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='ZNF25-SRR5197090.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='ZNF25-SRR5197090/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 ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.60880994797 s Creating peak regions... Creating peak regions took 73.764756918 s Estimating background... Estimating background took 18.4946110249 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.69015908241 s Creating peak regions... Creating peak regions took 39.7368638515 s Estimating background... Estimating background took 7.69912719727 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.70161986351 s Creating peak regions... Creating peak regions took 40.6322939396 s Estimating background... Estimating background took 8.02201104164 s Processing ZNF25-SRR5197090.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='ZNF25-SRR5197090.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='ZNF25-SRR5197090/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 ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.5699608326 s Creating peak regions... Creating peak regions took 71.8774600029 s Estimating background... Estimating background took 17.9544849396 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.89451694489 s Creating peak regions... Creating peak regions took 41.2891800404 s Estimating background... Estimating background took 7.97155094147 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.95025205612 s Creating peak regions... Creating peak regions took 40.5274939537 s Estimating background... Estimating background took 7.51401901245 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.9358279705 s Creating peak regions... Creating peak regions took 40.0156540871 s Estimating background... Estimating background took 8.51796507835 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.56678700447 s Creating peak regions... Creating peak regions took 35.2437021732 s Estimating background... Estimating background took 7.66103219986 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.24652409554 s Creating peak regions... Creating peak regions took 31.7973251343 s Estimating background... Estimating background took 5.45568394661 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.21507310867 s Creating peak regions... Creating peak regions took 30.0079400539 s Estimating background... Estimating background took 5.94127988815 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.1580619812 s Creating peak regions... Creating peak regions took 27.059497118 s Estimating background... Estimating background took 5.65117001534 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.34696888924 s Creating peak regions... Creating peak regions took 25.4190449715 s Estimating background... Estimating background took 6.8259909153 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.970944881439 s Creating peak regions... Creating peak regions took 23.3308730125 s Estimating background... Estimating background took 3.94193410873 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.965847969055 s Creating peak regions... Creating peak regions took 16.1637818813 s Estimating background... Estimating background took 5.10247588158 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.73775887489 s Creating peak regions... Creating peak regions took 73.9924499989 s Estimating background... Estimating background took 12.9393920898 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.17000198364 s Creating peak regions... Creating peak regions took 20.6997458935 s Estimating background... Estimating background took 4.58545303345 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.464499950409 s Creating peak regions... Creating peak regions took 13.6755278111 s Estimating background... Estimating background took 1.63218998909 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.0515871048 s Creating peak regions... Creating peak regions took 15.3296871185 s Estimating background... Estimating background took 4.17996907234 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.32486200333 s Creating peak regions... Creating peak regions took 61.250262022 s Estimating background... Estimating background took 10.3162848949 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.02202510834 s Creating peak regions... Creating peak regions took 52.7065792084 s Estimating background... Estimating background took 8.18883109093 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.20560693741 s Creating peak regions... Creating peak regions took 54.3260350227 s Estimating background... Estimating background took 9.56744384766 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.38036298752 s Creating peak regions... Creating peak regions took 48.6060919762 s Estimating background... Estimating background took 9.73075819016 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.21045589447 s Creating peak regions... Creating peak regions took 45.5161378384 s Estimating background... Estimating background took 10.5308699608 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.86988997459 s Creating peak regions... Creating peak regions took 42.0424661636 s Estimating background... Estimating background took 7.69029998779 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.61813592911 s Creating peak regions... Creating peak regions took 40.6103770733 s Estimating background... Estimating background took 7.03659701347 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.0724279880524 s Creating peak regions... Creating peak regions took 0.130566835403 s Estimating background... Estimating background took 0.532800912857 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.19336795807 s Creating peak regions... Creating peak regions took 48.1016070843 s Estimating background... Estimating background took 9.79094910622 s Processing ZNF25-SRR5197090.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.0925118923187 s Creating peak regions... Creating peak regions took 15.2471189499 s Estimating background... Estimating background took 0.445409059525 s