Invoking:
  getsize cutrun_idr/cutrun.idr.optimal_peak.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.016111
Invoking:
  fasta-most -min 50 < cutrun_idr/cutrun.idr.optimal_peak.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.059066
Invoking:
  fasta-center -dna -len 100 < cutrun_idr/cutrun.idr.optimal_peak.fa 1> cutrun_idr/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.078559
Invoking:
  fasta-shuffle-letters cutrun_idr/seqs-centered cutrun_idr/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.014127
Invoking:
  fasta-subsample cutrun_idr/seqs-centered 600 -rest cutrun_idr/seqs-discarded -seed 1 1> cutrun_idr/seqs-sampled
Finished invoke:
  name: sample_seqs  status: 0  time: 0.070029
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 cutrun_idr/cutrun.idr.optimal_peak.fa cutrun_idr/background
Finished invoke:
  name: bg  status: 0  time: 0.009425
Invoking:
  meme cutrun_idr/seqs-sampled -oc cutrun_idr/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile cutrun_idr/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 512.69424
Invoking:
  dreme -v 1 -oc cutrun_idr/dreme_out -png -dna -p cutrun_idr/seqs-centered -n cutrun_idr/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 57.107733
Invoking:
  centrimo -seqlen 204 -verbosity 1 -oc cutrun_idr/centrimo_out -bfile cutrun_idr/background cutrun_idr/cutrun.idr.optimal_peak.fa cutrun_idr/meme_out/meme.xml cutrun_idr/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.129042
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 cutrun_idr/combined.meme cutrun_idr/combined.meme 1> cutrun_idr/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.236863
Invoking:
  spamo -verbosity 1 -oc cutrun_idr/spamo_out_1 -bgfile cutrun_idr/background -primary CTGTCCRTGGTGCTGAA cutrun_idr/cutrun.idr.optimal_peak.fa cutrun_idr/meme_out/meme.xml cutrun_idr/meme_out/meme.xml cutrun_idr/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.279763
Invoking:
  spamo -verbosity 1 -oc cutrun_idr/spamo_out_2 -bgfile cutrun_idr/background -primary CYWTTDTTATGCWAATKWVD cutrun_idr/cutrun.idr.optimal_peak.fa cutrun_idr/meme_out/meme.xml cutrun_idr/meme_out/meme.xml cutrun_idr/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.299628
Invoking:
  spamo -verbosity 1 -oc cutrun_idr/spamo_out_3 -bgfile cutrun_idr/background -primary ARARRCTGGCCMTCCCACCCT cutrun_idr/cutrun.idr.optimal_peak.fa cutrun_idr/meme_out/meme.xml cutrun_idr/meme_out/meme.xml cutrun_idr/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.317022
Invoking:
  spamo -verbosity 1 -oc cutrun_idr/spamo_out_4 -bgfile cutrun_idr/background -primary CCTGGMR cutrun_idr/cutrun.idr.optimal_peak.fa cutrun_idr/dreme_out/dreme.xml cutrun_idr/meme_out/meme.xml cutrun_idr/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.234339
Invoking:
  spamo -verbosity 1 -oc cutrun_idr/spamo_out_5 -bgfile cutrun_idr/background -primary AAGACAHT cutrun_idr/cutrun.idr.optimal_peak.fa cutrun_idr/dreme_out/dreme.xml cutrun_idr/meme_out/meme.xml cutrun_idr/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.179385
Invoking:
  spamo -verbosity 1 -oc cutrun_idr/spamo_out_6 -bgfile cutrun_idr/background -primary ACAYGTG cutrun_idr/cutrun.idr.optimal_peak.fa cutrun_idr/dreme_out/dreme.xml cutrun_idr/meme_out/meme.xml cutrun_idr/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.218218
Invoking:
  spamo -verbosity 1 -oc cutrun_idr/spamo_out_7 -bgfile cutrun_idr/background -primary CTTTCYCC cutrun_idr/cutrun.idr.optimal_peak.fa cutrun_idr/dreme_out/dreme.xml cutrun_idr/meme_out/meme.xml cutrun_idr/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.140073
Invoking:
  spamo -verbosity 1 -oc cutrun_idr/spamo_out_8 -bgfile cutrun_idr/background -primary GCCATGAY cutrun_idr/cutrun.idr.optimal_peak.fa cutrun_idr/dreme_out/dreme.xml cutrun_idr/meme_out/meme.xml cutrun_idr/dreme_out/dreme.xml
Finished invoke:
  name: spamo8  status: 0  time: 0.148266
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutrun_idr/fimo_out_1 --bgfile cutrun_idr/background --motif CTGTCCRTGGTGCTGAA cutrun_idr/meme_out/meme.xml cutrun_idr/cutrun.idr.optimal_peak.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.229299
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutrun_idr/fimo_out_2 --bgfile cutrun_idr/background --motif CYWTTDTTATGCWAATKWVD cutrun_idr/meme_out/meme.xml cutrun_idr/cutrun.idr.optimal_peak.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.296247
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutrun_idr/fimo_out_3 --bgfile cutrun_idr/background --motif ARARRCTGGCCMTCCCACCCT cutrun_idr/meme_out/meme.xml cutrun_idr/cutrun.idr.optimal_peak.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.247984
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutrun_idr/fimo_out_4 --bgfile cutrun_idr/background --motif CCTGGMR cutrun_idr/dreme_out/dreme.xml cutrun_idr/cutrun.idr.optimal_peak.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.186387
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutrun_idr/fimo_out_5 --bgfile cutrun_idr/background --motif AAGACAHT cutrun_idr/dreme_out/dreme.xml cutrun_idr/cutrun.idr.optimal_peak.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.114348
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutrun_idr/fimo_out_6 --bgfile cutrun_idr/background --motif ACAYGTG cutrun_idr/dreme_out/dreme.xml cutrun_idr/cutrun.idr.optimal_peak.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.178352
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutrun_idr/fimo_out_7 --bgfile cutrun_idr/background --motif CTTTCYCC cutrun_idr/dreme_out/dreme.xml cutrun_idr/cutrun.idr.optimal_peak.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.151768
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutrun_idr/fimo_out_8 --bgfile cutrun_idr/background --motif GCCATGAY cutrun_idr/dreme_out/dreme.xml cutrun_idr/cutrun.idr.optimal_peak.fa
Finished invoke:
  name: fimo8  status: 0  time: 0.191375
Writing output
Invoking:
  meme-chip_html_to_tsv cutrun_idr/meme-chip.html cutrun_idr/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.130879
Done