Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/YJM789--YKL222C.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.042353
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/YJM789--YKL222C.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.064618
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/YJM789--YKL222C.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.079947
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.023652
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/YJM789--YKL222C.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/background
Finished invoke:
  name: bg  status: 0  time: 0.016595
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/seqs-centered -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 626.30612
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 17.051451
Invoking:
  centrimo -seqlen 487 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/YJM789--YKL222C.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.162625
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.185248
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/background -primary AGRTCVBSGGTTCGAYYCCSV /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/YJM789--YKL222C.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.381203
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/background -primary GSYBNBDTRGYBYAGTGGKTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/YJM789--YKL222C.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.391748
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/background -primary TCTGMKTRDKARKCAKAYGCS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/YJM789--YKL222C.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.270392
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/background -primary AAAAAAAK /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/YJM789--YKL222C.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.284133
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/background -primary GCCAKA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/YJM789--YKL222C.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.230811
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/background --motif AGRTCVBSGGTTCGAYYCCSV /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/YJM789--YKL222C.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.27414
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/background --motif GSYBNBDTRGYBYAGTGGKTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/YJM789--YKL222C.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.270942
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/background --motif TCTGMKTRDKARKCAKAYGCS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/YJM789--YKL222C.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.251165
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/background --motif AAAAAAAK /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/YJM789--YKL222C.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.168702
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/background --motif GCCAKA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/YJM789--YKL222C.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.145285
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.162658
Done