Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.012422
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.05648
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.069049
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.013181
Invoking:
  fasta-subsample /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/seqs-centered 600 -rest /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/seqs-discarded -seed 1 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/seqs-sampled
Finished invoke:
  name: sample_seqs  status: 0  time: 0.063946
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background
Finished invoke:
  name: bg  status: 0  time: 0.010507
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 941.767954
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 51.748405
Invoking:
  centrimo -seqlen 380 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.305794
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.696818
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background -primary DDSSCBYTAMCCACTRVGCCAMVVRVSCW /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.340607
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background -primary GRNTCGAACCSVKGAYCTYMYSATTAMDA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.301747
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background -primary TTATHRTCCGWKATAGTKTAAYGGYYAKMA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.264982
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background -primary RCGCCTTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.199502
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background -primary GCKCTMCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.198388
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background -primary ATGGCAWC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.201058
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background -primary AAGAAAW /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.192914
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/spamo_out_8 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background -primary AGTCAKAC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml
Finished invoke:
  name: spamo8  status: 0  time: 0.204292
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/spamo_out_9 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background -primary CAAVAGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml
Finished invoke:
  name: spamo9  status: 0  time: 0.224933
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background --motif DDSSCBYTAMCCACTRVGCCAMVVRVSCW /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.257271
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background --motif GRNTCGAACCSVKGAYCTYMYSATTAMDA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.238771
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background --motif TTATHRTCCGWKATAGTKTAAYGGYYAKMA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.242576
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background --motif RCGCCTTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.150244
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background --motif GCKCTMCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.157388
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background --motif ATGGCAWC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.148857
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background --motif AAGAAAW /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.126607
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background --motif AGTCAKAC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa
Finished invoke:
  name: fimo8  status: 0  time: 0.121404
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/fimo_out_9 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/background --motif CAAVAGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/YJM789--YAP1.fa
Finished invoke:
  name: fimo9  status: 0  time: 0.14405
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--YAP1/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.196184
Done