Invoking:
  getsize cutnotseq_memechip_out/cut-not-seq.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.374101
Invoking:
  fasta-most -min 50 < cutnotseq_memechip_out/cut-not-seq.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.131163
Invoking:
  fasta-center -dna -len 100 < cutnotseq_memechip_out/cut-not-seq.fa 1> cutnotseq_memechip_out/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.226175
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: 0.101238
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: 0.160654
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 cutnotseq_memechip_out/cut-not-seq.fa cutnotseq_memechip_out/background
Finished invoke:
  name: bg  status: 0  time: 0.044591
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: 803.520256
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: 244.054477
Invoking:
  centrimo -seqlen 243 -verbosity 1 -oc cutnotseq_memechip_out/centrimo_out -bfile cutnotseq_memechip_out/background cutnotseq_memechip_out/cut-not-seq.fa cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.405048
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: 0.464923
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_1 -bgfile cutnotseq_memechip_out/background -primary GGHGCTGTCCATGGTGCTGAA cutnotseq_memechip_out/cut-not-seq.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: spamo1  status: 0  time: 0.811313
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_2 -bgfile cutnotseq_memechip_out/background -primary ATGYWAAT cutnotseq_memechip_out/cut-not-seq.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: 2.385614
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_3 -bgfile cutnotseq_memechip_out/background -primary CSSMYSCYCCBBSCSCCABBSCCGSCSCC cutnotseq_memechip_out/cut-not-seq.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: 0.742971
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_4 -bgfile cutnotseq_memechip_out/background -primary DTATGCA cutnotseq_memechip_out/cut-not-seq.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: 0.905643
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_5 -bgfile cutnotseq_memechip_out/background -primary RRGRAA cutnotseq_memechip_out/cut-not-seq.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: 2.382426
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_6 -bgfile cutnotseq_memechip_out/background -primary AMATWCC cutnotseq_memechip_out/cut-not-seq.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: 2.181431
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_7 -bgfile cutnotseq_memechip_out/background -primary ACAAAWG cutnotseq_memechip_out/cut-not-seq.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: 0.844399
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_8 -bgfile cutnotseq_memechip_out/background -primary CCCCRCCC cutnotseq_memechip_out/cut-not-seq.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: 0.55517
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_9 -bgfile cutnotseq_memechip_out/background -primary GAAGTTAC cutnotseq_memechip_out/cut-not-seq.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: 0.310194
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_10 -bgfile cutnotseq_memechip_out/background -primary GCTGATTK cutnotseq_memechip_out/cut-not-seq.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: 0.47507
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_11 -bgfile cutnotseq_memechip_out/background -primary AGAGASA cutnotseq_memechip_out/cut-not-seq.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: 0.692541
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_1 --bgfile cutnotseq_memechip_out/background --motif GGHGCTGTCCATGGTGCTGAA cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo1  status: 0  time: 1.058223
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_2 --bgfile cutnotseq_memechip_out/background --motif ATGYWAAT cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.780421
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_3 --bgfile cutnotseq_memechip_out/background --motif CSSMYSCYCCBBSCSCCABBSCCGSCSCC cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo3  status: 0  time: 1.405502
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_4 --bgfile cutnotseq_memechip_out/background --motif DTATGCA cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.679583
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_5 --bgfile cutnotseq_memechip_out/background --motif RRGRAA cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.59434
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_6 --bgfile cutnotseq_memechip_out/background --motif AMATWCC cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.650217
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_7 --bgfile cutnotseq_memechip_out/background --motif ACAAAWG cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.697725
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_8 --bgfile cutnotseq_memechip_out/background --motif CCCCRCCC cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo8  status: 0  time: 0.727792
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_9 --bgfile cutnotseq_memechip_out/background --motif GAAGTTAC cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo9  status: 0  time: 1.862992
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_10 --bgfile cutnotseq_memechip_out/background --motif GCTGATTK cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo10  status: 0  time: 0.812333
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_11 --bgfile cutnotseq_memechip_out/background --motif AGAGASA cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo11  status: 0  time: 0.841132
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: 0.178854
Done