Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.03933
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.072564
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.080773
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.012403
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/background
Finished invoke:
  name: bg  status: 0  time: 0.012934
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/seqs-centered -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 858.316527
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 35.44266
Invoking:
  centrimo -seqlen 611 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.136643
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.425694
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/background -primary RGRATCGAACCSVKGACCTYMHSV /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.341958
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/background -primary TGGCCYAGTBGKTWRAGSSHH /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.301216
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/background -primary ATGTAYGG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.168447
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/background -primary CTTGKC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.229851
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/background -primary CCWTAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.192615
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/background -primary AAHAAGAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.233906
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/background -primary GTGATAGY /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.18904
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/spamo_out_8 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/background -primary GCKCTACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml
Finished invoke:
  name: spamo8  status: 0  time: 0.180104
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/background --motif RGRATCGAACCSVKGACCTYMHSV /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.243981
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/background --motif TGGCCYAGTBGKTWRAGSSHH /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.243587
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/background --motif ATGTAYGG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.159064
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/background --motif CTTGKC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.141415
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/background --motif CCWTAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.160369
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/background --motif AAHAAGAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.162407
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/background --motif GTGATAGY /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.163051
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/background --motif GCKCTACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/YJM789--YRR1.fa
Finished invoke:
  name: fimo8  status: 0  time: 0.159351
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YRR1/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.173459
Done