Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/YJM789--SRB8.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.248681
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/YJM789--SRB8.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.079032
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/YJM789--SRB8.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.109781
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.044727
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/YJM789--SRB8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/background
Finished invoke:
  name: bg  status: 0  time: 0.03946
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/seqs-centered -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 809.841511
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 28.845011
Invoking:
  centrimo -seqlen 489 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/YJM789--SRB8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.186379
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.62679
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/background -primary AAAAAAAAWYGCYCNMDMSSGGRATCGAAC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/YJM789--SRB8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.452999
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/background -primary AWWWGSBYNBKTGGCBYAGTKGKTWRAGSS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/YJM789--SRB8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.495515
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/background -primary GCCTTAMC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/YJM789--SRB8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.240364
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/background -primary CTACCGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/YJM789--SRB8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.202202
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/background -primary TAGTKTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/YJM789--SRB8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.275869
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/background -primary SAAGAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/YJM789--SRB8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.365603
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/background --motif AAAAAAAAWYGCYCNMDMSSGGRATCGAAC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/YJM789--SRB8.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.292307
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/background --motif AWWWGSBYNBKTGGCBYAGTKGKTWRAGSS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/YJM789--SRB8.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.303223
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/background --motif GCCTTAMC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/YJM789--SRB8.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.235895
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/background --motif CTACCGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/YJM789--SRB8.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.204163
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/background --motif TAGTKTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/YJM789--SRB8.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.187489
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/background --motif SAAGAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/YJM789--SRB8.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.189608
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SRB8/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.174696
Done