/projects/compbio/experiments/protein-predict/casp7/starter-directory/Make.main:725: SECONDARY_TARGET = T0293.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/T0293.} ;\ 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_1.rdb sed -e s/XXX0000/T0293/ -e s/START_COL/1/ \ -e s/REAL_PDB/2h00A/ \ -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 1175025727 # 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= 5.8921 sec, elapsed time= 5.92939 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= 5.96909 sec, elapsed time= 6.02053 sec) # command:# Prefix for input files set to # command:# Making conformation for sequence T0293 numbered 1 through 250 Created new target T0293 from T0293.a2m # command:# command:# No conformations to remove in PopConform # command:# cleared Id set # command:# command:# ReadConformPDB reading from PDB file T0293_1.real.pdb looking for model 1 Skipped atom 1398, because occupancy 5.0000000e-01 <= existing 0.500 in T0293_1.real.pdb Skipped atom 1400, because occupancy 0.500 <= existing 0.500 in T0293_1.real.pdb Skipped atom 1402, because occupancy 0.500 <= existing 0.500 in T0293_1.real.pdb Skipped atom 1404, because occupancy 0.500 <= existing 0.500 in T0293_1.real.pdb Skipped atom 1406, because occupancy 0.500 <= existing 0.500 in T0293_1.real.pdb Skipped atom 1408, because occupancy 0.500 <= existing 0.500 in T0293_1.real.pdb Skipped atom 1410, because occupancy 0.500 <= existing 0.500 in T0293_1.real.pdb Skipped atom 1412, because occupancy 0.500 <= existing 0.500 in T0293_1.real.pdb Skipped atom 1414, because occupancy 0.500 <= existing 0.500 in T0293_1.real.pdb Skipped atom 1416, because occupancy 0.500 <= existing 0.500 in T0293_1.real.pdb Skipped atom 1418, because occupancy 0.500 <= existing 0.500 in T0293_1.real.pdb # WARNING: incomplete conformation T0293 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= 8.20875 sec, elapsed time= 8.27831 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 244 # copying to AlignedFragments data structure # command:# fraction of real conformation used = 1 # GDT_score = -43.9655 # GDT_score(maxd=8,maxw=2.9)= -45.3023 # GDT_score(maxd=8,maxw=3.2)= -42.7978 # GDT_score(maxd=8,maxw=3.5)= -40.4624 # GDT_score(maxd=10,maxw=3.8)= -43.4604 # GDT_score(maxd=10,maxw=4)= -41.9626 # GDT_score(maxd=10,maxw=4.2)= -40.5483 # GDT_score(maxd=12,maxw=4.3)= -43.9559 # GDT_score(maxd=12,maxw=4.5)= -42.5432 # GDT_score(maxd=12,maxw=4.7)= -41.1944 # GDT_score(maxd=14,maxw=5.2)= -41.1654 # GDT_score(maxd=14,maxw=5.5)= -39.3079 # command:# Prefix for output files set to # command:superimposing iter= 0 total_weight= 2450.000 rmsd (weighted)= 13.317 (unweighted)= 39.278 superimposing iter= 1 total_weight= 5867.271 rmsd (weighted)= 5.868 (unweighted)= 38.228 superimposing iter= 2 total_weight= 3938.143 rmsd (weighted)= 3.441 (unweighted)= 37.983 superimposing iter= 3 total_weight= 2965.741 rmsd (weighted)= 2.420 (unweighted)= 37.879 superimposing iter= 4 total_weight= 2542.264 rmsd (weighted)= 1.878 (unweighted)= 37.832 superimposing iter= 5 total_weight= 2110.420 rmsd (weighted)= 1.620 (unweighted)= 37.816 # command:# Prefix for output files set to decoys/ # command:# request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1616122777.pdb -s /var/tmp/to_scwrl_1616122777.seq -o /var/tmp/from_scwrl_1616122777.pdb > /var/tmp/scwrl_1616122777.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1616122777.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 237 # copying to AlignedFragments data structure # command:# fraction of real conformation used = 1 # GDT_score = -45.4433 # GDT_score(maxd=8,maxw=2.9)= -46.8231 # GDT_score(maxd=8,maxw=3.2)= -44.1697 # GDT_score(maxd=8,maxw=3.5)= -41.7116 # GDT_score(maxd=10,maxw=3.8)= -44.6065 # GDT_score(maxd=10,maxw=4)= -43.0673 # GDT_score(maxd=10,maxw=4.2)= -41.5679 # GDT_score(maxd=12,maxw=4.3)= -44.9838 # GDT_score(maxd=12,maxw=4.5)= -43.4913 # GDT_score(maxd=12,maxw=4.7)= -42.0963 # GDT_score(maxd=14,maxw=5.2)= -41.9785 # GDT_score(maxd=14,maxw=5.5)= -40.0943 # command:# request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1317158830.pdb -s /var/tmp/to_scwrl_1317158830.seq -o /var/tmp/from_scwrl_1317158830.pdb > /var/tmp/scwrl_1317158830.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1317158830.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 240 # copying to AlignedFragments data structure # command:# fraction of real conformation used = 1 # GDT_score = -45.0739 # GDT_score(maxd=8,maxw=2.9)= -46.0855 # GDT_score(maxd=8,maxw=3.2)= -43.4655 # GDT_score(maxd=8,maxw=3.5)= -41.0507 # GDT_score(maxd=10,maxw=3.8)= -44.0562 # GDT_score(maxd=10,maxw=4)= -42.4848 # GDT_score(maxd=10,maxw=4.2)= -41.012 # GDT_score(maxd=12,maxw=4.3)= -44.4405 # GDT_score(maxd=12,maxw=4.5)= -42.9734 # GDT_score(maxd=12,maxw=4.7)= -41.5651 # GDT_score(maxd=14,maxw=5.2)= -41.4707 # GDT_score(maxd=14,maxw=5.5)= -39.5931 # command:# request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1922437741.pdb -s /var/tmp/to_scwrl_1922437741.seq -o /var/tmp/from_scwrl_1922437741.pdb > /var/tmp/scwrl_1922437741.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1922437741.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 249 # copying to AlignedFragments data structure # command:# fraction of real conformation used = 1 # GDT_score = -44.0887 # GDT_score(maxd=8,maxw=2.9)= -45.1567 # GDT_score(maxd=8,maxw=3.2)= -42.6159 # GDT_score(maxd=8,maxw=3.5)= -40.2351 # GDT_score(maxd=10,maxw=3.8)= -43.3039 # GDT_score(maxd=10,maxw=4)= -41.7926 # GDT_score(maxd=10,maxw=4.2)= -40.3766 # GDT_score(maxd=12,maxw=4.3)= -43.8604 # GDT_score(maxd=12,maxw=4.5)= -42.4379 # GDT_score(maxd=12,maxw=4.7)= -41.0782 # GDT_score(maxd=14,maxw=5.2)= -41.1156 # GDT_score(maxd=14,maxw=5.5)= -39.256 # command:# request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_447798702.pdb -s /var/tmp/to_scwrl_447798702.seq -o /var/tmp/from_scwrl_447798702.pdb > /var/tmp/scwrl_447798702.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_447798702.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 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # command:# fraction of real conformation used = 0.729064 # GDT_score = -42.8571 # GDT_score(maxd=8,maxw=2.9)= -42.6847 # GDT_score(maxd=8,maxw=3.2)= -40.5846 # GDT_score(maxd=8,maxw=3.5)= -38.3953 # GDT_score(maxd=10,maxw=3.8)= -41.1112 # GDT_score(maxd=10,maxw=4)= -39.6813 # GDT_score(maxd=10,maxw=4.2)= -38.2936 # GDT_score(maxd=12,maxw=4.3)= -41.3838 # GDT_score(maxd=12,maxw=4.5)= -39.9939 # GDT_score(maxd=12,maxw=4.7)= -38.6314 # GDT_score(maxd=14,maxw=5.2)= -38.4257 # GDT_score(maxd=14,maxw=5.5)= -36.702 # command:# request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1051531667.pdb -s /var/tmp/to_scwrl_1051531667.seq -o /var/tmp/from_scwrl_1051531667.pdb > /var/tmp/scwrl_1051531667.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1051531667.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 T0293.try1-opt2.pdb looking for model 1 # Found a chain break before 239 # copying to AlignedFragments data structure # command:# fraction of real conformation used = 1 # GDT_score = -31.2808 # GDT_score(maxd=8,maxw=2.9)= -31.3638 # GDT_score(maxd=8,maxw=3.2)= -30.0468 # GDT_score(maxd=8,maxw=3.5)= -28.725 # GDT_score(maxd=10,maxw=3.8)= -30.4153 # GDT_score(maxd=10,maxw=4)= -29.5476 # GDT_score(maxd=10,maxw=4.2)= -28.7241 # GDT_score(maxd=12,maxw=4.3)= -30.9408 # GDT_score(maxd=12,maxw=4.5)= -30.102 # GDT_score(maxd=12,maxw=4.7)= -29.2525 # GDT_score(maxd=14,maxw=5.2)= -29.5397 # GDT_score(maxd=14,maxw=5.5)= -28.3307 # command:# Prefix for output files set to # command:superimposing iter= 0 total_weight= 2450.000 rmsd (weighted)= 18.348 (unweighted)= 39.133 superimposing iter= 1 total_weight= 4423.021 rmsd (weighted)= 10.754 (unweighted)= 39.848 superimposing iter= 2 total_weight= 2150.470 rmsd (weighted)= 9.232 (unweighted)= 40.203 superimposing iter= 3 total_weight= 1796.073 rmsd (weighted)= 8.666 (unweighted)= 40.527 superimposing iter= 4 total_weight= 1766.121 rmsd (weighted)= 8.181 (unweighted)= 40.864 superimposing iter= 5 total_weight= 1766.282 rmsd (weighted)= 7.707 (unweighted)= 41.222 # command:# Prefix for output files set to decoys/ # command:# Prefix for input files set to # command:# ReadConformPDB reading from PDB file T0293.undertaker-align.pdb looking for model 1 WARNING: atoms too close: (T0293)P36.C and (T0293)L40.C only 0.000 apart, marking (T0293)L40.C as missing WARNING: atoms too close: (T0293)T37.N and (T0293)R41.N only 0.000 apart, marking (T0293)T37.N as missing WARNING: atoms too close: (T0293)T37.CA and (T0293)R41.CA only 0.000 apart, marking (T0293)T37.CA as missing WARNING: atoms too close: (T0293)I52.C and (T0293)H54.C only 0.000 apart, marking (T0293)H54.C as missing WARNING: atoms too close: (T0293)G53.N and (T0293)Q55.N only 0.000 apart, marking (T0293)G53.N as missing WARNING: atoms too close: (T0293)G53.CA and (T0293)Q55.CA only 0.000 apart, marking (T0293)G53.CA as missing WARNING: atoms too close: (T0293)L83.C and (T0293)N84.C only 0.000 apart, marking (T0293)N84.C as missing WARNING: atoms too close: (T0293)N84.N and (T0293)G85.N only 0.000 apart, marking (T0293)N84.N as missing WARNING: atoms too close: (T0293)N84.CA and (T0293)G85.CA only 0.000 apart, marking (T0293)N84.CA as missing WARNING: atoms too close: (T0293)L124.C and (T0293)A128.C only 0.000 apart, marking (T0293)A128.C as missing WARNING: atoms too close: (T0293)L125.N and (T0293)L129.N only 0.000 apart, marking (T0293)L125.N as missing WARNING: atoms too close: (T0293)L125.CA and (T0293)L129.CA only 0.000 apart, marking (T0293)L125.CA as missing WARNING: atoms too close: (T0293)E134.C and (T0293)I135.C only 0.000 apart, marking (T0293)I135.C as missing WARNING: atoms too close: (T0293)I135.N and (T0293)I136.N only 0.000 apart, marking (T0293)I135.N as missing WARNING: atoms too close: (T0293)I135.CA and (T0293)I136.CA only 0.000 apart, marking (T0293)I135.CA as missing WARNING: atoms too close: (T0293)Q150.C and (T0293)R162.C only 0.000 apart, marking (T0293)R162.C as missing WARNING: atoms too close: (T0293)L151.N and (T0293)R163.N only 0.000 apart, marking (T0293)L151.N as missing WARNING: atoms too close: (T0293)L151.CA and (T0293)R163.CA only 0.000 apart, marking (T0293)L151.CA as missing WARNING: atoms too close: (T0293)D193.C and (T0293)L197.C only 0.000 apart, marking (T0293)L197.C as missing WARNING: atoms too close: (T0293)S194.N and (T0293)G198.N only 0.000 apart, marking (T0293)S194.N as missing WARNING: atoms too close: (T0293)S194.CA and (T0293)G198.CA only 0.000 apart, marking (T0293)S194.CA as missing WARNING: atoms too close: (T0293)K218.C and (T0293)I223.C only 0.000 apart, marking (T0293)I223.C as missing WARNING: atoms too close: (T0293)E219.N and (T0293)Q224.N only 0.000 apart, marking (T0293)E219.N as missing WARNING: atoms too close: (T0293)E219.CA and (T0293)Q224.CA only 0.000 apart, marking (T0293)E219.CA as missing # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # command:# naming current conformation align1 # command:# fraction of real conformation used = 0.788177 # GDT_score = -45.4433 # GDT_score(maxd=8,maxw=2.9)= -45.675 # GDT_score(maxd=8,maxw=3.2)= -43.4377 # GDT_score(maxd=8,maxw=3.5)= -41.1134 # GDT_score(maxd=10,maxw=3.8)= -44.0794 # GDT_score(maxd=10,maxw=4)= -42.5453 # GDT_score(maxd=10,maxw=4.2)= -41.033 # GDT_score(maxd=12,maxw=4.3)= -44.3884 # GDT_score(maxd=12,maxw=4.5)= -42.8775 # GDT_score(maxd=12,maxw=4.7)= -41.4006 # GDT_score(maxd=14,maxw=5.2)= -41.18 # GDT_score(maxd=14,maxw=5.5)= -39.306 # command:# ReadConformPDB reading from PDB file T0293.undertaker-align.pdb looking for model 2 WARNING: atoms too close: (T0293)L31.C and (T0293)P36.C only 0.000 apart, marking (T0293)P36.C as missing WARNING: atoms too close: (T0293)E32.N and (T0293)T37.N only 0.000 apart, marking (T0293)E32.N as missing WARNING: atoms too close: (T0293)E32.CA and (T0293)T37.CA only 0.000 apart, marking (T0293)E32.CA as missing WARNING: atoms too close: (T0293)I52.C and (T0293)H54.C only 0.000 apart, marking (T0293)H54.C as missing WARNING: atoms too close: (T0293)G53.N and (T0293)Q55.N only 0.000 apart, marking (T0293)G53.N as missing WARNING: atoms too close: (T0293)G53.CA and (T0293)Q55.CA only 0.000 apart, marking (T0293)G53.CA as missing WARNING: atoms too close: (T0293)N84.C and (T0293)W86.C only 0.000 apart, marking (T0293)W86.C as missing WARNING: atoms too close: (T0293)G85.N and (T0293)Y87.N only 0.000 apart, marking (T0293)G85.N as missing WARNING: atoms too close: (T0293)G85.CA and (T0293)Y87.CA only 0.000 apart, marking (T0293)G85.CA as missing WARNING: atoms too close: (T0293)P120.C and (T0293)L124.C only 0.000 apart, marking (T0293)L124.C as missing WARNING: atoms too close: (T0293)Q121.N and (T0293)L125.N only 0.000 apart, marking (T0293)Q121.N as missing WARNING: atoms too close: (T0293)Q121.CA and (T0293)L125.CA only 0.000 apart, marking (T0293)Q121.CA as missing WARNING: atoms too close: (T0293)M126.C and (T0293)L129.C only 0.000 apart, marking (T0293)L129.C as missing WARNING: atoms too close: (T0293)D127.N and (T0293)K130.N only 0.000 apart, marking (T0293)D127.N as missing WARNING: atoms too close: (T0293)D127.CA and (T0293)K130.CA only 0.000 apart, marking (T0293)D127.CA as missing WARNING: atoms too close: (T0293)P145.C and (T0293)F146.C only 0.000 apart, marking (T0293)F146.C as missing WARNING: atoms too close: (T0293)F146.N and (T0293)F147.N only 0.000 apart, marking (T0293)F146.N as missing WARNING: atoms too close: (T0293)F146.CA and (T0293)F147.CA only 0.000 apart, marking (T0293)F146.CA as missing WARNING: atoms too close: (T0293)A148.C and (T0293)E180.C only 0.000 apart, marking (T0293)E180.C as missing WARNING: atoms too close: (T0293)N149.N and (T0293)G181.N only 0.000 apart, marking (T0293)N149.N as missing WARNING: atoms too close: (T0293)N149.CA and (T0293)G181.CA only 0.000 apart, marking (T0293)N149.CA as missing WARNING: atoms too close: (T0293)G182.C and (T0293)E183.C only 0.000 apart, marking (T0293)E183.C as missing WARNING: atoms too close: (T0293)E183.N and (T0293)L184.N only 0.000 apart, marking (T0293)E183.N as missing WARNING: atoms too close: (T0293)E183.CA and (T0293)L184.CA only 0.000 apart, marking (T0293)E183.CA as missing WARNING: atoms too close: (T0293)Q224.C and (T0293)G225.C only 0.000 apart, marking (T0293)G225.C as missing WARNING: atoms too close: (T0293)G225.N and (T0293)V226.N only 0.000 apart, marking (T0293)G225.N as missing WARNING: atoms too close: (T0293)G225.CA and (T0293)V226.CA only 0.000 apart, marking (T0293)G225.CA as missing WARNING: atoms too close: (T0293)G237.C and (T0293)M240.C only 0.000 apart, marking (T0293)M240.C as missing WARNING: atoms too close: (T0293)R238.N and (T0293)R241.N only 0.000 apart, marking (T0293)R238.N as missing WARNING: atoms too close: (T0293)R238.CA and (T0293)R241.CA only 0.000 apart, marking (T0293)R238.CA as missing # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # command:# naming current conformation align2 # command:# fraction of real conformation used = 0.812808 # GDT_score = -48.2759 # GDT_score(maxd=8,maxw=2.9)= -49.1627 # GDT_score(maxd=8,maxw=3.2)= -46.6785 # GDT_score(maxd=8,maxw=3.5)= -44.1674 # GDT_score(maxd=10,maxw=3.8)= -46.7856 # GDT_score(maxd=10,maxw=4)= -45.1444 # GDT_score(maxd=10,maxw=4.2)= -43.5895 # GDT_score(maxd=12,maxw=4.3)= -46.8459 # GDT_score(maxd=12,maxw=4.5)= -45.311 # GDT_score(maxd=12,maxw=4.7)= -43.8242 # GDT_score(maxd=14,maxw=5.2)= -43.5348 # GDT_score(maxd=14,maxw=5.5)= -41.5353 # command:# ReadConformPDB reading from PDB file T0293.undertaker-align.pdb looking for model 3 WARNING: atoms too close: (T0293)L83.C and (T0293)N84.C only 0.000 apart, marking (T0293)N84.C as missing WARNING: atoms too close: (T0293)N84.N and (T0293)G85.N only 0.000 apart, marking (T0293)N84.N as missing WARNING: atoms too close: (T0293)N84.CA and (T0293)G85.CA only 0.000 apart, marking (T0293)N84.CA as missing WARNING: atoms too close: (T0293)D112.C and (T0293)L113.C only 0.000 apart, marking (T0293)L113.C as missing WARNING: atoms too close: (T0293)L113.N and (T0293)I114.N only 0.000 apart, marking (T0293)L113.N as missing WARNING: atoms too close: (T0293)L113.CA and (T0293)I114.CA only 0.000 apart, marking (T0293)L113.CA as missing WARNING: atoms too close: (T0293)D127.C and (T0293)S133.C only 0.000 apart, marking (T0293)S133.C as missing WARNING: atoms too close: (T0293)A128.N and (T0293)E134.N only 0.000 apart, marking (T0293)A128.N as missing WARNING: atoms too close: (T0293)A128.CA and (T0293)E134.CA only 0.000 apart, marking (T0293)A128.CA as missing WARNING: atoms too close: (T0293)C142.C and (T0293)N157.C only 0.000 apart, marking (T0293)N157.C as missing WARNING: atoms too close: (T0293)N143.N and (T0293)S158.N only 0.000 apart, marking (T0293)N143.N as missing WARNING: atoms too close: (T0293)N143.CA and (T0293)S158.CA only 0.000 apart, marking (T0293)N143.CA as missing WARNING: atoms too close: (T0293)S167.C and (T0293)G173.C only 0.000 apart, marking (T0293)G173.C as missing WARNING: atoms too close: (T0293)S168.N and (T0293)I174.N only 0.000 apart, marking (T0293)S168.N as missing WARNING: atoms too close: (T0293)S168.CA and (T0293)I174.CA only 0.000 apart, marking (T0293)S168.CA as missing # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # command:# naming current conformation align3 # command:# ReadConformPDB reading from PDB file T0293.undertaker-align.pdb looking for model 4 WARNING: atoms too close: (T0293)G53.C and (T0293)D58.C only 0.000 apart, marking (T0293)D58.C as missing WARNING: atoms too close: (T0293)H54.N and (T0293)K59.N only 0.000 apart, marking (T0293)H54.N as missing WARNING: atoms too close: (T0293)H54.CA and (T0293)K59.CA only 0.000 apart, marking (T0293)H54.CA as missing WARNING: atoms too close: (T0293)L124.C and (T0293)L125.C only 0.000 apart, marking (T0293)L125.C as missing WARNING: atoms too close: (T0293)L125.N and (T0293)M126.N only 0.000 apart, marking (T0293)L125.N as missing WARNING: atoms too close: (T0293)L125.CA and (T0293)M126.CA only 0.000 apart, marking (T0293)L125.CA as missing WARNING: atoms too close: (T0293)D127.C and (T0293)S133.C only 0.000 apart, marking (T0293)S133.C as missing WARNING: atoms too close: (T0293)A128.N and (T0293)E134.N only 0.000 apart, marking (T0293)A128.N as missing WARNING: atoms too close: (T0293)A128.CA and (T0293)E134.CA only 0.000 apart, marking (T0293)A128.CA as missing WARNING: atoms too close: (T0293)C142.C and (T0293)R162.C only 0.000 apart, marking (T0293)R162.C as missing WARNING: atoms too close: (T0293)N143.N and (T0293)R163.N only 0.000 apart, marking (T0293)N143.N as missing WARNING: atoms too close: (T0293)N143.CA and (T0293)R163.CA only 0.000 apart, marking (T0293)N143.CA as missing WARNING: atoms too close: (T0293)S194.C and (T0293)L214.C only 0.000 apart, marking (T0293)L214.C as missing WARNING: atoms too close: (T0293)L195.N and (T0293)A215.N only 0.000 apart, marking (T0293)L195.N as missing WARNING: atoms too close: (T0293)L195.CA and (T0293)A215.CA only 0.000 apart, marking (T0293)L195.CA as missing # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # command:# naming current conformation align4 # command:# ReadConformPDB reading from PDB file T0293.undertaker-align.pdb looking for model 5 WARNING: atoms too close: (T0293)D112.C and (T0293)L113.C only 0.000 apart, marking (T0293)L113.C as missing WARNING: atoms too close: (T0293)L113.N and (T0293)I114.N only 0.000 apart, marking (T0293)L113.N as missing WARNING: atoms too close: (T0293)L113.CA and (T0293)I114.CA only 0.000 apart, marking (T0293)L113.CA as missing WARNING: atoms too close: (T0293)D127.C and (T0293)S133.C only 0.000 apart, marking (T0293)S133.C as missing WARNING: atoms too close: (T0293)A128.N and (T0293)E134.N only 0.000 apart, marking (T0293)A128.N as missing WARNING: atoms too close: (T0293)A128.CA and (T0293)E134.CA only 0.000 apart, marking (T0293)A128.CA as missing WARNING: atoms too close: (T0293)C142.C and (T0293)N157.C only 0.000 apart, marking (T0293)N157.C as missing WARNING: atoms too close: (T0293)N143.N and (T0293)S158.N only 0.000 apart, marking (T0293)N143.N as missing WARNING: atoms too close: (T0293)N143.CA and (T0293)S158.CA only 0.000 apart, marking (T0293)N143.CA as missing WARNING: atoms too close: (T0293)P165.C and (T0293)T171.C only 0.000 apart, marking (T0293)T171.C as missing WARNING: atoms too close: (T0293)P166.N and (T0293)G172.N only 0.000 apart, marking (T0293)P166.N as missing WARNING: atoms too close: (T0293)P166.CA and (T0293)G172.CA only 0.000 apart, marking (T0293)P166.CA as missing # WARNING: incomplete conformation T0293 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 244 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file ../model2.ts-submitted looking for model 1 # Found a chain break before 237 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file ../model3.ts-submitted looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file ../model4.ts-submitted looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file ../model5.ts-submitted looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # ReadConformPDB reading from PDB file T0293.try1-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 236 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try1-opt1.pdb.gz looking for model 1 # Found a chain break before 236 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try1-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 245 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try1-opt2.pdb.gz looking for model 1 # Found a chain break before 239 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try1-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 239 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try10-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try10-opt1.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try10-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try10-opt2.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try10-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try11-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try11-opt1.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try11-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try11-opt2.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try11-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try12-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 237 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try12-opt1.pdb.gz looking for model 1 # Found a chain break before 237 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try12-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try12-opt2.pdb.gz looking for model 1 # Found a chain break before 237 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try12-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 237 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try13-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 239 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try13-opt1.pdb.gz looking for model 1 # Found a chain break before 239 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try13-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try13-opt2.pdb.gz looking for model 1 # Found a chain break before 246 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try13-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 246 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try14-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 237 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try14-opt1.pdb.gz looking for model 1 # Found a chain break before 237 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try14-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try14-opt2.pdb.gz looking for model 1 # Found a chain break before 237 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try14-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 237 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try15-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 247 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try15-opt1.pdb.gz looking for model 1 # Found a chain break before 247 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try15-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try15-opt2.pdb.gz looking for model 1 # Found a chain break before 247 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try15-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 247 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try16-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try16-opt1.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try16-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try16-opt2.pdb.gz looking for model 1 # Found a chain break before 237 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try16-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 237 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try17-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 244 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try17-opt1.pdb.gz looking for model 1 # Found a chain break before 244 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try17-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try17-opt2.pdb.gz looking for model 1 # Found a chain break before 244 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try17-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 244 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try2-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 241 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try2-opt1.pdb.gz looking for model 1 # Found a chain break before 241 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try2-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 243 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try2-opt2.pdb.gz looking for model 1 # Found a chain break before 241 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try2-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 241 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try3-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 218 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try3-opt1.pdb.gz looking for model 1 # Found a chain break before 218 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try3-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 200 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try3-opt2.pdb.gz looking for model 1 # Found a chain break before 238 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try3-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 238 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try4-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try4-opt1.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try4-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try4-opt2.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try4-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try5-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 248 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try5-opt1.pdb.gz looking for model 1 # Found a chain break before 248 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try5-opt2.pdb.gz looking for model 1 # Found a chain break before 248 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try5-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 248 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try6-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 241 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try6-opt1.pdb.gz looking for model 1 # Found a chain break before 241 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try6-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try6-opt2.pdb.gz looking for model 1 # Found a chain break before 248 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try6-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 248 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try7-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 241 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try7-opt1.pdb.gz looking for model 1 # Found a chain break before 241 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try7-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try7-opt2.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try7-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try8-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try8-opt1.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try8-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try8-opt2.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try8-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try9-opt1-scwrl.pdb.gz looking for model 1 # Found a chain break before 242 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try9-opt1.pdb.gz looking for model 1 # Found a chain break before 242 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try9-opt2.gromacs0.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try9-opt2.pdb.gz looking for model 1 # Found a chain break before 237 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file T0293.try9-opt2.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 237 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file chimera-try5-align2.pdb.gz looking for model 1 # Found a chain break before 248 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file chimera-try5-server.pdb.gz looking for model 1 # Found a chain break before 248 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file chimera1.pdb.gz looking for model 1 # Found a chain break before 241 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file fromTry4.proto.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file lineup230and245take1.2rotateNterminusAndMove.renum.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file lineup230and245take1.9rotateNtermSlide33-37helix.renum.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file shift232over1.1FromTry8.renum.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file shift232over1.2FromTry8.renum.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file shift232over1.2andMoveH33-37.renum.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file shift232over1FromTry8.renum.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file shift232over2FromTry8.renum.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1963391418.pdb -s /var/tmp/to_scwrl_1963391418.seq -o /var/tmp/from_scwrl_1963391418.pdb > /var/tmp/scwrl_1963391418.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1963391418.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 T0293 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_253653063.pdb -s /var/tmp/to_scwrl_253653063.seq -o /var/tmp/from_scwrl_253653063.pdb > /var/tmp/scwrl_253653063.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_253653063.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 T0293 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_476230747.pdb -s /var/tmp/to_scwrl_476230747.seq -o /var/tmp/from_scwrl_476230747.pdb > /var/tmp/scwrl_476230747.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_476230747.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 T0293 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1550727363.pdb -s /var/tmp/to_scwrl_1550727363.seq -o /var/tmp/from_scwrl_1550727363.pdb > /var/tmp/scwrl_1550727363.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1550727363.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 T0293 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_570211260.pdb -s /var/tmp/to_scwrl_570211260.seq -o /var/tmp/from_scwrl_570211260.pdb > /var/tmp/scwrl_570211260.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_570211260.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 T0293 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_RECOM_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_454022405.pdb -s /var/tmp/to_scwrl_454022405.seq -o /var/tmp/from_scwrl_454022405.pdb > /var/tmp/scwrl_454022405.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_454022405.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_RECOM_TS1-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_RECOM_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_RECOM_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1116539996.pdb -s /var/tmp/to_scwrl_1116539996.seq -o /var/tmp/from_scwrl_1116539996.pdb > /var/tmp/scwrl_1116539996.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1116539996.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_RECOM_TS2-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_RECOM_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_RECOM_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1813806148.pdb -s /var/tmp/to_scwrl_1813806148.seq -o /var/tmp/from_scwrl_1813806148.pdb > /var/tmp/scwrl_1813806148.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1813806148.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_RECOM_TS3-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_RECOM_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_RECOM_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_136992621.pdb -s /var/tmp/to_scwrl_136992621.seq -o /var/tmp/from_scwrl_136992621.pdb > /var/tmp/scwrl_136992621.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_136992621.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_RECOM_TS4-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_RECOM_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_RECOM_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1583297550.pdb -s /var/tmp/to_scwrl_1583297550.seq -o /var/tmp/from_scwrl_1583297550.pdb > /var/tmp/scwrl_1583297550.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1583297550.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_RECOM_TS5-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_390297489.pdb -s /var/tmp/to_scwrl_390297489.seq -o /var/tmp/from_scwrl_390297489.pdb > /var/tmp/scwrl_390297489.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_390297489.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_TS1-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_61036911.pdb -s /var/tmp/to_scwrl_61036911.seq -o /var/tmp/from_scwrl_61036911.pdb > /var/tmp/scwrl_61036911.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_61036911.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_TS2-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_660325522.pdb -s /var/tmp/to_scwrl_660325522.seq -o /var/tmp/from_scwrl_660325522.pdb > /var/tmp/scwrl_660325522.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_660325522.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_TS3-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1543033393.pdb -s /var/tmp/to_scwrl_1543033393.seq -o /var/tmp/from_scwrl_1543033393.pdb > /var/tmp/scwrl_1543033393.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1543033393.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_TS4-scwrl # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1843218287.pdb -s /var/tmp/to_scwrl_1843218287.seq -o /var/tmp/from_scwrl_1843218287.pdb > /var/tmp/scwrl_1843218287.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1843218287.pdb # conformation set from SCWRL output # naming current conformation 3D-JIGSAW_TS5-scwrl # ReadConformPDB reading from PDB file servers/3Dpro_TS1.pdb.gz looking for model 1 # Found a chain break before 184 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_95836506.pdb -s /var/tmp/to_scwrl_95836506.seq -o /var/tmp/from_scwrl_95836506.pdb > /var/tmp/scwrl_95836506.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_95836506.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 207 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1838847971.pdb -s /var/tmp/to_scwrl_1838847971.seq -o /var/tmp/from_scwrl_1838847971.pdb > /var/tmp/scwrl_1838847971.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1838847971.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 248 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1669701598.pdb -s /var/tmp/to_scwrl_1669701598.seq -o /var/tmp/from_scwrl_1669701598.pdb > /var/tmp/scwrl_1669701598.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1669701598.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 246 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1867707672.pdb -s /var/tmp/to_scwrl_1867707672.seq -o /var/tmp/from_scwrl_1867707672.pdb > /var/tmp/scwrl_1867707672.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1867707672.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 225 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1563372893.pdb -s /var/tmp/to_scwrl_1563372893.seq -o /var/tmp/from_scwrl_1563372893.pdb > /var/tmp/scwrl_1563372893.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1563372893.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 246 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_720385092.pdb -s /var/tmp/to_scwrl_720385092.seq -o /var/tmp/from_scwrl_720385092.pdb > /var/tmp/scwrl_720385092.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_720385092.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 241 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_274412235.pdb -s /var/tmp/to_scwrl_274412235.seq -o /var/tmp/from_scwrl_274412235.pdb > /var/tmp/scwrl_274412235.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_274412235.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 246 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_771259689.pdb -s /var/tmp/to_scwrl_771259689.seq -o /var/tmp/from_scwrl_771259689.pdb > /var/tmp/scwrl_771259689.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_771259689.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 249 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1557549408.pdb -s /var/tmp/to_scwrl_1557549408.seq -o /var/tmp/from_scwrl_1557549408.pdb > /var/tmp/scwrl_1557549408.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1557549408.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 247 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1116566728.pdb -s /var/tmp/to_scwrl_1116566728.seq -o /var/tmp/from_scwrl_1116566728.pdb > /var/tmp/scwrl_1116566728.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1116566728.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 248 # copying to AlignedFragments data structure # naming current conformation BayesHH_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_398732259.pdb -s /var/tmp/to_scwrl_398732259.seq -o /var/tmp/from_scwrl_398732259.pdb > /var/tmp/scwrl_398732259.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_398732259.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 249 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1026188539.pdb -s /var/tmp/to_scwrl_1026188539.seq -o /var/tmp/from_scwrl_1026188539.pdb > /var/tmp/scwrl_1026188539.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1026188539.pdb # conformation set from SCWRL output # naming current conformation Bilab-ENABLE_TS1-scwrl # ReadConformPDB reading from PDB file servers/Bilab-ENABLE_TS2.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_286241912.pdb -s /var/tmp/to_scwrl_286241912.seq -o /var/tmp/from_scwrl_286241912.pdb > /var/tmp/scwrl_286241912.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_286241912.pdb # conformation set from SCWRL output # naming current conformation Bilab-ENABLE_TS2-scwrl # ReadConformPDB reading from PDB file servers/Bilab-ENABLE_TS3.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_173686354.pdb -s /var/tmp/to_scwrl_173686354.seq -o /var/tmp/from_scwrl_173686354.pdb > /var/tmp/scwrl_173686354.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_173686354.pdb # conformation set from SCWRL output # naming current conformation Bilab-ENABLE_TS3-scwrl # ReadConformPDB reading from PDB file servers/Bilab-ENABLE_TS4.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1473987241.pdb -s /var/tmp/to_scwrl_1473987241.seq -o /var/tmp/from_scwrl_1473987241.pdb > /var/tmp/scwrl_1473987241.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1473987241.pdb # conformation set from SCWRL output # naming current conformation Bilab-ENABLE_TS4-scwrl # ReadConformPDB reading from PDB file servers/Bilab-ENABLE_TS5.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1337773579.pdb -s /var/tmp/to_scwrl_1337773579.seq -o /var/tmp/from_scwrl_1337773579.pdb > /var/tmp/scwrl_1337773579.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1337773579.pdb # conformation set from SCWRL output # naming current conformation Bilab-ENABLE_TS5-scwrl # ReadConformPDB reading from PDB file servers/CIRCLE_TS1.pdb.gz looking for model 1 # Found a chain break before 249 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_2137077772.pdb -s /var/tmp/to_scwrl_2137077772.seq -o /var/tmp/from_scwrl_2137077772.pdb > /var/tmp/scwrl_2137077772.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2137077772.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 T0293 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1727640304.pdb -s /var/tmp/to_scwrl_1727640304.seq -o /var/tmp/from_scwrl_1727640304.pdb > /var/tmp/scwrl_1727640304.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1727640304.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 T0293 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1814004326.pdb -s /var/tmp/to_scwrl_1814004326.seq -o /var/tmp/from_scwrl_1814004326.pdb > /var/tmp/scwrl_1814004326.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1814004326.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 T0293 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1540321488.pdb -s /var/tmp/to_scwrl_1540321488.seq -o /var/tmp/from_scwrl_1540321488.pdb > /var/tmp/scwrl_1540321488.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1540321488.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 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_150367918.pdb -s /var/tmp/to_scwrl_150367918.seq -o /var/tmp/from_scwrl_150367918.pdb > /var/tmp/scwrl_150367918.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_150367918.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 T0293 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_120543084.pdb -s /var/tmp/to_scwrl_120543084.seq -o /var/tmp/from_scwrl_120543084.pdb > /var/tmp/scwrl_120543084.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_120543084.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 WARNING: atoms too close: (T0293)A179.C and (T0293)E180.N only 0.000 apart, marking (T0293)E180.N as missing WARNING: atoms too close: (T0293)E180.N and (T0293)E180.CA only 0.000 apart, marking (T0293)E180.CA as missing WARNING: atoms too close: (T0293)A179.C and (T0293)E180.CA only 0.000 apart, marking (T0293)E180.CA as missing WARNING: atoms too close: (T0293)E180.CA and (T0293)E180.CB only 0.000 apart, marking (T0293)E180.CB as missing WARNING: atoms too close: (T0293)E180.N and (T0293)E180.CB only 0.000 apart, marking (T0293)E180.CB as missing WARNING: atoms too close: (T0293)A179.C and (T0293)E180.CB only 0.000 apart, marking (T0293)E180.CB as missing WARNING: atoms too close: (T0293)E180.CB and (T0293)E180.CG only 0.000 apart, marking (T0293)E180.CG as missing WARNING: atoms too close: (T0293)E180.CA and (T0293)E180.CG only 0.000 apart, marking (T0293)E180.CG as missing WARNING: atoms too close: (T0293)E180.N and (T0293)E180.CG only 0.000 apart, marking (T0293)E180.CG as missing WARNING: atoms too close: (T0293)A179.C and (T0293)E180.CG only 0.000 apart, marking (T0293)E180.CG as missing WARNING: atoms too close: (T0293)E180.CG and (T0293)E180.CD only 0.000 apart, marking (T0293)E180.CD as missing WARNING: atoms too close: (T0293)E180.CB and (T0293)E180.CD only 0.000 apart, marking (T0293)E180.CD as missing WARNING: atoms too close: (T0293)E180.CA and (T0293)E180.CD only 0.000 apart, marking (T0293)E180.CD as missing WARNING: atoms too close: (T0293)E180.N and (T0293)E180.CD only 0.000 apart, marking (T0293)E180.CD as missing WARNING: atoms too close: (T0293)A179.C and (T0293)E180.CD only 0.000 apart, marking (T0293)E180.CD as missing WARNING: atoms too close: (T0293)E180.CD and (T0293)E180.OE1 only 0.000 apart, marking (T0293)E180.OE1 as missing WARNING: atoms too close: (T0293)E180.CG and (T0293)E180.OE1 only 0.000 apart, marking (T0293)E180.OE1 as missing WARNING: atoms too close: (T0293)E180.CB and (T0293)E180.OE1 only 0.000 apart, marking (T0293)E180.OE1 as missing WARNING: atoms too close: (T0293)E180.CA and (T0293)E180.OE1 only 0.000 apart, marking (T0293)E180.OE1 as missing WARNING: atoms too close: (T0293)E180.N and (T0293)E180.OE1 only 0.000 apart, marking (T0293)E180.OE1 as missing WARNING: atoms too close: (T0293)A179.C and (T0293)E180.OE1 only 0.000 apart, marking (T0293)E180.OE1 as missing WARNING: atoms too close: (T0293)E180.OE1 and (T0293)E180.OE2 only 0.000 apart, marking (T0293)E180.OE2 as missing WARNING: atoms too close: (T0293)E180.CD and (T0293)E180.OE2 only 0.000 apart, marking (T0293)E180.OE2 as missing WARNING: atoms too close: (T0293)E180.CG and (T0293)E180.OE2 only 0.000 apart, marking (T0293)E180.OE2 as missing WARNING: atoms too close: (T0293)E180.CB and (T0293)E180.OE2 only 0.000 apart, marking (T0293)E180.OE2 as missing WARNING: atoms too close: (T0293)E180.CA and (T0293)E180.OE2 only 0.000 apart, marking (T0293)E180.OE2 as missing WARNING: atoms too close: (T0293)E180.N and (T0293)E180.OE2 only 0.000 apart, marking (T0293)E180.OE2 as missing WARNING: atoms too close: (T0293)A179.C and (T0293)E180.OE2 only 0.000 apart, marking (T0293)E180.OE2 as missing WARNING: atoms too close: (T0293)E180.OE2 and (T0293)E180.O only 0.000 apart, marking (T0293)E180.O as missing WARNING: atoms too close: (T0293)E180.OE1 and (T0293)E180.O only 0.000 apart, marking (T0293)E180.O as missing WARNING: atoms too close: (T0293)E180.CD and (T0293)E180.O only 0.000 apart, marking (T0293)E180.O as missing WARNING: atoms too close: (T0293)E180.CG and (T0293)E180.O only 0.000 apart, marking (T0293)E180.O as missing WARNING: atoms too close: (T0293)E180.CB and (T0293)E180.O only 0.000 apart, marking (T0293)E180.O as missing WARNING: atoms too close: (T0293)E180.CA and (T0293)E180.O only 0.000 apart, marking (T0293)E180.O as missing WARNING: atoms too close: (T0293)E180.N and (T0293)E180.O only 0.000 apart, marking (T0293)E180.O as missing WARNING: atoms too close: (T0293)A179.C and (T0293)E180.O only 0.000 apart, marking (T0293)E180.O as missing WARNING: atoms too close: (T0293)E180.O and (T0293)E180.C only 0.000 apart, marking (T0293)E180.C as missing WARNING: atoms too close: (T0293)E180.OE2 and (T0293)E180.C only 0.000 apart, marking (T0293)E180.C as missing WARNING: atoms too close: (T0293)E180.OE1 and (T0293)E180.C only 0.000 apart, marking (T0293)E180.C as missing WARNING: atoms too close: (T0293)E180.CD and (T0293)E180.C only 0.000 apart, marking (T0293)E180.C as missing WARNING: atoms too close: (T0293)E180.CG and (T0293)E180.C only 0.000 apart, marking (T0293)E180.C as missing WARNING: atoms too close: (T0293)E180.CB and (T0293)E180.C only 0.000 apart, marking (T0293)E180.C as missing WARNING: atoms too close: (T0293)E180.CA and (T0293)E180.C only 0.000 apart, marking (T0293)E180.C as missing WARNING: atoms too close: (T0293)E180.N and (T0293)E180.C only 0.000 apart, marking (T0293)E180.C as missing WARNING: atoms too close: (T0293)A179.C and (T0293)E180.C only 0.000 apart, marking (T0293)E180.C as missing # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_509377838.pdb -s /var/tmp/to_scwrl_509377838.seq -o /var/tmp/from_scwrl_509377838.pdb > /var/tmp/scwrl_509377838.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_509377838.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 T0293 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1964174066.pdb -s /var/tmp/to_scwrl_1964174066.seq -o /var/tmp/from_scwrl_1964174066.pdb > /var/tmp/scwrl_1964174066.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1964174066.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 T0293 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_257535706.pdb -s /var/tmp/to_scwrl_257535706.seq -o /var/tmp/from_scwrl_257535706.pdb > /var/tmp/scwrl_257535706.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_257535706.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 T0293 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_2092675388.pdb -s /var/tmp/to_scwrl_2092675388.seq -o /var/tmp/from_scwrl_2092675388.pdb > /var/tmp/scwrl_2092675388.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2092675388.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 T0293 can't currently be optimized by undertaker # naming current conformation Distill_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_206987908.pdb -s /var/tmp/to_scwrl_206987908.seq -o /var/tmp/from_scwrl_206987908.pdb > /var/tmp/scwrl_206987908.log Error: Couldn't open file /var/tmp/from_scwrl_206987908.pdb or /var/tmp/from_scwrl_206987908.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_206987908_b.pdb or decoys//var/tmp/from_scwrl_206987908_b.pdb.gz for input Trying /var/tmp/from_scwrl_206987908_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_206987908_b.pdb or /var/tmp/from_scwrl_206987908_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_206987908_a.pdb or decoys//var/tmp/from_scwrl_206987908_a.pdb.gz for input Trying /var/tmp/from_scwrl_206987908_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_206987908_a.pdb or /var/tmp/from_scwrl_206987908_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_206987908.pdb or /var/tmp/from_scwrl_206987908_b.pdb or /var/tmp/from_scwrl_206987908_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 T0293 can't currently be optimized by undertaker # naming current conformation Distill_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_318572617.pdb -s /var/tmp/to_scwrl_318572617.seq -o /var/tmp/from_scwrl_318572617.pdb > /var/tmp/scwrl_318572617.log Error: Couldn't open file /var/tmp/from_scwrl_318572617.pdb or /var/tmp/from_scwrl_318572617.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_318572617_b.pdb or decoys//var/tmp/from_scwrl_318572617_b.pdb.gz for input Trying /var/tmp/from_scwrl_318572617_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_318572617_b.pdb or /var/tmp/from_scwrl_318572617_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_318572617_a.pdb or decoys//var/tmp/from_scwrl_318572617_a.pdb.gz for input Trying /var/tmp/from_scwrl_318572617_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_318572617_a.pdb or /var/tmp/from_scwrl_318572617_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_318572617.pdb or /var/tmp/from_scwrl_318572617_b.pdb or /var/tmp/from_scwrl_318572617_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 T0293 can't currently be optimized by undertaker # naming current conformation Distill_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_605517264.pdb -s /var/tmp/to_scwrl_605517264.seq -o /var/tmp/from_scwrl_605517264.pdb > /var/tmp/scwrl_605517264.log Error: Couldn't open file /var/tmp/from_scwrl_605517264.pdb or /var/tmp/from_scwrl_605517264.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_605517264_b.pdb or decoys//var/tmp/from_scwrl_605517264_b.pdb.gz for input Trying /var/tmp/from_scwrl_605517264_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_605517264_b.pdb or /var/tmp/from_scwrl_605517264_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_605517264_a.pdb or decoys//var/tmp/from_scwrl_605517264_a.pdb.gz for input Trying /var/tmp/from_scwrl_605517264_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_605517264_a.pdb or /var/tmp/from_scwrl_605517264_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_605517264.pdb or /var/tmp/from_scwrl_605517264_b.pdb or /var/tmp/from_scwrl_605517264_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 T0293 can't currently be optimized by undertaker # naming current conformation Distill_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1750021302.pdb -s /var/tmp/to_scwrl_1750021302.seq -o /var/tmp/from_scwrl_1750021302.pdb > /var/tmp/scwrl_1750021302.log Error: Couldn't open file /var/tmp/from_scwrl_1750021302.pdb or /var/tmp/from_scwrl_1750021302.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_1750021302_b.pdb or decoys//var/tmp/from_scwrl_1750021302_b.pdb.gz for input Trying /var/tmp/from_scwrl_1750021302_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_1750021302_b.pdb or /var/tmp/from_scwrl_1750021302_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_1750021302_a.pdb or decoys//var/tmp/from_scwrl_1750021302_a.pdb.gz for input Trying /var/tmp/from_scwrl_1750021302_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_1750021302_a.pdb or /var/tmp/from_scwrl_1750021302_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_1750021302.pdb or /var/tmp/from_scwrl_1750021302_b.pdb or /var/tmp/from_scwrl_1750021302_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 T0293 can't currently be optimized by undertaker # naming current conformation Distill_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_14307258.pdb -s /var/tmp/to_scwrl_14307258.seq -o /var/tmp/from_scwrl_14307258.pdb > /var/tmp/scwrl_14307258.log Error: Couldn't open file /var/tmp/from_scwrl_14307258.pdb or /var/tmp/from_scwrl_14307258.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_14307258_b.pdb or decoys//var/tmp/from_scwrl_14307258_b.pdb.gz for input Trying /var/tmp/from_scwrl_14307258_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_14307258_b.pdb or /var/tmp/from_scwrl_14307258_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_14307258_a.pdb or decoys//var/tmp/from_scwrl_14307258_a.pdb.gz for input Trying /var/tmp/from_scwrl_14307258_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_14307258_a.pdb or /var/tmp/from_scwrl_14307258_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_14307258.pdb or /var/tmp/from_scwrl_14307258_b.pdb or /var/tmp/from_scwrl_14307258_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 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FAMSD_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_701353770.pdb -s /var/tmp/to_scwrl_701353770.seq -o /var/tmp/from_scwrl_701353770.pdb > /var/tmp/scwrl_701353770.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_701353770.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 T0293 can't currently be optimized by undertaker # naming current conformation FAMSD_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1441385626.pdb -s /var/tmp/to_scwrl_1441385626.seq -o /var/tmp/from_scwrl_1441385626.pdb > /var/tmp/scwrl_1441385626.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1441385626.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 # Found a chain break before 249 # copying to AlignedFragments data structure # naming current conformation FAMSD_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1684008856.pdb -s /var/tmp/to_scwrl_1684008856.seq -o /var/tmp/from_scwrl_1684008856.pdb > /var/tmp/scwrl_1684008856.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1684008856.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 T0293 can't currently be optimized by undertaker # naming current conformation FAMSD_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_421577796.pdb -s /var/tmp/to_scwrl_421577796.seq -o /var/tmp/from_scwrl_421577796.pdb > /var/tmp/scwrl_421577796.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_421577796.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 T0293 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FAMSD_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_857274874.pdb -s /var/tmp/to_scwrl_857274874.seq -o /var/tmp/from_scwrl_857274874.pdb > /var/tmp/scwrl_857274874.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_857274874.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 249 # copying to AlignedFragments data structure # naming current conformation FAMS_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_256910302.pdb -s /var/tmp/to_scwrl_256910302.seq -o /var/tmp/from_scwrl_256910302.pdb > /var/tmp/scwrl_256910302.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_256910302.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 # Found a chain break before 249 # copying to AlignedFragments data structure # naming current conformation FAMS_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_695990031.pdb -s /var/tmp/to_scwrl_695990031.seq -o /var/tmp/from_scwrl_695990031.pdb > /var/tmp/scwrl_695990031.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_695990031.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 T0293 can't currently be optimized by undertaker # naming current conformation FAMS_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1628534562.pdb -s /var/tmp/to_scwrl_1628534562.seq -o /var/tmp/from_scwrl_1628534562.pdb > /var/tmp/scwrl_1628534562.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1628534562.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 T0293 can't currently be optimized by undertaker # naming current conformation FAMS_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1814459710.pdb -s /var/tmp/to_scwrl_1814459710.seq -o /var/tmp/from_scwrl_1814459710.pdb > /var/tmp/scwrl_1814459710.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1814459710.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 249 # copying to AlignedFragments data structure # naming current conformation FAMS_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1812556759.pdb -s /var/tmp/to_scwrl_1812556759.seq -o /var/tmp/from_scwrl_1812556759.pdb > /var/tmp/scwrl_1812556759.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1812556759.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 # Found a chain break before 184 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_2027266822.pdb -s /var/tmp/to_scwrl_2027266822.seq -o /var/tmp/from_scwrl_2027266822.pdb > /var/tmp/scwrl_2027266822.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2027266822.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 233 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_693164603.pdb -s /var/tmp/to_scwrl_693164603.seq -o /var/tmp/from_scwrl_693164603.pdb > /var/tmp/scwrl_693164603.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_693164603.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 249 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_2098798672.pdb -s /var/tmp/to_scwrl_2098798672.seq -o /var/tmp/from_scwrl_2098798672.pdb > /var/tmp/scwrl_2098798672.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2098798672.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 193 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_53469529.pdb -s /var/tmp/to_scwrl_53469529.seq -o /var/tmp/from_scwrl_53469529.pdb > /var/tmp/scwrl_53469529.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_53469529.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 # Found a chain break before 245 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_19668197.pdb -s /var/tmp/to_scwrl_19668197.seq -o /var/tmp/from_scwrl_19668197.pdb > /var/tmp/scwrl_19668197.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_19668197.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 T0293 can't currently be optimized by undertaker # naming current conformation FORTE1_AL1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1289088604.pdb -s /var/tmp/to_scwrl_1289088604.seq -o /var/tmp/from_scwrl_1289088604.pdb > /var/tmp/scwrl_1289088604.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1289088604.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 T0293 can't currently be optimized by undertaker # naming current conformation FORTE1_AL2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_43063654.pdb -s /var/tmp/to_scwrl_43063654.seq -o /var/tmp/from_scwrl_43063654.pdb > /var/tmp/scwrl_43063654.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_43063654.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 T0293 can't currently be optimized by undertaker # naming current conformation FORTE1_AL3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1747308501.pdb -s /var/tmp/to_scwrl_1747308501.seq -o /var/tmp/from_scwrl_1747308501.pdb > /var/tmp/scwrl_1747308501.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1747308501.pdb # conformation set from SCWRL output # naming current conformation FORTE1_AL3-scwrl # ReadConformPDB reading from PDB file servers/FORTE1_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation FORTE1_AL4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_955609284.pdb -s /var/tmp/to_scwrl_955609284.seq -o /var/tmp/from_scwrl_955609284.pdb > /var/tmp/scwrl_955609284.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_955609284.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 T0293 can't currently be optimized by undertaker # naming current conformation FORTE1_AL5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1583385142.pdb -s /var/tmp/to_scwrl_1583385142.seq -o /var/tmp/from_scwrl_1583385142.pdb > /var/tmp/scwrl_1583385142.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1583385142.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 T0293 can't currently be optimized by undertaker # naming current conformation FORTE2_AL1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1897676419.pdb -s /var/tmp/to_scwrl_1897676419.seq -o /var/tmp/from_scwrl_1897676419.pdb > /var/tmp/scwrl_1897676419.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1897676419.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 T0293 can't currently be optimized by undertaker # naming current conformation FORTE2_AL2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1076152368.pdb -s /var/tmp/to_scwrl_1076152368.seq -o /var/tmp/from_scwrl_1076152368.pdb > /var/tmp/scwrl_1076152368.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1076152368.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 T0293 can't currently be optimized by undertaker # naming current conformation FORTE2_AL3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_2092762980.pdb -s /var/tmp/to_scwrl_2092762980.seq -o /var/tmp/from_scwrl_2092762980.pdb > /var/tmp/scwrl_2092762980.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2092762980.pdb # conformation set from SCWRL output # naming current conformation FORTE2_AL3-scwrl # ReadConformPDB reading from PDB file servers/FORTE2_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation FORTE2_AL4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1714366839.pdb -s /var/tmp/to_scwrl_1714366839.seq -o /var/tmp/from_scwrl_1714366839.pdb > /var/tmp/scwrl_1714366839.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1714366839.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 T0293 can't currently be optimized by undertaker # naming current conformation FORTE2_AL5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1333688074.pdb -s /var/tmp/to_scwrl_1333688074.seq -o /var/tmp/from_scwrl_1333688074.pdb > /var/tmp/scwrl_1333688074.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1333688074.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 249 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_2037954721.pdb -s /var/tmp/to_scwrl_2037954721.seq -o /var/tmp/from_scwrl_2037954721.pdb > /var/tmp/scwrl_2037954721.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2037954721.pdb # conformation set from SCWRL output # naming current conformation FPSOLVER-SERVER_TS1-scwrl # ReadConformPDB reading from PDB file servers/FUGMOD_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation FUGMOD_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1921354747.pdb -s /var/tmp/to_scwrl_1921354747.seq -o /var/tmp/from_scwrl_1921354747.pdb > /var/tmp/scwrl_1921354747.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1921354747.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 # Found a chain break before 227 # copying to AlignedFragments data structure # naming current conformation FUGMOD_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1652260691.pdb -s /var/tmp/to_scwrl_1652260691.seq -o /var/tmp/from_scwrl_1652260691.pdb > /var/tmp/scwrl_1652260691.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1652260691.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 # Found a chain break before 240 # copying to AlignedFragments data structure # naming current conformation FUGMOD_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_495988338.pdb -s /var/tmp/to_scwrl_495988338.seq -o /var/tmp/from_scwrl_495988338.pdb > /var/tmp/scwrl_495988338.log sh: line 1: 2446 Killed scwrl3 -i /var/tmp/to_scwrl_495988338.pdb -s /var/tmp/to_scwrl_495988338.seq -o /var/tmp/from_scwrl_495988338.pdb >/var/tmp/scwrl_495988338.log Error: Couldn't open file /var/tmp/from_scwrl_495988338.pdb or /var/tmp/from_scwrl_495988338.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_495988338_b.pdb or decoys//var/tmp/from_scwrl_495988338_b.pdb.gz for input Trying /var/tmp/from_scwrl_495988338_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_495988338_b.pdb or /var/tmp/from_scwrl_495988338_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_495988338_a.pdb or decoys//var/tmp/from_scwrl_495988338_a.pdb.gz for input Trying /var/tmp/from_scwrl_495988338_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_495988338_a.pdb or /var/tmp/from_scwrl_495988338_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_495988338.pdb or /var/tmp/from_scwrl_495988338_b.pdb or /var/tmp/from_scwrl_495988338_a.pdb Error: no new SCWRL conformation added # 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 245 # copying to AlignedFragments data structure # naming current conformation FUGMOD_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1523892402.pdb -s /var/tmp/to_scwrl_1523892402.seq -o /var/tmp/from_scwrl_1523892402.pdb > /var/tmp/scwrl_1523892402.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1523892402.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 T0293 can't currently be optimized by undertaker # naming current conformation FUGMOD_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1666567949.pdb -s /var/tmp/to_scwrl_1666567949.seq -o /var/tmp/from_scwrl_1666567949.pdb > /var/tmp/scwrl_1666567949.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1666567949.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 T0293 can't currently be optimized by undertaker # naming current conformation FUGUE_AL1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1197342108.pdb -s /var/tmp/to_scwrl_1197342108.seq -o /var/tmp/from_scwrl_1197342108.pdb > /var/tmp/scwrl_1197342108.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1197342108.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 T0293 can't currently be optimized by undertaker # naming current conformation FUGUE_AL2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_817794383.pdb -s /var/tmp/to_scwrl_817794383.seq -o /var/tmp/from_scwrl_817794383.pdb > /var/tmp/scwrl_817794383.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_817794383.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 T0293 can't currently be optimized by undertaker # naming current conformation FUGUE_AL3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1203093159.pdb -s /var/tmp/to_scwrl_1203093159.seq -o /var/tmp/from_scwrl_1203093159.pdb > /var/tmp/scwrl_1203093159.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1203093159.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 T0293 can't currently be optimized by undertaker # naming current conformation FUGUE_AL4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1618919904.pdb -s /var/tmp/to_scwrl_1618919904.seq -o /var/tmp/from_scwrl_1618919904.pdb > /var/tmp/scwrl_1618919904.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1618919904.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 T0293 can't currently be optimized by undertaker # naming current conformation FUGUE_AL5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1675069256.pdb -s /var/tmp/to_scwrl_1675069256.seq -o /var/tmp/from_scwrl_1675069256.pdb > /var/tmp/scwrl_1675069256.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1675069256.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 249 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1460003461.pdb -s /var/tmp/to_scwrl_1460003461.seq -o /var/tmp/from_scwrl_1460003461.pdb > /var/tmp/scwrl_1460003461.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1460003461.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 249 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_167426288.pdb -s /var/tmp/to_scwrl_167426288.seq -o /var/tmp/from_scwrl_167426288.pdb > /var/tmp/scwrl_167426288.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_167426288.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 249 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1156120171.pdb -s /var/tmp/to_scwrl_1156120171.seq -o /var/tmp/from_scwrl_1156120171.pdb > /var/tmp/scwrl_1156120171.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1156120171.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 249 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1126979524.pdb -s /var/tmp/to_scwrl_1126979524.seq -o /var/tmp/from_scwrl_1126979524.pdb > /var/tmp/scwrl_1126979524.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1126979524.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 249 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1979983047.pdb -s /var/tmp/to_scwrl_1979983047.seq -o /var/tmp/from_scwrl_1979983047.pdb > /var/tmp/scwrl_1979983047.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1979983047.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 239 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1035903347.pdb -s /var/tmp/to_scwrl_1035903347.seq -o /var/tmp/from_scwrl_1035903347.pdb > /var/tmp/scwrl_1035903347.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1035903347.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 # Found a chain break before 211 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1820144127.pdb -s /var/tmp/to_scwrl_1820144127.seq -o /var/tmp/from_scwrl_1820144127.pdb > /var/tmp/scwrl_1820144127.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1820144127.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 244 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1931298072.pdb -s /var/tmp/to_scwrl_1931298072.seq -o /var/tmp/from_scwrl_1931298072.pdb > /var/tmp/scwrl_1931298072.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1931298072.pdb # conformation set from SCWRL output # naming current conformation GeneSilicoMetaServer_TS3-scwrl # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS5.pdb.gz looking for model 1 # Found a chain break before 240 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1089372875.pdb -s /var/tmp/to_scwrl_1089372875.seq -o /var/tmp/from_scwrl_1089372875.pdb > /var/tmp/scwrl_1089372875.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1089372875.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 # Found a chain break before 184 # copying to AlignedFragments data structure # naming current conformation HHpred1_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1839812324.pdb -s /var/tmp/to_scwrl_1839812324.seq -o /var/tmp/from_scwrl_1839812324.pdb > /var/tmp/scwrl_1839812324.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1839812324.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 177 # copying to AlignedFragments data structure # naming current conformation HHpred2_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1072903030.pdb -s /var/tmp/to_scwrl_1072903030.seq -o /var/tmp/from_scwrl_1072903030.pdb > /var/tmp/scwrl_1072903030.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1072903030.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 # Found a chain break before 243 # copying to AlignedFragments data structure # naming current conformation HHpred3_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1132436529.pdb -s /var/tmp/to_scwrl_1132436529.seq -o /var/tmp/from_scwrl_1132436529.pdb > /var/tmp/scwrl_1132436529.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1132436529.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 T0293 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1439637179.pdb -s /var/tmp/to_scwrl_1439637179.seq -o /var/tmp/from_scwrl_1439637179.pdb > /var/tmp/scwrl_1439637179.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1439637179.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 T0293 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_2028512314.pdb -s /var/tmp/to_scwrl_2028512314.seq -o /var/tmp/from_scwrl_2028512314.pdb > /var/tmp/scwrl_2028512314.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2028512314.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 T0293 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_568338025.pdb -s /var/tmp/to_scwrl_568338025.seq -o /var/tmp/from_scwrl_568338025.pdb > /var/tmp/scwrl_568338025.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_568338025.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 T0293 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1189829951.pdb -s /var/tmp/to_scwrl_1189829951.seq -o /var/tmp/from_scwrl_1189829951.pdb > /var/tmp/scwrl_1189829951.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1189829951.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 T0293 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_957181036.pdb -s /var/tmp/to_scwrl_957181036.seq -o /var/tmp/from_scwrl_957181036.pdb > /var/tmp/scwrl_957181036.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_957181036.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 T0293 can't currently be optimized by undertaker # naming current conformation LOOPP_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_513617358.pdb -s /var/tmp/to_scwrl_513617358.seq -o /var/tmp/from_scwrl_513617358.pdb > /var/tmp/scwrl_513617358.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_513617358.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 T0293 can't currently be optimized by undertaker # naming current conformation LOOPP_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_756713144.pdb -s /var/tmp/to_scwrl_756713144.seq -o /var/tmp/from_scwrl_756713144.pdb > /var/tmp/scwrl_756713144.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_756713144.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 T0293 can't currently be optimized by undertaker # naming current conformation LOOPP_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_143385463.pdb -s /var/tmp/to_scwrl_143385463.seq -o /var/tmp/from_scwrl_143385463.pdb > /var/tmp/scwrl_143385463.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_143385463.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 T0293 can't currently be optimized by undertaker # naming current conformation LOOPP_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_404088433.pdb -s /var/tmp/to_scwrl_404088433.seq -o /var/tmp/from_scwrl_404088433.pdb > /var/tmp/scwrl_404088433.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_404088433.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 T0293 can't currently be optimized by undertaker # naming current conformation LOOPP_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_530584245.pdb -s /var/tmp/to_scwrl_530584245.seq -o /var/tmp/from_scwrl_530584245.pdb > /var/tmp/scwrl_530584245.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_530584245.pdb # conformation set from SCWRL output # naming current conformation LOOPP_TS5-scwrl # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS1.pdb.gz looking for model 1 # Found a chain break before 245 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1795646154.pdb -s /var/tmp/to_scwrl_1795646154.seq -o /var/tmp/from_scwrl_1795646154.pdb > /var/tmp/scwrl_1795646154.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1795646154.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 # Found a chain break before 244 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_900076771.pdb -s /var/tmp/to_scwrl_900076771.seq -o /var/tmp/from_scwrl_900076771.pdb > /var/tmp/scwrl_900076771.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_900076771.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 191 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_2054476647.pdb -s /var/tmp/to_scwrl_2054476647.seq -o /var/tmp/from_scwrl_2054476647.pdb > /var/tmp/scwrl_2054476647.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2054476647.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 247 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1314730457.pdb -s /var/tmp/to_scwrl_1314730457.seq -o /var/tmp/from_scwrl_1314730457.pdb > /var/tmp/scwrl_1314730457.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1314730457.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 # Found a chain break before 247 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_2097418879.pdb -s /var/tmp/to_scwrl_2097418879.seq -o /var/tmp/from_scwrl_2097418879.pdb > /var/tmp/scwrl_2097418879.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2097418879.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 249 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_724787383.pdb -s /var/tmp/to_scwrl_724787383.seq -o /var/tmp/from_scwrl_724787383.pdb > /var/tmp/scwrl_724787383.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_724787383.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 248 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_370339970.pdb -s /var/tmp/to_scwrl_370339970.seq -o /var/tmp/from_scwrl_370339970.pdb > /var/tmp/scwrl_370339970.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_370339970.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 246 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1568855136.pdb -s /var/tmp/to_scwrl_1568855136.seq -o /var/tmp/from_scwrl_1568855136.pdb > /var/tmp/scwrl_1568855136.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1568855136.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 249 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_252372992.pdb -s /var/tmp/to_scwrl_252372992.seq -o /var/tmp/from_scwrl_252372992.pdb > /var/tmp/scwrl_252372992.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_252372992.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 248 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1830343431.pdb -s /var/tmp/to_scwrl_1830343431.seq -o /var/tmp/from_scwrl_1830343431.pdb > /var/tmp/scwrl_1830343431.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1830343431.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 T0293 can't currently be optimized by undertaker # naming current conformation NN_PUT_lab_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1736281424.pdb -s /var/tmp/to_scwrl_1736281424.seq -o /var/tmp/from_scwrl_1736281424.pdb > /var/tmp/scwrl_1736281424.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1736281424.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 247 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1408493164.pdb -s /var/tmp/to_scwrl_1408493164.seq -o /var/tmp/from_scwrl_1408493164.pdb > /var/tmp/scwrl_1408493164.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1408493164.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 247 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_809839309.pdb -s /var/tmp/to_scwrl_809839309.seq -o /var/tmp/from_scwrl_809839309.pdb > /var/tmp/scwrl_809839309.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_809839309.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 244 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1568780825.pdb -s /var/tmp/to_scwrl_1568780825.seq -o /var/tmp/from_scwrl_1568780825.pdb > /var/tmp/scwrl_1568780825.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1568780825.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 248 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_296912864.pdb -s /var/tmp/to_scwrl_296912864.seq -o /var/tmp/from_scwrl_296912864.pdb > /var/tmp/scwrl_296912864.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_296912864.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 247 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_482499790.pdb -s /var/tmp/to_scwrl_482499790.seq -o /var/tmp/from_scwrl_482499790.pdb > /var/tmp/scwrl_482499790.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_482499790.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 225 ; scwrl3 -i /var/tmp/to_scwrl_1352595250.pdb -s /var/tmp/to_scwrl_1352595250.seq -o /var/tmp/from_scwrl_1352595250.pdb > /var/tmp/scwrl_1352595250.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1352595250.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 225 ; scwrl3 -i /var/tmp/to_scwrl_1386285740.pdb -s /var/tmp/to_scwrl_1386285740.seq -o /var/tmp/from_scwrl_1386285740.pdb > /var/tmp/scwrl_1386285740.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1386285740.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 # naming current conformation PROTINFO-AB_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_174828467.pdb -s /var/tmp/to_scwrl_174828467.seq -o /var/tmp/from_scwrl_174828467.pdb > /var/tmp/scwrl_174828467.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_174828467.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 # naming current conformation PROTINFO-AB_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_278014634.pdb -s /var/tmp/to_scwrl_278014634.seq -o /var/tmp/from_scwrl_278014634.pdb > /var/tmp/scwrl_278014634.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_278014634.pdb # conformation set from SCWRL output # naming current conformation PROTINFO-AB_TS4-scwrl # ReadConformPDB reading from PDB file servers/PROTINFO_TS1.pdb.gz looking for model 1 # Found a chain break before 245 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_371238623.pdb -s /var/tmp/to_scwrl_371238623.seq -o /var/tmp/from_scwrl_371238623.pdb > /var/tmp/scwrl_371238623.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_371238623.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 245 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1614465646.pdb -s /var/tmp/to_scwrl_1614465646.seq -o /var/tmp/from_scwrl_1614465646.pdb > /var/tmp/scwrl_1614465646.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1614465646.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 233 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_159043301.pdb -s /var/tmp/to_scwrl_159043301.seq -o /var/tmp/from_scwrl_159043301.pdb > /var/tmp/scwrl_159043301.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_159043301.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 # Found a chain break before 245 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_939576649.pdb -s /var/tmp/to_scwrl_939576649.seq -o /var/tmp/from_scwrl_939576649.pdb > /var/tmp/scwrl_939576649.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_939576649.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 # Found a chain break before 235 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_656811952.pdb -s /var/tmp/to_scwrl_656811952.seq -o /var/tmp/from_scwrl_656811952.pdb > /var/tmp/scwrl_656811952.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_656811952.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 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation Pcons6_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1116224336.pdb -s /var/tmp/to_scwrl_1116224336.seq -o /var/tmp/from_scwrl_1116224336.pdb > /var/tmp/scwrl_1116224336.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1116224336.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 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation Pcons6_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1453194006.pdb -s /var/tmp/to_scwrl_1453194006.seq -o /var/tmp/from_scwrl_1453194006.pdb > /var/tmp/scwrl_1453194006.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1453194006.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 T0293 can't currently be optimized by undertaker # naming current conformation Pcons6_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1413525095.pdb -s /var/tmp/to_scwrl_1413525095.seq -o /var/tmp/from_scwrl_1413525095.pdb > /var/tmp/scwrl_1413525095.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1413525095.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 T0293 can't currently be optimized by undertaker # naming current conformation Pcons6_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1259609799.pdb -s /var/tmp/to_scwrl_1259609799.seq -o /var/tmp/from_scwrl_1259609799.pdb > /var/tmp/scwrl_1259609799.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1259609799.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 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation Pcons6_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1857282439.pdb -s /var/tmp/to_scwrl_1857282439.seq -o /var/tmp/from_scwrl_1857282439.pdb > /var/tmp/scwrl_1857282439.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1857282439.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 T0293 can't currently be optimized by undertaker # naming current conformation Phyre-1_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1944109340.pdb -s /var/tmp/to_scwrl_1944109340.seq -o /var/tmp/from_scwrl_1944109340.pdb > /var/tmp/scwrl_1944109340.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1944109340.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 T0293 can't currently be optimized by undertaker # naming current conformation Phyre-2_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_907772307.pdb -s /var/tmp/to_scwrl_907772307.seq -o /var/tmp/from_scwrl_907772307.pdb > /var/tmp/scwrl_907772307.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_907772307.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 T0293 can't currently be optimized by undertaker # naming current conformation Phyre-2_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_609875564.pdb -s /var/tmp/to_scwrl_609875564.seq -o /var/tmp/from_scwrl_609875564.pdb > /var/tmp/scwrl_609875564.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_609875564.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 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation Phyre-2_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1851102341.pdb -s /var/tmp/to_scwrl_1851102341.seq -o /var/tmp/from_scwrl_1851102341.pdb > /var/tmp/scwrl_1851102341.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1851102341.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 T0293 can't currently be optimized by undertaker # naming current conformation Phyre-2_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_75019117.pdb -s /var/tmp/to_scwrl_75019117.seq -o /var/tmp/from_scwrl_75019117.pdb > /var/tmp/scwrl_75019117.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_75019117.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 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation Phyre-2_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_559810796.pdb -s /var/tmp/to_scwrl_559810796.seq -o /var/tmp/from_scwrl_559810796.pdb > /var/tmp/scwrl_559810796.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_559810796.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 # Found a chain break before 212 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_428406077.pdb -s /var/tmp/to_scwrl_428406077.seq -o /var/tmp/from_scwrl_428406077.pdb > /var/tmp/scwrl_428406077.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_428406077.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 T0293 can't currently be optimized by undertaker # naming current conformation Pmodeller6_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_445359087.pdb -s /var/tmp/to_scwrl_445359087.seq -o /var/tmp/from_scwrl_445359087.pdb > /var/tmp/scwrl_445359087.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_445359087.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 T0293 can't currently be optimized by undertaker # naming current conformation Pmodeller6_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_2128665933.pdb -s /var/tmp/to_scwrl_2128665933.seq -o /var/tmp/from_scwrl_2128665933.pdb > /var/tmp/scwrl_2128665933.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2128665933.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 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation Pmodeller6_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_680779070.pdb -s /var/tmp/to_scwrl_680779070.seq -o /var/tmp/from_scwrl_680779070.pdb > /var/tmp/scwrl_680779070.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_680779070.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 T0293 can't currently be optimized by undertaker # naming current conformation Pmodeller6_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_128218871.pdb -s /var/tmp/to_scwrl_128218871.seq -o /var/tmp/from_scwrl_128218871.pdb > /var/tmp/scwrl_128218871.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_128218871.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 246 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1717463710.pdb -s /var/tmp/to_scwrl_1717463710.seq -o /var/tmp/from_scwrl_1717463710.pdb > /var/tmp/scwrl_1717463710.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1717463710.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 240 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_2089272234.pdb -s /var/tmp/to_scwrl_2089272234.seq -o /var/tmp/from_scwrl_2089272234.pdb > /var/tmp/scwrl_2089272234.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2089272234.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 # Found a chain break before 241 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_938058181.pdb -s /var/tmp/to_scwrl_938058181.seq -o /var/tmp/from_scwrl_938058181.pdb > /var/tmp/scwrl_938058181.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_938058181.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 237 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1138760888.pdb -s /var/tmp/to_scwrl_1138760888.seq -o /var/tmp/from_scwrl_1138760888.pdb > /var/tmp/scwrl_1138760888.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1138760888.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 241 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_238701451.pdb -s /var/tmp/to_scwrl_238701451.seq -o /var/tmp/from_scwrl_238701451.pdb > /var/tmp/scwrl_238701451.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_238701451.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 227 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1420557970.pdb -s /var/tmp/to_scwrl_1420557970.seq -o /var/tmp/from_scwrl_1420557970.pdb > /var/tmp/scwrl_1420557970.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1420557970.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 248 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_343872493.pdb -s /var/tmp/to_scwrl_343872493.seq -o /var/tmp/from_scwrl_343872493.pdb > /var/tmp/scwrl_343872493.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_343872493.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 226 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1624987191.pdb -s /var/tmp/to_scwrl_1624987191.seq -o /var/tmp/from_scwrl_1624987191.pdb > /var/tmp/scwrl_1624987191.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1624987191.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 # Found a chain break before 245 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1595386437.pdb -s /var/tmp/to_scwrl_1595386437.seq -o /var/tmp/from_scwrl_1595386437.pdb > /var/tmp/scwrl_1595386437.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1595386437.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 247 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_621887127.pdb -s /var/tmp/to_scwrl_621887127.seq -o /var/tmp/from_scwrl_621887127.pdb > /var/tmp/scwrl_621887127.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_621887127.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 237 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1996225815.pdb -s /var/tmp/to_scwrl_1996225815.seq -o /var/tmp/from_scwrl_1996225815.pdb > /var/tmp/scwrl_1996225815.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1996225815.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 247 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1062368438.pdb -s /var/tmp/to_scwrl_1062368438.seq -o /var/tmp/from_scwrl_1062368438.pdb > /var/tmp/scwrl_1062368438.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1062368438.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 249 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_780930428.pdb -s /var/tmp/to_scwrl_780930428.seq -o /var/tmp/from_scwrl_780930428.pdb > /var/tmp/scwrl_780930428.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_780930428.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 # Found a chain break before 190 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_788318817.pdb -s /var/tmp/to_scwrl_788318817.seq -o /var/tmp/from_scwrl_788318817.pdb > /var/tmp/scwrl_788318817.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_788318817.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 227 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1719180389.pdb -s /var/tmp/to_scwrl_1719180389.seq -o /var/tmp/from_scwrl_1719180389.pdb > /var/tmp/scwrl_1719180389.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1719180389.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 # Found a chain break before 226 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1897154764.pdb -s /var/tmp/to_scwrl_1897154764.seq -o /var/tmp/from_scwrl_1897154764.pdb > /var/tmp/scwrl_1897154764.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1897154764.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 239 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_94029176.pdb -s /var/tmp/to_scwrl_94029176.seq -o /var/tmp/from_scwrl_94029176.pdb > /var/tmp/scwrl_94029176.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_94029176.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 # Found a chain break before 233 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_985221838.pdb -s /var/tmp/to_scwrl_985221838.seq -o /var/tmp/from_scwrl_985221838.pdb > /var/tmp/scwrl_985221838.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_985221838.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 212 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1009280917.pdb -s /var/tmp/to_scwrl_1009280917.seq -o /var/tmp/from_scwrl_1009280917.pdb > /var/tmp/scwrl_1009280917.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1009280917.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 # Found a chain break before 230 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1951311616.pdb -s /var/tmp/to_scwrl_1951311616.seq -o /var/tmp/from_scwrl_1951311616.pdb > /var/tmp/scwrl_1951311616.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1951311616.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 # Found a chain break before 246 # copying to AlignedFragments data structure # naming current conformation ROKKY_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_781847532.pdb -s /var/tmp/to_scwrl_781847532.seq -o /var/tmp/from_scwrl_781847532.pdb > /var/tmp/scwrl_781847532.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_781847532.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 # Found a chain break before 240 # copying to AlignedFragments data structure # naming current conformation ROKKY_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1917053223.pdb -s /var/tmp/to_scwrl_1917053223.seq -o /var/tmp/from_scwrl_1917053223.pdb > /var/tmp/scwrl_1917053223.log sh: line 1: 2723 Killed scwrl3 -i /var/tmp/to_scwrl_1917053223.pdb -s /var/tmp/to_scwrl_1917053223.seq -o /var/tmp/from_scwrl_1917053223.pdb >/var/tmp/scwrl_1917053223.log Error: Couldn't open file /var/tmp/from_scwrl_1917053223.pdb or /var/tmp/from_scwrl_1917053223.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_1917053223_b.pdb or decoys//var/tmp/from_scwrl_1917053223_b.pdb.gz for input Trying /var/tmp/from_scwrl_1917053223_b.pdb Error: Couldn't open file /var/tmp/from_scwrl_1917053223_b.pdb or /var/tmp/from_scwrl_1917053223_b.pdb.gz for input Warning: Couldn't open file decoys//var/tmp/from_scwrl_1917053223_a.pdb or decoys//var/tmp/from_scwrl_1917053223_a.pdb.gz for input Trying /var/tmp/from_scwrl_1917053223_a.pdb Error: Couldn't open file /var/tmp/from_scwrl_1917053223_a.pdb or /var/tmp/from_scwrl_1917053223_a.pdb.gz for input Error: can't open any of /var/tmp/from_scwrl_1917053223.pdb or /var/tmp/from_scwrl_1917053223_b.pdb or /var/tmp/from_scwrl_1917053223_a.pdb Error: no new SCWRL conformation added # naming current conformation ROKKY_TS2-scwrl # ReadConformPDB reading from PDB file servers/ROKKY_TS3.pdb.gz looking for model 1 # Found a chain break before 246 # copying to AlignedFragments data structure # naming current conformation ROKKY_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_413703533.pdb -s /var/tmp/to_scwrl_413703533.seq -o /var/tmp/from_scwrl_413703533.pdb > /var/tmp/scwrl_413703533.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_413703533.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 # Found a chain break before 245 # copying to AlignedFragments data structure # naming current conformation ROKKY_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_485466226.pdb -s /var/tmp/to_scwrl_485466226.seq -o /var/tmp/from_scwrl_485466226.pdb > /var/tmp/scwrl_485466226.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_485466226.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 # Found a chain break before 245 # copying to AlignedFragments data structure # naming current conformation ROKKY_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1992072341.pdb -s /var/tmp/to_scwrl_1992072341.seq -o /var/tmp/from_scwrl_1992072341.pdb > /var/tmp/scwrl_1992072341.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1992072341.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 T0293 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_973514329.pdb -s /var/tmp/to_scwrl_973514329.seq -o /var/tmp/from_scwrl_973514329.pdb > /var/tmp/scwrl_973514329.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_973514329.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 T0293 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_913872303.pdb -s /var/tmp/to_scwrl_913872303.seq -o /var/tmp/from_scwrl_913872303.pdb > /var/tmp/scwrl_913872303.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_913872303.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 T0293 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_289947781.pdb -s /var/tmp/to_scwrl_289947781.seq -o /var/tmp/from_scwrl_289947781.pdb > /var/tmp/scwrl_289947781.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_289947781.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 T0293 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_954696615.pdb -s /var/tmp/to_scwrl_954696615.seq -o /var/tmp/from_scwrl_954696615.pdb > /var/tmp/scwrl_954696615.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_954696615.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 T0293 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1594651372.pdb -s /var/tmp/to_scwrl_1594651372.seq -o /var/tmp/from_scwrl_1594651372.pdb > /var/tmp/scwrl_1594651372.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1594651372.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 T0293 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_418166653.pdb -s /var/tmp/to_scwrl_418166653.seq -o /var/tmp/from_scwrl_418166653.pdb > /var/tmp/scwrl_418166653.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_418166653.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 T0293 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_524676679.pdb -s /var/tmp/to_scwrl_524676679.seq -o /var/tmp/from_scwrl_524676679.pdb > /var/tmp/scwrl_524676679.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_524676679.pdb # conformation set from SCWRL output # naming current conformation SAM-T99_AL2-scwrl # ReadConformPDB reading from PDB file servers/SAM-T99_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1536439959.pdb -s /var/tmp/to_scwrl_1536439959.seq -o /var/tmp/from_scwrl_1536439959.pdb > /var/tmp/scwrl_1536439959.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1536439959.pdb # conformation set from SCWRL output # naming current conformation SAM-T99_AL3-scwrl # ReadConformPDB reading from PDB file servers/SAM-T99_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1356224833.pdb -s /var/tmp/to_scwrl_1356224833.seq -o /var/tmp/from_scwrl_1356224833.pdb > /var/tmp/scwrl_1356224833.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1356224833.pdb # conformation set from SCWRL output # naming current conformation SAM-T99_AL4-scwrl # ReadConformPDB reading from PDB file servers/SAM-T99_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1663437567.pdb -s /var/tmp/to_scwrl_1663437567.seq -o /var/tmp/from_scwrl_1663437567.pdb > /var/tmp/scwrl_1663437567.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1663437567.pdb # conformation set from SCWRL output # naming current conformation SAM-T99_AL5-scwrl # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS1.pdb.gz looking for model 1 # Found a chain break before 242 # copying to AlignedFragments data structure # naming current conformation SAM_T06_server_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1775141411.pdb -s /var/tmp/to_scwrl_1775141411.seq -o /var/tmp/from_scwrl_1775141411.pdb > /var/tmp/scwrl_1775141411.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1775141411.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 T0293 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_629299157.pdb -s /var/tmp/to_scwrl_629299157.seq -o /var/tmp/from_scwrl_629299157.pdb > /var/tmp/scwrl_629299157.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_629299157.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 T0293 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_2007310060.pdb -s /var/tmp/to_scwrl_2007310060.seq -o /var/tmp/from_scwrl_2007310060.pdb > /var/tmp/scwrl_2007310060.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2007310060.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 T0293 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1252644955.pdb -s /var/tmp/to_scwrl_1252644955.seq -o /var/tmp/from_scwrl_1252644955.pdb > /var/tmp/scwrl_1252644955.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1252644955.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 T0293 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_77201947.pdb -s /var/tmp/to_scwrl_77201947.seq -o /var/tmp/from_scwrl_77201947.pdb > /var/tmp/scwrl_77201947.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_77201947.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 # Found a chain break before 237 # copying to AlignedFragments data structure # naming current conformation SP3_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_481713540.pdb -s /var/tmp/to_scwrl_481713540.seq -o /var/tmp/from_scwrl_481713540.pdb > /var/tmp/scwrl_481713540.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_481713540.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 195 # copying to AlignedFragments data structure # naming current conformation SP3_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1101387123.pdb -s /var/tmp/to_scwrl_1101387123.seq -o /var/tmp/from_scwrl_1101387123.pdb > /var/tmp/scwrl_1101387123.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1101387123.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 237 # copying to AlignedFragments data structure # naming current conformation SP3_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1139570384.pdb -s /var/tmp/to_scwrl_1139570384.seq -o /var/tmp/from_scwrl_1139570384.pdb > /var/tmp/scwrl_1139570384.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1139570384.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 249 # copying to AlignedFragments data structure # naming current conformation SP3_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1262643967.pdb -s /var/tmp/to_scwrl_1262643967.seq -o /var/tmp/from_scwrl_1262643967.pdb > /var/tmp/scwrl_1262643967.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1262643967.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 # Found a chain break before 228 # copying to AlignedFragments data structure # naming current conformation SP3_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1889705940.pdb -s /var/tmp/to_scwrl_1889705940.seq -o /var/tmp/from_scwrl_1889705940.pdb > /var/tmp/scwrl_1889705940.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1889705940.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 245 # copying to AlignedFragments data structure # naming current conformation SP4_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_711267127.pdb -s /var/tmp/to_scwrl_711267127.seq -o /var/tmp/from_scwrl_711267127.pdb > /var/tmp/scwrl_711267127.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_711267127.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 242 # copying to AlignedFragments data structure # naming current conformation SP4_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1012315085.pdb -s /var/tmp/to_scwrl_1012315085.seq -o /var/tmp/from_scwrl_1012315085.pdb > /var/tmp/scwrl_1012315085.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1012315085.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 # Found a chain break before 245 # copying to AlignedFragments data structure # naming current conformation SP4_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1983735117.pdb -s /var/tmp/to_scwrl_1983735117.seq -o /var/tmp/from_scwrl_1983735117.pdb > /var/tmp/scwrl_1983735117.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1983735117.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 247 # copying to AlignedFragments data structure # naming current conformation SP4_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1696488965.pdb -s /var/tmp/to_scwrl_1696488965.seq -o /var/tmp/from_scwrl_1696488965.pdb > /var/tmp/scwrl_1696488965.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1696488965.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 207 # copying to AlignedFragments data structure # naming current conformation SP4_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_2021596001.pdb -s /var/tmp/to_scwrl_2021596001.seq -o /var/tmp/from_scwrl_2021596001.pdb > /var/tmp/scwrl_2021596001.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2021596001.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 # Found a chain break before 237 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1787563086.pdb -s /var/tmp/to_scwrl_1787563086.seq -o /var/tmp/from_scwrl_1787563086.pdb > /var/tmp/scwrl_1787563086.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1787563086.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 # Found a chain break before 222 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_330852850.pdb -s /var/tmp/to_scwrl_330852850.seq -o /var/tmp/from_scwrl_330852850.pdb > /var/tmp/scwrl_330852850.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_330852850.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 209 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1791165578.pdb -s /var/tmp/to_scwrl_1791165578.seq -o /var/tmp/from_scwrl_1791165578.pdb > /var/tmp/scwrl_1791165578.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1791165578.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 # Found a chain break before 194 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_53782972.pdb -s /var/tmp/to_scwrl_53782972.seq -o /var/tmp/from_scwrl_53782972.pdb > /var/tmp/scwrl_53782972.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_53782972.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 # Found a chain break before 238 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_816319076.pdb -s /var/tmp/to_scwrl_816319076.seq -o /var/tmp/from_scwrl_816319076.pdb > /var/tmp/scwrl_816319076.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_816319076.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 T0293 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1635754272.pdb -s /var/tmp/to_scwrl_1635754272.seq -o /var/tmp/from_scwrl_1635754272.pdb > /var/tmp/scwrl_1635754272.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1635754272.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 T0293 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1027297301.pdb -s /var/tmp/to_scwrl_1027297301.seq -o /var/tmp/from_scwrl_1027297301.pdb > /var/tmp/scwrl_1027297301.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1027297301.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 T0293 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1730191378.pdb -s /var/tmp/to_scwrl_1730191378.seq -o /var/tmp/from_scwrl_1730191378.pdb > /var/tmp/scwrl_1730191378.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1730191378.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 T0293 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1925702053.pdb -s /var/tmp/to_scwrl_1925702053.seq -o /var/tmp/from_scwrl_1925702053.pdb > /var/tmp/scwrl_1925702053.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1925702053.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 T0293 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1981993916.pdb -s /var/tmp/to_scwrl_1981993916.seq -o /var/tmp/from_scwrl_1981993916.pdb > /var/tmp/scwrl_1981993916.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1981993916.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 T0293 can't currently be optimized by undertaker # naming current conformation UNI-EID_expm_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1177359104.pdb -s /var/tmp/to_scwrl_1177359104.seq -o /var/tmp/from_scwrl_1177359104.pdb > /var/tmp/scwrl_1177359104.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1177359104.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 T0293 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_196385059.pdb -s /var/tmp/to_scwrl_196385059.seq -o /var/tmp/from_scwrl_196385059.pdb > /var/tmp/scwrl_196385059.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_196385059.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 T0293 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_359186948.pdb -s /var/tmp/to_scwrl_359186948.seq -o /var/tmp/from_scwrl_359186948.pdb > /var/tmp/scwrl_359186948.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_359186948.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 T0293 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_566315417.pdb -s /var/tmp/to_scwrl_566315417.seq -o /var/tmp/from_scwrl_566315417.pdb > /var/tmp/scwrl_566315417.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_566315417.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 T0293 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1552609892.pdb -s /var/tmp/to_scwrl_1552609892.seq -o /var/tmp/from_scwrl_1552609892.pdb > /var/tmp/scwrl_1552609892.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1552609892.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 T0293 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_2022624515.pdb -s /var/tmp/to_scwrl_2022624515.seq -o /var/tmp/from_scwrl_2022624515.pdb > /var/tmp/scwrl_2022624515.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2022624515.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 245 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_193973181.pdb -s /var/tmp/to_scwrl_193973181.seq -o /var/tmp/from_scwrl_193973181.pdb > /var/tmp/scwrl_193973181.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_193973181.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 237 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_34425402.pdb -s /var/tmp/to_scwrl_34425402.seq -o /var/tmp/from_scwrl_34425402.pdb > /var/tmp/scwrl_34425402.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_34425402.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 240 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1882450929.pdb -s /var/tmp/to_scwrl_1882450929.seq -o /var/tmp/from_scwrl_1882450929.pdb > /var/tmp/scwrl_1882450929.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1882450929.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 240 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1446618137.pdb -s /var/tmp/to_scwrl_1446618137.seq -o /var/tmp/from_scwrl_1446618137.pdb > /var/tmp/scwrl_1446618137.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1446618137.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 245 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_111627350.pdb -s /var/tmp/to_scwrl_111627350.seq -o /var/tmp/from_scwrl_111627350.pdb > /var/tmp/scwrl_111627350.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_111627350.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 249 # copying to AlignedFragments data structure # naming current conformation beautshot_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_216680822.pdb -s /var/tmp/to_scwrl_216680822.seq -o /var/tmp/from_scwrl_216680822.pdb > /var/tmp/scwrl_216680822.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_216680822.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 T0293 can't currently be optimized by undertaker # naming current conformation beautshotbase_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_400521614.pdb -s /var/tmp/to_scwrl_400521614.seq -o /var/tmp/from_scwrl_400521614.pdb > /var/tmp/scwrl_400521614.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_400521614.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 T0293 can't currently be optimized by undertaker # naming current conformation forecast-s_AL1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1251197734.pdb -s /var/tmp/to_scwrl_1251197734.seq -o /var/tmp/from_scwrl_1251197734.pdb > /var/tmp/scwrl_1251197734.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1251197734.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 T0293 can't currently be optimized by undertaker # naming current conformation forecast-s_AL2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1479324790.pdb -s /var/tmp/to_scwrl_1479324790.seq -o /var/tmp/from_scwrl_1479324790.pdb > /var/tmp/scwrl_1479324790.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1479324790.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 T0293 can't currently be optimized by undertaker # naming current conformation forecast-s_AL3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_142743908.pdb -s /var/tmp/to_scwrl_142743908.seq -o /var/tmp/from_scwrl_142743908.pdb > /var/tmp/scwrl_142743908.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_142743908.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 T0293 can't currently be optimized by undertaker # naming current conformation forecast-s_AL4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1962464862.pdb -s /var/tmp/to_scwrl_1962464862.seq -o /var/tmp/from_scwrl_1962464862.pdb > /var/tmp/scwrl_1962464862.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1962464862.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 T0293 can't currently be optimized by undertaker # naming current conformation forecast-s_AL5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_344156228.pdb -s /var/tmp/to_scwrl_344156228.seq -o /var/tmp/from_scwrl_344156228.pdb > /var/tmp/scwrl_344156228.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_344156228.pdb # conformation set from SCWRL output # naming current conformation forecast-s_AL5-scwrl # ReadConformPDB reading from PDB file servers/gtg_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation gtg_AL1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_2126479025.pdb -s /var/tmp/to_scwrl_2126479025.seq -o /var/tmp/from_scwrl_2126479025.pdb > /var/tmp/scwrl_2126479025.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2126479025.pdb # conformation set from SCWRL output # naming current conformation gtg_AL1-scwrl # ReadConformPDB reading from PDB file servers/gtg_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation gtg_AL2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1511470180.pdb -s /var/tmp/to_scwrl_1511470180.seq -o /var/tmp/from_scwrl_1511470180.pdb > /var/tmp/scwrl_1511470180.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1511470180.pdb # conformation set from SCWRL output # naming current conformation gtg_AL2-scwrl # ReadConformPDB reading from PDB file servers/gtg_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation gtg_AL3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_218268583.pdb -s /var/tmp/to_scwrl_218268583.seq -o /var/tmp/from_scwrl_218268583.pdb > /var/tmp/scwrl_218268583.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_218268583.pdb # conformation set from SCWRL output # naming current conformation gtg_AL3-scwrl # ReadConformPDB reading from PDB file servers/gtg_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation gtg_AL4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1766558464.pdb -s /var/tmp/to_scwrl_1766558464.seq -o /var/tmp/from_scwrl_1766558464.pdb > /var/tmp/scwrl_1766558464.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1766558464.pdb # conformation set from SCWRL output # naming current conformation gtg_AL4-scwrl # ReadConformPDB reading from PDB file servers/gtg_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation gtg_AL5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1842323030.pdb -s /var/tmp/to_scwrl_1842323030.seq -o /var/tmp/from_scwrl_1842323030.pdb > /var/tmp/scwrl_1842323030.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1842323030.pdb # conformation set from SCWRL output # naming current conformation gtg_AL5-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS1.pdb.gz looking for model 1 # Found a chain break before 245 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_2009434161.pdb -s /var/tmp/to_scwrl_2009434161.seq -o /var/tmp/from_scwrl_2009434161.pdb > /var/tmp/scwrl_2009434161.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2009434161.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 241 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1820341436.pdb -s /var/tmp/to_scwrl_1820341436.seq -o /var/tmp/from_scwrl_1820341436.pdb > /var/tmp/scwrl_1820341436.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1820341436.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 242 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_511158459.pdb -s /var/tmp/to_scwrl_511158459.seq -o /var/tmp/from_scwrl_511158459.pdb > /var/tmp/scwrl_511158459.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_511158459.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 245 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1497704786.pdb -s /var/tmp/to_scwrl_1497704786.seq -o /var/tmp/from_scwrl_1497704786.pdb > /var/tmp/scwrl_1497704786.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1497704786.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 191 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_700155090.pdb -s /var/tmp/to_scwrl_700155090.seq -o /var/tmp/from_scwrl_700155090.pdb > /var/tmp/scwrl_700155090.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_700155090.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 249 # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_93866190.pdb -s /var/tmp/to_scwrl_93866190.seq -o /var/tmp/from_scwrl_93866190.pdb > /var/tmp/scwrl_93866190.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_93866190.pdb # conformation set from SCWRL output # naming current conformation karypis.srv.4_TS1-scwrl # ReadConformPDB reading from PDB file servers/karypis.srv_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1275923192.pdb -s /var/tmp/to_scwrl_1275923192.seq -o /var/tmp/from_scwrl_1275923192.pdb > /var/tmp/scwrl_1275923192.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1275923192.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 T0293 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_534665359.pdb -s /var/tmp/to_scwrl_534665359.seq -o /var/tmp/from_scwrl_534665359.pdb > /var/tmp/scwrl_534665359.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_534665359.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 T0293 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1271225294.pdb -s /var/tmp/to_scwrl_1271225294.seq -o /var/tmp/from_scwrl_1271225294.pdb > /var/tmp/scwrl_1271225294.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1271225294.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 T0293 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1472308252.pdb -s /var/tmp/to_scwrl_1472308252.seq -o /var/tmp/from_scwrl_1472308252.pdb > /var/tmp/scwrl_1472308252.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1472308252.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 # Found a chain break before 236 # copying to AlignedFragments data structure # naming current conformation karypis.srv_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_893852307.pdb -s /var/tmp/to_scwrl_893852307.seq -o /var/tmp/from_scwrl_893852307.pdb > /var/tmp/scwrl_893852307.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_893852307.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 244 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1837540712.pdb -s /var/tmp/to_scwrl_1837540712.seq -o /var/tmp/from_scwrl_1837540712.pdb > /var/tmp/scwrl_1837540712.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1837540712.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 239 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_877434498.pdb -s /var/tmp/to_scwrl_877434498.seq -o /var/tmp/from_scwrl_877434498.pdb > /var/tmp/scwrl_877434498.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_877434498.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 # Found a chain break before 242 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_768993176.pdb -s /var/tmp/to_scwrl_768993176.seq -o /var/tmp/from_scwrl_768993176.pdb > /var/tmp/scwrl_768993176.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_768993176.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 # Found a chain break before 243 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_2031513893.pdb -s /var/tmp/to_scwrl_2031513893.seq -o /var/tmp/from_scwrl_2031513893.pdb > /var/tmp/scwrl_2031513893.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_2031513893.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 # Found a chain break before 245 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_911859901.pdb -s /var/tmp/to_scwrl_911859901.seq -o /var/tmp/from_scwrl_911859901.pdb > /var/tmp/scwrl_911859901.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_911859901.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 T0293 can't currently be optimized by undertaker # naming current conformation mGen-3D_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_503960458.pdb -s /var/tmp/to_scwrl_503960458.seq -o /var/tmp/from_scwrl_503960458.pdb > /var/tmp/scwrl_503960458.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_503960458.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 T0293 can't currently be optimized by undertaker # naming current conformation nFOLD_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1330648383.pdb -s /var/tmp/to_scwrl_1330648383.seq -o /var/tmp/from_scwrl_1330648383.pdb > /var/tmp/scwrl_1330648383.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1330648383.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 T0293 can't currently be optimized by undertaker # naming current conformation nFOLD_TS2 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1023487251.pdb -s /var/tmp/to_scwrl_1023487251.seq -o /var/tmp/from_scwrl_1023487251.pdb > /var/tmp/scwrl_1023487251.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1023487251.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 T0293 can't currently be optimized by undertaker # naming current conformation nFOLD_TS3 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_720641280.pdb -s /var/tmp/to_scwrl_720641280.seq -o /var/tmp/from_scwrl_720641280.pdb > /var/tmp/scwrl_720641280.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_720641280.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 T0293 can't currently be optimized by undertaker # naming current conformation nFOLD_TS4 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_1731169998.pdb -s /var/tmp/to_scwrl_1731169998.seq -o /var/tmp/from_scwrl_1731169998.pdb > /var/tmp/scwrl_1731169998.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_1731169998.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 T0293 can't currently be optimized by undertaker # naming current conformation nFOLD_TS5 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_127201338.pdb -s /var/tmp/to_scwrl_127201338.seq -o /var/tmp/from_scwrl_127201338.pdb > /var/tmp/scwrl_127201338.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_127201338.pdb # conformation set from SCWRL output # naming current conformation nFOLD_TS5-scwrl # ReadConformPDB reading from PDB file servers/shub_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0293 can't currently be optimized by undertaker # naming current conformation shub_TS1 # request to SCWRL produces command: ulimit -t 225 ; scwrl3 -i /var/tmp/to_scwrl_52482423.pdb -s /var/tmp/to_scwrl_52482423.seq -o /var/tmp/from_scwrl_52482423.pdb > /var/tmp/scwrl_52482423.log # Trying to read SCWRLed conformation from /var/tmp/from_scwrl_52482423.pdb # conformation set from SCWRL output # naming current conformation shub_TS1-scwrl # command:CPU_time= 65.3971 sec, elapsed time= 1595.51 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 = 68.0844 shub_TS1 costs 0 real_cost = 71.4548 nFOLD_TS5-scwrl costs 0 real_cost = 233.937 nFOLD_TS5 costs 0 real_cost = 330.155 nFOLD_TS4-scwrl costs 0 real_cost = 234.57 nFOLD_TS4 costs 0 real_cost = 349.003 nFOLD_TS3-scwrl costs 0 real_cost = 158.082 nFOLD_TS3 costs 0 real_cost = 234.127 nFOLD_TS2-scwrl costs 0 real_cost = 245.906 nFOLD_TS2 costs 0 real_cost = 360.295 nFOLD_TS1-scwrl costs 0 real_cost = 117.999 nFOLD_TS1 costs 0 real_cost = 200.4 mGen-3D_TS1-scwrl costs 0 real_cost = 113.427 mGen-3D_TS1 costs 0 real_cost = 196.393 keasar-server_TS5-scwrl costs 0 real_cost = 69.5151 keasar-server_TS5 costs 0 real_cost = 63.0359 keasar-server_TS4-scwrl costs 0 real_cost = 70.3228 keasar-server_TS4 costs 0 real_cost = 62.6716 keasar-server_TS3-scwrl costs 0 real_cost = 54.2961 keasar-server_TS3 costs 0 real_cost = 49.4264 keasar-server_TS2-scwrl costs 0 real_cost = 61.7483 keasar-server_TS2 costs 0 real_cost = 65.2218 keasar-server_TS1-scwrl costs 0 real_cost = 48.4819 keasar-server_TS1 costs 0 real_cost = 44.5248 karypis.srv_TS5-scwrl costs 0 real_cost = 129.708 karypis.srv_TS5 costs 0 real_cost = 129.21 karypis.srv_TS4-scwrl costs 0 real_cost = 165.853 karypis.srv_TS4 costs 0 real_cost = 164.446 karypis.srv_TS3-scwrl costs 0 real_cost = 126.018 karypis.srv_TS3 costs 0 real_cost = 124.899 karypis.srv_TS2-scwrl costs 0 real_cost = 60.4406 karypis.srv_TS2 costs 0 real_cost = 57.7498 karypis.srv_TS1-scwrl costs 0 real_cost = 19.8331 karypis.srv_TS1 costs 0 real_cost = 15.9753 karypis.srv.4_TS1-scwrl costs 0 real_cost = 339.694 karypis.srv.4_TS1 costs 0 real_cost = 339.689 karypis.srv.2_TS5-scwrl costs 0 real_cost = 73.233 karypis.srv.2_TS5 costs 0 real_cost = 73.2329 karypis.srv.2_TS4-scwrl costs 0 real_cost = 30.7146 karypis.srv.2_TS4 costs 0 real_cost = 30.5362 karypis.srv.2_TS3-scwrl costs 0 real_cost = 138.903 karypis.srv.2_TS3 costs 0 real_cost = 138.896 karypis.srv.2_TS2-scwrl costs 0 real_cost = 64.209 karypis.srv.2_TS2 costs 0 real_cost = 64.7384 karypis.srv.2_TS1-scwrl costs 0 real_cost = 38.6559 karypis.srv.2_TS1 costs 0 real_cost = 38.8594 gtg_AL5-scwrl costs 0 real_cost = 372.805 gtg_AL5 costs 0 real_cost = 457.261 gtg_AL4-scwrl costs 0 real_cost = 385.468 gtg_AL4 costs 0 real_cost = 462.412 gtg_AL3-scwrl costs 0 real_cost = 282.528 gtg_AL3 costs 0 real_cost = 367.039 gtg_AL2-scwrl costs 0 real_cost = 308.945 gtg_AL2 costs 0 real_cost = 422.633 gtg_AL1-scwrl costs 0 real_cost = 292.282 gtg_AL1 costs 0 real_cost = 348.152 forecast-s_AL5-scwrl costs 0 real_cost = 264.485 forecast-s_AL5 costs 0 real_cost = 377.253 forecast-s_AL4-scwrl costs 0 real_cost = 211.012 forecast-s_AL4 costs 0 real_cost = 312.287 forecast-s_AL3-scwrl costs 0 real_cost = 231.708 forecast-s_AL3 costs 0 real_cost = 326.019 forecast-s_AL2-scwrl costs 0 real_cost = 358.4 forecast-s_AL2 costs 0 real_cost = 434.243 forecast-s_AL1-scwrl costs 0 real_cost = 141.18 forecast-s_AL1 costs 0 real_cost = 261.634 beautshotbase_TS1-scwrl costs 0 real_cost = 52.4135 beautshotbase_TS1 costs 0 real_cost = 51.0575 beautshot_TS1-scwrl costs 0 real_cost = 49.5668 beautshot_TS1 costs 0 real_cost = 46.1747 Zhang-Server_TS5-scwrl costs 0 real_cost = 14.4353 Zhang-Server_TS5 costs 0 real_cost = 17.8414 Zhang-Server_TS4-scwrl costs 0 real_cost = 3.8074 Zhang-Server_TS4 costs 0 real_cost = 9.02553 Zhang-Server_TS3-scwrl costs 0 real_cost = 3.8074 Zhang-Server_TS3 costs 0 real_cost = 9.02553 Zhang-Server_TS2-scwrl costs 0 real_cost = -2.16659 Zhang-Server_TS2 costs 0 real_cost = 6.12429 Zhang-Server_TS1-scwrl costs 0 real_cost = -18.4351 Zhang-Server_TS1 costs 0 real_cost = -17.325 UNI-EID_sfst_AL5-scwrl costs 0 real_cost = 350.911 UNI-EID_sfst_AL5 costs 0 real_cost = 407.621 UNI-EID_sfst_AL4-scwrl costs 0 real_cost = 316.661 UNI-EID_sfst_AL4 costs 0 real_cost = 375.829 UNI-EID_sfst_AL3-scwrl costs 0 real_cost = 175.548 UNI-EID_sfst_AL3 costs 0 real_cost = 259.945 UNI-EID_sfst_AL2-scwrl costs 0 real_cost = 217.453 UNI-EID_sfst_AL2 costs 0 real_cost = 283.082 UNI-EID_sfst_AL1-scwrl costs 0 real_cost = 154.123 UNI-EID_sfst_AL1 costs 0 real_cost = 244.757 UNI-EID_expm_TS1-scwrl costs 0 real_cost = 87.0523 UNI-EID_expm_TS1 costs 0 real_cost = 195.547 UNI-EID_bnmx_TS5-scwrl costs 0 real_cost = 281.654 UNI-EID_bnmx_TS5 costs 0 real_cost = 398.478 UNI-EID_bnmx_TS4-scwrl costs 0 real_cost = 314.558 UNI-EID_bnmx_TS4 costs 0 real_cost = 409.418 UNI-EID_bnmx_TS3-scwrl costs 0 real_cost = 200.098 UNI-EID_bnmx_TS3 costs 0 real_cost = 305.74 UNI-EID_bnmx_TS2-scwrl costs 0 real_cost = 165.865 UNI-EID_bnmx_TS2 costs 0 real_cost = 278.516 UNI-EID_bnmx_TS1-scwrl costs 0 real_cost = 139.304 UNI-EID_bnmx_TS1 costs 0 real_cost = 241.657 SPARKS2_TS5-scwrl costs 0 real_cost = 134.761 SPARKS2_TS5 costs 0 real_cost = 138.406 SPARKS2_TS4-scwrl costs 0 real_cost = 138.112 SPARKS2_TS4 costs 0 real_cost = 147.11 SPARKS2_TS3-scwrl costs 0 real_cost = 91.8537 SPARKS2_TS3 costs 0 real_cost = 90.1386 SPARKS2_TS2-scwrl costs 0 real_cost = 28.3157 SPARKS2_TS2 costs 0 real_cost = 32.6743 SPARKS2_TS1-scwrl costs 0 real_cost = 29.7416 SPARKS2_TS1 costs 0 real_cost = 26.8038 SP4_TS5-scwrl costs 0 real_cost = 166.778 SP4_TS5 costs 0 real_cost = 172.273 SP4_TS4-scwrl costs 0 real_cost = 285.457 SP4_TS4 costs 0 real_cost = 285.963 SP4_TS3-scwrl costs 0 real_cost = 112.782 SP4_TS3 costs 0 real_cost = 104.634 SP4_TS2-scwrl costs 0 real_cost = 15.548 SP4_TS2 costs 0 real_cost = 11.0575 SP4_TS1-scwrl costs 0 real_cost = 29.4982 SP4_TS1 costs 0 real_cost = 39.6252 SP3_TS5-scwrl costs 0 real_cost = 187.965 SP3_TS5 costs 0 real_cost = 186.78 SP3_TS4-scwrl costs 0 real_cost = 257.481 SP3_TS4 costs 0 real_cost = 260.204 SP3_TS3-scwrl costs 0 real_cost = 106.635 SP3_TS3 costs 0 real_cost = 104.891 SP3_TS2-scwrl costs 0 real_cost = 12.5218 SP3_TS2 costs 0 real_cost = 20.2503 SP3_TS1-scwrl costs 0 real_cost = 43.8016 SP3_TS1 costs 0 real_cost = 48.9961 SAM_T06_server_TS5-scwrl costs 0 real_cost = 259.053 SAM_T06_server_TS5 costs 0 real_cost = 223.448 SAM_T06_server_TS4-scwrl costs 0 real_cost = 202.092 SAM_T06_server_TS4 costs 0 real_cost = 170.144 SAM_T06_server_TS3-scwrl costs 0 real_cost = 202.656 SAM_T06_server_TS3 costs 0 real_cost = 151.485 SAM_T06_server_TS2-scwrl costs 0 real_cost = 297.304 SAM_T06_server_TS2 costs 0 real_cost = 196.958 SAM_T06_server_TS1-scwrl costs 0 real_cost = 79.6103 SAM_T06_server_TS1 costs 0 real_cost = 82.5175 SAM-T99_AL5-scwrl costs 0 real_cost = 203.099 SAM-T99_AL5 costs 0 real_cost = 307.992 SAM-T99_AL4-scwrl costs 0 real_cost = 207.39 SAM-T99_AL4 costs 0 real_cost = 311.958 SAM-T99_AL3-scwrl costs 0 real_cost = 212.212 SAM-T99_AL3 costs 0 real_cost = 315.795 SAM-T99_AL2-scwrl costs 0 real_cost = 138.506 SAM-T99_AL2 costs 0 real_cost = 259.557 SAM-T99_AL1-scwrl costs 0 real_cost = 156.677 SAM-T99_AL1 costs 0 real_cost = 281.465 SAM-T02_AL5-scwrl costs 0 real_cost = 175.364 SAM-T02_AL5 costs 0 real_cost = 286.445 SAM-T02_AL4-scwrl costs 0 real_cost = 158.27 SAM-T02_AL4 costs 0 real_cost = 273.709 SAM-T02_AL3-scwrl costs 0 real_cost = 117.265 SAM-T02_AL3 costs 0 real_cost = 247.485 SAM-T02_AL2-scwrl costs 0 real_cost = 141.251 SAM-T02_AL2 costs 0 real_cost = 263.975 SAM-T02_AL1-scwrl costs 0 real_cost = 150.159 SAM-T02_AL1 costs 0 real_cost = 263.149 ROKKY_TS5-scwrl costs 0 real_cost = 85.1131 ROKKY_TS5 costs 0 real_cost = 89.4641 ROKKY_TS4-scwrl costs 0 real_cost = 72.1999 ROKKY_TS4 costs 0 real_cost = 75.4209 ROKKY_TS3-scwrl costs 0 real_cost = 66.4742 ROKKY_TS3 costs 0 real_cost = 74.7053 ROKKY_TS2-scwrl costs 0 real_cost = 38.4717 ROKKY_TS1-scwrl costs 0 real_cost = 55.2571 ROKKY_TS1 costs 0 real_cost = 65.2183 ROBETTA_TS5-scwrl costs 0 real_cost = 10.3561 ROBETTA_TS5 costs 0 real_cost = 10.0389 ROBETTA_TS4-scwrl costs 0 real_cost = 33.5036 ROBETTA_TS4 costs 0 real_cost = 30.4377 ROBETTA_TS3-scwrl costs 0 real_cost = 38.5727 ROBETTA_TS3 costs 0 real_cost = 35.2488 ROBETTA_TS2-scwrl costs 0 real_cost = 93.5475 ROBETTA_TS2 costs 0 real_cost = 95.0242 ROBETTA_TS1-scwrl costs 0 real_cost = 51.0388 ROBETTA_TS1 costs 0 real_cost = 54.81 RAPTOR_TS5-scwrl costs 0 real_cost = 139.654 RAPTOR_TS5 costs 0 real_cost = 149.819 RAPTOR_TS4-scwrl costs 0 real_cost = 95.7825 RAPTOR_TS4 costs 0 real_cost = 94.5332 RAPTOR_TS3-scwrl costs 0 real_cost = 111.985 RAPTOR_TS3 costs 0 real_cost = 110.803 RAPTOR_TS2-scwrl costs 0 real_cost = 15.9771 RAPTOR_TS2 costs 0 real_cost = 19.409 RAPTOR_TS1-scwrl costs 0 real_cost = 13.7632 RAPTOR_TS1 costs 0 real_cost = 16.6224 RAPTORESS_TS5-scwrl costs 0 real_cost = 267.973 RAPTORESS_TS5 costs 0 real_cost = 279.477 RAPTORESS_TS4-scwrl costs 0 real_cost = 127.462 RAPTORESS_TS4 costs 0 real_cost = 136.681 RAPTORESS_TS3-scwrl costs 0 real_cost = 86.2671 RAPTORESS_TS3 costs 0 real_cost = 89.3323 RAPTORESS_TS2-scwrl costs 0 real_cost = 118.554 RAPTORESS_TS2 costs 0 real_cost = 111.217 RAPTORESS_TS1-scwrl costs 0 real_cost = 57.9949 RAPTORESS_TS1 costs 0 real_cost = 70.0471 RAPTOR-ACE_TS5-scwrl costs 0 real_cost = 68.9441 RAPTOR-ACE_TS5 costs 0 real_cost = 73.8758 RAPTOR-ACE_TS4-scwrl costs 0 real_cost = 43.8016 RAPTOR-ACE_TS4 costs 0 real_cost = 48.9961 RAPTOR-ACE_TS3-scwrl costs 0 real_cost = -0.0891492 RAPTOR-ACE_TS3 costs 0 real_cost = 13.5535 RAPTOR-ACE_TS2-scwrl costs 0 real_cost = 43.8926 RAPTOR-ACE_TS2 costs 0 real_cost = 56.7794 RAPTOR-ACE_TS1-scwrl costs 0 real_cost = 50.3709 RAPTOR-ACE_TS1 costs 0 real_cost = 58.0861 Pmodeller6_TS5-scwrl costs 0 real_cost = 3.76637 Pmodeller6_TS5 costs 0 real_cost = 0.6059 Pmodeller6_TS4-scwrl costs 0 real_cost = -3.45168 Pmodeller6_TS4 costs 0 real_cost = -6.00122 Pmodeller6_TS3-scwrl costs 0 real_cost = 49.7082 Pmodeller6_TS3 costs 0 real_cost = 47.6061 Pmodeller6_TS2-scwrl costs 0 real_cost = 31.6634 Pmodeller6_TS2 costs 0 real_cost = 33.5708 Pmodeller6_TS1-scwrl costs 0 real_cost = 33.5036 Pmodeller6_TS1 costs 0 real_cost = 30.4377 Phyre-2_TS5-scwrl costs 0 real_cost = 150.854 Phyre-2_TS5 costs 0 real_cost = 139.009 Phyre-2_TS4-scwrl costs 0 real_cost = 214.191 Phyre-2_TS4 costs 0 real_cost = 209.71 Phyre-2_TS3-scwrl costs 0 real_cost = 194.677 Phyre-2_TS3 costs 0 real_cost = 191.321 Phyre-2_TS2-scwrl costs 0 real_cost = 183.6 Phyre-2_TS2 costs 0 real_cost = 187.653 Phyre-2_TS1-scwrl costs 0 real_cost = 196.158 Phyre-2_TS1 costs 0 real_cost = 187.058 Phyre-1_TS1-scwrl costs 0 real_cost = 259.975 Phyre-1_TS1 costs 0 real_cost = 238.918 Pcons6_TS5-scwrl costs 0 real_cost = 42.8915 Pcons6_TS5 costs 0 real_cost = 38.782 Pcons6_TS4-scwrl costs 0 real_cost = 19.2545 Pcons6_TS4 costs 0 real_cost = 16.8038 Pcons6_TS3-scwrl costs 0 real_cost = 10.6721 Pcons6_TS3 costs 0 real_cost = 5.82495 Pcons6_TS2-scwrl costs 0 real_cost = 4.99049 Pcons6_TS2 costs 0 real_cost = 2.13926 Pcons6_TS1-scwrl costs 0 real_cost = 3.13194 Pcons6_TS1 costs 0 real_cost = -1.43292 PROTINFO_TS5-scwrl costs 0 real_cost = 161.683 PROTINFO_TS5 costs 0 real_cost = 167.348 PROTINFO_TS4-scwrl costs 0 real_cost = 62.9078 PROTINFO_TS4 costs 0 real_cost = 62.7395 PROTINFO_TS3-scwrl costs 0 real_cost = 43.0836 PROTINFO_TS3 costs 0 real_cost = 43.3528 PROTINFO_TS2-scwrl costs 0 real_cost = 35.4448 PROTINFO_TS2 costs 0 real_cost = 36.0582 PROTINFO_TS1-scwrl costs 0 real_cost = 59.8599 PROTINFO_TS1 costs 0 real_cost = 60.7553 PROTINFO-AB_TS4-scwrl costs 0 real_cost = 79.5517 PROTINFO-AB_TS4 costs 0 real_cost = 80.2442 PROTINFO-AB_TS3-scwrl costs 0 real_cost = 72.8466 PROTINFO-AB_TS3 costs 0 real_cost = 71.6017 PROTINFO-AB_TS2-scwrl costs 0 real_cost = 72.066 PROTINFO-AB_TS2 costs 0 real_cost = 76.2994 PROTINFO-AB_TS1-scwrl costs 0 real_cost = 76.8489 PROTINFO-AB_TS1 costs 0 real_cost = 79.2417 POMYSL_TS5-scwrl costs 0 real_cost = 310.069 POMYSL_TS5 costs 0 real_cost = 314.179 POMYSL_TS4-scwrl costs 0 real_cost = 333.496 POMYSL_TS4 costs 0 real_cost = 334.286 POMYSL_TS3-scwrl costs 0 real_cost = 298.468 POMYSL_TS3 costs 0 real_cost = 301.765 POMYSL_TS2-scwrl costs 0 real_cost = 321.588 POMYSL_TS2 costs 0 real_cost = 320.206 POMYSL_TS1-scwrl costs 0 real_cost = 322.611 POMYSL_TS1 costs 0 real_cost = 322.354 NN_PUT_lab_TS1-scwrl costs 0 real_cost = 113.598 NN_PUT_lab_TS1 costs 0 real_cost = 118.872 MetaTasser_TS5-scwrl costs 0 real_cost = 54.873 MetaTasser_TS5 costs 0 real_cost = 55.45 MetaTasser_TS4-scwrl costs 0 real_cost = 24.1821 MetaTasser_TS4 costs 0 real_cost = 31.2667 MetaTasser_TS3-scwrl costs 0 real_cost = 40.9187 MetaTasser_TS3 costs 0 real_cost = 43.197 MetaTasser_TS2-scwrl costs 0 real_cost = 53.8598 MetaTasser_TS2 costs 0 real_cost = 62.2259 MetaTasser_TS1-scwrl costs 0 real_cost = 61.1471 MetaTasser_TS1 costs 0 real_cost = 57.839 Ma-OPUS-server_TS5-scwrl costs 0 real_cost = 88.6511 Ma-OPUS-server_TS5 costs 0 real_cost = 97.6134 Ma-OPUS-server_TS4-scwrl costs 0 real_cost = 104.156 Ma-OPUS-server_TS4 costs 0 real_cost = 104.393 Ma-OPUS-server_TS3-scwrl costs 0 real_cost = 40.1475 Ma-OPUS-server_TS3 costs 0 real_cost = 43.6325 Ma-OPUS-server_TS2-scwrl costs 0 real_cost = 84.7306 Ma-OPUS-server_TS2 costs 0 real_cost = 103.01 Ma-OPUS-server_TS1-scwrl costs 0 real_cost = 44.8291 Ma-OPUS-server_TS1 costs 0 real_cost = 52.6855 LOOPP_TS5-scwrl costs 0 real_cost = 23.1525 LOOPP_TS5 costs 0 real_cost = 29.963 LOOPP_TS4-scwrl costs 0 real_cost = 69.2518 LOOPP_TS4 costs 0 real_cost = 82.3117 LOOPP_TS3-scwrl costs 0 real_cost = 33.1912 LOOPP_TS3 costs 0 real_cost = 35.9932 LOOPP_TS2-scwrl costs 0 real_cost = 70.3684 LOOPP_TS2 costs 0 real_cost = 77.9609 LOOPP_TS1-scwrl costs 0 real_cost = 36.1133 LOOPP_TS1 costs 0 real_cost = 40.6232 Huber-Torda-Server_TS5-scwrl costs 0 real_cost = 509.763 Huber-Torda-Server_TS5 costs 0 real_cost = 555.399 Huber-Torda-Server_TS4-scwrl costs 0 real_cost = 474.741 Huber-Torda-Server_TS4 costs 0 real_cost = 529.956 Huber-Torda-Server_TS3-scwrl costs 0 real_cost = 505.724 Huber-Torda-Server_TS3 costs 0 real_cost = 569.701 Huber-Torda-Server_TS2-scwrl costs 0 real_cost = 549.378 Huber-Torda-Server_TS2 costs 0 real_cost = 588.765 Huber-Torda-Server_TS1-scwrl costs 0 real_cost = 462.793 Huber-Torda-Server_TS1 costs 0 real_cost = 518.544 HHpred3_TS1-scwrl costs 0 real_cost = 0.697573 HHpred3_TS1 costs 0 real_cost = 6.29577 HHpred2_TS1-scwrl costs 0 real_cost = -4.39089 HHpred2_TS1 costs 0 real_cost = 0.318163 HHpred1_TS1-scwrl costs 0 real_cost = -5.69771 HHpred1_TS1 costs 0 real_cost = -1.91618 GeneSilicoMetaServer_TS5-scwrl costs 0 real_cost = 15.534 GeneSilicoMetaServer_TS5 costs 0 real_cost = 22.459 GeneSilicoMetaServer_TS3-scwrl costs 0 real_cost = 36.5286 GeneSilicoMetaServer_TS3 costs 0 real_cost = 46.2783 GeneSilicoMetaServer_TS2-scwrl costs 0 real_cost = 78.553 GeneSilicoMetaServer_TS2 costs 0 real_cost = 82.526 GeneSilicoMetaServer_TS1-scwrl costs 0 real_cost = 58.5764 GeneSilicoMetaServer_TS1 costs 0 real_cost = 68.7762 FUNCTION_TS5-scwrl costs 0 real_cost = 147.232 FUNCTION_TS5 costs 0 real_cost = 157.233 FUNCTION_TS4-scwrl costs 0 real_cost = 190.475 FUNCTION_TS4 costs 0 real_cost = 183.841 FUNCTION_TS3-scwrl costs 0 real_cost = 21.9257 FUNCTION_TS3 costs 0 real_cost = 29.6438 FUNCTION_TS2-scwrl costs 0 real_cost = 73.069 FUNCTION_TS2 costs 0 real_cost = 72.1583 FUNCTION_TS1-scwrl costs 0 real_cost = 19.2638 FUNCTION_TS1 costs 0 real_cost = 25.9452 FUGUE_AL5-scwrl costs 0 real_cost = 299.941 FUGUE_AL5 costs 0 real_cost = 399.591 FUGUE_AL4-scwrl costs 0 real_cost = 258.239 FUGUE_AL4 costs 0 real_cost = 409.117 FUGUE_AL3-scwrl costs 0 real_cost = 143.126 FUGUE_AL3 costs 0 real_cost = 261.617 FUGUE_AL2-scwrl costs 0 real_cost = 255.509 FUGUE_AL2 costs 0 real_cost = 371.325 FUGUE_AL1-scwrl costs 0 real_cost = 136.241 FUGUE_AL1 costs 0 real_cost = 266.676 FUGMOD_TS5-scwrl costs 0 real_cost = 193.289 FUGMOD_TS5 costs 0 real_cost = 196.896 FUGMOD_TS4-scwrl costs 0 real_cost = 204.259 FUGMOD_TS4 costs 0 real_cost = 205.972 FUGMOD_TS3-scwrl costs 0 real_cost = 56.9742 FUGMOD_TS2-scwrl costs 0 real_cost = 134.247 FUGMOD_TS2 costs 0 real_cost = 137.987 FUGMOD_TS1-scwrl costs 0 real_cost = 61.1442 FUGMOD_TS1 costs 0 real_cost = 68.9073 FPSOLVER-SERVER_TS1-scwrl costs 0 real_cost = 303.371 FPSOLVER-SERVER_TS1 costs 0 real_cost = 308.677 FORTE2_AL5-scwrl costs 0 real_cost = 243.379 FORTE2_AL5 costs 0 real_cost = 381.9 FORTE2_AL4-scwrl costs 0 real_cost = 183.404 FORTE2_AL4 costs 0 real_cost = 320.126 FORTE2_AL3-scwrl costs 0 real_cost = 282.29 FORTE2_AL3 costs 0 real_cost = 437.44 FORTE2_AL2-scwrl costs 0 real_cost = 305.42 FORTE2_AL2 costs 0 real_cost = 439.008 FORTE2_AL1-scwrl costs 0 real_cost = 280.321 FORTE2_AL1 costs 0 real_cost = 435.658 FORTE1_AL5-scwrl costs 0 real_cost = 265.244 FORTE1_AL5 costs 0 real_cost = 425.804 FORTE1_AL4-scwrl costs 0 real_cost = 291.382 FORTE1_AL4 costs 0 real_cost = 443.307 FORTE1_AL3-scwrl costs 0 real_cost = 243.379 FORTE1_AL3 costs 0 real_cost = 381.9 FORTE1_AL2-scwrl costs 0 real_cost = 289.548 FORTE1_AL2 costs 0 real_cost = 430.738 FORTE1_AL1-scwrl costs 0 real_cost = 235.929 FORTE1_AL1 costs 0 real_cost = 396.894 FOLDpro_TS5-scwrl costs 0 real_cost = 220.929 FOLDpro_TS5 costs 0 real_cost = 224.253 FOLDpro_TS4-scwrl costs 0 real_cost = 206.428 FOLDpro_TS4 costs 0 real_cost = 211.836 FOLDpro_TS3-scwrl costs 0 real_cost = 193.676 FOLDpro_TS3 costs 0 real_cost = 203.484 FOLDpro_TS2-scwrl costs 0 real_cost = 201.202 FOLDpro_TS2 costs 0 real_cost = 207.501 FOLDpro_TS1-scwrl costs 0 real_cost = 160.802 FOLDpro_TS1 costs 0 real_cost = 167.974 FAMS_TS5-scwrl costs 0 real_cost = 17.6405 FAMS_TS5 costs 0 real_cost = 24.6337 FAMS_TS4-scwrl costs 0 real_cost = 33.0838 FAMS_TS4 costs 0 real_cost = 42.167 FAMS_TS3-scwrl costs 0 real_cost = 33.0838 FAMS_TS3 costs 0 real_cost = 42.167 FAMS_TS2-scwrl costs 0 real_cost = 21.9257 FAMS_TS2 costs 0 real_cost = 29.6438 FAMS_TS1-scwrl costs 0 real_cost = 19.2638 FAMS_TS1 costs 0 real_cost = 25.9452 FAMSD_TS5-scwrl costs 0 real_cost = 23.2183 FAMSD_TS5 costs 0 real_cost = 31.938 FAMSD_TS4-scwrl costs 0 real_cost = 33.0838 FAMSD_TS4 costs 0 real_cost = 42.167 FAMSD_TS3-scwrl costs 0 real_cost = 41.5253 FAMSD_TS3 costs 0 real_cost = 56.36 FAMSD_TS2-scwrl costs 0 real_cost = 108.124 FAMSD_TS2 costs 0 real_cost = 106.657 FAMSD_TS1-scwrl costs 0 real_cost = 5.92933 FAMSD_TS1 costs 0 real_cost = 7.25975 Distill_TS5-scwrl costs 0 real_cost = 538.314 Distill_TS4-scwrl costs 0 real_cost = 558.446 Distill_TS3-scwrl costs 0 real_cost = 543.139 Distill_TS2-scwrl costs 0 real_cost = 519.706 Distill_TS1-scwrl costs 0 real_cost = 533.733 CaspIta-FOX_TS5-scwrl costs 0 real_cost = 318.01 CaspIta-FOX_TS5 costs 0 real_cost = 310.419 CaspIta-FOX_TS4-scwrl costs 0 real_cost = 176.73 CaspIta-FOX_TS4 costs 0 real_cost = 166.823 CaspIta-FOX_TS3-scwrl costs 0 real_cost = 143.269 CaspIta-FOX_TS3 costs 0 real_cost = 134.595 CaspIta-FOX_TS2-scwrl costs 0 real_cost = 2.01703 CaspIta-FOX_TS2 costs 0 real_cost = -3.67528 CaspIta-FOX_TS1-scwrl costs 0 real_cost = 117.317 CaspIta-FOX_TS1 costs 0 real_cost = 110.225 CIRCLE_TS5-scwrl costs 0 real_cost = 65.6694 CIRCLE_TS5 costs 0 real_cost = 66.957 CIRCLE_TS4-scwrl costs 0 real_cost = 63.7459 CIRCLE_TS4 costs 0 real_cost = 71.8133 CIRCLE_TS3-scwrl costs 0 real_cost = 13.2303 CIRCLE_TS3 costs 0 real_cost = 19.0647 CIRCLE_TS2-scwrl costs 0 real_cost = 33.0838 CIRCLE_TS2 costs 0 real_cost = 42.167 CIRCLE_TS1-scwrl costs 0 real_cost = 17.6405 CIRCLE_TS1 costs 0 real_cost = 24.6337 Bilab-ENABLE_TS5-scwrl costs 0 real_cost = 76.8947 Bilab-ENABLE_TS5 costs 0 real_cost = 76.8637 Bilab-ENABLE_TS4-scwrl costs 0 real_cost = 118.255 Bilab-ENABLE_TS4 costs 0 real_cost = 118.251 Bilab-ENABLE_TS3-scwrl costs 0 real_cost = 55.9413 Bilab-ENABLE_TS3 costs 0 real_cost = 55.9726 Bilab-ENABLE_TS2-scwrl costs 0 real_cost = 77.5345 Bilab-ENABLE_TS2 costs 0 real_cost = 77.5222 Bilab-ENABLE_TS1-scwrl costs 0 real_cost = 78.2708 Bilab-ENABLE_TS1 costs 0 real_cost = 79.0672 BayesHH_TS1-scwrl costs 0 real_cost = 4.36489 BayesHH_TS1 costs 0 real_cost = 3.23496 ABIpro_TS5-scwrl costs 0 real_cost = 235.271 ABIpro_TS5 costs 0 real_cost = 234.546 ABIpro_TS4-scwrl costs 0 real_cost = 247.106 ABIpro_TS4 costs 0 real_cost = 246.807 ABIpro_TS3-scwrl costs 0 real_cost = 263.649 ABIpro_TS3 costs 0 real_cost = 263.65 ABIpro_TS2-scwrl costs 0 real_cost = 221.567 ABIpro_TS2 costs 0 real_cost = 221.568 ABIpro_TS1-scwrl costs 0 real_cost = 255.525 ABIpro_TS1 costs 0 real_cost = 255.538 3Dpro_TS5-scwrl costs 0 real_cost = 237.022 3Dpro_TS5 costs 0 real_cost = 239.484 3Dpro_TS4-scwrl costs 0 real_cost = 227.466 3Dpro_TS4 costs 0 real_cost = 229.961 3Dpro_TS3-scwrl costs 0 real_cost = 207.096 3Dpro_TS3 costs 0 real_cost = 219.263 3Dpro_TS2-scwrl costs 0 real_cost = 153.486 3Dpro_TS2 costs 0 real_cost = 160.801 3Dpro_TS1-scwrl costs 0 real_cost = 160.802 3Dpro_TS1 costs 0 real_cost = 167.974 3D-JIGSAW_TS5-scwrl costs 0 real_cost = 139.997 3D-JIGSAW_TS5 costs 0 real_cost = 147.017 3D-JIGSAW_TS4-scwrl costs 0 real_cost = 141.749 3D-JIGSAW_TS4 costs 0 real_cost = 142.361 3D-JIGSAW_TS3-scwrl costs 0 real_cost = 140.852 3D-JIGSAW_TS3 costs 0 real_cost = 146.582 3D-JIGSAW_TS2-scwrl costs 0 real_cost = 165.34 3D-JIGSAW_TS2 costs 0 real_cost = 175.031 3D-JIGSAW_TS1-scwrl costs 0 real_cost = 117.045 3D-JIGSAW_TS1 costs 0 real_cost = 119.51 3D-JIGSAW_RECOM_TS5-scwrl costs 0 real_cost = 74.2294 3D-JIGSAW_RECOM_TS5 costs 0 real_cost = 75.5509 3D-JIGSAW_RECOM_TS4-scwrl costs 0 real_cost = 293.779 3D-JIGSAW_RECOM_TS4 costs 0 real_cost = 292.231 3D-JIGSAW_RECOM_TS3-scwrl costs 0 real_cost = 290.29 3D-JIGSAW_RECOM_TS3 costs 0 real_cost = 286.996 3D-JIGSAW_RECOM_TS2-scwrl costs 0 real_cost = 302.786 3D-JIGSAW_RECOM_TS2 costs 0 real_cost = 297.409 3D-JIGSAW_RECOM_TS1-scwrl costs 0 real_cost = 307.669 3D-JIGSAW_RECOM_TS1 costs 0 real_cost = 303.534 3D-JIGSAW_POPULUS_TS5-scwrl costs 0 real_cost = 146.839 3D-JIGSAW_POPULUS_TS5 costs 0 real_cost = 143.976 3D-JIGSAW_POPULUS_TS4-scwrl costs 0 real_cost = 165.09 3D-JIGSAW_POPULUS_TS4 costs 0 real_cost = 162.46 3D-JIGSAW_POPULUS_TS3-scwrl costs 0 real_cost = 136.034 3D-JIGSAW_POPULUS_TS3 costs 0 real_cost = 133.561 3D-JIGSAW_POPULUS_TS2-scwrl costs 0 real_cost = 148.629 3D-JIGSAW_POPULUS_TS2 costs 0 real_cost = 146.351 3D-JIGSAW_POPULUS_TS1-scwrl costs 0 real_cost = 137.819 3D-JIGSAW_POPULUS_TS1 costs 0 real_cost = 134.95 shift232over2FromTry8.renum.pdb.gz costs 0 real_cost = 106.845 shift232over1FromTry8.renum.pdb.gz costs 0 real_cost = 105.299 shift232over1.2andMoveH33-37.renum.pdb.gz costs 0 real_cost = 109.566 shift232over1.2FromTry8.renum.pdb.gz costs 0 real_cost = 106.021 shift232over1.1FromTry8.renum.pdb.gz costs 0 real_cost = 105.953 lineup230and245take1.9rotateNtermSlide33-37helix.renum.pdb.gz costs 0 real_cost = 104.522 lineup230and245take1.2rotateNterminusAndMove.renum.pdb.gz costs 0 real_cost = 104.9 fromTry4.proto.pdb.gz costs 0 real_cost = 108.987 chimera1.pdb.gz costs 0 real_cost = 221.428 chimera-try5-server.pdb.gz costs 0 real_cost = 104.455 chimera-try5-align2.pdb.gz costs 0 real_cost = 105.856 T0293.try9-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 109.149 T0293.try9-opt2.pdb.gz costs 0 real_cost = 108.037 T0293.try9-opt2.gromacs0.pdb.gz costs 0 real_cost = 110.061 T0293.try9-opt1.pdb.gz costs 0 real_cost = 110.963 T0293.try9-opt1-scwrl.pdb.gz costs 0 real_cost = 106.733 T0293.try8-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 103.92 T0293.try8-opt2.pdb.gz costs 0 real_cost = 105.624 T0293.try8-opt2.gromacs0.pdb.gz costs 0 real_cost = 106.094 T0293.try8-opt1.pdb.gz costs 0 real_cost = 102.86 T0293.try8-opt1-scwrl.pdb.gz costs 0 real_cost = 100.551 T0293.try7-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 104.146 T0293.try7-opt2.pdb.gz costs 0 real_cost = 104.529 T0293.try7-opt2.gromacs0.pdb.gz costs 0 real_cost = 103.843 T0293.try7-opt1.pdb.gz costs 0 real_cost = 105.973 T0293.try7-opt1-scwrl.pdb.gz costs 0 real_cost = 103.435 T0293.try6-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 100.629 T0293.try6-opt2.pdb.gz costs 0 real_cost = 103.298 T0293.try6-opt2.gromacs0.pdb.gz costs 0 real_cost = 104.35 T0293.try6-opt1.pdb.gz costs 0 real_cost = 102.199 T0293.try6-opt1-scwrl.pdb.gz costs 0 real_cost = 99.9881 T0293.try5-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 109.986 T0293.try5-opt2.pdb.gz costs 0 real_cost = 108.17 T0293.try5-opt1.pdb.gz costs 0 real_cost = 107.82 T0293.try5-opt1-scwrl.pdb.gz costs 0 real_cost = 106.351 T0293.try4-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 99.9338 T0293.try4-opt2.pdb.gz costs 0 real_cost = 96.7754 T0293.try4-opt2.gromacs0.pdb.gz costs 0 real_cost = 99.0929 T0293.try4-opt1.pdb.gz costs 0 real_cost = 97.2056 T0293.try4-opt1-scwrl.pdb.gz costs 0 real_cost = 95.3863 T0293.try3-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 173.602 T0293.try3-opt2.pdb.gz costs 0 real_cost = 170.161 T0293.try3-opt2.gromacs0.pdb.gz costs 0 real_cost = 175.677 T0293.try3-opt1.pdb.gz costs 0 real_cost = 170.865 T0293.try3-opt1-scwrl.pdb.gz costs 0 real_cost = 170.21 T0293.try2-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 191.792 T0293.try2-opt2.pdb.gz costs 0 real_cost = 195.918 T0293.try2-opt2.gromacs0.pdb.gz costs 0 real_cost = 196.895 T0293.try2-opt1.pdb.gz costs 0 real_cost = 195.019 T0293.try2-opt1-scwrl.pdb.gz costs 0 real_cost = 189.771 T0293.try17-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 108.77 T0293.try17-opt2.pdb.gz costs 0 real_cost = 108.566 T0293.try17-opt2.gromacs0.pdb.gz costs 0 real_cost = 108.005 T0293.try17-opt1.pdb.gz costs 0 real_cost = 109.928 T0293.try17-opt1-scwrl.pdb.gz costs 0 real_cost = 105.899 T0293.try16-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 95.9059 T0293.try16-opt2.pdb.gz costs 0 real_cost = 94.9329 T0293.try16-opt2.gromacs0.pdb.gz costs 0 real_cost = 98.0384 T0293.try16-opt1.pdb.gz costs 0 real_cost = 97.1085 T0293.try16-opt1-scwrl.pdb.gz costs 0 real_cost = 94.9295 T0293.try15-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 75.9795 T0293.try15-opt2.pdb.gz costs 0 real_cost = 76.4844 T0293.try15-opt2.gromacs0.pdb.gz costs 0 real_cost = 77.2826 T0293.try15-opt1.pdb.gz costs 0 real_cost = 80.6455 T0293.try15-opt1-scwrl.pdb.gz costs 0 real_cost = 78.3323 T0293.try14-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 108.731 T0293.try14-opt2.pdb.gz costs 0 real_cost = 110.513 T0293.try14-opt2.gromacs0.pdb.gz costs 0 real_cost = 111.501 T0293.try14-opt1.pdb.gz costs 0 real_cost = 108.976 T0293.try14-opt1-scwrl.pdb.gz costs 0 real_cost = 105.815 T0293.try13-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 113.968 T0293.try13-opt2.pdb.gz costs 0 real_cost = 114.699 T0293.try13-opt2.gromacs0.pdb.gz costs 0 real_cost = 113.361 T0293.try13-opt1.pdb.gz costs 0 real_cost = 115.925 T0293.try13-opt1-scwrl.pdb.gz costs 0 real_cost = 110.151 T0293.try12-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 108.626 T0293.try12-opt2.pdb.gz costs 0 real_cost = 109.858 T0293.try12-opt2.gromacs0.pdb.gz costs 0 real_cost = 112.891 T0293.try12-opt1.pdb.gz costs 0 real_cost = 109.291 T0293.try12-opt1-scwrl.pdb.gz costs 0 real_cost = 106.004 T0293.try11-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 112.592 T0293.try11-opt2.pdb.gz costs 0 real_cost = 112.159 T0293.try11-opt2.gromacs0.pdb.gz costs 0 real_cost = 111.654 T0293.try11-opt1.pdb.gz costs 0 real_cost = 111.989 T0293.try11-opt1-scwrl.pdb.gz costs 0 real_cost = 109.026 T0293.try10-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 105.457 T0293.try10-opt2.pdb.gz costs 0 real_cost = 101.98 T0293.try10-opt2.gromacs0.pdb.gz costs 0 real_cost = 103.602 T0293.try10-opt1.pdb.gz costs 0 real_cost = 105.854 T0293.try10-opt1-scwrl.pdb.gz costs 0 real_cost = 103.515 T0293.try1-opt2.repack-nonPC.pdb.gz costs 0 real_cost = 198.232 T0293.try1-opt2.pdb.gz costs 0 real_cost = 198.314 T0293.try1-opt2.gromacs0.pdb.gz costs 0 real_cost = 196.054 T0293.try1-opt1.pdb.gz costs 0 real_cost = 191.696 T0293.try1-opt1-scwrl.pdb.gz costs 0 real_cost = 194.679 ../model5.ts-submitted costs 0 real_cost = 212.387 ../model4.ts-submitted costs 0 real_cost = 96.9157 ../model3.ts-submitted costs 0 real_cost = 105.362 ../model2.ts-submitted costs 0 real_cost = 95.076 ../model1.ts-submitted costs 0 real_cost = 108.591 align5 costs 0 real_cost = 358.428 align4 costs 0 real_cost = 271.179 align3 costs 0 real_cost = 359.683 align2 costs 0 real_cost = 153.586 align1 costs 0 real_cost = 194.71 T0293.try1-opt2.pdb costs 0 real_cost = 198.437 model5-scwrl costs 0 real_cost = 322.836 model5.ts-submitted costs 0 real_cost = 212.387 model4-scwrl costs 0 real_cost = 97.649 model4.ts-submitted costs 0 real_cost = 96.9157 model3-scwrl costs 0 real_cost = 102.762 model3.ts-submitted costs 0 real_cost = 105.362 model2-scwrl costs 0 real_cost = 93.2441 model2.ts-submitted costs 0 real_cost = 95.076 model1-scwrl costs 0 real_cost = 106.619 model1.ts-submitted costs 0 real_cost = 108.59 T0293_1.real.pdb costs 0 real_cost = -815.4 # command:CPU_time= 1274.02 sec, elapsed time= 2805.74 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