Invoking:
  getsize overlap_cut/cutrun.overlap.optimal_peak.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.028229
Invoking:
  fasta-most -min 50 < overlap_cut/cutrun.overlap.optimal_peak.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.07123
Invoking:
  fasta-center -dna -len 100 < overlap_cut/cutrun.overlap.optimal_peak.fa 1> overlap_cut/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.125565
Invoking:
  fasta-shuffle-letters overlap_cut/seqs-centered overlap_cut/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.094617
Invoking:
  fasta-subsample overlap_cut/seqs-centered 600 -rest overlap_cut/seqs-discarded -seed 1 1> overlap_cut/seqs-sampled
Finished invoke:
  name: sample_seqs  status: 0  time: 0.104622
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 overlap_cut/cutrun.overlap.optimal_peak.fa overlap_cut/background
Finished invoke:
  name: bg  status: 0  time: 0.015922
Invoking:
  meme overlap_cut/seqs-sampled -oc overlap_cut/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile overlap_cut/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 707.671202
Invoking:
  dreme -v 1 -oc overlap_cut/dreme_out -png -dna -p overlap_cut/seqs-centered -n overlap_cut/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 482.315649
Invoking:
  centrimo -seqlen 73 -verbosity 1 -oc overlap_cut/centrimo_out -bfile overlap_cut/background overlap_cut/cutrun.overlap.optimal_peak.fa overlap_cut/meme_out/meme.xml overlap_cut/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.184191
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 overlap_cut/combined.meme overlap_cut/combined.meme 1> overlap_cut/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.328536
Invoking:
  spamo -verbosity 1 -oc overlap_cut/spamo_out_1 -bgfile overlap_cut/background -primary DGGCGCTGTCCRTGGTGCTGA overlap_cut/cutrun.overlap.optimal_peak.fa overlap_cut/meme_out/meme.xml overlap_cut/meme_out/meme.xml overlap_cut/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.352128
Invoking:
  spamo -verbosity 1 -oc overlap_cut/spamo_out_2 -bgfile overlap_cut/background -primary ATGYWAAT overlap_cut/cutrun.overlap.optimal_peak.fa overlap_cut/dreme_out/dreme.xml overlap_cut/meme_out/meme.xml overlap_cut/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.375075
Invoking:
  spamo -verbosity 1 -oc overlap_cut/spamo_out_3 -bgfile overlap_cut/background -primary WTATGCR overlap_cut/cutrun.overlap.optimal_peak.fa overlap_cut/dreme_out/dreme.xml overlap_cut/meme_out/meme.xml overlap_cut/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.335459
Invoking:
  spamo -verbosity 1 -oc overlap_cut/spamo_out_4 -bgfile overlap_cut/background -primary ACAAWRG overlap_cut/cutrun.overlap.optimal_peak.fa overlap_cut/dreme_out/dreme.xml overlap_cut/meme_out/meme.xml overlap_cut/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.242036
Invoking:
  spamo -verbosity 1 -oc overlap_cut/spamo_out_5 -bgfile overlap_cut/background -primary GGAATKY overlap_cut/cutrun.overlap.optimal_peak.fa overlap_cut/dreme_out/dreme.xml overlap_cut/meme_out/meme.xml overlap_cut/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.340455
Invoking:
  spamo -verbosity 1 -oc overlap_cut/spamo_out_6 -bgfile overlap_cut/background -primary AAGAGAGAGAGAGARAGAGAR overlap_cut/cutrun.overlap.optimal_peak.fa overlap_cut/meme_out/meme.xml overlap_cut/meme_out/meme.xml overlap_cut/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.364113
Invoking:
  spamo -verbosity 1 -oc overlap_cut/spamo_out_7 -bgfile overlap_cut/background -primary ARAGRAA overlap_cut/cutrun.overlap.optimal_peak.fa overlap_cut/dreme_out/dreme.xml overlap_cut/meme_out/meme.xml overlap_cut/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.359102
Invoking:
  spamo -verbosity 1 -oc overlap_cut/spamo_out_8 -bgfile overlap_cut/background -primary GGGHGGR overlap_cut/cutrun.overlap.optimal_peak.fa overlap_cut/dreme_out/dreme.xml overlap_cut/meme_out/meme.xml overlap_cut/dreme_out/dreme.xml
Finished invoke:
  name: spamo8  status: 0  time: 0.320503
Invoking:
  spamo -verbosity 1 -oc overlap_cut/spamo_out_9 -bgfile overlap_cut/background -primary CAGGWR overlap_cut/cutrun.overlap.optimal_peak.fa overlap_cut/dreme_out/dreme.xml overlap_cut/meme_out/meme.xml overlap_cut/dreme_out/dreme.xml
Finished invoke:
  name: spamo9  status: 0  time: 0.343723
Invoking:
  spamo -verbosity 1 -oc overlap_cut/spamo_out_10 -bgfile overlap_cut/background -primary CACGTG overlap_cut/cutrun.overlap.optimal_peak.fa overlap_cut/dreme_out/dreme.xml overlap_cut/meme_out/meme.xml overlap_cut/dreme_out/dreme.xml
Finished invoke:
  name: spamo10  status: 0  time: 0.275574
Invoking:
  spamo -verbosity 1 -oc overlap_cut/spamo_out_11 -bgfile overlap_cut/background -primary AASAATG overlap_cut/cutrun.overlap.optimal_peak.fa overlap_cut/dreme_out/dreme.xml overlap_cut/meme_out/meme.xml overlap_cut/dreme_out/dreme.xml
Finished invoke:
  name: spamo11  status: 0  time: 0.21662
Invoking:
  spamo -verbosity 1 -oc overlap_cut/spamo_out_12 -bgfile overlap_cut/background -primary AGGCGGG overlap_cut/cutrun.overlap.optimal_peak.fa overlap_cut/dreme_out/dreme.xml overlap_cut/meme_out/meme.xml overlap_cut/dreme_out/dreme.xml
Finished invoke:
  name: spamo12  status: 0  time: 0.252649
Invoking:
  spamo -verbosity 1 -oc overlap_cut/spamo_out_13 -bgfile overlap_cut/background -primary GACARAAC overlap_cut/cutrun.overlap.optimal_peak.fa overlap_cut/dreme_out/dreme.xml overlap_cut/meme_out/meme.xml overlap_cut/dreme_out/dreme.xml
Finished invoke:
  name: spamo13  status: 0  time: 0.172112
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc overlap_cut/fimo_out_1 --bgfile overlap_cut/background --motif DGGCGCTGTCCRTGGTGCTGA overlap_cut/meme_out/meme.xml overlap_cut/cutrun.overlap.optimal_peak.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.43623
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc overlap_cut/fimo_out_2 --bgfile overlap_cut/background --motif ATGYWAAT overlap_cut/dreme_out/dreme.xml overlap_cut/cutrun.overlap.optimal_peak.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.389041
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc overlap_cut/fimo_out_3 --bgfile overlap_cut/background --motif WTATGCR overlap_cut/dreme_out/dreme.xml overlap_cut/cutrun.overlap.optimal_peak.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.372019
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc overlap_cut/fimo_out_4 --bgfile overlap_cut/background --motif ACAAWRG overlap_cut/dreme_out/dreme.xml overlap_cut/cutrun.overlap.optimal_peak.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.333415
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc overlap_cut/fimo_out_5 --bgfile overlap_cut/background --motif GGAATKY overlap_cut/dreme_out/dreme.xml overlap_cut/cutrun.overlap.optimal_peak.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.424003
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc overlap_cut/fimo_out_6 --bgfile overlap_cut/background --motif AAGAGAGAGAGAGARAGAGAR overlap_cut/meme_out/meme.xml overlap_cut/cutrun.overlap.optimal_peak.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.529814
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc overlap_cut/fimo_out_7 --bgfile overlap_cut/background --motif ARAGRAA overlap_cut/dreme_out/dreme.xml overlap_cut/cutrun.overlap.optimal_peak.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.34311
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc overlap_cut/fimo_out_8 --bgfile overlap_cut/background --motif GGGHGGR overlap_cut/dreme_out/dreme.xml overlap_cut/cutrun.overlap.optimal_peak.fa
Finished invoke:
  name: fimo8  status: 0  time: 0.482621
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc overlap_cut/fimo_out_9 --bgfile overlap_cut/background --motif CAGGWR overlap_cut/dreme_out/dreme.xml overlap_cut/cutrun.overlap.optimal_peak.fa
Finished invoke:
  name: fimo9  status: 0  time: 0.318793
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc overlap_cut/fimo_out_10 --bgfile overlap_cut/background --motif CACGTG overlap_cut/dreme_out/dreme.xml overlap_cut/cutrun.overlap.optimal_peak.fa
Finished invoke:
  name: fimo10  status: 0  time: 0.29623
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc overlap_cut/fimo_out_11 --bgfile overlap_cut/background --motif AASAATG overlap_cut/dreme_out/dreme.xml overlap_cut/cutrun.overlap.optimal_peak.fa
Finished invoke:
  name: fimo11  status: 0  time: 0.39739
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc overlap_cut/fimo_out_12 --bgfile overlap_cut/background --motif AGGCGGG overlap_cut/dreme_out/dreme.xml overlap_cut/cutrun.overlap.optimal_peak.fa
Finished invoke:
  name: fimo12  status: 0  time: 0.349592
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc overlap_cut/fimo_out_13 --bgfile overlap_cut/background --motif GACARAAC overlap_cut/dreme_out/dreme.xml overlap_cut/cutrun.overlap.optimal_peak.fa
Finished invoke:
  name: fimo13  status: 0  time: 0.438604
Writing output
Invoking:
  meme-chip_html_to_tsv overlap_cut/meme-chip.html overlap_cut/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.163112
Done