INPUT PARAMETERS: Namespace(B2=None, N4=1000, N6=1000, S4=1, UMIs=None, adapters1=None, b3=0.05, blacklist='/oak/stanford/groups/akundaje/marinovg/genomes/blacklists/mm10.blacklist.bed', center6=0, chromnames='/oak/stanford/groups/akundaje/marinovg/genomes/mm10/female.mm10.chrom.sizes', e4='PeakXus', fastq='TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam', genome2=None, k4=4, l3=5, l6='PeakXus', l_l3=60, m4=10, m5=20, m6=100, matrixhits=None, maxw7=50, minw7=4, ml4=17, ms4=-8, n3=1, n4=1, o5=1, outdir='TAL1_G1E-ER4_24h_Rep2-GSM1689033/', p3=1.0, p7=1, q2=20, s3=1, skip0=0, t2=1, title5='PeakXus', verbosity=1, w3=5, w4=100, wg7=None)INPUT PARAMETERS: Namespace(B2=None, N4=1000, N6=1000, S4=1, UMIs=None, adapters1=None, b3=0.05, blacklist='/oak/stanford/groups/akundaje/marinovg/genomes/blacklists/mm10.blacklist.bed', center6=0, chromnames='/oak/stanford/groups/akundaje/marinovg/genomes/mm10/mm10.chrom.sizes', e4='PeakXus', fastq='TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam', genome2=None, k4=4, l3=5, l6='PeakXus', l_l3=60, m4=10, m5=20, m6=100, matrixhits=None, maxw7=50, minw7=4, ml4=17, ms4=-8, n3=1, n4=1, o5=1, outdir='TAL1_G1E-ER4_24h_Rep2-GSM1689033/', p3=1.0, p7=1, q2=20, s3=1, skip0=0, t2=1, title5='PeakXus', verbosity=1, w3=5, w4=100, wg7=None)Testing that input files exist...done! Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 1.60971689224 s Creating peak regions... Creating peak regions took 29.8110899925 s Estimating background... Estimating background took 0.465679883957 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 1.58773207664 s Creating peak regions... Creating peak regions took 28.1141250134 s Estimating background... Estimating background took 0.663650989532 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 1.66593408585 s Creating peak regions... Creating peak regions took 28.1090419292 s Estimating background... Estimating background took 0.476084947586 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 1.69736814499 s Creating peak regions... Creating peak regions took 30.2637460232 s Estimating background... Estimating background took 0.348845005035 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 1.51675581932 s Creating peak regions... Creating peak regions took 29.0380380154 s Estimating background... Estimating background took 0.343858957291 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 1.60013699532 s Creating peak regions... Creating peak regions took 28.2909851074 s Estimating background... Estimating background took 0.448568105698 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 1.58365488052 s Creating peak regions... Creating peak regions took 25.8948018551 s Estimating background... Estimating background took 0.328253984451 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 1.29714202881 s Creating peak regions... Creating peak regions took 23.0170361996 s Estimating background... Estimating background took 0.434355020523 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 1.32841897011 s Creating peak regions... Creating peak regions took 21.3734951019 s Estimating background... Estimating background took 0.349580049515 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 1.01812005043 s Creating peak regions... Creating peak regions took 14.6696639061 s Estimating background... Estimating background took 0.326528072357 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 3.16644001007 s Creating peak regions... Creating peak regions took 47.7123699188 s Estimating background... Estimating background took 4.38285589218 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0593099594116 s Creating peak regions... Creating peak regions took 0.126827955246 s Estimating background... Estimating background took 0.280871868134 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0646278858185 s Creating peak regions... Creating peak regions took 0.18616104126 s Estimating background... Estimating background took 0.261393070221 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0440309047699 s Creating peak regions... Creating peak regions took 0.1473300457 s Estimating background... Estimating background took 0.274827003479 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0375430583954 s Creating peak regions... Creating peak regions took 0.152671098709 s Estimating background... Estimating background took 0.278635025024 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 2.76911616325 s Creating peak regions... Creating peak regions took 41.6409580708 s Estimating background... Estimating background took 0.588907957077 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 3.02431297302 s Creating peak regions... Creating peak regions took 36.2891569138 s Estimating background... Estimating background took 0.483445882797 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 1.87046599388 s Creating peak regions... Creating peak regions took 35.3526599407 s Estimating background... Estimating background took 0.601243972778 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0912799835205 s Creating peak regions... Creating peak regions took 0.07479596138 s Estimating background... Estimating background took 0.289582014084 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 2.26752710342 s Creating peak regions... Creating peak regions took 39.9721159935 s Estimating background... Estimating background took 0.502645015717 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0316689014435 s Creating peak regions... Creating peak regions took 0.600193023682 s Estimating background... Estimating background took 0.281388044357 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 2.34446907043 s Creating peak regions... Creating peak regions took 35.9780578613 s Estimating background... Estimating background took 4.57755708694 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 2.54078102112 s Creating peak regions... Creating peak regions took 33.8775131702 s Estimating background... Estimating background took 0.613080978394 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 1.59994888306 s Creating peak regions... Creating peak regions took 30.3438160419 s Estimating background... Estimating background took 0.503480195999 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 1.93324708939 s Creating peak regions... Creating peak regions took 29.7025678158 s Estimating background... Estimating background took 0.610244035721 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.086658000946 s Creating peak regions... Creating peak regions took 0.0417490005493 s Estimating background... Estimating background took 0.262973070145 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0550780296326 s Creating peak regions... Creating peak regions took 0.0647070407867 s Estimating background... Estimating background took 0.279219150543 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0549809932709 s Creating peak regions... Creating peak regions took 0.0396931171417 s Estimating background... Estimating background took 0.282694101334 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0540788173676 s Creating peak regions... Creating peak regions took 0.0526731014252 s Estimating background... Estimating background took 0.282011985779 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0543768405914 s Creating peak regions... Creating peak regions took 0.0276131629944 s Estimating background... Estimating background took 0.301044940948 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0548470020294 s Creating peak regions... Creating peak regions took 0.0234251022339 s Estimating background... Estimating background took 0.312433958054 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0499129295349 s Creating peak regions... Creating peak regions took 0.0351009368896 s Estimating background... Estimating background took 0.271630048752 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0529339313507 s Creating peak regions... Creating peak regions took 0.0226829051971 s Estimating background... Estimating background took 0.285395145416 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0549290180206 s Creating peak regions... Creating peak regions took 0.0317440032959 s Estimating background... Estimating background took 0.304769039154 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0359289646149 s Creating peak regions... Creating peak regions took 0.0363368988037 s Estimating background... Estimating background took 0.305495977402 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.054083108902 s Creating peak regions... Creating peak regions took 0.0858790874481 s Estimating background... Estimating background took 0.276490926743 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0351498126984 s Creating peak regions... Creating peak regions took 0.0211699008942 s Estimating background... Estimating background took 0.279273986816 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0529820919037 s Creating peak regions... Creating peak regions took 0.019944190979 s Estimating background... Estimating background took 0.281321048737 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0538530349731 s Creating peak regions... Creating peak regions took 0.081093788147 s Estimating background... Estimating background took 0.268628120422 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0303359031677 s Creating peak regions... Creating peak regions took 0.0215380191803 s Estimating background... Estimating background took 0.277812004089 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.133921861649 s Creating peak regions... Creating peak regions took 0.0375030040741 s Estimating background... Estimating background took 0.27161192894 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0684280395508 s Creating peak regions... Creating peak regions took 0.0525660514832 s Estimating background... Estimating background took 0.281393051147 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0865240097046 s Creating peak regions... Creating peak regions took 0.0844080448151 s Estimating background... Estimating background took 0.275589942932 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0397250652313 s Creating peak regions... Creating peak regions took 0.0794229507446 s Estimating background... Estimating background took 0.271948099136 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.051029920578 s Creating peak regions... Creating peak regions took 0.0398030281067 s Estimating background... Estimating background took 0.297539949417 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0373799800873 s Creating peak regions... Creating peak regions took 0.03360414505 s Estimating background... Estimating background took 0.301740884781 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0717599391937 s Creating peak regions... Creating peak regions took 0.201406955719 s Estimating background... Estimating background took 0.294272184372 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 1.09304213524 s Creating peak regions... Creating peak regions took 40.2138829231 s Estimating background... Estimating background took 0.301192998886 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.0792770385742 s Creating peak regions... Creating peak regions took 0.337884902954 s Estimating background... Estimating background took 0.267729997635 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Reading data took 0.053277015686 s Creating peak regions... Creating peak regions took 19.7581219673 s Estimating background... Estimating background took 0.281487941742 s Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_24h_Rep2-GSM1689033/aligned.36mers.unique.bam Reading in data...