Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.085526
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.067608
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.102926
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.034355
Invoking:
  fasta-subsample /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/seqs-centered 600 -rest /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/seqs-discarded -seed 1 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/seqs-sampled
Finished invoke:
  name: sample_seqs  status: 0  time: 0.075477
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background
Finished invoke:
  name: bg  status: 0  time: 0.018126
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 943.146693
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 103.575417
Invoking:
  centrimo -seqlen 380 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.244906
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.496578
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background -primary SBYNYDTGGYSYAGTGGKTWRVGSSHH /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.80687
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background -primary SGGRRTCGAACCSVKGWYCYY /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.65742
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background -primary RWRRTGTAYGGRTGTDDDD /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.569693
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background -primary CGCSTTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.384816
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background -primary AGAAAMAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.374989
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background -primary GCKCTACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.299456
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background -primary CAASGATG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.255956
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/spamo_out_8 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background -primary CACCGTGS /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo8  status: 0  time: 0.49579
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/spamo_out_9 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background -primary CAGAYGC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo9  status: 0  time: 0.275231
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/spamo_out_10 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background -primary TAKCTCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo10  status: 0  time: 0.265003
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/spamo_out_11 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background -primary GARTCATA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo11  status: 0  time: 0.259491
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/spamo_out_12 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background -primary CAGTCTKG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml
Finished invoke:
  name: spamo12  status: 0  time: 0.22243
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background --motif SBYNYDTGGYSYAGTGGKTWRVGSSHH /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.253313
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background --motif SGGRRTCGAACCSVKGWYCYY /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.260704
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background --motif RWRRTGTAYGGRTGTDDDD /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.250089
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background --motif CGCSTTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.347339
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background --motif AGAAAMAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.15795
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background --motif GCKCTACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.158907
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background --motif CAASGATG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.142232
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background --motif CACCGTGS /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa
Finished invoke:
  name: fimo8  status: 0  time: 0.163283
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/fimo_out_9 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background --motif CAGAYGC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa
Finished invoke:
  name: fimo9  status: 0  time: 0.153921
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/fimo_out_10 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background --motif TAKCTCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa
Finished invoke:
  name: fimo10  status: 0  time: 0.138458
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/fimo_out_11 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background --motif GARTCATA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa
Finished invoke:
  name: fimo11  status: 0  time: 0.149177
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/fimo_out_12 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/background --motif CAGTCTKG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/BY4741--PDR8.fa
Finished invoke:
  name: fimo12  status: 0  time: 0.137617
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--PDR8/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.206571
Done