Invoking: getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa 1> $metrics Finished invoke: name: count_seqs status: 0 time: 0.029777 Invoking: fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa 1> $metrics Finished invoke: name: most_seqs status: 0 time: 0.062806 Invoking: fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/seqs-centered Finished invoke: name: center_seqs status: 0 time: 0.087094 Invoking: fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1 Finished invoke: name: shuffle_seqs status: 0 time: 0.021532 Invoking: fasta-subsample /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/seqs-centered 600 -rest /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/seqs-discarded -seed 1 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/seqs-sampled Finished invoke: name: sample_seqs status: 0 time: 0.07222 Invoking: fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background Finished invoke: name: bg status: 0 time: 0.021832 Invoking: meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background -dna -revcomp -nostatus Finished invoke: name: meme status: 0 time: 983.388118 Invoking: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/seqs-shuffled Finished invoke: name: dreme status: 0 time: 48.701978 Invoking: centrimo -seqlen 500 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml Finished invoke: name: centrimo status: 0 time: 0.157355 Invoking: tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/motif_alignment.txt Finished invoke: name: align status: 0 time: 0.304801 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background -primary AGGTCCBSGGTTCGATYCCSVGHBDGRGC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml Finished invoke: name: spamo1 status: 0 time: 0.588597 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background -primary KTGGCYYAGTKGKWWRRGSS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml Finished invoke: name: spamo2 status: 0 time: 0.609645 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background -primary TWYTTTTTTWTTTTT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml Finished invoke: name: spamo3 status: 0 time: 0.614371 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background -primary CCTTAVC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml Finished invoke: name: spamo4 status: 0 time: 0.457331 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background -primary ACCKTS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml Finished invoke: name: spamo5 status: 0 time: 0.541828 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background -primary GGYTATCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml Finished invoke: name: spamo6 status: 0 time: 0.238756 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background -primary CMAGAAG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml Finished invoke: name: spamo7 status: 0 time: 0.447839 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/spamo_out_8 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background -primary RGTGGTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml Finished invoke: name: spamo8 status: 0 time: 0.386693 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/spamo_out_9 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background -primary GMTACCGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml Finished invoke: name: spamo9 status: 0 time: 0.250971 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/spamo_out_10 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background -primary CAGCAG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml Finished invoke: name: spamo10 status: 0 time: 0.410556 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background --motif AGGTCCBSGGTTCGATYCCSVGHBDGRGC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa Finished invoke: name: fimo1 status: 0 time: 0.472213 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background --motif KTGGCYYAGTKGKWWRRGSS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa Finished invoke: name: fimo2 status: 0 time: 0.473549 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background --motif TWYTTTTTTWTTTTT /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa Finished invoke: name: fimo3 status: 0 time: 0.474659 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background --motif CCTTAVC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa Finished invoke: name: fimo4 status: 0 time: 0.345885 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background --motif ACCKTS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa Finished invoke: name: fimo5 status: 0 time: 0.326727 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background --motif GGYTATCA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa Finished invoke: name: fimo6 status: 0 time: 0.370628 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background --motif CMAGAAG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa Finished invoke: name: fimo7 status: 0 time: 0.33472 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background --motif RGTGGTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa Finished invoke: name: fimo8 status: 0 time: 0.329977 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/fimo_out_9 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background --motif GMTACCGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa Finished invoke: name: fimo9 status: 0 time: 0.371484 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/fimo_out_10 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/background --motif CAGCAG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/RM11-1A--MCM1.fa Finished invoke: name: fimo10 status: 0 time: 0.322592 Writing output Invoking: meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MCM1/summary.tsv Finished invoke: name: summary status: 0 time: 0.17633 Done