make -k PRED=1dbgA PRED2=1d joint make[1]: Entering directory `/export/projects/compbio/experiments/casp4/t101' /projects/compbio/bin/scripts/w0.5 /projects/compbio/experiments/models.97/pdb/1d/1dbgA/struct-align/1dbgA.fssp.a2m.gz /projects/compbio/experiments/models.97/pdb/1d/1dbgA/struct-align/1dbgA.fssp-w0.5.mod Reading /projects/compbio/bin/scripts/sam-t99.conf @@@@ chgrp protein /projects/compbio/tmp/tmp-build-weighted-model-beta-15118 @@@@ uniqueseq /projects/compbio/tmp/tmp-build-weighted-model-beta-15118/tmp -alignfile /projects/compbio/experiments/models.97/pdb/1d/1dbgA/struct-align/1dbgA.fssp.a2m.gz \ -a protein -percent_id 0.8 SAM: uniqueseq v3.1b (February 24, 1999) compiled 04/18/00_11:44:50 Reading alignment file /projects/compbio/experiments/models.97/pdb/1d/1dbgA/struct-align/1dbgA.fssp.a2m.gz (11 sequences, 481 columns) as A2M alignment. Writing sequence output to /projects/compbio/tmp/tmp-build-weighted-model-beta-15118/tmp.a2m. Dropping 1 (of 11) duplicate sequences with differing IDs 10 sequences left after dropping 1 of 11 sequences. @@@@ modelfromalign /projects/compbio/tmp/tmp-build-weighted-model-beta-15118/tmp -alignfile /projects/compbio/tmp/tmp-build-weighted-model-beta-15118/tmp.a2m \ -insert /projects/compbio/lib/fssp-trained.regularizer \ -ins_jump_conf 1 \ -match_jump_conf 1 \ -del_jump_conf 1 \ -prior_library /projects/compbio/lib/recode3.20comp \ -binary_output 1 -a protein -aweight_method 1 -aweight_bits 0.5 -aweight_exponent 10 Reading parameter file /projects/compbio/lib/fssp-trained.regularizer /projects/compbio/lib/fssp-trained.regularizer(1): Reading REGULARIZER: transitions from FSSP and pseudocounts for diverse weighted HSSP SAM: modelfromalign v3.1b (February 24, 1999) compiled 04/18/00_11:44:13 Reading alignment file /projects/compbio/tmp/tmp-build-weighted-model-beta-15118/tmp.a2m (10 sequences, 481 columns) as A2M alignment. @@@@ cp -f /projects/compbio/tmp/tmp-build-weighted-model-beta-15118/tmp.mod /projects/compbio/experiments/models.97/pdb/1d/1dbgA/struct-align/1dbgA.fssp-w0.5.mod @@@@ rm -rf /projects/compbio/tmp/tmp-build-weighted-model-beta-15118 80.0% id 8 sequences left after dropping 5 of 13 sequences. @@@@ modelfromalign /projects/compbio/tmp/tmp-build-weighted-model-beta-30400/tmp -alignfile /projects/compbio/tmp/tmp-build-weighted-model-beta-30400/tmp.a2m \ -insert /projects/compbio/lib/fssp-trained.regularizer \ -ins_jump_conf 1 \ -match_jump_conf 1 \ -del_jump_conf 1 \ -prior_library /projects/compbio/lib/recode3.20comp \ -binary_output 1 -a protein -aweight_method 1 -aweight_bits 0.5 -aweight_exponent 10 Reading parameter file /projects/compbio/lib/fssp-trained.regularizer /projects/compbio/lib/fssp-trained.regularizer(1): Reading REGULARIZER: transitions from FSSP and pseudocounts for diverse weighted HSSP SAM: modelfromalign v3.1b (February 24, 1999) compiled 04/18/00_11:44:13 Reading alignment file /projects/compbio/tmp/tmp-build-weighted-model-beta-30400/tmp.a2m (8 sequences, 400 columns) as A2M alignment. @@@@ cp -f /projects/compbio/tmp/tmp-build-weighted-model-beta-30400/tmp.mod T0101.t2k-w0.5.mod @@@@ rm -rf /projects/compbio/tmp/tmp-build-weighted-model-beta-30400 80.0% id 9 sequences left after dropping 5 of 14 sequences. @@@@ modelfromalign /projects/compbio/tmp/tmp-build-weighted-model-purr-19372/tmp -alignfile /projects/compbio/tmp/tmp-build-weighted-model-purr-19372/tmp.a2m \ -insert /projects/compbio/lib/fssp-trained.regularizer \ -ins_jump_conf 1 \ -match_jump_conf 1 \ -del_jump_conf 1 \ -prior_library /projects/compbio/lib/recode3.20comp \ -binary_output 1 -a protein -aweight_method 1 -aweight_bits 0.5 -aweight_exponent 10 Reading parameter file /projects/compbio/lib/fssp-trained.regularizer /projects/compbio/lib/fssp-trained.regularizer(1): Reading REGULARIZER: transitions from FSSP and pseudocounts for diverse weighted HSSP SAM: modelfromalign v3.1b (February 24, 1999) compiled 04/18/00_11:44:13 Reading alignment file /projects/compbio/tmp/tmp-build-weighted-model-purr-19372/tmp.a2m (9 sequences, 542 columns) as A2M alignment. @@@@ cp -f /projects/compbio/tmp/tmp-build-weighted-model-purr-19372/tmp.mod /projects/compbio/experiments/models.97/pdb/1q/1qa1A/struct-align/1qa1A.fssp-w0.5.mod @@@@ rm -rf /projects/compbio/tmp/tmp-build-weighted-model-purr-19372 80.0% id 12 sequences left after dropping 2 of 14 sequences. @@@@ modelfromalign /projects/compbio/tmp/tmp-build-weighted-model-purr-16671/tmp -alignfile /projects/compbio/tmp/tmp-build-weighted-model-purr-16671/tmp.a2m \ -insert /projects/compbio/lib/fssp-trained.regularizer \ -ins_jump_conf 1 \ -match_jump_conf 1 \ -del_jump_conf 1 \ -prior_library /projects/compbio/lib/recode3.20comp \ -binary_output 1 -a protein -aweight_method 1 -aweight_bits 0.5 -aweight_exponent 10 Reading parameter file /projects/compbio/lib/fssp-trained.regularizer /projects/compbio/lib/fssp-trained.regularizer(1): Reading REGULARIZER: transitions from FSSP and pseudocounts for diverse weighted HSSP SAM: modelfromalign v3.1b (February 24, 1999) compiled 04/18/00_11:44:13 Reading alignment file /projects/compbio/tmp/tmp-build-weighted-model-purr-16671/tmp.a2m (12 sequences, 359 columns) as A2M alignment. @@@@ cp -f /projects/compbio/tmp/tmp-build-weighted-model-purr-16671/tmp.mod /projects/compbio/experiments/models.97/pdb/1q/1qcxA/struct-align/1qcxA.fssp-w0.5.mod @@@@ rm -rf /projects/compbio/tmp/tmp-build-weighted-model-purr-16671 80.0% id 10 sequences left after dropping 5 of 15 sequences. @@@@ modelfromalign /projects/compbio/tmp/tmp-build-weighted-model-purr-16672/tmp -alignfile /projects/compbio/tmp/tmp-build-weighted-model-purr-16672/tmp.a2m \ -insert /projects/compbio/lib/fssp-trained.regularizer \ -ins_jump_conf 1 \ -match_jump_conf 1 \ -del_jump_conf 1 \ -prior_library /projects/compbio/lib/recode3.20comp \ -binary_output 1 -a protein -aweight_method 1 -aweight_bits 0.5 -aweight_exponent 10 Reading parameter file /projects/compbio/lib/fssp-trained.regularizer /projects/compbio/lib/fssp-trained.regularizer(1): Reading REGULARIZER: transitions from FSSP and pseudocounts for diverse weighted HSSP SAM: modelfromalign v3.1b (February 24, 1999) compiled 04/18/00_11:44:13 Reading alignment file /projects/compbio/tmp/tmp-build-weighted-model-purr-16672/tmp.a2m (10 sequences, 542 columns) as A2M alignment. @@@@ cp -f /projects/compbio/tmp/tmp-build-weighted-model-purr-16672/tmp.mod /projects/compbio/experiments/models.97/pdb/1t/1tyv/struct-align/1tyv.fssp-w0.5.mod @@@@ rm -rf /projects/compbio/tmp/tmp-build-weighted-model-purr-16672