dpro_TS4 costs 0 real_cost = 227.463 3Dpro_TS3-scwrl costs 0 real_cost = 111.493 3Dpro_TS3 costs 0 real_cost = 111.493 3Dpro_TS2-scwrl costs 0 real_cost = 175.113 3Dpro_TS2 costs 0 real_cost = 177.114 3Dpro_TS1-scwrl costs 0 real_cost = 217.951 3Dpro_TS1 costs 0 real_cost = 218.362 3D-JIGSAW_TS1-scwrl costs 0 real_cost = 228.636 3D-JIGSAW_TS1 costs 0 real_cost = 242.873 3D-JIGSAW_RECOM_TS1-scwrl costs 0 real_cost = 228.636 3D-JIGSAW_RECOM_TS1 costs 0 real_cost = 242.873 3D-JIGSAW_POPULUS_TS5-scwrl costs 0 real_cost = 228.636 3D-JIGSAW_POPULUS_TS5 costs 0 real_cost = 242.873 3D-JIGSAW_POPULUS_TS4-scwrl costs 0 real_cost = 228.636 3D-JIGSAW_POPULUS_TS4 costs 0 real_cost = 242.873 3D-JIGSAW_POPULUS_TS3-scwrl costs 0 real_cost = 228.636 3D-JIGSAW_POPULUS_TS3 costs 0 real_cost = 242.873 3D-JIGSAW_POPULUS_TS2-scwrl costs 0 real_cost = 228.636 3D-JIGSAW_POPULUS_TS2 costs 0 real_cost = 242.873 3D-JIGSAW_POPULUS_TS1-scwrl costs 0 real_cost = 228.636 3D-JIGSAW_POPULUS_TS1 costs 0 real_cost = 242.873 dimer//dimer.rot5.renum costs 0 real_cost = 87.9843 dimer//dimer.flipped180.renum costs 0 real_cost = 67.6063 dimer//dimer-try3-1jm0A costs 0 real_cost = 72.7813 dimer//dimer-rotateNterm2 costs 0 real_cost = 67.6063 dimer//dimer-rotate5fixed costs 0 real_cost = 88.7543 dimer//dimer-rotate5 costs 0 real_cost = 99.9646 dimer//try8-opt2.unpack costs 0 real_cost = 63.979 dimer//try8-opt2.repack-nonPC costs 0 real_cost = 62.0393 dimer//try8-opt2 costs 0 real_cost = 63.979 dimer//try8-opt2.gromacs0 costs 0 real_cost = 60.5258 dimer//try8-opt1 costs 0 real_cost = 64.7943 dimer//try8-opt1-scwrl costs 0 real_cost = 63.1478 dimer//try7-opt2.unpack costs 0 real_cost = 76.4595 dimer//try7-opt2.repack-nonPC costs 0 real_cost = 71.121 dimer//try7-opt2 costs 0 real_cost = 76.4595 dimer//try7-opt2.gromacs0 costs 0 real_cost = 80.7644 dimer//try7-opt1 costs 0 real_cost = 75.7343 dimer//try7-opt1-scwrl costs 0 real_cost = 72.889 dimer//try6-opt2.unpack costs 0 real_cost = 71.0762 dimer//try6-opt2.repack-nonPC costs 0 real_cost = 69.2683 dimer//try6-opt2 costs 0 real_cost = 71.0762 dimer//try6-opt2.gromacs0 costs 0 real_cost = 69.9345 dimer//try6-opt1 costs 0 real_cost = 73.4723 dimer//try6-opt1-scwrl costs 0 real_cost = 68.3617 dimer//try5-opt2.unpack costs 0 real_cost = 76.9369 dimer//try5-opt2.repack-nonPC costs 0 real_cost = 72.1798 dimer//try5-opt2 costs 0 real_cost = 76.9369 dimer//try5-opt2.gromacs0 costs 0 real_cost = 82.9026 dimer//try5-opt1 costs 0 real_cost = 75.2596 dimer//try5-opt1-scwrl costs 0 real_cost = 71.3513 dimer//try4-opt2.unpack costs 0 real_cost = 68.6099 dimer//try4-opt2.repack-nonPC costs 0 real_cost = 67.5236 dimer//try4-opt2 costs 0 real_cost = 68.6099 dimer//try4-opt2.gromacs0 costs 0 real_cost = 71.5845 dimer//try4-opt1 costs 0 real_cost = 69.2149 dimer//try4-opt1-scwrl costs 0 real_cost = 66.1443 dimer//try3-opt2.unpack costs 0 real_cost = 69.4777 dimer//try3-opt2.repack-nonPC costs 0 real_cost = 64.1473 dimer//try3-opt2 costs 0 real_cost = 69.4777 dimer//try3-opt2.gromacs0 costs 0 real_cost = 68.7184 dimer//try3-opt1 costs 0 real_cost = 66.8633 dimer//try3-opt1-scwrl costs 0 real_cost = 61.6974 dimer//try2-opt2.unpack costs 0 real_cost = 72.7523 dimer//try2-opt2.repack-nonPC costs 0 real_cost = 77.8009 dimer//try2-opt2 costs 0 real_cost = 72.7523 dimer//try2-opt2.gromacs0 costs 0 real_cost = 75.1552 dimer//try2-opt1 costs 0 real_cost = 71.5084 dimer//try2-opt1-scwrl costs 0 real_cost = 67.407 dimer//try1-opt2.unpack costs 0 real_cost = 75.9513 dimer//try1-opt2.repack-nonPC costs 0 real_cost = 76.7635 dimer//try1-opt2 costs 0 real_cost = 75.9513 dimer//try1-opt2.gromacs0 costs 0 real_cost = 73.6752 dimer//try1-opt1 costs 0 real_cost = 73.4757 dimer//try1-opt1-scwrl costs 0 real_cost = 70.7112 rotateNterm2FromTry3.renum.pdb.gz costs 0 real_cost = 67.6741 rotateFromTry3attempt3.renum.pdb.gz costs 0 real_cost = 69.8937 rotateFromTry3attempt3.fix.pdb.gz costs 0 real_cost = 70.1341 rotateFromTry3attempt2.renum.pdb.gz costs 0 real_cost = 53.7131 rotateFromTry3attempt1.renum.pdb.gz costs 0 real_cost = 69.2866 rotateFromTry2attempt2.renum.pdb.gz costs 0 real_cost = 87.1374 rotateFromTry2attempt1.renum.pdb.gz costs 0 real_cost = 78.697 rotate5monomerFixed2.renum.pdb.gz costs 0 real_cost = 88.29 rotate5monomer.renum.pdb.gz costs 0 real_cost = 99.9533 georgesuggestion.renum.pdb.gz costs 0 real_cost = 61.5594 T0300.try9-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 59.7859 T0300.try9-opt2.pdb.gz costs 0 real_cost = 65.9485 T0300.try9-opt2.gromacs0.pdb.gz costs 0 real_cost = 63.9889 T0300.try9-opt1.pdb.gz costs 0 real_cost = 68.5331 T0300.try9-opt1-scwrl.pdb.gz costs 0 real_cost = 64.8589 T0300.try8-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 53.6703 T0300.try8-opt2.pdb.gz costs 0 real_cost = 55.1418 T0300.try8-opt2.gromacs0.pdb.gz costs 0 real_cost = 57.3888 T0300.try8-opt1.pdb.gz costs 0 real_cost = 58.9379 T0300.try8-opt1-scwrl.pdb.gz costs 0 real_cost = 59.4584 T0300.try7-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 71.4076 T0300.try7-opt2.pdb.gz costs 0 real_cost = 70.8034 T0300.try7-opt2.gromacs0.pdb.gz costs 0 real_cost = 71.5562 T0300.try7-opt1.pdb.gz costs 0 real_cost = 70.2118 T0300.try7-opt1-scwrl.pdb.gz costs 0 real_cost = 70.1525 T0300.try6-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 63.9443 T0300.try6-opt2.pdb.gz costs 0 real_cost = 68.9274 T0300.try6-opt2.gromacs0.pdb.gz costs 0 real_cost = 70.1458 T0300.try6-opt1.pdb.gz costs 0 real_cost = 66.489 T0300.try6-opt1-scwrl.pdb.gz costs 0 real_cost = 60.3243 T0300.try5-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 71.8555 T0300.try5-opt2.pdb.gz costs 0 real_cost = 79.0416 T0300.try5-opt2.gromacs0.pdb.gz costs 0 real_cost = 81.5777 T0300.try5-opt1.pdb.gz costs 0 real_cost = 74.1622 T0300.try5-opt1-scwrl.pdb.gz costs 0 real_cost = 68.2577 T0300.try4-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 62.9577 T0300.try4-opt2.pdb.gz costs 0 real_cost = 66.0798 T0300.try4-opt2.gromacs0.pdb.gz costs 0 real_cost = 65.284 T0300.try4-opt1.pdb.gz costs 0 real_cost = 59.6763 T0300.try4-opt1-scwrl.pdb.gz costs 0 real_cost = 62.3926 T0300.try3-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 72.7037 T0300.try3-opt2.pdb.gz costs 0 real_cost = 72.8825 T0300.try3-opt2.gromacs0.pdb.gz costs 0 real_cost = 74.929 T0300.try3-opt1.pdb.gz costs 0 real_cost = 74.885 T0300.try3-opt1-scwrl.pdb.gz costs 0 real_cost = 73.3989 T0300.try2-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 104.445 T0300.try2-opt2.pdb.gz costs 0 real_cost = 106.175 T0300.try2-opt2.gromacs0.pdb.gz costs 0 real_cost = 107.933 T0300.try2-opt1.pdb.gz costs 0 real_cost = 109.68 T0300.try2-opt1-scwrl.pdb.gz costs 0 real_cost = 109.16 T0300.try16-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 65.9997 T0300.try16-opt2.pdb.gz costs 0 real_cost = 69.6466 T0300.try16-opt2.gromacs0.pdb.gz costs 0 real_cost = 71.9989 T0300.try16-opt1.pdb.gz costs 0 real_cost = 71.5697 T0300.try16-opt1-scwrl.pdb.gz costs 0 real_cost = 65.0971 T0300.try15-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 69.1925 T0300.try15-opt2.pdb.gz costs 0 real_cost = 74.1242 T0300.try15-opt2.gromacs0.pdb.gz costs 0 real_cost = 75.5187 T0300.try15-opt1.pdb.gz costs 0 real_cost = 67.9605 T0300.try15-opt1-scwrl.pdb.gz costs 0 real_cost = 66.6698 T0300.try14-opt2.pdb.gz costs 0 real_cost = 119.934 T0300.try14-opt2.gromacs0.pdb.gz costs 0 real_cost = 117.61 T0300.try14-opt1.pdb.gz costs 0 real_cost = 114.007 T0300.try14-opt1-scwrl.pdb.gz costs 0 real_cost = 111.022 T0300.try13-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 91.0689 T0300.try13-opt2.pdb.gz costs 0 real_cost = 97.4636 T0300.try13-opt2.gromacs0.pdb.gz costs 0 real_cost = 92.8917 T0300.try13-opt1.pdb.gz costs 0 real_cost = 95.9954 T0300.try13-opt1-scwrl.pdb.gz costs 0 real_cost = 95.4381 T0300.try12-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 78.4819 T0300.try12-opt2.pdb.gz costs 0 real_cost = 84.2564 T0300.try12-opt2.gromacs0.pdb.gz costs 0 real_cost = 86.1348 T0300.try12-opt1.pdb.gz costs 0 real_cost = 89.7089 T0300.try12-opt1-scwrl.pdb.gz costs 0 real_cost = 86.7012 T0300.try11-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 107.631 T0300.try11-opt2.pdb.gz costs 0 real_cost = 110.009 T0300.try11-opt2.gromacs0.pdb.gz costs 0 real_cost = 107.421 T0300.try11-opt1.pdb.gz costs 0 real_cost = 109.56 T0300.try11-opt1-scwrl.pdb.gz costs 0 real_cost = 110.119 T0300.try10-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 51.8399 T0300.try10-opt2.pdb.gz costs 0 real_cost = 52.9103 T0300.try10-opt2.gromacs0.pdb.gz costs 0 real_cost = 53.0818 T0300.try10-opt1.pdb.gz costs 0 real_cost = 53.0366 T0300.try10-opt1-scwrl.pdb.gz costs 0 real_cost = 57.4268 T0300.try1-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 143.303 T0300.try1-opt2.pdb.gz costs 0 real_cost = 146.105 T0300.try1-opt2.gromacs0.pdb.gz costs 0 real_cost = 147.994 T0300.try1-opt1.pdb.gz costs 0 real_cost = 144.835 T0300.try1-opt1-scwrl.pdb.gz costs 0 real_cost = 143.298 ../model5.ts-submitted costs 0 real_cost = 74.1432 ../model4.ts-submitted costs 0 real_cost = 63.7218 ../model3.ts-submitted costs 0 real_cost = 68.1617 ../model2.ts-submitted costs 0 real_cost = 106.179 ../model1.ts-submitted costs 0 real_cost = 72.8067 align5 costs 0 real_cost = 138.792 align4 costs 0 real_cost = 119.297 align3 costs 0 real_cost = 201.568 align2 costs 0 real_cost = 213.975 align1 costs 0 real_cost = 240.82 T0300.try1-opt2.pdb costs 0 real_cost = 146.105 model5-scwrl costs 0 real_cost = 68.1524 model5.ts-submitted costs 0 real_cost = 74.1432 model4-scwrl costs 0 real_cost = 61.9261 model4.ts-submitted costs 0 real_cost = 63.7218 model3-scwrl costs 0 real_cost = 65.4079 model3.ts-submitted costs 0 real_cost = 68.1617 model2-scwrl costs 0 real_cost = 104.946 model2.ts-submitted costs 0 real_cost = 106.179 model1-scwrl costs 0 real_cost = 71.3459 model1.ts-submitted costs 0 real_cost = 72.8777 T0300_1.real.pdb costs 0 real_cost = -877.6 # command:CPU_time= 154.686 sec, elapsed time= 338.886 sec) # command:rm -f sort.tmp /projects/compbio/bin/sorttbl real_cost < decoys/evaluate_1.rdb > sort.tmp mv -f sort.tmp decoys/evaluate_1.rdb mv -f decoys/evaluate_1.pretty decoys/evaluate_1.pretty.old mv: cannot stat `decoys/evaluate_1.pretty': No such file or directory make: [decoys/evaluate_1.pretty] Error 1 (ignored) /projects/compbio/experiments/protein-predict/casp7/scripts/prettyscore -terse -targpfx -decpoint < decoys/evaluate_1.rdb > decoys/evaluate_1.pretty