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='ZNF264-SRR5197092.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='ZNF264-SRR5197092/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 ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.95204401016 s Creating peak regions... Creating peak regions took 77.228771925 s Estimating background... Estimating background took 38.4441699982 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.56999707222 s Creating peak regions... Creating peak regions took 41.5956039429 s Estimating background... Estimating background took 14.8406739235 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.63256001472 s Creating peak regions... Creating peak regions took 39.5841240883 s Estimating background... Estimating background took 13.3984138966 s Processing ZNF264-SRR5197092.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='ZNF264-SRR5197092.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='ZNF264-SRR5197092/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 ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.15187191963 s Creating peak regions... Creating peak regions took 74.9058258533 s Estimating background... Estimating background took 38.8589859009 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.63777899742 s Creating peak regions... Creating peak regions took 40.7282190323 s Estimating background... Estimating background took 15.3977389336 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.65644598007 s Creating peak regions... Creating peak regions took 39.7733078003 s Estimating background... Estimating background took 15.052131176 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.85430312157 s Creating peak regions... Creating peak regions took 40.7073888779 s Estimating background... Estimating background took 16.7228639126 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.39261698723 s Creating peak regions... Creating peak regions took 34.3381371498 s Estimating background... Estimating background took 16.4024310112 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.76711297035 s Creating peak regions... Creating peak regions took 30.0217440128 s Estimating background... Estimating background took 10.4517729282 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.76139092445 s Creating peak regions... Creating peak regions took 31.4364030361 s Estimating background... Estimating background took 10.9904558659 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.77023291588 s Creating peak regions... Creating peak regions took 27.80164814 s Estimating background... Estimating background took 10.4988319874 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.72201514244 s Creating peak regions... Creating peak regions took 26.2298998833 s Estimating background... Estimating background took 12.9498171806 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.49994206429 s Creating peak regions... Creating peak regions took 24.4120709896 s Estimating background... Estimating background took 8.20241904259 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.40760493279 s Creating peak regions... Creating peak regions took 19.3917481899 s Estimating background... Estimating background took 9.52004790306 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.35113716125 s Creating peak regions... Creating peak regions took 76.8091928959 s Estimating background... Estimating background took 26.2917630672 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.67278814316 s Creating peak regions... Creating peak regions took 19.7848050594 s Estimating background... Estimating background took 9.37370896339 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.802393913269 s Creating peak regions... Creating peak regions took 15.0214619637 s Estimating background... Estimating background took 5.27366709709 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.25958585739 s Creating peak regions... Creating peak regions took 15.505795002 s Estimating background... Estimating background took 8.95158720016 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.39758682251 s Creating peak regions... Creating peak regions took 62.3879380226 s Estimating background... Estimating background took 19.5513699055 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.99563097954 s Creating peak regions... Creating peak regions took 55.3721039295 s Estimating background... Estimating background took 15.2578878403 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.20041704178 s Creating peak regions... Creating peak regions took 55.6723589897 s Estimating background... Estimating background took 19.9345211983 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.54186201096 s Creating peak regions... Creating peak regions took 49.3075869083 s Estimating background... Estimating background took 21.5373449326 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.55485200882 s Creating peak regions... Creating peak regions took 49.7100269794 s Estimating background... Estimating background took 21.0223369598 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.67518520355 s Creating peak regions... Creating peak regions took 42.4233319759 s Estimating background... Estimating background took 14.2448768616 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.46828079224 s Creating peak regions... Creating peak regions took 43.1902360916 s Estimating background... Estimating background took 14.2333991528 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.0921859741211 s Creating peak regions... Creating peak regions took 0.17479801178 s Estimating background... Estimating background took 0.687211990356 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.67069506645 s Creating peak regions... Creating peak regions took 38.230189085 s Estimating background... Estimating background took 17.1944458485 s Processing ZNF264-SRR5197092.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.107440948486 s Creating peak regions... Creating peak regions took 12.5104949474 s Estimating background... Estimating background took 0.537785053253 s