Invoking: getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa 1> $metrics Finished invoke: name: count_seqs status: 0 time: 0.024398 Invoking: fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa 1> $metrics Finished invoke: name: most_seqs status: 0 time: 0.063345 Invoking: fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/seqs-centered Finished invoke: name: center_seqs status: 0 time: 0.077698 Invoking: fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1 Finished invoke: name: shuffle_seqs status: 0 time: 0.024121 Invoking: fasta-subsample /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/seqs-centered 600 -rest /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/seqs-discarded -seed 1 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/seqs-sampled Finished invoke: name: sample_seqs status: 0 time: 0.077851 Invoking: fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background Finished invoke: name: bg status: 0 time: 0.012836 Invoking: meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background -dna -revcomp -nostatus Finished invoke: name: meme status: 0 time: 932.316416 Invoking: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/seqs-shuffled Finished invoke: name: dreme status: 0 time: 74.019196 Invoking: centrimo -seqlen 390 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml Finished invoke: name: centrimo status: 0 time: 0.203643 Invoking: tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/motif_alignment.txt Finished invoke: name: align status: 0 time: 0.586501 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background -primary GKTARSGCGTCNGRCTHNTAAYSNGRAGRT /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml Finished invoke: name: spamo1 status: 0 time: 0.279785 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background -primary YMBSGGTTCGAKYCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml Finished invoke: name: spamo2 status: 0 time: 0.260661 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background -primary ATAGTKTARTGGTYAGMAYDBDYGSTTKTS /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml Finished invoke: name: spamo3 status: 0 time: 0.254379 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background -primary ACCCANAC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml Finished invoke: name: spamo4 status: 0 time: 0.190569 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background -primary CGKTGCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml Finished invoke: name: spamo5 status: 0 time: 0.205079 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background -primary ATGTACDG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml Finished invoke: name: spamo6 status: 0 time: 0.390153 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background -primary CAACTKGG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml Finished invoke: name: spamo7 status: 0 time: 0.193646 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/spamo_out_8 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background -primary SAAGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml Finished invoke: name: spamo8 status: 0 time: 0.283327 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/spamo_out_9 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background -primary GTGATAGY /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml Finished invoke: name: spamo9 status: 0 time: 0.211585 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background --motif GKTARSGCGTCNGRCTHNTAAYSNGRAGRT /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa Finished invoke: name: fimo1 status: 0 time: 0.241506 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background --motif YMBSGGTTCGAKYCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa Finished invoke: name: fimo2 status: 0 time: 0.234677 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background --motif ATAGTKTARTGGTYAGMAYDBDYGSTTKTS /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa Finished invoke: name: fimo3 status: 0 time: 0.241542 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background --motif ACCCANAC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa Finished invoke: name: fimo4 status: 0 time: 0.137426 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background --motif CGKTGCC /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa Finished invoke: name: fimo5 status: 0 time: 0.12101 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background --motif ATGTACDG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa Finished invoke: name: fimo6 status: 0 time: 0.128879 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background --motif CAACTKGG /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa Finished invoke: name: fimo7 status: 0 time: 0.12819 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background --motif SAAGA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa Finished invoke: name: fimo8 status: 0 time: 0.101838 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/fimo_out_9 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/background --motif GTGATAGY /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/AWRI1631--PHD1.fa Finished invoke: name: fimo9 status: 0 time: 0.129244 Writing output Invoking: meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--PHD1/summary.tsv Finished invoke: name: summary status: 0 time: 0.230806 Done