Invoking:
  getsize seqnotcut_memechip_out/seqnotcut.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.148087
Invoking:
  fasta-most -min 50 < seqnotcut_memechip_out/seqnotcut.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.340885
Invoking:
  fasta-center -dna -len 100 < seqnotcut_memechip_out/seqnotcut.fa 1> seqnotcut_memechip_out/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.422066
Invoking:
  fasta-shuffle-letters seqnotcut_memechip_out/seqs-centered seqnotcut_memechip_out/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.171692
Invoking:
  fasta-subsample seqnotcut_memechip_out/seqs-centered 600 -rest seqnotcut_memechip_out/seqs-discarded -seed 1 1> seqnotcut_memechip_out/seqs-sampled
Finished invoke:
  name: sample_seqs  status: 0  time: 0.443649
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/background
Finished invoke:
  name: bg  status: 0  time: 0.06509
Invoking:
  meme seqnotcut_memechip_out/seqs-sampled -oc seqnotcut_memechip_out/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile seqnotcut_memechip_out/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 835.066746
Invoking:
  dreme -v 1 -oc seqnotcut_memechip_out/dreme_out -png -dna -p seqnotcut_memechip_out/seqs-centered -n seqnotcut_memechip_out/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 4458.609717
Invoking:
  centrimo -seqlen 220 -verbosity 1 -oc seqnotcut_memechip_out/centrimo_out -bfile seqnotcut_memechip_out/background seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 4.433819
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 seqnotcut_memechip_out/combined.meme seqnotcut_memechip_out/combined.meme 1> seqnotcut_memechip_out/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.968455
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_1 -bgfile seqnotcut_memechip_out/background -primary CCASYAGRKGGCRSH seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.674525
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_2 -bgfile seqnotcut_memechip_out/background -primary CCTSYAG seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.565699
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_3 -bgfile seqnotcut_memechip_out/background -primary CAGYAGAG seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.581839
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_4 -bgfile seqnotcut_memechip_out/background -primary CTGCCMTC seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.492998
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_5 -bgfile seqnotcut_memechip_out/background -primary CTGYCWCC seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.471254
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_6 -bgfile seqnotcut_memechip_out/background -primary CTACTGVC seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.556849
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_7 -bgfile seqnotcut_memechip_out/background -primary RKAAA seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.516512
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_8 -bgfile seqnotcut_memechip_out/background -primary ACAGCRHC seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo8  status: 0  time: 0.5516
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_9 -bgfile seqnotcut_memechip_out/background -primary ATTWY seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo9  status: 0  time: 0.547071
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_10 -bgfile seqnotcut_memechip_out/background -primary GHGGCCRC seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo10  status: 0  time: 0.538914
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_11 -bgfile seqnotcut_memechip_out/background -primary RGGAA seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo11  status: 0  time: 0.533131
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_12 -bgfile seqnotcut_memechip_out/background -primary AHATTTTTGGTTGYCACAATTVDGRG seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo12  status: 0  time: 0.632363
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_13 -bgfile seqnotcut_memechip_out/background -primary ACGTG seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo13  status: 0  time: 0.537202
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_14 -bgfile seqnotcut_memechip_out/background -primary GYCACTGY seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo14  status: 0  time: 0.516238
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_15 -bgfile seqnotcut_memechip_out/background -primary MCACAS seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo15  status: 0  time: 0.514454
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_16 -bgfile seqnotcut_memechip_out/background -primary KTTAAAW seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo16  status: 0  time: 0.531556
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_17 -bgfile seqnotcut_memechip_out/background -primary TGSTGACA seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo17  status: 0  time: 0.484479
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_18 -bgfile seqnotcut_memechip_out/background -primary GACDCCA seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo18  status: 0  time: 0.528681
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_19 -bgfile seqnotcut_memechip_out/background -primary AAMAMAAA seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo19  status: 0  time: 0.569054
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_20 -bgfile seqnotcut_memechip_out/background -primary AAATRY seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo20  status: 0  time: 0.541297
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_21 -bgfile seqnotcut_memechip_out/background -primary TAGCGKTA seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo21  status: 0  time: 0.524616
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_22 -bgfile seqnotcut_memechip_out/background -primary AGTGCAGTRGCACRATTHHDGCTCABTGCA seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo22  status: 0  time: 0.68205
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_23 -bgfile seqnotcut_memechip_out/background -primary GCBGGGA seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo23  status: 0  time: 0.488131
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_24 -bgfile seqnotcut_memechip_out/background -primary AYTCCAGC seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo24  status: 0  time: 0.536199
Invoking:
  spamo -verbosity 1 -oc seqnotcut_memechip_out/spamo_out_25 -bgfile seqnotcut_memechip_out/background -primary AAACAKC seqnotcut_memechip_out/seqnotcut.fa seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo25  status: 0  time: 0.579336
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_1 --bgfile seqnotcut_memechip_out/background --motif CCASYAGRKGGCRSH seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo1  status: 0  time: 2.738249
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_2 --bgfile seqnotcut_memechip_out/background --motif CCTSYAG seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo2  status: 0  time: 2.02525
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_3 --bgfile seqnotcut_memechip_out/background --motif CAGYAGAG seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo3  status: 0  time: 2.279456
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_4 --bgfile seqnotcut_memechip_out/background --motif CTGCCMTC seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo4  status: 0  time: 2.5761
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_5 --bgfile seqnotcut_memechip_out/background --motif CTGYCWCC seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo5  status: 0  time: 2.282565
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_6 --bgfile seqnotcut_memechip_out/background --motif CTACTGVC seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo6  status: 0  time: 2.472939
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_7 --bgfile seqnotcut_memechip_out/background --motif RKAAA seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo7  status: 0  time: 2.12958
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_8 --bgfile seqnotcut_memechip_out/background --motif ACAGCRHC seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo8  status: 0  time: 2.466015
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_9 --bgfile seqnotcut_memechip_out/background --motif ATTWY seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo9  status: 0  time: 2.311692
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_10 --bgfile seqnotcut_memechip_out/background --motif GHGGCCRC seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo10  status: 0  time: 2.416264
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_11 --bgfile seqnotcut_memechip_out/background --motif RGGAA seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo11  status: 0  time: 2.09296
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_12 --bgfile seqnotcut_memechip_out/background --motif AHATTTTTGGTTGYCACAATTVDGRG seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo12  status: 0  time: 2.658387
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_13 --bgfile seqnotcut_memechip_out/background --motif ACGTG seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo13  status: 0  time: 2.312552
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_14 --bgfile seqnotcut_memechip_out/background --motif GYCACTGY seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo14  status: 0  time: 2.617074
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_15 --bgfile seqnotcut_memechip_out/background --motif MCACAS seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo15  status: 0  time: 2.110153
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_16 --bgfile seqnotcut_memechip_out/background --motif KTTAAAW seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo16  status: 0  time: 2.71413
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_17 --bgfile seqnotcut_memechip_out/background --motif TGSTGACA seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo17  status: 0  time: 2.371265
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_18 --bgfile seqnotcut_memechip_out/background --motif GACDCCA seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo18  status: 0  time: 2.591341
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_19 --bgfile seqnotcut_memechip_out/background --motif AAMAMAAA seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo19  status: 0  time: 2.427436
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_20 --bgfile seqnotcut_memechip_out/background --motif AAATRY seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo20  status: 0  time: 2.183656
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_21 --bgfile seqnotcut_memechip_out/background --motif TAGCGKTA seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo21  status: 0  time: 2.372227
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_22 --bgfile seqnotcut_memechip_out/background --motif AGTGCAGTRGCACRATTHHDGCTCABTGCA seqnotcut_memechip_out/meme_out/meme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo22  status: 0  time: 2.725402
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_23 --bgfile seqnotcut_memechip_out/background --motif GCBGGGA seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo23  status: 0  time: 2.400717
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_24 --bgfile seqnotcut_memechip_out/background --motif AYTCCAGC seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo24  status: 0  time: 2.3957
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc seqnotcut_memechip_out/fimo_out_25 --bgfile seqnotcut_memechip_out/background --motif AAACAKC seqnotcut_memechip_out/dreme_out/dreme.xml seqnotcut_memechip_out/seqnotcut.fa
Finished invoke:
  name: fimo25  status: 0  time: 2.259806
Writing output
Invoking:
  meme-chip_html_to_tsv seqnotcut_memechip_out/meme-chip.html seqnotcut_memechip_out/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.256899
Done