Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/BY4742--PDR8.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.038291
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/BY4742--PDR8.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.057623
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/BY4742--PDR8.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.086821
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.017836
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/BY4742--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/background
Finished invoke:
  name: bg  status: 0  time: 0.013486
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/seqs-centered -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 840.357538
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 30.436942
Invoking:
  centrimo -seqlen 554 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/BY4742--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.167283
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.331999
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/background -primary GGRATCGAACCSVKGAYCTYCNGRTT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/BY4742--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.544068
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/background -primary GSBYNYKTGGCSYAGTKGKTWRAGSS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/BY4742--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.617494
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/background -primary TGDRTGTGRTGTRTGGGTG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/BY4742--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.362301
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/background -primary CCWTAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/BY4742--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.274942
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/background -primary AAAAADA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/BY4742--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.448847
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/background -primary CGTGYTAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/BY4742--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.226048
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/background --motif GGRATCGAACCSVKGAYCTYCNGRTT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/BY4742--PDR8.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.294488
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/background --motif GSBYNYKTGGCSYAGTKGKTWRAGSS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/BY4742--PDR8.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.295748
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/background --motif TGDRTGTGRTGTRTGGGTG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/BY4742--PDR8.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.307753
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/background --motif CCWTAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/BY4742--PDR8.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.193575
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/background --motif AAAAADA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/BY4742--PDR8.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.193583
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/background --motif CGTGYTAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/BY4742--PDR8.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.219792
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--PDR8/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.166672
Done