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='ZNF10-SRR5197054.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='ZNF10-SRR5197054/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 ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.10192203522 s Creating peak regions... Creating peak regions took 69.0749671459 s Estimating background... Estimating background took 22.4000508785 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.5154569149 s Creating peak regions... Creating peak regions took 39.3855688572 s Estimating background... Estimating background took 9.73875689507 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.60758900642 s Creating peak regions... Creating peak regions took 38.702244997 s Estimating background... Estimating background took 10.0575671196 s Processing ZNF10-SRR5197054.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='ZNF10-SRR5197054.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='ZNF10-SRR5197054/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 ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.70686006546 s Creating peak regions... Creating peak regions took 71.9097299576 s Estimating background... Estimating background took 22.2198059559 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.44765710831 s Creating peak regions... Creating peak regions took 38.6952800751 s Estimating background... Estimating background took 9.8808658123 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.39196205139 s Creating peak regions... Creating peak regions took 39.073248148 s Estimating background... Estimating background took 10.0335960388 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.41371297836 s Creating peak regions... Creating peak regions took 38.3988058567 s Estimating background... Estimating background took 10.4291491508 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.13984584808 s Creating peak regions... Creating peak regions took 35.3599989414 s Estimating background... Estimating background took 12.0355248451 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.7635538578 s Creating peak regions... Creating peak regions took 32.0515539646 s Estimating background... Estimating background took 7.17273402214 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.53766012192 s Creating peak regions... Creating peak regions took 30.3617110252 s Estimating background... Estimating background took 7.11093497276 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.61466789246 s Creating peak regions... Creating peak regions took 25.4415919781 s Estimating background... Estimating background took 6.74106001854 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.89431405067 s Creating peak regions... Creating peak regions took 25.8200559616 s Estimating background... Estimating background took 8.51360607147 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.41532492638 s Creating peak regions... Creating peak regions took 22.476500988 s Estimating background... Estimating background took 5.72588396072 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.24191188812 s Creating peak regions... Creating peak regions took 17.9302630424 s Estimating background... Estimating background took 5.36526107788 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.27638602257 s Creating peak regions... Creating peak regions took 73.654706955 s Estimating background... Estimating background took 16.6118121147 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.35298013687 s Creating peak regions... Creating peak regions took 19.1929049492 s Estimating background... Estimating background took 6.34458684921 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.963542938232 s Creating peak regions... Creating peak regions took 14.1988680363 s Estimating background... Estimating background took 3.54314017296 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.05553221703 s Creating peak regions... Creating peak regions took 15.531473875 s Estimating background... Estimating background took 5.3548541069 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.42775201797 s Creating peak regions... Creating peak regions took 60.3656921387 s Estimating background... Estimating background took 13.6496870518 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.01382493973 s Creating peak regions... Creating peak regions took 56.9702968597 s Estimating background... Estimating background took 12.1345641613 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.08993792534 s Creating peak regions... Creating peak regions took 55.6819980145 s Estimating background... Estimating background took 13.0247302055 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.56991505623 s Creating peak regions... Creating peak regions took 53.5114219189 s Estimating background... Estimating background took 15.7356817722 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.01245212555 s Creating peak regions... Creating peak regions took 46.611041069 s Estimating background... Estimating background took 13.6565508842 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.66273403168 s Creating peak regions... Creating peak regions took 44.8308498859 s Estimating background... Estimating background took 10.195748806 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.24947810173 s Creating peak regions... Creating peak regions took 39.5559010506 s Estimating background... Estimating background took 9.74817204475 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.0933380126953 s Creating peak regions... Creating peak regions took 0.185169935226 s Estimating background... Estimating background took 0.676509141922 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.08702802658 s Creating peak regions... Creating peak regions took 45.2077569962 s Estimating background... Estimating background took 12.7798748016 s Processing ZNF10-SRR5197054.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.120074987411 s Creating peak regions... Creating peak regions took 15.079182148 s Estimating background... Estimating background took 0.601619005203 s