Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/BY4741--PDR8.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.097295
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/BY4741--PDR8.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.067572
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/BY4741--PDR8.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.090378
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.034511
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/background
Finished invoke:
  name: bg  status: 0  time: 0.029858
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/seqs-centered -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 921.642931
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 34.35274
Invoking:
  centrimo -seqlen 626 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.164183
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.191143
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/background -primary RRGRTCVBSGGTTCGAWYCCS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.57897
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/background -primary TGGCYYAGTKGKTWRAGSSHH /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.528684
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/background -primary CACCCATRCAYCDCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.447912
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/background -primary AAAAARA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.416318
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/background -primary CGCSTTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.280818
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/background -primary ACCGTGS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.218321
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/background -primary ATCKTGAG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.43254
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/background --motif RRGRTCVBSGGTTCGAWYCCS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/BY4741--PDR8.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.321494
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/background --motif TGGCYYAGTKGKTWRAGSSHH /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/BY4741--PDR8.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.31858
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/background --motif CACCCATRCAYCDCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/BY4741--PDR8.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.34719
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/background --motif AAAAARA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/BY4741--PDR8.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.197164
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/background --motif CGCSTTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/BY4741--PDR8.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.216955
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/background --motif ACCGTGS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/BY4741--PDR8.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.215292
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/background --motif ATCKTGAG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/BY4741--PDR8.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.206828
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.423536
Done