Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.019518
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.059618
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.075703
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.013761
Invoking:
  fasta-subsample /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/seqs-centered 600 -rest /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/seqs-discarded -seed 1 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/seqs-sampled
Finished invoke:
  name: sample_seqs  status: 0  time: 0.064616
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/background
Finished invoke:
  name: bg  status: 0  time: 0.01618
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 960.760566
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 44.520919
Invoking:
  centrimo -seqlen 509 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.150379
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.560779
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/background -primary BSGGRATCGAACCSVKGAYCTYCNGATTR /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.602607
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/background -primary GSBYNYDTGGYCYAGTGGKTWRRGSS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.656367
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/background -primary ARAAAWA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.507937
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/background -primary AASGCG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.440323
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/background -primary ATCKTGAG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.227635
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/background -primary CGCGCW /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.3521
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/background -primary CTCTCSCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.217489
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/spamo_out_8 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/background -primary ACCASCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml
Finished invoke:
  name: spamo8  status: 0  time: 0.28758
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/background --motif BSGGRATCGAACCSVKGAYCTYCNGATTR /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.410675
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/background --motif GSBYNYDTGGYCYAGTGGKTWRRGSS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.401827
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/background --motif ARAAAWA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.266359
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/background --motif AASGCG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.268164
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/background --motif ATCKTGAG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.290618
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/background --motif CGCGCW /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.286342
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/background --motif CTCTCSCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.29387
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/background --motif ACCASCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/BY4742--MOT3.fa
Finished invoke:
  name: fimo8  status: 0  time: 0.281241
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--MOT3/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.147899
Done