Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.070347
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.06808
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.081996
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.030935
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/background
Finished invoke:
  name: bg  status: 0  time: 0.022154
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/seqs-centered -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 659.10979
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 27.192619
Invoking:
  centrimo -seqlen 404 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.174881
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.427951
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/background -primary MBSRGRATCGAACYSVKGACCTYMNGVTTR /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.580231
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/background -primary SSCYYWWMCCACTRVRCYAMV /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.595594
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/background -primary GTGATGTGATAGCCGTTACACTATAT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.278251
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/background -primary CCWTAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.254211
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/background -primary CCCATDC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.535598
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/background -primary AARAAAAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.715809
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/background -primary CMCCAG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.611577
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/spamo_out_8 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/background -primary CWTC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out/dreme.xml
Finished invoke:
  name: spamo8  status: 0  time: 0.438341
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/background --motif MBSRGRATCGAACYSVKGACCTYMNGVTTR /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.293794
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/background --motif SSCYYWWMCCACTRVRCYAMV /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.287292
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/background --motif GTGATGTGATAGCCGTTACACTATAT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.270888
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/background --motif CCWTAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.199229
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/background --motif CCCATDC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.24242
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/background --motif AARAAAAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.198179
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/background --motif CMCCAG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.196457
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/background --motif CWTC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/AWRI1631--HAA1.fa
Finished invoke:
  name: fimo8  status: 0  time: 0.144308
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.240751
Done