Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/AWRI1631--STE12.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.022215
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/AWRI1631--STE12.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.060455
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/AWRI1631--STE12.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.079091
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.014459
Invoking:
  fasta-subsample /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/seqs-centered 600 -rest /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/seqs-discarded -seed 1 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/seqs-sampled
Finished invoke:
  name: sample_seqs  status: 0  time: 0.066194
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/AWRI1631--STE12.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/background
Finished invoke:
  name: bg  status: 0  time: 0.017811
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 995.983962
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 38.74304
Invoking:
  centrimo -seqlen 385 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/AWRI1631--STE12.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.128132
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.560712
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/background -primary AAAAAAAAYGVYCNMDVSSRGRWTCGAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/AWRI1631--STE12.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.543015
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/background -primary YARTCYKDCGCCTTAACCAAYYKGSCMA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/AWRI1631--STE12.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.424326
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/background -primary AAGAW /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/AWRI1631--STE12.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.585022
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/background -primary CGTTGCM /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/AWRI1631--STE12.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.306346
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/background -primary CTGCYGC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/AWRI1631--STE12.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.376385
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/background -primary AGTGGTW /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/AWRI1631--STE12.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.438283
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/background --motif AAAAAAAAYGVYCNMDVSSRGRWTCGAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/AWRI1631--STE12.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.51005
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/background --motif YARTCYKDCGCCTTAACCAAYYKGSCMA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/AWRI1631--STE12.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.500028
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/background --motif AAGAW /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/AWRI1631--STE12.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.353728
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/background --motif CGTTGCM /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/AWRI1631--STE12.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.367589
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/background --motif CTGCYGC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/AWRI1631--STE12.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.37002
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/background --motif AGTGGTW /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/AWRI1631--STE12.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.366762
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.143491
Done