Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.0953
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.067302
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.097233
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.035167
Invoking:
  fasta-subsample /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/seqs-centered 600 -rest /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/seqs-discarded -seed 1 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/seqs-sampled
Finished invoke:
  name: sample_seqs  status: 0  time: 0.069157
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background
Finished invoke:
  name: bg  status: 0  time: 0.015128
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 897.56827
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 101.729065
Invoking:
  centrimo -seqlen 436 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.285064
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.654103
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background -primary MBSGGRATCGAACCSVKGAYCYYCHSRTT /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.439998
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background -primary BSSRDSSCYYWAMCMACTRGGCCAHRNRVC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.472497
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background -primary WDATGTAYGGRTGTADDRDNK /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.392446
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background -primary AAAAARAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.347346
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background -primary GCCTTAMC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.288238
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background -primary KACCACTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.218078
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background -primary CCGTGC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.276959
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/spamo_out_8 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background -primary BGGAGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml
Finished invoke:
  name: spamo8  status: 0  time: 0.319054
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/spamo_out_9 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background -primary TATATAWA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml
Finished invoke:
  name: spamo9  status: 0  time: 0.234181
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/spamo_out_10 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background -primary RCGGGGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml
Finished invoke:
  name: spamo10  status: 0  time: 0.252029
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background --motif MBSGGRATCGAACCSVKGAYCYYCHSRTT /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.387667
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background --motif BSSRDSSCYYWAMCMACTRGGCCAHRNRVC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.377383
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background --motif WDATGTAYGGRTGTADDRDNK /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.401148
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background --motif AAAAARAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.250785
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background --motif GCCTTAMC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.260535
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background --motif KACCACTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.253268
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background --motif CCGTGC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.285617
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background --motif BGGAGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa
Finished invoke:
  name: fimo8  status: 0  time: 0.253485
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/fimo_out_9 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background --motif TATATAWA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa
Finished invoke:
  name: fimo9  status: 0  time: 0.277666
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/fimo_out_10 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/background --motif RCGGGGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/BY4741--SOK2.fa
Finished invoke:
  name: fimo10  status: 0  time: 0.263168
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--SOK2/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.270354
Done