Invoking: getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa 1> $metrics Finished invoke: name: count_seqs status: 0 time: 0.023715 Invoking: fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa 1> $metrics Finished invoke: name: most_seqs status: 0 time: 0.058375 Invoking: fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/seqs-centered Finished invoke: name: center_seqs status: 0 time: 0.086717 Invoking: fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1 Finished invoke: name: shuffle_seqs status: 0 time: 0.028815 Invoking: fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background Finished invoke: name: bg status: 0 time: 0.026931 Invoking: meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/seqs-centered -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background -dna -revcomp -nostatus Finished invoke: name: meme status: 0 time: 684.733727 Invoking: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/seqs-shuffled Finished invoke: name: dreme status: 0 time: 40.718598 Invoking: centrimo -seqlen 424 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml Finished invoke: name: centrimo status: 0 time: 0.136881 Invoking: tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/motif_alignment.txt Finished invoke: name: align status: 0 time: 0.610197 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background -primary YCDKRAGGTCMBSGGTTCGAYYCCS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml Finished invoke: name: spamo1 status: 0 time: 0.490149 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background -primary GVNSVCYYWAMCCACTRVGCYAHVVVVSC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml Finished invoke: name: spamo2 status: 0 time: 0.504883 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background -primary CTYGGCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml Finished invoke: name: spamo3 status: 0 time: 0.275071 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background -primary AWAAAAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml Finished invoke: name: spamo4 status: 0 time: 0.382035 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background -primary GCGCYAC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml Finished invoke: name: spamo5 status: 0 time: 0.221807 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background -primary GTGATAGY /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml Finished invoke: name: spamo6 status: 0 time: 0.229878 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background -primary CGCCTTAR /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml Finished invoke: name: spamo7 status: 0 time: 0.224477 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/spamo_out_8 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background -primary CRCCCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml Finished invoke: name: spamo8 status: 0 time: 0.327176 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/spamo_out_9 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background -primary CACCGTGS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml Finished invoke: name: spamo9 status: 0 time: 0.519892 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/spamo_out_10 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background -primary RCGGGGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml Finished invoke: name: spamo10 status: 0 time: 0.243826 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/spamo_out_11 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background -primary CAGTTGGK /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml Finished invoke: name: spamo11 status: 0 time: 0.198022 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background --motif YCDKRAGGTCMBSGGTTCGAYYCCS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa Finished invoke: name: fimo1 status: 0 time: 0.280699 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background --motif GVNSVCYYWAMCCACTRVGCYAHVVVVSC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa Finished invoke: name: fimo2 status: 0 time: 0.269005 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background --motif CTYGGCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa Finished invoke: name: fimo3 status: 0 time: 0.174229 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background --motif AWAAAAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa Finished invoke: name: fimo4 status: 0 time: 0.154476 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background --motif GCGCYAC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa Finished invoke: name: fimo5 status: 0 time: 0.173864 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background --motif GTGATAGY /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa Finished invoke: name: fimo6 status: 0 time: 0.174456 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background --motif CGCCTTAR /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa Finished invoke: name: fimo7 status: 0 time: 0.177232 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background --motif CRCCCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa Finished invoke: name: fimo8 status: 0 time: 0.16246 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/fimo_out_9 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background --motif CACCGTGS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa Finished invoke: name: fimo9 status: 0 time: 0.175491 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/fimo_out_10 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background --motif RCGGGGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa Finished invoke: name: fimo10 status: 0 time: 0.1827 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/fimo_out_11 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/background --motif CAGTTGGK /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/RM11-1A--SMP1.fa Finished invoke: name: fimo11 status: 0 time: 0.175543 Writing output Invoking: meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--SMP1/summary.tsv Finished invoke: name: summary status: 0 time: 0.182002 Done