Invoking:
  getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa 1> $metrics
Finished invoke:
  name: count_seqs  status: 0  time: 0.02635
Invoking:
  fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa 1> $metrics
Finished invoke:
  name: most_seqs  status: 0  time: 0.065747
Invoking:
  fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/seqs-centered
Finished invoke:
  name: center_seqs  status: 0  time: 0.076218
Invoking:
  fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1
Finished invoke:
  name: shuffle_seqs  status: 0  time: 0.036322
Invoking:
  fasta-subsample /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/seqs-centered 600 -rest /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/seqs-discarded -seed 1 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/seqs-sampled
Finished invoke:
  name: sample_seqs  status: 0  time: 0.070775
Invoking:
  fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background
Finished invoke:
  name: bg  status: 0  time: 0.016257
Invoking:
  meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background -dna -revcomp -nostatus
Finished invoke:
  name: meme  status: 0  time: 977.881344
Invoking:
  dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/seqs-shuffled
Finished invoke:
  name: dreme  status: 0  time: 62.20023
Invoking:
  centrimo -seqlen 485 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml
Finished invoke:
  name: centrimo  status: 0  time: 0.190851
Invoking:
  tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/motif_alignment.txt
Finished invoke:
  name: align  status: 0  time: 0.470978
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background -primary DTRGYYBAGTKGKTWRAGSS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml
Finished invoke:
  name: spamo1  status: 0  time: 0.552932
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background -primary DMBSGGRATCGAACCSVKGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml
Finished invoke:
  name: spamo2  status: 0  time: 0.497121
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background -primary YTCMWCGGYSAMARCGWKRTGTRMTARCCR /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml
Finished invoke:
  name: spamo3  status: 0  time: 0.292711
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background -primary CCHTAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml
Finished invoke:
  name: spamo4  status: 0  time: 0.320146
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background -primary AAAAAWA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml
Finished invoke:
  name: spamo5  status: 0  time: 0.408803
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background -primary AGACCAY /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml
Finished invoke:
  name: spamo6  status: 0  time: 0.29906
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background -primary CACCGTS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml
Finished invoke:
  name: spamo7  status: 0  time: 0.270991
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/spamo_out_8 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background -primary CSTCCCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml
Finished invoke:
  name: spamo8  status: 0  time: 0.23672
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/spamo_out_9 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background -primary SATGTAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml
Finished invoke:
  name: spamo9  status: 0  time: 0.279022
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/spamo_out_10 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background -primary AAGKCGCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml
Finished invoke:
  name: spamo10  status: 0  time: 0.238025
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/spamo_out_11 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background -primary GMTACCGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml
Finished invoke:
  name: spamo11  status: 0  time: 0.235281
Invoking:
  spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/spamo_out_12 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background -primary CGCGGRGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml
Finished invoke:
  name: spamo12  status: 0  time: 0.295514
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background --motif DTRGYYBAGTKGKTWRAGSS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa
Finished invoke:
  name: fimo1  status: 0  time: 0.309574
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background --motif DMBSGGRATCGAACCSVKGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa
Finished invoke:
  name: fimo2  status: 0  time: 0.299632
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background --motif YTCMWCGGYSAMARCGWKRTGTRMTARCCR /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa
Finished invoke:
  name: fimo3  status: 0  time: 0.302411
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background --motif CCHTAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa
Finished invoke:
  name: fimo4  status: 0  time: 0.434162
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background --motif AAAAAWA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa
Finished invoke:
  name: fimo5  status: 0  time: 0.182193
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background --motif AGACCAY /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa
Finished invoke:
  name: fimo6  status: 0  time: 0.203893
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background --motif CACCGTS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa
Finished invoke:
  name: fimo7  status: 0  time: 0.225565
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background --motif CSTCCCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa
Finished invoke:
  name: fimo8  status: 0  time: 0.19968
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/fimo_out_9 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background --motif SATGTAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa
Finished invoke:
  name: fimo9  status: 0  time: 0.209119
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/fimo_out_10 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background --motif AAGKCGCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa
Finished invoke:
  name: fimo10  status: 0  time: 0.199035
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/fimo_out_11 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background --motif GMTACCGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa
Finished invoke:
  name: fimo11  status: 0  time: 0.219612
Invoking:
  fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/fimo_out_12 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/background --motif CGCGGRGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/BY4741--MIG2.fa
Finished invoke:
  name: fimo12  status: 0  time: 0.228647
Writing output
Invoking:
  meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--MIG2/summary.tsv
Finished invoke:
  name: summary  status: 0  time: 0.236734
Done