Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/AWRI1631--RIM101.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.011795
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/AWRI1631--RIM101.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.056707
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/AWRI1631--RIM101.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.067809
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.011074
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/AWRI1631--RIM101.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/background
Finished invoke:
  name: bg  status: 0  time: 0.010526
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/seqs-centered -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 542.049272
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 21.608644
Invoking:
  centrimo -seqlen 579 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/AWRI1631--RIM101.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.116533
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.390641
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/background -primary AYCVKRAGRTCMBSGGTTCGAYYCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/AWRI1631--RIM101.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.312418
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/background -primary GSBBNBDTRGYBYAGTGGKWA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/AWRI1631--RIM101.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.363
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/background -primary AARAAAWA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/AWRI1631--RIM101.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.247187
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/background -primary GCCWTAAC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/AWRI1631--RIM101.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.177487
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/background -primary CCRTACA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/AWRI1631--RIM101.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.176692
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/background -primary GTGATAGY /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/AWRI1631--RIM101.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.156238
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/background --motif AYCVKRAGRTCMBSGGTTCGAYYCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/AWRI1631--RIM101.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.203998
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/background --motif GSBBNBDTRGYBYAGTGGKWA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/AWRI1631--RIM101.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.202546
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/background --motif AARAAAWA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/AWRI1631--RIM101.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.142549
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/background --motif GCCWTAAC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/AWRI1631--RIM101.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.131362
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/background --motif CCRTACA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/AWRI1631--RIM101.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.127127
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/background --motif GTGATAGY /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/AWRI1631--RIM101.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.131238
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--RIM101/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.146122
Done