Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.09667
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.067913
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.092665
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.028721
Invoking:
  fasta-subsample /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/seqs-centered 600 -rest /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/seqs-discarded -seed 1 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/seqs-sampled
Finished invoke:
  name: sample_seqs  status: 0  time: 0.07968
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/background
Finished invoke:
  name: bg  status: 0  time: 0.022686
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 1004.743877
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 59.956822
Invoking:
  centrimo -seqlen 488 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.398449
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.558969
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/background -primary GCYCHCDMBSGGRRTCGAACCSVKGAYCT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.510218
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/background -primary TTYTHTYKTYTTTCTTYTTYT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.769883
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/background -primary SAAGAW /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.730231
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/background -primary TACCRW /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.890982
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/background -primary CGCCTTAR /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.256388
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/background -primary ACCACBAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.640795
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/background -primary ATGGCAWC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.365763
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/spamo_out_8 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/background -primary ACCCATRC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml
Finished invoke:
  name: spamo8  status: 0  time: 0.2676
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/background --motif GCYCHCDMBSGGRRTCGAACCSVKGAYCT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.730026
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/background --motif TTYTHTYKTYTTTCTTYTTYT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.725499
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/background --motif SAAGAW /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.491026
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/background --motif TACCRW /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.512229
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/background --motif CGCCTTAR /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.540276
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/background --motif ACCACBAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.535063
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/background --motif ATGGCAWC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.548592
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/background --motif ACCCATRC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/YJM789--THP2.fa
Finished invoke:
  name: fimo8  status: 0  time: 0.541646
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.190126
Done