Invoking:
  getsize intersect_memechip_out/intersection.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.010277
Invoking:
  fasta-most -min 50 < intersect_memechip_out/intersection.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.05191
Invoking:
  fasta-center -dna -len 100 < intersect_memechip_out/intersection.fa 1> intersect_memechip_out/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.067978
Invoking:
  fasta-shuffle-letters intersect_memechip_out/seqs-centered intersect_memechip_out/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.00988100000000003
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 intersect_memechip_out/intersection.fa intersect_memechip_out/background
Finished invoke:
  name: bg  status: 0  time: 0.006266
Invoking:
  meme intersect_memechip_out/seqs-centered -oc intersect_memechip_out/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile intersect_memechip_out/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 542.891045
Invoking:
  dreme -v 1 -oc intersect_memechip_out/dreme_out -png -dna -p intersect_memechip_out/seqs-centered -n intersect_memechip_out/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 31.064308
Invoking:
  centrimo -seqlen 210 -verbosity 1 -oc intersect_memechip_out/centrimo_out -bfile intersect_memechip_out/background intersect_memechip_out/intersection.fa intersect_memechip_out/meme_out/meme.xml intersect_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.494869
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 intersect_memechip_out/combined.meme intersect_memechip_out/combined.meme 1> intersect_memechip_out/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.469738
Invoking:
  spamo -verbosity 1 -oc intersect_memechip_out/spamo_out_1 -bgfile intersect_memechip_out/background -primary ATTTGCATAWCAAWR intersect_memechip_out/intersection.fa intersect_memechip_out/meme_out/meme.xml intersect_memechip_out/meme_out/meme.xml intersect_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.483876
Invoking:
  spamo -verbosity 1 -oc intersect_memechip_out/spamo_out_2 -bgfile intersect_memechip_out/background -primary GTCACCTCATTAGCATAAACTCAGGTGTG intersect_memechip_out/intersection.fa intersect_memechip_out/meme_out/meme.xml intersect_memechip_out/meme_out/meme.xml intersect_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.419387
Invoking:
  spamo -verbosity 1 -oc intersect_memechip_out/spamo_out_3 -bgfile intersect_memechip_out/background -primary GCAGGCCRTTAGAARCTGGGTCCACCCAA intersect_memechip_out/intersection.fa intersect_memechip_out/meme_out/meme.xml intersect_memechip_out/meme_out/meme.xml intersect_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.471455
Invoking:
  spamo -verbosity 1 -oc intersect_memechip_out/spamo_out_4 -bgfile intersect_memechip_out/background -primary ACAAWRG intersect_memechip_out/intersection.fa intersect_memechip_out/dreme_out/dreme.xml intersect_memechip_out/meme_out/meme.xml intersect_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.314235
Invoking:
  spamo -verbosity 1 -oc intersect_memechip_out/spamo_out_5 -bgfile intersect_memechip_out/background -primary CCAGGTR intersect_memechip_out/intersection.fa intersect_memechip_out/dreme_out/dreme.xml intersect_memechip_out/meme_out/meme.xml intersect_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.257247
Invoking:
  spamo -verbosity 1 -oc intersect_memechip_out/spamo_out_6 -bgfile intersect_memechip_out/background -primary RAAAGA intersect_memechip_out/intersection.fa intersect_memechip_out/dreme_out/dreme.xml intersect_memechip_out/meme_out/meme.xml intersect_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.305645
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc intersect_memechip_out/fimo_out_1 --bgfile intersect_memechip_out/background --motif ATTTGCATAWCAAWR intersect_memechip_out/meme_out/meme.xml intersect_memechip_out/intersection.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.355974
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc intersect_memechip_out/fimo_out_2 --bgfile intersect_memechip_out/background --motif GTCACCTCATTAGCATAAACTCAGGTGTG intersect_memechip_out/meme_out/meme.xml intersect_memechip_out/intersection.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.302606
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc intersect_memechip_out/fimo_out_3 --bgfile intersect_memechip_out/background --motif GCAGGCCRTTAGAARCTGGGTCCACCCAA intersect_memechip_out/meme_out/meme.xml intersect_memechip_out/intersection.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.373555
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc intersect_memechip_out/fimo_out_4 --bgfile intersect_memechip_out/background --motif ACAAWRG intersect_memechip_out/dreme_out/dreme.xml intersect_memechip_out/intersection.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.209763
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc intersect_memechip_out/fimo_out_5 --bgfile intersect_memechip_out/background --motif CCAGGTR intersect_memechip_out/dreme_out/dreme.xml intersect_memechip_out/intersection.fa
Finished invoke:
  name: fimo5  status: 0  time: 1.200843
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc intersect_memechip_out/fimo_out_6 --bgfile intersect_memechip_out/background --motif RAAAGA intersect_memechip_out/dreme_out/dreme.xml intersect_memechip_out/intersection.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.586476
Writing output
Invoking:
  meme-chip_html_to_tsv intersect_memechip_out/meme-chip.html intersect_memechip_out/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.216978
Done