Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/AWRI1631--GAL11.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.053028
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/AWRI1631--GAL11.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.064102
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/AWRI1631--GAL11.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.095388
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.026699
Invoking:
  fasta-subsample /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/seqs-centered 600 -rest /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/seqs-discarded -seed 1 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/seqs-sampled
Finished invoke:
  name: sample_seqs  status: 0  time: 0.074024
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/AWRI1631--GAL11.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/background
Finished invoke:
  name: bg  status: 0  time: 0.019549
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 1003.765484
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 34.405116
Invoking:
  centrimo -seqlen 794 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/AWRI1631--GAL11.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.20163
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.508471
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/background -primary YCDKRRGRTCMSSGGTTCGATYCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/AWRI1631--GAL11.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.49965
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/background -primary CSNNSSCYYWWMCCACTVSGCCAMRNRVCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/AWRI1631--GAL11.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.5901
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/background -primary TGGTWR /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/AWRI1631--GAL11.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.641015
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/background -primary AAAAAADA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/AWRI1631--GAL11.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.564621
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/background -primary SAAGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/AWRI1631--GAL11.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.582377
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/background -primary CACGGYG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/AWRI1631--GAL11.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.257339
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/background -primary CGGTAGM /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/AWRI1631--GAL11.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.307437
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/background --motif YCDKRRGRTCMSSGGTTCGATYCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/AWRI1631--GAL11.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.637775
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/background --motif CSNNSSCYYWWMCCACTVSGCCAMRNRVCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/AWRI1631--GAL11.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.422867
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/background --motif TGGTWR /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/AWRI1631--GAL11.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.29277
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/background --motif AAAAAADA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/AWRI1631--GAL11.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.353799
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/background --motif SAAGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/AWRI1631--GAL11.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.273691
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/background --motif CACGGYG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/AWRI1631--GAL11.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.501032
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/background --motif CGGTAGM /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/AWRI1631--GAL11.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.287586
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--GAL11/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.168095
Done