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='ZNF382-SRR5197125.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='ZNF382-SRR5197125/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 ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.21710395813 s Creating peak regions... Creating peak regions took 74.4877479076 s Estimating background... Estimating background took 21.493295908 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.11702394485 s Creating peak regions... Creating peak regions took 40.144919157 s Estimating background... Estimating background took 8.97369003296 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.04714989662 s Creating peak regions... Creating peak regions took 41.3243670464 s Estimating background... Estimating background took 8.66981601715 s Processing ZNF382-SRR5197125.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='ZNF382-SRR5197125.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='ZNF382-SRR5197125/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 ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.30089592934 s Creating peak regions... Creating peak regions took 72.6981141567 s Estimating background... Estimating background took 22.0928862095 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.98834705353 s Creating peak regions... Creating peak regions took 39.6785809994 s Estimating background... Estimating background took 9.22865200043 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.0672929287 s Creating peak regions... Creating peak regions took 41.3563740253 s Estimating background... Estimating background took 8.38538002968 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.25103592873 s Creating peak regions... Creating peak regions took 38.3532159328 s Estimating background... Estimating background took 9.74115896225 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.97809100151 s Creating peak regions... Creating peak regions took 33.9642629623 s Estimating background... Estimating background took 11.5983960629 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.57400894165 s Creating peak regions... Creating peak regions took 30.3749608994 s Estimating background... Estimating background took 6.42575979233 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.34616518021 s Creating peak regions... Creating peak regions took 30.4691810608 s Estimating background... Estimating background took 6.39746999741 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.2304649353 s Creating peak regions... Creating peak regions took 27.1959629059 s Estimating background... Estimating background took 5.52106118202 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.34497308731 s Creating peak regions... Creating peak regions took 24.8887369633 s Estimating background... Estimating background took 5.79746389389 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.02341198921 s Creating peak regions... Creating peak regions took 23.7275929451 s Estimating background... Estimating background took 4.64256215096 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.08578801155 s Creating peak regions... Creating peak regions took 17.033151865 s Estimating background... Estimating background took 4.3756878376 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.46457290649 s Creating peak regions... Creating peak regions took 75.7482318878 s Estimating background... Estimating background took 15.5807540417 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.15759396553 s Creating peak regions... Creating peak regions took 19.9415659904 s Estimating background... Estimating background took 4.73159885406 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.621979951859 s Creating peak regions... Creating peak regions took 13.9395570755 s Estimating background... Estimating background took 3.21380996704 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.78318810463 s Creating peak regions... Creating peak regions took 13.8273839951 s Estimating background... Estimating background took 4.54802417755 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.76282191277 s Creating peak regions... Creating peak regions took 61.7311029434 s Estimating background... Estimating background took 12.422837019 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.62350797653 s Creating peak regions... Creating peak regions took 57.0785980225 s Estimating background... Estimating background took 10.662364006 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.78593492508 s Creating peak regions... Creating peak regions took 52.2078368664 s Estimating background... Estimating background took 11.7068719864 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.66267609596 s Creating peak regions... Creating peak regions took 50.336179018 s Estimating background... Estimating background took 12.5418758392 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.68096399307 s Creating peak regions... Creating peak regions took 49.6590030193 s Estimating background... Estimating background took 11.7842159271 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.161921978 s Creating peak regions... Creating peak regions took 43.9247400761 s Estimating background... Estimating background took 8.68508315086 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.78661513329 s Creating peak regions... Creating peak regions took 39.4443540573 s Estimating background... Estimating background took 8.72058606148 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.0866980552673 s Creating peak regions... Creating peak regions took 0.148501873016 s Estimating background... Estimating background took 0.661680936813 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.60482311249 s Creating peak regions... Creating peak regions took 49.22696805 s Estimating background... Estimating background took 11.1123409271 s Processing ZNF382-SRR5197125.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.123846054077 s Creating peak regions... Creating peak regions took 14.5476360321 s Estimating background... Estimating background took 0.570773124695 s