Invoking: getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa 1> $metrics Finished invoke: name: count_seqs status: 0 time: 0.048928 Invoking: fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa 1> $metrics Finished invoke: name: most_seqs status: 0 time: 0.071715 Invoking: fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/seqs-centered Finished invoke: name: center_seqs status: 0 time: 0.098564 Invoking: fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1 Finished invoke: name: shuffle_seqs status: 0 time: 0.026959 Invoking: fasta-subsample /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/seqs-centered 600 -rest /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/seqs-discarded -seed 1 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/seqs-sampled Finished invoke: name: sample_seqs status: 0 time: 0.084731 Invoking: fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background Finished invoke: name: bg status: 0 time: 0.039355 Invoking: meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background -dna -revcomp -nostatus Finished invoke: name: meme status: 0 time: 825.761048 Invoking: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/seqs-shuffled Finished invoke: name: dreme status: 0 time: 89.229154 Invoking: centrimo -seqlen 496 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml Finished invoke: name: centrimo status: 0 time: 0.249654 Invoking: tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/motif_alignment.txt Finished invoke: name: align status: 0 time: 0.652045 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background -primary YAATCDDRAGGTCVBGGGTTCGABYCCCV /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml Finished invoke: name: spamo1 status: 0 time: 0.268481 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background -primary GCBYTAMCVACTVVGCCAHNDRV /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml Finished invoke: name: spamo2 status: 0 time: 0.271458 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background -primary STTACCR /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml Finished invoke: name: spamo3 status: 0 time: 0.283451 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background -primary AAGAAR /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml Finished invoke: name: spamo4 status: 0 time: 0.353792 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background -primary GTTRGTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml Finished invoke: name: spamo5 status: 0 time: 0.255468 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background -primary GCGYCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml Finished invoke: name: spamo6 status: 0 time: 0.252931 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background -primary CMAAGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml Finished invoke: name: spamo7 status: 0 time: 0.379004 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/spamo_out_8 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background -primary CAKACGCG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml Finished invoke: name: spamo8 status: 0 time: 0.175222 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/spamo_out_9 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background -primary GCCTTAAC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml Finished invoke: name: spamo9 status: 0 time: 0.171434 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/spamo_out_10 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background -primary ACCASCG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml Finished invoke: name: spamo10 status: 0 time: 0.210238 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/spamo_out_11 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background -primary GRCAGCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml Finished invoke: name: spamo11 status: 0 time: 0.222032 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/spamo_out_12 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background -primary GCKGCTAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml Finished invoke: name: spamo12 status: 0 time: 0.168465 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background --motif YAATCDDRAGGTCVBGGGTTCGABYCCCV /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa Finished invoke: name: fimo1 status: 0 time: 0.299422 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background --motif GCBYTAMCVACTVVGCCAHNDRV /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa Finished invoke: name: fimo2 status: 0 time: 0.290238 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background --motif STTACCR /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa Finished invoke: name: fimo3 status: 0 time: 0.21066 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background --motif AAGAAR /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa Finished invoke: name: fimo4 status: 0 time: 0.216676 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background --motif GTTRGTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa Finished invoke: name: fimo5 status: 0 time: 0.245086 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background --motif GCGYCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa Finished invoke: name: fimo6 status: 0 time: 0.242028 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background --motif CMAAGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa Finished invoke: name: fimo7 status: 0 time: 0.218647 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background --motif CAKACGCG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa Finished invoke: name: fimo8 status: 0 time: 0.254009 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/fimo_out_9 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background --motif GCCTTAAC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa Finished invoke: name: fimo9 status: 0 time: 0.246878 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/fimo_out_10 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background --motif ACCASCG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa Finished invoke: name: fimo10 status: 0 time: 0.253665 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/fimo_out_11 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background --motif GRCAGCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa Finished invoke: name: fimo11 status: 0 time: 0.266105 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/fimo_out_12 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/background --motif GCKGCTAA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/RM11-1A--RPD3.fa Finished invoke: name: fimo12 status: 0 time: 0.249054 Writing output Invoking: meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/RM11-1A--RPD3/summary.tsv Finished invoke: name: summary status: 0 time: 0.215289 Done