Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/BY4741--IES2.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.017482
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/BY4741--IES2.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.057937
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/BY4741--IES2.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.076653
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.012372
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/BY4741--IES2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/background
Finished invoke:
  name: bg  status: 0  time: 0.02064
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/seqs-centered -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 960.449938
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 32.481897
Invoking:
  centrimo -seqlen 577 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/BY4741--IES2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.475424
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.655632
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/background -primary TCNKRAGRTCVBSGGTTCGAHYCCS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/BY4741--IES2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.698172
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/background -primary TGGCSMAGTTGGTWAAGSSVT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/BY4741--IES2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.501642
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/background -primary AGTGGTW /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/BY4741--IES2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.497416
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/background -primary AAAAAAKA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/BY4741--IES2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.308738
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/background -primary ACTCWCG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/BY4741--IES2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.221756
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/background -primary GCGCCW /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/BY4741--IES2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.248321
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/background -primary CGTTGCY /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/BY4741--IES2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.316164
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/background --motif TCNKRAGRTCVBSGGTTCGAHYCCS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/BY4741--IES2.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.381167
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/background --motif TGGCSMAGTTGGTWAAGSSVT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/BY4741--IES2.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.361486
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/background --motif AGTGGTW /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/BY4741--IES2.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.295963
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/background --motif AAAAAAKA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/BY4741--IES2.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.293366
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/background --motif ACTCWCG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/BY4741--IES2.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.302205
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/background --motif GCGCCW /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/BY4741--IES2.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.232827
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/background --motif CGTTGCY /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/BY4741--IES2.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.261483
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--IES2/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.200194
Done