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='ZNF506-SRR5197160.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='ZNF506-SRR5197160/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 ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.5132818222 s Creating peak regions... Creating peak regions took 78.7943160534 s Estimating background... Estimating background took 51.8655760288 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.30045485497 s Creating peak regions... Creating peak regions took 42.7079119682 s Estimating background... Estimating background took 21.1556870937 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.55123209953 s Creating peak regions... Creating peak regions took 37.581941843 s Estimating background... Estimating background took 17.8754541874 s Processing ZNF506-SRR5197160.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='ZNF506-SRR5197160.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='ZNF506-SRR5197160/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 ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.52769613266 s Creating peak regions... Creating peak regions took 79.1284959316 s Estimating background... Estimating background took 54.4453129768 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.08720993996 s Creating peak regions... Creating peak regions took 39.7705249786 s Estimating background... Estimating background took 22.7430200577 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.35659694672 s Creating peak regions... Creating peak regions took 42.1442568302 s Estimating background... Estimating background took 21.6745679379 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.38907980919 s Creating peak regions... Creating peak regions took 40.8043670654 s Estimating background... Estimating background took 23.6866111755 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.54856300354 s Creating peak regions... Creating peak regions took 38.3273320198 s Estimating background... Estimating background took 20.985378027 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.43168902397 s Creating peak regions... Creating peak regions took 30.692387104 s Estimating background... Estimating background took 15.2930250168 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.07023310661 s Creating peak regions... Creating peak regions took 31.068559885 s Estimating background... Estimating background took 17.0456960201 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.53731799126 s Creating peak regions... Creating peak regions took 28.2865309715 s Estimating background... Estimating background took 16.227563858 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.40834307671 s Creating peak regions... Creating peak regions took 25.8141720295 s Estimating background... Estimating background took 22.0798048973 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.88835287094 s Creating peak regions... Creating peak regions took 24.495208025 s Estimating background... Estimating background took 11.3155090809 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.00673508644 s Creating peak regions... Creating peak regions took 18.886824131 s Estimating background... Estimating background took 16.0177009106 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.64692783356 s Creating peak regions... Creating peak regions took 74.1392829418 s Estimating background... Estimating background took 35.9462239742 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.92387604713 s Creating peak regions... Creating peak regions took 20.6544780731 s Estimating background... Estimating background took 13.4323048592 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.35337901115 s Creating peak regions... Creating peak regions took 13.6302540302 s Estimating background... Estimating background took 6.80578517914 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.53353214264 s Creating peak regions... Creating peak regions took 16.6424651146 s Estimating background... Estimating background took 15.0287308693 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.32036399841 s Creating peak regions... Creating peak regions took 64.8113889694 s Estimating background... Estimating background took 26.72164011 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.25655412674 s Creating peak regions... Creating peak regions took 57.7241530418 s Estimating background... Estimating background took 22.4804179668 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.83818602562 s Creating peak regions... Creating peak regions took 52.7462170124 s Estimating background... Estimating background took 26.7774281502 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.15944504738 s Creating peak regions... Creating peak regions took 53.4090051651 s Estimating background... Estimating background took 29.4047839642 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.78403306007 s Creating peak regions... Creating peak regions took 44.788203001 s Estimating background... Estimating background took 24.4892208576 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.40124893188 s Creating peak regions... Creating peak regions took 34.652023077 s Estimating background... Estimating background took 15.8163568974 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.06060791016 s Creating peak regions... Creating peak regions took 36.7227418423 s Estimating background... Estimating background took 16.9654200077 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.0922539234161 s Creating peak regions... Creating peak regions took 0.167936086655 s Estimating background... Estimating background took 0.556017875671 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.89015483856 s Creating peak regions... Creating peak regions took 37.4182469845 s Estimating background... Estimating background took 22.0127718449 s Processing ZNF506-SRR5197160.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.117311954498 s Creating peak regions... Creating peak regions took 13.4641318321 s Estimating background... Estimating background took 0.648294210434 s