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='ZNF75D-SRR5197231.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='ZNF75D-SRR5197231/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 ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.2012860775 s Creating peak regions... Creating peak regions took 76.3759818077 s Estimating background... Estimating background took 33.2514088154 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.68014192581 s Creating peak regions... Creating peak regions took 40.1185400486 s Estimating background... Estimating background took 13.4022011757 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.60434794426 s Creating peak regions... Creating peak regions took 42.1978828907 s Estimating background... Estimating background took 12.921282053 s Processing ZNF75D-SRR5197231.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='ZNF75D-SRR5197231.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='ZNF75D-SRR5197231/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 ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.09831285477 s Creating peak regions... Creating peak regions took 69.7961230278 s Estimating background... Estimating background took 29.3312420845 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.4656150341 s Creating peak regions... Creating peak regions took 35.6976728439 s Estimating background... Estimating background took 12.2606799603 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.64351701736 s Creating peak regions... Creating peak regions took 40.6909692287 s Estimating background... Estimating background took 12.3565399647 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.55686783791 s Creating peak regions... Creating peak regions took 40.9147191048 s Estimating background... Estimating background took 14.888999939 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.6128950119 s Creating peak regions... Creating peak regions took 36.8115508556 s Estimating background... Estimating background took 15.4576690197 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.77901506424 s Creating peak regions... Creating peak regions took 36.438603878 s Estimating background... Estimating background took 9.84663891792 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.72011804581 s Creating peak regions... Creating peak regions took 34.6229970455 s Estimating background... Estimating background took 10.2447850704 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.67661809921 s Creating peak regions... Creating peak regions took 27.1934878826 s Estimating background... Estimating background took 8.94156718254 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.18317699432 s Creating peak regions... Creating peak regions took 30.5933830738 s Estimating background... Estimating background took 10.8202450275 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.55784106255 s Creating peak regions... Creating peak regions took 24.7852320671 s Estimating background... Estimating background took 7.57826304436 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.82701206207 s Creating peak regions... Creating peak regions took 18.9003808498 s Estimating background... Estimating background took 13.4575929642 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.06103897095 s Creating peak regions... Creating peak regions took 87.0136189461 s Estimating background... Estimating background took 25.033397913 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.40774297714 s Creating peak regions... Creating peak regions took 24.2977700233 s Estimating background... Estimating background took 8.12826108932 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.00307703018 s Creating peak regions... Creating peak regions took 14.9389410019 s Estimating background... Estimating background took 4.84056305885 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.15117692947 s Creating peak regions... Creating peak regions took 17.6401379108 s Estimating background... Estimating background took 7.00541615486 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.80969285965 s Creating peak regions... Creating peak regions took 67.7050368786 s Estimating background... Estimating background took 20.3989989758 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.33533000946 s Creating peak regions... Creating peak regions took 73.3231248856 s Estimating background... Estimating background took 16.1157519817 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.75346279144 s Creating peak regions... Creating peak regions took 64.6247308254 s Estimating background... Estimating background took 18.4508521557 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.18272995949 s Creating peak regions... Creating peak regions took 64.0178990364 s Estimating background... Estimating background took 20.7614982128 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.40573716164 s Creating peak regions... Creating peak regions took 61.8224980831 s Estimating background... Estimating background took 17.413506031 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.55793190002 s Creating peak regions... Creating peak regions took 54.0796751976 s Estimating background... Estimating background took 13.5666940212 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.77497696877 s Creating peak regions... Creating peak regions took 40.8499779701 s Estimating background... Estimating background took 12.0206668377 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.121038913727 s Creating peak regions... Creating peak regions took 0.227030038834 s Estimating background... Estimating background took 0.808389186859 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.68567299843 s Creating peak regions... Creating peak regions took 52.2076609135 s Estimating background... Estimating background took 17.5291750431 s Processing ZNF75D-SRR5197231.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.16427898407 s Creating peak regions... Creating peak regions took 21.6350231171 s Estimating background... Estimating background took 0.780694007874 s