Invoking: getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa 1> $metrics Finished invoke: name: count_seqs status: 0 time: 0.014786 Invoking: fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa 1> $metrics Finished invoke: name: most_seqs status: 0 time: 0.057025 Invoking: fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/seqs-centered Finished invoke: name: center_seqs status: 0 time: 0.072191 Invoking: fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1 Finished invoke: name: shuffle_seqs status: 0 time: 0.013295 Invoking: fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background Finished invoke: name: bg status: 0 time: 0.012557 Invoking: meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/seqs-centered -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background -dna -revcomp -nostatus Finished invoke: name: meme status: 0 time: 899.934102 Invoking: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/seqs-shuffled Finished invoke: name: dreme status: 0 time: 51.556399 Invoking: centrimo -seqlen 498 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml Finished invoke: name: centrimo status: 0 time: 0.152135 Invoking: tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/motif_alignment.txt Finished invoke: name: align status: 0 time: 0.587688 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background -primary GGCBMRKTKGKTARSGCGYCHGAYTMDWA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml Finished invoke: name: spamo1 status: 0 time: 0.556671 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background -primary CVBSGGTTCGATYCCSVK /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml Finished invoke: name: spamo2 status: 0 time: 0.675286 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background -primary ACCWCT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml Finished invoke: name: spamo3 status: 0 time: 0.466338 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background -primary AACTKGGC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml Finished invoke: name: spamo4 status: 0 time: 0.297565 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background -primary AAAAADA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml Finished invoke: name: spamo5 status: 0 time: 0.555068 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background -primary ACTSTTAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml Finished invoke: name: spamo6 status: 0 time: 0.266937 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background -primary GCGTGTK /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml Finished invoke: name: spamo7 status: 0 time: 0.241635 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/spamo_out_8 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background -primary CCGTGMTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml Finished invoke: name: spamo8 status: 0 time: 0.242178 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/spamo_out_9 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background -primary CCAACRA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml Finished invoke: name: spamo9 status: 0 time: 0.300521 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/spamo_out_10 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background -primary CRCCCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml Finished invoke: name: spamo10 status: 0 time: 0.374656 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background --motif GGCBMRKTKGKTARSGCGYCHGAYTMDWA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa Finished invoke: name: fimo1 status: 0 time: 0.309086 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background --motif CVBSGGTTCGATYCCSVK /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa Finished invoke: name: fimo2 status: 0 time: 0.263172 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background --motif ACCWCT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa Finished invoke: name: fimo3 status: 0 time: 0.15362 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background --motif AACTKGGC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa Finished invoke: name: fimo4 status: 0 time: 0.172636 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background --motif AAAAADA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa Finished invoke: name: fimo5 status: 0 time: 0.165273 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background --motif ACTSTTAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa Finished invoke: name: fimo6 status: 0 time: 0.175534 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background --motif GCGTGTK /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa Finished invoke: name: fimo7 status: 0 time: 0.168592 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background --motif CCGTGMTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa Finished invoke: name: fimo8 status: 0 time: 0.172878 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/fimo_out_9 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background --motif CCAACRA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa Finished invoke: name: fimo9 status: 0 time: 0.171277 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/fimo_out_10 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/background --motif CRCCCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/BY4741--YRR1.fa Finished invoke: name: fimo10 status: 0 time: 0.15613 Writing output Invoking: meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--YRR1/summary.tsv Finished invoke: name: summary status: 0 time: 0.150761 Done