Invoking:
  getsize cutnotseq_memechip_out/cut-not-seq.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.023115
Invoking:
  fasta-most -min 50 < cutnotseq_memechip_out/cut-not-seq.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.076143
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: 0.084152
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: 0.011706
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: 0.06579
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: 0.010861
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: 644.281846
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: 40.690092
Invoking:
  centrimo -seqlen 487 -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: 0.313092
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: 0.925001
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_1 -bgfile cutnotseq_memechip_out/background -primary GGHGCTGTCCATGGTSCTGAA 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: 0.941903
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_2 -bgfile cutnotseq_memechip_out/background -primary WMATTWRCATAWNWA 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: spamo2  status: 0  time: 0.628368
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_3 -bgfile cutnotseq_memechip_out/background -primary GSCVSSSSSBGSSSBGGRSSBGGMGSSSSS 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: 0.537845
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_4 -bgfile cutnotseq_memechip_out/background -primary ASAAAASA 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: 0.40821
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_5 -bgfile cutnotseq_memechip_out/background -primary GCCAGGRA 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: 0.339141
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_1 --bgfile cutnotseq_memechip_out/background --motif GGHGCTGTCCATGGTSCTGAA cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.49848
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_2 --bgfile cutnotseq_memechip_out/background --motif WMATTWRCATAWNWA cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.428246
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_3 --bgfile cutnotseq_memechip_out/background --motif GSCVSSSSSBGSSSBGGRSSBGGMGSSSSS cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.603198
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_4 --bgfile cutnotseq_memechip_out/background --motif ASAAAASA cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.471638
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_5 --bgfile cutnotseq_memechip_out/background --motif GCCAGGRA cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.498915
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: 0.190899
Done