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='ZNF585A-SRR5197190.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='ZNF585A-SRR5197190/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 ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.42951798439 s Creating peak regions... Creating peak regions took 79.6851160526 s Estimating background... Estimating background took 58.1021590233 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.38002514839 s Creating peak regions... Creating peak regions took 44.3771188259 s Estimating background... Estimating background took 22.9254159927 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.24238395691 s Creating peak regions... Creating peak regions took 38.9709291458 s Estimating background... Estimating background took 20.1277580261 s Processing ZNF585A-SRR5197190.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='ZNF585A-SRR5197190.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='ZNF585A-SRR5197190/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 ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.61690402031 s Creating peak regions... Creating peak regions took 79.7004189491 s Estimating background... Estimating background took 57.1506540775 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.26598906517 s Creating peak regions... Creating peak regions took 42.3387038708 s Estimating background... Estimating background took 22.7180759907 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.52226686478 s Creating peak regions... Creating peak regions took 41.7379629612 s Estimating background... Estimating background took 22.9013388157 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.4369058609 s Creating peak regions... Creating peak regions took 41.6653409004 s Estimating background... Estimating background took 24.3391749859 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.00310897827 s Creating peak regions... Creating peak regions took 36.2646789551 s Estimating background... Estimating background took 24.9885840416 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.44336295128 s Creating peak regions... Creating peak regions took 32.9316718578 s Estimating background... Estimating background took 15.493983984 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.09267020226 s Creating peak regions... Creating peak regions took 30.6198129654 s Estimating background... Estimating background took 16.8347930908 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.28646016121 s Creating peak regions... Creating peak regions took 27.3730561733 s Estimating background... Estimating background took 14.5585889816 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.57360005379 s Creating peak regions... Creating peak regions took 26.7466340065 s Estimating background... Estimating background took 19.80311203 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.95754289627 s Creating peak regions... Creating peak regions took 24.5427670479 s Estimating background... Estimating background took 12.0200929642 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.76627588272 s Creating peak regions... Creating peak regions took 18.590526104 s Estimating background... Estimating background took 12.7523910999 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.4267988205 s Creating peak regions... Creating peak regions took 78.5413389206 s Estimating background... Estimating background took 37.9475989342 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.85083603859 s Creating peak regions... Creating peak regions took 20.4320149422 s Estimating background... Estimating background took 12.5156729221 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.06125593185 s Creating peak regions... Creating peak regions took 15.2358469963 s Estimating background... Estimating background took 7.04763507843 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.31538105011 s Creating peak regions... Creating peak regions took 15.7530798912 s Estimating background... Estimating background took 11.9370400906 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.75987195969 s Creating peak regions... Creating peak regions took 60.77648592 s Estimating background... Estimating background took 32.5367360115 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.34127807617 s Creating peak regions... Creating peak regions took 58.6798350811 s Estimating background... Estimating background took 24.0140221119 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.39115405083 s Creating peak regions... Creating peak regions took 56.2843849659 s Estimating background... Estimating background took 30.2261769772 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.96189022064 s Creating peak regions... Creating peak regions took 53.8860361576 s Estimating background... Estimating background took 37.1646809578 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.50591087341 s Creating peak regions... Creating peak regions took 49.9855151176 s Estimating background... Estimating background took 29.8622939587 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.23839688301 s Creating peak regions... Creating peak regions took 45.142334938 s Estimating background... Estimating background took 20.0405080318 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.63206887245 s Creating peak regions... Creating peak regions took 41.6096479893 s Estimating background... Estimating background took 19.0726208687 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.107203960419 s Creating peak regions... Creating peak regions took 0.186766862869 s Estimating background... Estimating background took 0.669393062592 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.68365311623 s Creating peak regions... Creating peak regions took 45.5980198383 s Estimating background... Estimating background took 24.8107540607 s Processing ZNF585A-SRR5197190.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.13983798027 s Creating peak regions... Creating peak regions took 15.4587070942 s Estimating background... Estimating background took 0.727426052094 s