Invoking: getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/RM11-1A--FKH1.fa 1> $metrics Finished invoke: name: count_seqs status: 0 time: 0.024278 Invoking: fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/RM11-1A--FKH1.fa 1> $metrics Finished invoke: name: most_seqs status: 0 time: 0.060823 Invoking: fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/RM11-1A--FKH1.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/seqs-centered Finished invoke: name: center_seqs status: 0 time: 0.083061 Invoking: fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1 Finished invoke: name: shuffle_seqs status: 0 time: 0.017509 Invoking: fasta-subsample /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/seqs-centered 600 -rest /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/seqs-discarded -seed 1 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/seqs-sampled Finished invoke: name: sample_seqs status: 0 time: 0.071454 Invoking: fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/RM11-1A--FKH1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/background Finished invoke: name: bg status: 0 time: 0.020441 Invoking: meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/background -dna -revcomp -nostatus Finished invoke: name: meme status: 0 time: 1006.946492 Invoking: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/seqs-shuffled Finished invoke: name: dreme status: 0 time: 59.205578 Invoking: centrimo -seqlen 341 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/RM11-1A--FKH1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/dreme_out/dreme.xml Finished invoke: name: centrimo status: 0 time: 0.149869 Invoking: tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/motif_alignment.txt Finished invoke: name: align status: 0 time: 0.580057 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/background -primary GGTTCRATTCCCVBHKKGRGMRWWTTTTT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/RM11-1A--FKH1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/dreme_out/dreme.xml Finished invoke: name: spamo1 status: 0 time: 0.468696 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/background -primary TRAYCTTCDGATTADKAGYCHGACGCSYT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/RM11-1A--FKH1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/dreme_out/dreme.xml Finished invoke: name: spamo2 status: 0 time: 0.349774 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/background -primary GTAAAYA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/RM11-1A--FKH1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/dreme_out/dreme.xml Finished invoke: name: spamo3 status: 0 time: 0.791641 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/background -primary SAAGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/RM11-1A--FKH1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/dreme_out/dreme.xml Finished invoke: name: spamo4 status: 0 time: 0.939705 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/background -primary TACCR /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/RM11-1A--FKH1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/dreme_out/dreme.xml Finished invoke: name: spamo5 status: 0 time: 1.097038 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/background -primary AAAAAATA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/RM11-1A--FKH1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/dreme_out/dreme.xml Finished invoke: name: spamo6 status: 0 time: 0.582415 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/background -primary CAVCACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/RM11-1A--FKH1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/dreme_out/dreme.xml Finished invoke: name: spamo7 status: 0 time: 0.590541 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/background --motif GGTTCRATTCCCVBHKKGRGMRWWTTTTT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/RM11-1A--FKH1.fa Finished invoke: name: fimo1 status: 0 time: 0.573348 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/background --motif TRAYCTTCDGATTADKAGYCHGACGCSYT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/RM11-1A--FKH1.fa Finished invoke: name: fimo2 status: 0 time: 0.574361 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/background --motif GTAAAYA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/RM11-1A--FKH1.fa Finished invoke: name: fimo3 status: 0 time: 0.391764 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/background --motif SAAGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/RM11-1A--FKH1.fa Finished invoke: name: fimo4 status: 0 time: 0.397315 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/background --motif TACCR /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/RM11-1A--FKH1.fa Finished invoke: name: fimo5 status: 0 time: 0.399773 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/background --motif AAAAAATA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/RM11-1A--FKH1.fa Finished invoke: name: fimo6 status: 0 time: 0.434477 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/background --motif CAVCACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/RM11-1A--FKH1.fa Finished invoke: name: fimo7 status: 0 time: 0.413478 Writing output Invoking: meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--FKH1/summary.tsv Finished invoke: name: summary status: 0 time: 0.153537 Done