Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.02958
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.058031
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.07586
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.013317
Invoking:
  fasta-subsample /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/seqs-centered 600 -rest /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/seqs-discarded -seed 1 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/seqs-sampled
Finished invoke:
  name: sample_seqs  status: 0  time: 0.068489
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background
Finished invoke:
  name: bg  status: 0  time: 0.014055
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 951.32674
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 67.790535
Invoking:
  centrimo -seqlen 517 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.228774
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.541385
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background -primary SGGRATCGAACCSVBGAYCTY /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.765343
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background -primary DTRGYBYAGTKGKTWRRGSSN /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.758128
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background -primary GCAAGACTGTAATTTABCACTACGAAATCT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.35786
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background -primary AAAARWA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.658256
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background -primary CGCSTTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.377087
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background -primary GCKCTACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.341873
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background -primary ATGGCAW /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.426663
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/spamo_out_8 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background -primary CACGGYG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo8  status: 0  time: 0.318749
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/spamo_out_9 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background -primary CAASAGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo9  status: 0  time: 0.655857
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/spamo_out_10 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background -primary STTAAGCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo10  status: 0  time: 0.29938
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/spamo_out_11 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background -primary AGTCAKAC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo11  status: 0  time: 0.284941
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/spamo_out_12 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background -primary CGCSCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml
Finished invoke:
  name: spamo12  status: 0  time: 0.439143
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background --motif SGGRATCGAACCSVBGAYCTY /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.36178
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background --motif DTRGYBYAGTKGKTWRRGSSN /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.349858
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background --motif GCAAGACTGTAATTTABCACTACGAAATCT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.572853
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background --motif AAAARWA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.195658
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background --motif CGCSTTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.237232
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background --motif GCKCTACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.231839
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background --motif ATGGCAW /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.198422
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background --motif CACGGYG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa
Finished invoke:
  name: fimo8  status: 0  time: 0.20878
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/fimo_out_9 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background --motif CAASAGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa
Finished invoke:
  name: fimo9  status: 0  time: 0.227506
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/fimo_out_10 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background --motif STTAAGCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa
Finished invoke:
  name: fimo10  status: 0  time: 0.246313
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/fimo_out_11 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background --motif AGTCAKAC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa
Finished invoke:
  name: fimo11  status: 0  time: 0.244907
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/fimo_out_12 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/background --motif CGCSCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/BY4742--CIN5.fa
Finished invoke:
  name: fimo12  status: 0  time: 0.246291
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4742--CIN5/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.235731
Done