Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.059608
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.064198
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.076893
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.019534
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/background
Finished invoke:
  name: bg  status: 0  time: 0.027947
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/seqs-centered -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 934.598647
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 41.022381
Invoking:
  centrimo -seqlen 569 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.180624
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.206626
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/background -primary AGRTCVBSGGTTCGAKYCCS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.714276
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/background -primary WAMCCACTRVRCYAHRNVVSC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.77859
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/background -primary CACCCATACAYC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.635838
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/background -primary AARAAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.494195
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/background -primary CCHTAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.336744
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/background -primary GCGCCW /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.368313
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/background -primary TAGKGTAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.27705
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/spamo_out_8 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/background -primary CGYCCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out/dreme.xml
Finished invoke:
  name: spamo8  status: 0  time: 0.392476
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/background --motif AGRTCVBSGGTTCGAKYCCS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.32774
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/background --motif WAMCCACTRVRCYAHRNVVSC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.330897
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/background --motif CACCCATACAYC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.3211
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/background --motif AARAAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.216527
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/background --motif CCHTAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.229036
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/background --motif GCGCCW /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.220092
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/background --motif TAGKGTAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.247469
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/background --motif CGYCCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/BY4741--SRB8.fa
Finished invoke:
  name: fimo8  status: 0  time: 0.233395
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SRB8/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.157369
Done