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='ZNF675-SRR5197211.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='ZNF675-SRR5197211/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 ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.55718994141 s Creating peak regions... Creating peak regions took 76.2448480129 s Estimating background... Estimating background took 35.5969481468 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.64806413651 s Creating peak regions... Creating peak regions took 42.0211670399 s Estimating background... Estimating background took 13.8706979752 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.9409968853 s Creating peak regions... Creating peak regions took 42.0634319782 s Estimating background... Estimating background took 13.4804821014 s Processing ZNF675-SRR5197211.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='ZNF675-SRR5197211.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='ZNF675-SRR5197211/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 ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.39007401466 s Creating peak regions... Creating peak regions took 76.1928701401 s Estimating background... Estimating background took 33.4222121239 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.65728998184 s Creating peak regions... Creating peak regions took 39.5143511295 s Estimating background... Estimating background took 13.1252379417 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.66493797302 s Creating peak regions... Creating peak regions took 41.7348120213 s Estimating background... Estimating background took 13.5394320488 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.04291701317 s Creating peak regions... Creating peak regions took 38.9724299908 s Estimating background... Estimating background took 14.2701909542 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.22411084175 s Creating peak regions... Creating peak regions took 33.3407859802 s Estimating background... Estimating background took 12.9425308704 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.9467549324 s Creating peak regions... Creating peak regions took 30.6235041618 s Estimating background... Estimating background took 9.56815505028 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.70113682747 s Creating peak regions... Creating peak regions took 29.2693610191 s Estimating background... Estimating background took 9.90921902657 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.04602408409 s Creating peak regions... Creating peak regions took 27.7786810398 s Estimating background... Estimating background took 10.5010008812 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.20148897171 s Creating peak regions... Creating peak regions took 26.4063301086 s Estimating background... Estimating background took 12.7623398304 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.43778705597 s Creating peak regions... Creating peak regions took 23.1772592068 s Estimating background... Estimating background took 6.62587213516 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.7416009903 s Creating peak regions... Creating peak regions took 18.5819880962 s Estimating background... Estimating background took 9.04626893997 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.42512202263 s Creating peak regions... Creating peak regions took 75.5242769718 s Estimating background... Estimating background took 22.4648730755 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.60334300995 s Creating peak regions... Creating peak regions took 19.4989500046 s Estimating background... Estimating background took 8.12039017677 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.897266864777 s Creating peak regions... Creating peak regions took 14.3588221073 s Estimating background... Estimating background took 4.30089783669 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.25645399094 s Creating peak regions... Creating peak regions took 15.9941570759 s Estimating background... Estimating background took 7.57222414017 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.4791469574 s Creating peak regions... Creating peak regions took 58.0367012024 s Estimating background... Estimating background took 16.8094580173 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.03151702881 s Creating peak regions... Creating peak regions took 55.0700139999 s Estimating background... Estimating background took 14.3085529804 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.55672097206 s Creating peak regions... Creating peak regions took 52.9028580189 s Estimating background... Estimating background took 17.5353400707 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.80082201958 s Creating peak regions... Creating peak regions took 50.5326910019 s Estimating background... Estimating background took 20.2033960819 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.27519702911 s Creating peak regions... Creating peak regions took 49.7296488285 s Estimating background... Estimating background took 16.8771240711 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.71850800514 s Creating peak regions... Creating peak regions took 44.5939500332 s Estimating background... Estimating background took 12.0142431259 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.42582583427 s Creating peak regions... Creating peak regions took 42.6709010601 s Estimating background... Estimating background took 12.6585741043 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.0771260261536 s Creating peak regions... Creating peak regions took 0.157087087631 s Estimating background... Estimating background took 0.580010890961 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.16765499115 s Creating peak regions... Creating peak regions took 48.0797350407 s Estimating background... Estimating background took 15.0621020794 s Processing ZNF675-SRR5197211.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.0977370738983 s Creating peak regions... Creating peak regions took 14.9640190601 s Estimating background... Estimating background took 0.453973054886 s