Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.019542
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.056407
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.070687
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.013514
Invoking:
  fasta-subsample /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/seqs-centered 600 -rest /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/seqs-discarded -seed 1 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/seqs-sampled
Finished invoke:
  name: sample_seqs  status: 0  time: 0.063951
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background
Finished invoke:
  name: bg  status: 0  time: 0.011294
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 963.733609
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 64.451568
Invoking:
  centrimo -seqlen 400 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.26263
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.413046
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background -primary GSBYBBKTGGCSYAGTGGKWW /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.486109
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background -primary DMBSGGRRTCGAACCSVKGAYCTYCNSRTT /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.411655
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background -primary WACAYCCRTACAYY /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.340954
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background -primary GCGCYAC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.233417
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background -primary CGCCTTAR /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.215945
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background -primary AGAAAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.30888
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background -primary CGTWGCCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.226151
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/spamo_out_8 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background -primary CTATCAC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml
Finished invoke:
  name: spamo8  status: 0  time: 0.228031
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/spamo_out_9 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background -primary AGGAAGW /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml
Finished invoke:
  name: spamo9  status: 0  time: 0.24061
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background --motif GSBYBBKTGGCSYAGTGGKWW /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.280571
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background --motif DMBSGGRRTCGAACCSVKGAYCTYCNSRTT /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.272603
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background --motif WACAYCCRTACAYY /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.259471
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background --motif GCGCYAC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.178676
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background --motif CGCCTTAR /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.1781
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background --motif AGAAAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.154021
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background --motif CGTWGCCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.153994
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background --motif CTATCAC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa
Finished invoke:
  name: fimo8  status: 0  time: 0.148514
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/fimo_out_9 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/background --motif AGGAAGW /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/BY4741--NOT3.fa
Finished invoke:
  name: fimo9  status: 0  time: 0.132586
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--NOT3/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.212022
Done