Invoking:
  getsize intersect_memeout/intersect.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.03147
Invoking:
  fasta-most -min 50 < intersect_memeout/intersect.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.084442
Invoking:
  fasta-center -dna -len 100 < intersect_memeout/intersect.fa 1> intersect_memeout/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.108849
Invoking:
  fasta-shuffle-letters intersect_memeout/seqs-centered intersect_memeout/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.014057
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 intersect_memeout/intersect.fa intersect_memeout/background
Finished invoke:
  name: bg  status: 0  time: 0.022919
Invoking:
  meme intersect_memeout/seqs-centered -oc intersect_memeout/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile intersect_memeout/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 1300.581244
Invoking:
  dreme -v 1 -oc intersect_memeout/dreme_out -png -dna -p intersect_memeout/seqs-centered -n intersect_memeout/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 19.650451
Invoking:
  centrimo -seqlen 902 -verbosity 1 -oc intersect_memeout/centrimo_out -bfile intersect_memeout/background intersect_memeout/intersect.fa intersect_memeout/meme_out/meme.xml intersect_memeout/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.130326
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 intersect_memeout/combined.meme intersect_memeout/combined.meme 1> intersect_memeout/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.371005
Invoking:
  spamo -verbosity 1 -oc intersect_memeout/spamo_out_1 -bgfile intersect_memeout/background -primary AAYCDKRAGRTCMBSGGTTCGANYCCSVK intersect_memeout/intersect.fa intersect_memeout/meme_out/meme.xml intersect_memeout/meme_out/meme.xml intersect_memeout/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.602059
Invoking:
  spamo -verbosity 1 -oc intersect_memeout/spamo_out_2 -bgfile intersect_memeout/background -primary YKTGGCCSAGTBGGTWAAGSSVYVBRCTT intersect_memeout/intersect.fa intersect_memeout/meme_out/meme.xml intersect_memeout/meme_out/meme.xml intersect_memeout/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.516141
Invoking:
  spamo -verbosity 1 -oc intersect_memeout/spamo_out_3 -bgfile intersect_memeout/background -primary AAAARGAA intersect_memeout/intersect.fa intersect_memeout/dreme_out/dreme.xml intersect_memeout/meme_out/meme.xml intersect_memeout/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.385045
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc intersect_memeout/fimo_out_1 --bgfile intersect_memeout/background --motif AAYCDKRAGRTCMBSGGTTCGANYCCSVK intersect_memeout/meme_out/meme.xml intersect_memeout/intersect.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.395497
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc intersect_memeout/fimo_out_2 --bgfile intersect_memeout/background --motif YKTGGCCSAGTBGGTWAAGSSVYVBRCTT intersect_memeout/meme_out/meme.xml intersect_memeout/intersect.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.405293
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc intersect_memeout/fimo_out_3 --bgfile intersect_memeout/background --motif AAAARGAA intersect_memeout/dreme_out/dreme.xml intersect_memeout/intersect.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.468904
Writing output
Invoking:
  meme-chip_html_to_tsv intersect_memeout/meme-chip.html intersect_memeout/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.446514
Done