Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.07208
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.060704
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.29763
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.037809
Invoking:
  fasta-subsample /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/seqs-centered 600 -rest /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/seqs-discarded -seed 1 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/seqs-sampled
Finished invoke:
  name: sample_seqs  status: 0  time: 0.079853
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background
Finished invoke:
  name: bg  status: 0  time: 0.023257
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 886.782577
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 82.972495
Invoking:
  centrimo -seqlen 490 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.199775
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.427004
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background -primary TAAYCNKRRGRTCMBSGGTTCGAYYCCSV /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.620317
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background -primary GSBYNYDTGGYCYAGTGGKTW /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.57174
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background -primary HACAYCCRTACAYCT /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.473056
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background -primary CGCSTTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.307163
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background -primary AAAAADAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.538906
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background -primary CACGGYG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.257677
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background -primary CTTGGCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.28069
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/spamo_out_8 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background -primary AGAARA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml
Finished invoke:
  name: spamo8  status: 0  time: 0.557341
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/spamo_out_9 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background -primary GGRAGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml
Finished invoke:
  name: spamo9  status: 0  time: 0.404382
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/spamo_out_10 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background -primary ATCGTRAG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml
Finished invoke:
  name: spamo10  status: 0  time: 0.245854
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/spamo_out_11 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background -primary CWTGCGC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml
Finished invoke:
  name: spamo11  status: 0  time: 0.258329
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/spamo_out_12 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background -primary ATGGCAWC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml
Finished invoke:
  name: spamo12  status: 0  time: 0.288195
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background --motif TAAYCNKRRGRTCMBSGGTTCGAYYCCSV /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.28879
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background --motif GSBYNYDTGGYCYAGTGGKTW /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.273736
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background --motif HACAYCCRTACAYCT /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.267975
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background --motif CGCSTTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.182966
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background --motif AAAAADAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.179403
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background --motif CACGGYG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.179581
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background --motif CTTGGCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.172771
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background --motif AGAARA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa
Finished invoke:
  name: fimo8  status: 0  time: 0.159834
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/fimo_out_9 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background --motif GGRAGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa
Finished invoke:
  name: fimo9  status: 0  time: 0.175242
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/fimo_out_10 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background --motif ATCGTRAG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa
Finished invoke:
  name: fimo10  status: 0  time: 0.178614
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/fimo_out_11 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background --motif CWTGCGC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa
Finished invoke:
  name: fimo11  status: 0  time: 0.178767
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/fimo_out_12 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/background --motif ATGGCAWC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/BY4741--MAC1.fa
Finished invoke:
  name: fimo12  status: 0  time: 0.186934
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MAC1/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.2185
Done