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='ZNF324B-SRR5197113.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='ZNF324B-SRR5197113/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 ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.01302504539 s Creating peak regions... Creating peak regions took 75.3788621426 s Estimating background... Estimating background took 26.1637711525 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.05882501602 s Creating peak regions... Creating peak regions took 38.6090939045 s Estimating background... Estimating background took 11.0899879932 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.08493185043 s Creating peak regions... Creating peak regions took 39.2179849148 s Estimating background... Estimating background took 11.3509910107 s Processing ZNF324B-SRR5197113.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='ZNF324B-SRR5197113.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='ZNF324B-SRR5197113/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 ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.04284596443 s Creating peak regions... Creating peak regions took 72.9361689091 s Estimating background... Estimating background took 27.851197958 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.13321089745 s Creating peak regions... Creating peak regions took 40.1839900017 s Estimating background... Estimating background took 11.5763669014 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.12359118462 s Creating peak regions... Creating peak regions took 37.8856809139 s Estimating background... Estimating background took 11.25553298 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.16986298561 s Creating peak regions... Creating peak regions took 39.4778552055 s Estimating background... Estimating background took 11.9852929115 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.89530706406 s Creating peak regions... Creating peak regions took 34.376101017 s Estimating background... Estimating background took 11.7584929466 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.77361297607 s Creating peak regions... Creating peak regions took 31.8423008919 s Estimating background... Estimating background took 7.82982301712 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.37182784081 s Creating peak regions... Creating peak regions took 30.8621211052 s Estimating background... Estimating background took 8.37037706375 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.60712909698 s Creating peak regions... Creating peak regions took 26.2253479958 s Estimating background... Estimating background took 8.48729205132 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.75688409805 s Creating peak regions... Creating peak regions took 24.4001188278 s Estimating background... Estimating background took 9.78847694397 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.972754001617 s Creating peak regions... Creating peak regions took 22.805683136 s Estimating background... Estimating background took 5.65779089928 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.32679390907 s Creating peak regions... Creating peak regions took 18.9055268764 s Estimating background... Estimating background took 7.61882400513 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.57852101326 s Creating peak regions... Creating peak regions took 71.8923459053 s Estimating background... Estimating background took 17.7841031551 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.29185795784 s Creating peak regions... Creating peak regions took 19.4111628532 s Estimating background... Estimating background took 7.3738899231 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.779231071472 s Creating peak regions... Creating peak regions took 14.8074710369 s Estimating background... Estimating background took 4.05735087395 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.983327865601 s Creating peak regions... Creating peak regions took 16.1894500256 s Estimating background... Estimating background took 7.35806798935 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.93137907982 s Creating peak regions... Creating peak regions took 57.823348999 s Estimating background... Estimating background took 13.915320158 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.47723793983 s Creating peak regions... Creating peak regions took 57.6645541191 s Estimating background... Estimating background took 11.7706041336 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.89637899399 s Creating peak regions... Creating peak regions took 54.7602660656 s Estimating background... Estimating background took 13.8923609257 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.70468211174 s Creating peak regions... Creating peak regions took 50.9261689186 s Estimating background... Estimating background took 15.2261879444 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.8581931591 s Creating peak regions... Creating peak regions took 49.4603350163 s Estimating background... Estimating background took 13.9857809544 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.04782795906 s Creating peak regions... Creating peak regions took 42.321969986 s Estimating background... Estimating background took 10.6413178444 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.027739048 s Creating peak regions... Creating peak regions took 40.8475379944 s Estimating background... Estimating background took 10.7469890118 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.0903029441833 s Creating peak regions... Creating peak regions took 0.176738977432 s Estimating background... Estimating background took 0.559477806091 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.28439712524 s Creating peak regions... Creating peak regions took 45.4804620743 s Estimating background... Estimating background took 14.0938961506 s Processing ZNF324B-SRR5197113.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.104012966156 s Creating peak regions... Creating peak regions took 15.281441927 s Estimating background... Estimating background took 0.671744823456 s