Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.050493
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.062272
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.102698
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.039555
Invoking:
  fasta-subsample /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/seqs-centered 600 -rest /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/seqs-discarded -seed 1 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/seqs-sampled
Finished invoke:
  name: sample_seqs  status: 0  time: 0.081852
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background
Finished invoke:
  name: bg  status: 0  time: 0.021035
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 878.189419
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 67.846734
Invoking:
  centrimo -seqlen 444 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.193952
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.418878
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background -primary SGGRHTCGAACCSVKGAYCTY /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.464009
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background -primary CSCYTWAMCMACTSGGCCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.40929
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background -primary AGAARA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.363061
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background -primary BTAAGGCG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.213342
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background -primary TAYRTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.342235
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background -primary TAGTGGTW /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.232049
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background -primary CKCTACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.20803
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/spamo_out_8 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background -primary CCMCGCG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo8  status: 0  time: 0.231139
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/spamo_out_9 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background -primary ACSGATG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo9  status: 0  time: 0.206757
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/spamo_out_10 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background -primary CACGGTGM /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo10  status: 0  time: 0.212662
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/spamo_out_11 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background -primary CCYAAACA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo11  status: 0  time: 0.170446
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/spamo_out_12 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background -primary ATGGCAWC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo12  status: 0  time: 0.210082
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background --motif SGGRHTCGAACCSVKGAYCTY /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.248574
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background --motif CSCYTWAMCMACTSGGCCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.267968
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background --motif AGAARA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.144151
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background --motif BTAAGGCG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.166323
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background --motif TAYRTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.159162
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background --motif TAGTGGTW /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.1758
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background --motif CKCTACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.173214
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background --motif CCMCGCG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa
Finished invoke:
  name: fimo8  status: 0  time: 0.168587
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/fimo_out_9 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background --motif ACSGATG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa
Finished invoke:
  name: fimo9  status: 0  time: 0.160178
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/fimo_out_10 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background --motif CACGGTGM /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa
Finished invoke:
  name: fimo10  status: 0  time: 0.176192
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/fimo_out_11 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background --motif CCYAAACA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa
Finished invoke:
  name: fimo11  status: 0  time: 0.178803
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/fimo_out_12 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/background --motif ATGGCAWC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/BY4741--CIN5.fa
Finished invoke:
  name: fimo12  status: 0  time: 0.173551
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--CIN5/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.188186
Done