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='ZNF263-SRR5197091.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='ZNF263-SRR5197091/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 ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 8.8654191494 s Creating peak regions... Creating peak regions took 82.5713710785 s Estimating background... Estimating background took 94.1991729736 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.36974096298 s Creating peak regions... Creating peak regions took 42.8113980293 s Estimating background... Estimating background took 29.6543021202 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.31715202332 s Creating peak regions... Creating peak regions took 36.1804490089 s Estimating background... Estimating background took 31.3763449192 s Processing ZNF263-SRR5197091.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='ZNF263-SRR5197091.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='ZNF263-SRR5197091/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 ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 8.37663698196 s Creating peak regions... Creating peak regions took 79.6292030811 s Estimating background... Estimating background took 97.5168488026 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.93819212914 s Creating peak regions... Creating peak regions took 41.9485359192 s Estimating background... Estimating background took 37.6764690876 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.23567509651 s Creating peak regions... Creating peak regions took 44.0419549942 s Estimating background... Estimating background took 38.5796489716 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.50319695473 s Creating peak regions... Creating peak regions took 43.6080420017 s Estimating background... Estimating background took 41.0729100704 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.37359189987 s Creating peak regions... Creating peak regions took 35.5245001316 s Estimating background... Estimating background took 31.1866121292 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.32694196701 s Creating peak regions... Creating peak regions took 33.0412750244 s Estimating background... Estimating background took 26.0272319317 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.85598993301 s Creating peak regions... Creating peak regions took 31.2331860065 s Estimating background... Estimating background took 25.5303628445 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.13259005547 s Creating peak regions... Creating peak regions took 30.4655690193 s Estimating background... Estimating background took 31.6975970268 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.55152487755 s Creating peak regions... Creating peak regions took 28.9593420029 s Estimating background... Estimating background took 38.1800508499 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.12518596649 s Creating peak regions... Creating peak regions took 25.5150048733 s Estimating background... Estimating background took 16.1872158051 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.73947787285 s Creating peak regions... Creating peak regions took 20.526350975 s Estimating background... Estimating background took 31.2169919014 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.76526594162 s Creating peak regions... Creating peak regions took 76.3706679344 s Estimating background... Estimating background took 61.5311560631 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.66191697121 s Creating peak regions... Creating peak regions took 22.4399321079 s Estimating background... Estimating background took 23.6866059303 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.54394006729 s Creating peak regions... Creating peak regions took 15.4558939934 s Estimating background... Estimating background took 11.1876769066 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.10396695137 s Creating peak regions... Creating peak regions took 17.4690089226 s Estimating background... Estimating background took 26.5932948589 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.30513000488 s Creating peak regions... Creating peak regions took 62.4581120014 s Estimating background... Estimating background took 45.0074050426 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.68975806236 s Creating peak regions... Creating peak regions took 46.8898880482 s Estimating background... Estimating background took 29.1765649319 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.03663706779 s Creating peak regions... Creating peak regions took 47.8223719597 s Estimating background... Estimating background took 36.4578168392 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.14169716835 s Creating peak regions... Creating peak regions took 45.8974080086 s Estimating background... Estimating background took 40.1200940609 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.99984622002 s Creating peak regions... Creating peak regions took 43.0670950413 s Estimating background... Estimating background took 38.1213879585 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.19325399399 s Creating peak regions... Creating peak regions took 36.1650500298 s Estimating background... Estimating background took 26.033588171 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.88563013077 s Creating peak regions... Creating peak regions took 35.5121409893 s Estimating background... Estimating background took 28.4293148518 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.119609832764 s Creating peak regions... Creating peak regions took 0.203540086746 s Estimating background... Estimating background took 0.692245006561 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.5674328804 s Creating peak regions... Creating peak regions took 38.9968159199 s Estimating background... Estimating background took 32.9655139446 s Processing ZNF263-SRR5197091.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.181417942047 s Creating peak regions... Creating peak regions took 13.8127391338 s Estimating background... Estimating background took 0.6868019104 s