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='ZNF282-rep2-SRR5197099.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='ZNF282-rep2-SRR5197099/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 ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.2737159729 s Creating peak regions... Creating peak regions took 71.4409878254 s Estimating background... Estimating background took 59.8064098358 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.47670006752 s Creating peak regions... Creating peak regions took 42.3340740204 s Estimating background... Estimating background took 23.3304870129 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.50550198555 s Creating peak regions... Creating peak regions took 41.9328751564 s Estimating background... Estimating background took 23.9536809921 s Processing ZNF282-rep2-SRR5197099.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='ZNF282-rep2-SRR5197099.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='ZNF282-rep2-SRR5197099/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 ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.54692196846 s Creating peak regions... Creating peak regions took 78.1316218376 s Estimating background... Estimating background took 63.1414251328 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.13958501816 s Creating peak regions... Creating peak regions took 32.9614841938 s Estimating background... Estimating background took 19.8362498283 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.58979701996 s Creating peak regions... Creating peak regions took 34.5645561218 s Estimating background... Estimating background took 19.9093549252 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.82025694847 s Creating peak regions... Creating peak regions took 34.3379790783 s Estimating background... Estimating background took 20.982790947 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.41242694855 s Creating peak regions... Creating peak regions took 29.6670498848 s Estimating background... Estimating background took 18.9168510437 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.13788199425 s Creating peak regions... Creating peak regions took 26.9060909748 s Estimating background... Estimating background took 13.4515740871 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.80195498466 s Creating peak regions... Creating peak regions took 25.5534961224 s Estimating background... Estimating background took 15.5397441387 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.92376899719 s Creating peak regions... Creating peak regions took 23.0527839661 s Estimating background... Estimating background took 15.0437700748 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.1030459404 s Creating peak regions... Creating peak regions took 22.555588007 s Estimating background... Estimating background took 20.3437688351 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.45998287201 s Creating peak regions... Creating peak regions took 20.4237861633 s Estimating background... Estimating background took 9.55279684067 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.56840491295 s Creating peak regions... Creating peak regions took 16.8204679489 s Estimating background... Estimating background took 14.3716950417 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.34204983711 s Creating peak regions... Creating peak regions took 61.9186098576 s Estimating background... Estimating background took 32.035143137 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.54670906067 s Creating peak regions... Creating peak regions took 17.8500299454 s Estimating background... Estimating background took 11.8318250179 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.829939126968 s Creating peak regions... Creating peak regions took 11.9965829849 s Estimating background... Estimating background took 6.54061317444 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.2300798893 s Creating peak regions... Creating peak regions took 13.3166220188 s Estimating background... Estimating background took 12.6804950237 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.31268596649 s Creating peak regions... Creating peak regions took 53.8251070976 s Estimating background... Estimating background took 24.2412521839 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.92570400238 s Creating peak regions... Creating peak regions took 47.3721790314 s Estimating background... Estimating background took 18.252425909 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.35888504982 s Creating peak regions... Creating peak regions took 46.4023411274 s Estimating background... Estimating background took 24.0985410213 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.54755282402 s Creating peak regions... Creating peak regions took 44.8870208263 s Estimating background... Estimating background took 27.1848728657 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.32030200958 s Creating peak regions... Creating peak regions took 41.8188447952 s Estimating background... Estimating background took 24.8477540016 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.70912003517 s Creating peak regions... Creating peak regions took 37.5276558399 s Estimating background... Estimating background took 17.4622678757 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.30277013779 s Creating peak regions... Creating peak regions took 35.3560061455 s Estimating background... Estimating background took 18.2357130051 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.109997034073 s Creating peak regions... Creating peak regions took 0.188121080399 s Estimating background... Estimating background took 0.677628993988 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.29605913162 s Creating peak regions... Creating peak regions took 40.5085740089 s Estimating background... Estimating background took 24.6696588993 s Processing ZNF282-rep2-SRR5197099.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.177896022797 s Creating peak regions... Creating peak regions took 13.9126889706 s Estimating background... Estimating background took 0.619309186935 s