Invoking:
  getsize cutnotseq_memechip_out/cut-not-seq.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.288848
Invoking:
  fasta-most -min 50 < cutnotseq_memechip_out/cut-not-seq.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.15778
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: 0.221593
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: 0.07567
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: 0.148335
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: 0.060218
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: 868.434186
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: 125.900397
Invoking:
  centrimo -seqlen 500 -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: 0.303766
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: 0.295196
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_1 -bgfile cutnotseq_memechip_out/background -primary GSHGCTGTCCRTGGTGCTGAA 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: 1.047286
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_2 -bgfile cutnotseq_memechip_out/background -primary GGVSRGSSNVGSGVVGGSGGVGGGSSNSG 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: 0.997877
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_3 -bgfile cutnotseq_memechip_out/background -primary TATGYWAATK 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: 1.633243
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_4 -bgfile cutnotseq_memechip_out/background -primary AGGAAW 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: 2.208233
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_5 -bgfile cutnotseq_memechip_out/background -primary GGGYGGGR 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: 0.963109
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_6 -bgfile cutnotseq_memechip_out/background -primary GRGAAA 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: 2.119193
Invoking:
  spamo -verbosity 1 -oc cutnotseq_memechip_out/spamo_out_7 -bgfile cutnotseq_memechip_out/background -primary AAATGY 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: 2.228181
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_1 --bgfile cutnotseq_memechip_out/background --motif GSHGCTGTCCRTGGTGCTGAA cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo1  status: 0  time: 1.321869
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_2 --bgfile cutnotseq_memechip_out/background --motif GGVSRGSSNVGSGVVGGSGGVGGGSSNSG cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo2  status: 0  time: 1.683383
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_3 --bgfile cutnotseq_memechip_out/background --motif TATGYWAATK cutnotseq_memechip_out/meme_out/meme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.956423
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_4 --bgfile cutnotseq_memechip_out/background --motif AGGAAW cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo4  status: 0  time: 1.847778
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_5 --bgfile cutnotseq_memechip_out/background --motif GGGYGGGR cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo5  status: 0  time: 1.104652
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_6 --bgfile cutnotseq_memechip_out/background --motif GRGAAA cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo6  status: 0  time: 1.021126
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc cutnotseq_memechip_out/fimo_out_7 --bgfile cutnotseq_memechip_out/background --motif AAATGY cutnotseq_memechip_out/dreme_out/dreme.xml cutnotseq_memechip_out/cut-not-seq.fa
Finished invoke:
  name: fimo7  status: 0  time: 1.150924
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: 0.184453
Done