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='ZFP90-SRR5197043.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='ZFP90-SRR5197043/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 ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 7.51323699951 s Creating peak regions... Creating peak regions took 67.5815889835 s Estimating background... Estimating background took 77.5576879978 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.61233711243 s Creating peak regions... Creating peak regions took 36.6054258347 s Estimating background... Estimating background took 28.3915348053 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.01698613167 s Creating peak regions... Creating peak regions took 37.2289400101 s Estimating background... Estimating background took 29.0148479939 s Processing ZFP90-SRR5197043.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='ZFP90-SRR5197043.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='ZFP90-SRR5197043/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 ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 8.92064499855 s Creating peak regions... Creating peak regions took 77.0477459431 s Estimating background... Estimating background took 86.2126340866 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.22533202171 s Creating peak regions... Creating peak regions took 41.2578568459 s Estimating background... Estimating background took 31.3946900368 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.38840603828 s Creating peak regions... Creating peak regions took 42.2576730251 s Estimating background... Estimating background took 32.7724919319 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.95019316673 s Creating peak regions... Creating peak regions took 42.1089851856 s Estimating background... Estimating background took 35.9817538261 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.61021018028 s Creating peak regions... Creating peak regions took 37.143171072 s Estimating background... Estimating background took 50.407212019 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.38141202927 s Creating peak regions... Creating peak regions took 31.882183075 s Estimating background... Estimating background took 22.8788890839 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.84999012947 s Creating peak regions... Creating peak regions took 30.8322520256 s Estimating background... Estimating background took 23.2551000118 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.65966200829 s Creating peak regions... Creating peak regions took 27.2825810909 s Estimating background... Estimating background took 19.087211132 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.90700984001 s Creating peak regions... Creating peak regions took 25.5282537937 s Estimating background... Estimating background took 21.9264872074 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.67224407196 s Creating peak regions... Creating peak regions took 24.5640461445 s Estimating background... Estimating background took 19.9683198929 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.80859804153 s Creating peak regions... Creating peak regions took 19.0914990902 s Estimating background... Estimating background took 12.5531980991 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 7.62377119064 s Creating peak regions... Creating peak regions took 75.7373411655 s Estimating background... Estimating background took 60.4887959957 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.25622320175 s Creating peak regions... Creating peak regions took 21.4321050644 s Estimating background... Estimating background took 16.4732010365 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.4027428627 s Creating peak regions... Creating peak regions took 14.1388719082 s Estimating background... Estimating background took 9.64443397522 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.40221500397 s Creating peak regions... Creating peak regions took 15.5730040073 s Estimating background... Estimating background took 12.86282897 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.22572517395 s Creating peak regions... Creating peak regions took 64.4566779137 s Estimating background... Estimating background took 48.1702010632 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.98747110367 s Creating peak regions... Creating peak regions took 59.7756040096 s Estimating background... Estimating background took 41.0788319111 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.24947404861 s Creating peak regions... Creating peak regions took 57.4352650642 s Estimating background... Estimating background took 46.3826639652 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.58192300797 s Creating peak regions... Creating peak regions took 56.2512888908 s Estimating background... Estimating background took 56.1456131935 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.98811006546 s Creating peak regions... Creating peak regions took 54.3369321823 s Estimating background... Estimating background took 47.4322400093 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.69281196594 s Creating peak regions... Creating peak regions took 44.9974420071 s Estimating background... Estimating background took 32.3529970646 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.62381196022 s Creating peak regions... Creating peak regions took 40.2504508495 s Estimating background... Estimating background took 28.8540480137 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.137866020203 s Creating peak regions... Creating peak regions took 0.236773014069 s Estimating background... Estimating background took 0.822014093399 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.6553709507 s Creating peak regions... Creating peak regions took 46.7357439995 s Estimating background... Estimating background took 50.0561139584 s Processing ZFP90-SRR5197043.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.345530986786 s Creating peak regions... Creating peak regions took 14.8202798367 s Estimating background... Estimating background took 0.815640926361 s