Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/RM11-1A--ACE2.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.014111
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/RM11-1A--ACE2.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.055834
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/RM11-1A--ACE2.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.071457
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.011453
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/RM11-1A--ACE2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/background
Finished invoke:
  name: bg  status: 0  time: 0.011499
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/seqs-centered -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 881.08935
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 17.31477
Invoking:
  centrimo -seqlen 592 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/RM11-1A--ACE2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.125792
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.13005
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/background -primary RGRWCCSSGGTTCGATYCCSS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/RM11-1A--ACE2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.434938
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/background -primary SSCYYWAMCCACTVVRCYAHV /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/RM11-1A--ACE2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.453531
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/background -primary GRTGTAYGGRTGT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/RM11-1A--ACE2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.33197
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/background -primary ADAAAAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/RM11-1A--ACE2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.336556
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/background --motif RGRWCCSSGGTTCGATYCCSS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/RM11-1A--ACE2.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.241527
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/background --motif SSCYYWAMCCACTVVRCYAHV /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/RM11-1A--ACE2.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.237421
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/background --motif GRTGTAYGGRTGT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/RM11-1A--ACE2.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.221786
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/background --motif ADAAAAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/RM11-1A--ACE2.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.133584
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--ACE2/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.138285
Done