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='ZNF266-SRR5197093.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='ZNF266-SRR5197093/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 ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.20839190483 s Creating peak regions... Creating peak regions took 75.9293091297 s Estimating background... Estimating background took 28.935790062 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.17644619942 s Creating peak regions... Creating peak regions took 38.8872859478 s Estimating background... Estimating background took 12.0765399933 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.26485919952 s Creating peak regions... Creating peak regions took 41.4535830021 s Estimating background... Estimating background took 11.9532818794 s Processing ZNF266-SRR5197093.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='ZNF266-SRR5197093.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='ZNF266-SRR5197093/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 ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.20373892784 s Creating peak regions... Creating peak regions took 73.2086441517 s Estimating background... Estimating background took 30.2619009018 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.22605895996 s Creating peak regions... Creating peak regions took 40.3511121273 s Estimating background... Estimating background took 12.5177199841 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.21474289894 s Creating peak regions... Creating peak regions took 35.8700790405 s Estimating background... Estimating background took 10.4416089058 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.93131494522 s Creating peak regions... Creating peak regions took 33.2804410458 s Estimating background... Estimating background took 10.7294800282 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.50174403191 s Creating peak regions... Creating peak regions took 27.868751049 s Estimating background... Estimating background took 9.05670619011 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.28749895096 s Creating peak regions... Creating peak regions took 24.5266361237 s Estimating background... Estimating background took 7.09090900421 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.34446692467 s Creating peak regions... Creating peak regions took 26.0534329414 s Estimating background... Estimating background took 8.36383008957 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.24559402466 s Creating peak regions... Creating peak regions took 23.7560100555 s Estimating background... Estimating background took 7.8894109726 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.52059602737 s Creating peak regions... Creating peak regions took 22.601580143 s Estimating background... Estimating background took 10.1023929119 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.18569421768 s Creating peak regions... Creating peak regions took 19.3935980797 s Estimating background... Estimating background took 5.09521389008 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.07124710083 s Creating peak regions... Creating peak regions took 14.8586769104 s Estimating background... Estimating background took 7.38519906998 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.89868807793 s Creating peak regions... Creating peak regions took 56.8429269791 s Estimating background... Estimating background took 16.0466370583 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.11246991158 s Creating peak regions... Creating peak regions took 18.1105620861 s Estimating background... Estimating background took 6.65360093117 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.52549290657 s Creating peak regions... Creating peak regions took 11.316204071 s Estimating background... Estimating background took 3.52557992935 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.906888961792 s Creating peak regions... Creating peak regions took 13.6174399853 s Estimating background... Estimating background took 6.80769896507 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.24031019211 s Creating peak regions... Creating peak regions took 48.273775816 s Estimating background... Estimating background took 12.5880320072 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.81391096115 s Creating peak regions... Creating peak regions took 45.8389229774 s Estimating background... Estimating background took 9.72287607193 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.19300413132 s Creating peak regions... Creating peak regions took 44.4688830376 s Estimating background... Estimating background took 12.2899720669 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.31627297401 s Creating peak regions... Creating peak regions took 43.4477148056 s Estimating background... Estimating background took 13.5647120476 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.19743013382 s Creating peak regions... Creating peak regions took 39.6520121098 s Estimating background... Estimating background took 12.9196808338 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.69459295273 s Creating peak regions... Creating peak regions took 35.7948749065 s Estimating background... Estimating background took 9.47281599045 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.69435501099 s Creating peak regions... Creating peak regions took 33.9008119106 s Estimating background... Estimating background took 9.61727809906 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.0854420661926 s Creating peak regions... Creating peak regions took 0.153392076492 s Estimating background... Estimating background took 0.561054944992 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.25010895729 s Creating peak regions... Creating peak regions took 41.6353080273 s Estimating background... Estimating background took 11.9731750488 s Processing ZNF266-SRR5197093.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.0843920707703 s Creating peak regions... Creating peak regions took 12.8274519444 s Estimating background... Estimating background took 0.562843084335 s