Invoking:
  getsize cutnotseq_memechip_out/cutnotseq.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.201726
Invoking:
  fasta-most -min 50 < cutnotseq_memechip_out/cutnotseq.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.597473
Invoking:
  fasta-center -dna -len 100 < cutnotseq_memechip_out/cutnotseq.fa 1> cutnotseq_memechip_out/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.827424
Invoking:
  fasta-shuffle-letters cutnotseq_memechip_out/seqs-centered cutnotseq_memechip_out/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.136941
Invoking:
  fasta-subsample cutnotseq_memechip_out/seqs-centered 600 -rest cutnotseq_memechip_out/seqs-discarded -seed 1 1> cutnotseq_memechip_out/seqs-sampled
Finished invoke:
  name: sample_seqs  status: 0  time: 0.273553
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/background
Finished invoke:
  name: bg  status: 0  time: 0.144612
Invoking:
  meme cutnotseq_memechip_out/seqs-sampled -oc cutnotseq_memechip_out/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile cutnotseq_memechip_out/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 959.461794
Invoking:
  dreme -v 1 -oc cutnotseq_memechip_out/dreme_out -png -dna -p cutnotseq_memechip_out/seqs-centered -n cutnotseq_memechip_out/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 2856.052219
Invoking:
  centrimo -seqlen 784 -verbosity 1 -oc cutnotseq_memechip_out/centrimo_out -bfile cutnotseq_memechip_out/background cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 10.118933
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 cutnotseq_memechip_out/combined.meme cutnotseq_memechip_out/combined.meme 1> cutnotseq_memechip_out/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.683854
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_1 -bgfile cutnotseq_memechip_out/background -primary GGGCGGRR cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 21.770209
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_2 -bgfile cutnotseq_memechip_out/background -primary HTTYCY cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 66.854135
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_3 -bgfile cutnotseq_memechip_out/background -primary GGSSGGGSSGGRGSHGGVGGVRGGGSVGGG cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 30.698238
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_4 -bgfile cutnotseq_memechip_out/background -primary CCASYAGG cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 13.915334
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_5 -bgfile cutnotseq_memechip_out/background -primary AAATRY cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 53.073557
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_6 -bgfile cutnotseq_memechip_out/background -primary ATGYWAAT cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 10.378756
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_7 -bgfile cutnotseq_memechip_out/background -primary GAATGY cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 30.709775
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_8 -bgfile cutnotseq_memechip_out/background -primary CTVCAGS cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo8  status: 0  time: 39.969942
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_9 -bgfile cutnotseq_memechip_out/background -primary CRCWG cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo9  status: 0  time: 78.202944
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_10 -bgfile cutnotseq_memechip_out/background -primary CCAATCAS cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo10  status: 0  time: 5.69481
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_11 -bgfile cutnotseq_memechip_out/background -primary ATTGGCYR cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo11  status: 0  time: 8.198973
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_12 -bgfile cutnotseq_memechip_out/background -primary CHGGRA cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo12  status: 0  time: 73.500826
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_13 -bgfile cutnotseq_memechip_out/background -primary AWAAYAAA cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo13  status: 0  time: 18.610085
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_14 -bgfile cutnotseq_memechip_out/background -primary CTSCCTCY cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo14  status: 0  time: 22.313407
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_15 -bgfile cutnotseq_memechip_out/background -primary TKTAWA cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo15  status: 0  time: 45.165298
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_16 -bgfile cutnotseq_memechip_out/background -primary CACCRCS cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo16  status: 0  time: 19.305918
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_17 -bgfile cutnotseq_memechip_out/background -primary CASGTR cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo17  status: 0  time: 41.761223
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_18 -bgfile cutnotseq_memechip_out/background -primary GCCACRCC cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo18  status: 0  time: 6.416095
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_19 -bgfile cutnotseq_memechip_out/background -primary KTCATTY cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo19  status: 0  time: 25.540608
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_20 -bgfile cutnotseq_memechip_out/background -primary ACASACAY cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo20  status: 0  time: 8.069567
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_21 -bgfile cutnotseq_memechip_out/background -primary ACAAAGVC cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo21  status: 0  time: 6.811813
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_22 -bgfile cutnotseq_memechip_out/background -primary GAGTSAC cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo22  status: 0  time: 8.17833
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_23 -bgfile cutnotseq_memechip_out/background -primary CCDCCTCC cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo23  status: 0  time: 20.075782
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_24 -bgfile cutnotseq_memechip_out/background -primary GRACTACA cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo24  status: 0  time: 3.299312
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_25 -bgfile cutnotseq_memechip_out/background -primary ACSGAGA cutnotseq_memechip_out/cutnotseq.fa cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: spamo25  status: 0  time: 5.138568
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_1 --bgfile cutnotseq_memechip_out/background --motif GGGCGGRR cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo1  status: 0  time: 6.856263
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_2 --bgfile cutnotseq_memechip_out/background --motif HTTYCY cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo2  status: 0  time: 6.557371
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_3 --bgfile cutnotseq_memechip_out/background --motif GGSSGGGSSGGRGSHGGVGGVRGGGSVGGG cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo3  status: 0  time: 8.728706
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_4 --bgfile cutnotseq_memechip_out/background --motif CCASYAGG cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo4  status: 0  time: 6.681299
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_5 --bgfile cutnotseq_memechip_out/background --motif AAATRY cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo5  status: 0  time: 6.168029
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_6 --bgfile cutnotseq_memechip_out/background --motif ATGYWAAT cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo6  status: 0  time: 6.046864
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_7 --bgfile cutnotseq_memechip_out/background --motif GAATGY cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo7  status: 0  time: 6.468848
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_8 --bgfile cutnotseq_memechip_out/background --motif CTVCAGS cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo8  status: 0  time: 6.437693
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_9 --bgfile cutnotseq_memechip_out/background --motif CRCWG cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo9  status: 0  time: 6.148718
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_10 --bgfile cutnotseq_memechip_out/background --motif CCAATCAS cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo10  status: 0  time: 6.588237
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_11 --bgfile cutnotseq_memechip_out/background --motif ATTGGCYR cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo11  status: 0  time: 6.574438
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_12 --bgfile cutnotseq_memechip_out/background --motif CHGGRA cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo12  status: 0  time: 6.170944
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_13 --bgfile cutnotseq_memechip_out/background --motif AWAAYAAA cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo13  status: 0  time: 6.321492
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_14 --bgfile cutnotseq_memechip_out/background --motif CTSCCTCY cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo14  status: 0  time: 6.283883
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_15 --bgfile cutnotseq_memechip_out/background --motif TKTAWA cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo15  status: 0  time: 6.412427
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_16 --bgfile cutnotseq_memechip_out/background --motif CACCRCS cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo16  status: 0  time: 6.344123
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_17 --bgfile cutnotseq_memechip_out/background --motif CASGTR cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo17  status: 0  time: 6.228171
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_18 --bgfile cutnotseq_memechip_out/background --motif GCCACRCC cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo18  status: 0  time: 6.565142
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_19 --bgfile cutnotseq_memechip_out/background --motif KTCATTY cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo19  status: 0  time: 6.300598
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_20 --bgfile cutnotseq_memechip_out/background --motif ACASACAY cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo20  status: 0  time: 6.76356
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_21 --bgfile cutnotseq_memechip_out/background --motif ACAAAGVC cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo21  status: 0  time: 6.435804
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_22 --bgfile cutnotseq_memechip_out/background --motif GAGTSAC cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo22  status: 0  time: 6.990198
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_23 --bgfile cutnotseq_memechip_out/background --motif CCDCCTCC cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo23  status: 0  time: 6.690972
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_24 --bgfile cutnotseq_memechip_out/background --motif GRACTACA cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo24  status: 0  time: 6.180947
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_25 --bgfile cutnotseq_memechip_out/background --motif ACSGAGA cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cutnotseq.fa
Finished invoke:
  name: fimo25  status: 0  time: 6.521572
Writing output
Invoking:
  meme-chip_html_to_tsv cutnotseq_memechip_out/meme-chip.html cutnotseq_memechip_out/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.465438
Done