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/hg38.blacklist.bed', center6=0, chromnames='/oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes', e4='PeakXus', fastq='ZNF26-SRR5197095.hg20-male.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='ZNF26-SRR5197095/peakXus/', 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 ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.6255838871 s Creating peak regions... Creating peak regions took 77.9448041916 s Estimating background... Estimating background took 17.1596240997 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.78963112831 s Creating peak regions... Creating peak regions took 40.7448070049 s Estimating background... Estimating background took 7.48794007301 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.80212593079 s Creating peak regions... Creating peak regions took 42.7850799561 s Estimating background... Estimating background took 7.27477097511 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... 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/hg38.blacklist.bed', center6=0, chromnames='/oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38-male.chrom.sizes', e4='PeakXus', fastq='ZNF26-SRR5197095.hg20-male.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='ZNF26-SRR5197095/peakXus/', 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 ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.44097805023 s Creating peak regions... Creating peak regions took 71.0061349869 s Estimating background... Estimating background took 17.4812719822 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.8235001564 s Creating peak regions... Creating peak regions took 38.6164867878 s Estimating background... Estimating background took 7.69282317162 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.80858111382 s Creating peak regions... Creating peak regions took 39.5446581841 s Estimating background... Estimating background took 6.12843513489 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.46063995361 s Creating peak regions... Creating peak regions took 33.2648658752 s Estimating background... Estimating background took 6.53847908974 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.33328509331 s Creating peak regions... Creating peak regions took 28.1553981304 s Estimating background... Estimating background took 6.6357550621 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.00843787193 s Creating peak regions... Creating peak regions took 26.0239720345 s Estimating background... Estimating background took 4.59526920319 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.969778060913 s Creating peak regions... Creating peak regions took 24.8417570591 s Estimating background... Estimating background took 4.88772988319 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.973289012909 s Creating peak regions... Creating peak regions took 21.9518661499 s Estimating background... Estimating background took 4.43929409981 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.17758893967 s Creating peak regions... Creating peak regions took 19.9224870205 s Estimating background... Estimating background took 5.29504394531 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.10030293465 s Creating peak regions... Creating peak regions took 19.6845579147 s Estimating background... Estimating background took 3.66472411156 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.865216016769 s Creating peak regions... Creating peak regions took 14.6450400352 s Estimating background... Estimating background took 3.70150208473 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.63151502609 s Creating peak regions... Creating peak regions took 60.1583449841 s Estimating background... Estimating background took 10.5575931072 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.908799886703 s Creating peak regions... Creating peak regions took 16.6146860123 s Estimating background... Estimating background took 3.96283698082 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.583067178726 s Creating peak regions... Creating peak regions took 11.5833189487 s Estimating background... Estimating background took 1.31848311424 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.783201932907 s Creating peak regions... Creating peak regions took 12.8816950321 s Estimating background... Estimating background took 3.49938416481 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.0482070446 s Creating peak regions... Creating peak regions took 49.5101108551 s Estimating background... Estimating background took 9.27755498886 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.70100593567 s Creating peak regions... Creating peak regions took 41.553497076 s Estimating background... Estimating background took 7.80188894272 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.97945904732 s Creating peak regions... Creating peak regions took 44.6274790764 s Estimating background... Estimating background took 8.20264601707 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.08636498451 s Creating peak regions... Creating peak regions took 41.0443868637 s Estimating background... Estimating background took 9.33829188347 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.86605286598 s Creating peak regions... Creating peak regions took 37.7094578743 s Estimating background... Estimating background took 8.40832591057 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.54512000084 s Creating peak regions... Creating peak regions took 33.5843660831 s Estimating background... Estimating background took 6.2223379612 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.31498003006 s Creating peak regions... Creating peak regions took 34.1675958633 s Estimating background... Estimating background took 6.37275004387 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.0763130187988 s Creating peak regions... Creating peak regions took 0.124242067337 s Estimating background... Estimating background took 0.558151960373 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.77470111847 s Creating peak regions... Creating peak regions took 38.6611480713 s Estimating background... Estimating background took 7.56146502495 s Processing ZNF26-SRR5197095.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.0872600078583 s Creating peak regions... Creating peak regions took 12.1569368839 s Estimating background... Estimating background took 0.458920001984 s