Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.04015
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.084636
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.098309
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.044197
Invoking:
  fasta-subsample /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/seqs-centered 600 -rest /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/seqs-discarded -seed 1 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/seqs-sampled
Finished invoke:
  name: sample_seqs  status: 0  time: 0.082914
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background
Finished invoke:
  name: bg  status: 0  time: 0.03026
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 887.653421
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 88.052959
Invoking:
  centrimo -seqlen 496 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.383831
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.442106
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background -primary TAAYCNKRAGRTCMKSGGTTCGAYYCCSVK /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.431869
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background -primary GSKBNBDTGGYBYAGTKGKT /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.37675
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background -primary HHACAYCCRTACAYM /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.271997
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background -primary ARAAAAKA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.345419
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background -primary CCWTAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.200944
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background -primary KATATATA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.19067
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background -primary GCKCTACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.193688
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/spamo_out_8 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background -primary ACKAAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml
Finished invoke:
  name: spamo8  status: 0  time: 0.200213
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/spamo_out_9 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background -primary CWCGCCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml
Finished invoke:
  name: spamo9  status: 0  time: 0.172404
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/spamo_out_10 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background -primary AAGMACTC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml
Finished invoke:
  name: spamo10  status: 0  time: 0.19182
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/spamo_out_11 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background -primary ACGATGGS /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml
Finished invoke:
  name: spamo11  status: 0  time: 0.197449
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background --motif TAAYCNKRAGRTCMKSGGTTCGAYYCCSVK /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.290288
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background --motif GSKBNBDTGGYBYAGTKGKT /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.267688
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background --motif HHACAYCCRTACAYM /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.249798
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background --motif ARAAAAKA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.178376
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background --motif CCWTAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.173278
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background --motif KATATATA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.157941
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background --motif GCKCTACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.174347
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background --motif ACKAAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa
Finished invoke:
  name: fimo8  status: 0  time: 0.173516
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/fimo_out_9 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background --motif CWCGCCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa
Finished invoke:
  name: fimo9  status: 0  time: 0.171588
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/fimo_out_10 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background --motif AAGMACTC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa
Finished invoke:
  name: fimo10  status: 0  time: 0.173906
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/fimo_out_11 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/background --motif ACGATGGS /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/BY4741--MOT1.fa
Finished invoke:
  name: fimo11  status: 0  time: 0.174977
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.263088
Done