Invoking:
  getsize gm_memeout/gm_peaks.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.023581
Invoking:
  fasta-most -min 50 < gm_memeout/gm_peaks.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.074474
Invoking:
  fasta-center -dna -len 100 < gm_memeout/gm_peaks.fa 1> gm_memeout/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.093287
Invoking:
  fasta-shuffle-letters gm_memeout/seqs-centered gm_memeout/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.011068
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 gm_memeout/gm_peaks.fa gm_memeout/background
Finished invoke:
  name: bg  status: 0  time: 0.012072
Invoking:
  meme gm_memeout/seqs-centered -oc gm_memeout/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile gm_memeout/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 2012.418989
Invoking:
  dreme -v 1 -oc gm_memeout/dreme_out -png -dna -p gm_memeout/seqs-centered -n gm_memeout/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 49.438998
Invoking:
  centrimo -seqlen 572 -verbosity 1 -oc gm_memeout/centrimo_out -bfile gm_memeout/background gm_memeout/gm_peaks.fa gm_memeout/meme_out/meme.xml gm_memeout/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.15692
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 gm_memeout/combined.meme gm_memeout/combined.meme 1> gm_memeout/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.293223
Invoking:
  spamo -verbosity 1 -oc gm_memeout/spamo_out_1 -bgfile gm_memeout/background -primary AGRTCCBSGGTTCGATYCCSV gm_memeout/gm_peaks.fa gm_memeout/meme_out/meme.xml gm_memeout/meme_out/meme.xml gm_memeout/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.948932
Invoking:
  spamo -verbosity 1 -oc gm_memeout/spamo_out_2 -bgfile gm_memeout/background -primary CSNNSVCYYWWMCCACTVVGCCAHVVVVSC gm_memeout/gm_peaks.fa gm_memeout/meme_out/meme.xml gm_memeout/meme_out/meme.xml gm_memeout/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 1.149043
Invoking:
  spamo -verbosity 1 -oc gm_memeout/spamo_out_3 -bgfile gm_memeout/background -primary ACACCCRTACAYCACAYHY gm_memeout/gm_peaks.fa gm_memeout/meme_out/meme.xml gm_memeout/meme_out/meme.xml gm_memeout/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 1.002844
Invoking:
  spamo -verbosity 1 -oc gm_memeout/spamo_out_4 -bgfile gm_memeout/background -primary AAAAAWAW gm_memeout/gm_peaks.fa gm_memeout/dreme_out/dreme.xml gm_memeout/meme_out/meme.xml gm_memeout/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 1.223654
Invoking:
  spamo -verbosity 1 -oc gm_memeout/spamo_out_5 -bgfile gm_memeout/background -primary GGCGTGY gm_memeout/gm_peaks.fa gm_memeout/dreme_out/dreme.xml gm_memeout/meme_out/meme.xml gm_memeout/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.346156
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc gm_memeout/fimo_out_1 --bgfile gm_memeout/background --motif AGRTCCBSGGTTCGATYCCSV gm_memeout/meme_out/meme.xml gm_memeout/gm_peaks.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.80989
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc gm_memeout/fimo_out_2 --bgfile gm_memeout/background --motif CSNNSVCYYWWMCCACTVVGCCAHVVVVSC gm_memeout/meme_out/meme.xml gm_memeout/gm_peaks.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.836308
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc gm_memeout/fimo_out_3 --bgfile gm_memeout/background --motif ACACCCRTACAYCACAYHY gm_memeout/meme_out/meme.xml gm_memeout/gm_peaks.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.437508
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc gm_memeout/fimo_out_4 --bgfile gm_memeout/background --motif AAAAAWAW gm_memeout/dreme_out/dreme.xml gm_memeout/gm_peaks.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.605638
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc gm_memeout/fimo_out_5 --bgfile gm_memeout/background --motif GGCGTGY gm_memeout/dreme_out/dreme.xml gm_memeout/gm_peaks.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.317841
Writing output
Invoking:
  meme-chip_html_to_tsv gm_memeout/meme-chip.html gm_memeout/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.146454
Done