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='ZNF808-SRR5197255.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='ZNF808-SRR5197255/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 ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.69424200058 s Creating peak regions... Creating peak regions took 76.1343801022 s Estimating background... Estimating background took 27.7145018578 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.3024289608 s Creating peak regions... Creating peak regions took 39.6129648685 s Estimating background... Estimating background took 11.1968889236 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.30056190491 s Creating peak regions... Creating peak regions took 42.194092989 s Estimating background... Estimating background took 11.1807219982 s Processing ZNF808-SRR5197255.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='ZNF808-SRR5197255.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='ZNF808-SRR5197255/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 ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.3930079937 s Creating peak regions... Creating peak regions took 76.2760698795 s Estimating background... Estimating background took 27.6673231125 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.4730257988 s Creating peak regions... Creating peak regions took 39.4412848949 s Estimating background... Estimating background took 11.0833771229 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.30091404915 s Creating peak regions... Creating peak regions took 42.1688201427 s Estimating background... Estimating background took 11.3224110603 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.498898983 s Creating peak regions... Creating peak regions took 40.8981509209 s Estimating background... Estimating background took 12.027438879 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.44080996513 s Creating peak regions... Creating peak regions took 35.8892350197 s Estimating background... Estimating background took 15.7460639477 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.81750202179 s Creating peak regions... Creating peak regions took 32.7661828995 s Estimating background... Estimating background took 8.00999403 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.50171804428 s Creating peak regions... Creating peak regions took 29.13762784 s Estimating background... Estimating background took 8.04769992828 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.42520689964 s Creating peak regions... Creating peak regions took 27.453001976 s Estimating background... Estimating background took 6.96087884903 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.50310182571 s Creating peak regions... Creating peak regions took 25.8612718582 s Estimating background... Estimating background took 8.46582913399 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.37131214142 s Creating peak regions... Creating peak regions took 22.1775848866 s Estimating background... Estimating background took 7.04705691338 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.14401698112 s Creating peak regions... Creating peak regions took 18.4151089191 s Estimating background... Estimating background took 5.38013100624 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.24080395699 s Creating peak regions... Creating peak regions took 75.1286969185 s Estimating background... Estimating background took 20.0411829948 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.18935012817 s Creating peak regions... Creating peak regions took 19.5290038586 s Estimating background... Estimating background took 6.49313187599 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.701977014542 s Creating peak regions... Creating peak regions took 13.5289208889 s Estimating background... Estimating background took 3.80408000946 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.869428873062 s Creating peak regions... Creating peak regions took 15.776941061 s Estimating background... Estimating background took 4.97497797012 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.40101218224 s Creating peak regions... Creating peak regions took 61.4589569569 s Estimating background... Estimating background took 15.9771230221 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.13994002342 s Creating peak regions... Creating peak regions took 55.6448230743 s Estimating background... Estimating background took 13.8874521255 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.11243200302 s Creating peak regions... Creating peak regions took 56.6961820126 s Estimating background... Estimating background took 16.012501955 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.39397287369 s Creating peak regions... Creating peak regions took 51.083958149 s Estimating background... Estimating background took 17.6766321659 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.96090388298 s Creating peak regions... Creating peak regions took 48.0681419373 s Estimating background... Estimating background took 15.307587862 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.55671715736 s Creating peak regions... Creating peak regions took 41.1862130165 s Estimating background... Estimating background took 11.6291630268 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.24577283859 s Creating peak regions... Creating peak regions took 40.5459170341 s Estimating background... Estimating background took 10.9490060806 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.0913910865784 s Creating peak regions... Creating peak regions took 0.183537006378 s Estimating background... Estimating background took 0.545011043549 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.26448917389 s Creating peak regions... Creating peak regions took 49.6957781315 s Estimating background... Estimating background took 17.2603800297 s Processing ZNF808-SRR5197255.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.137143135071 s Creating peak regions... Creating peak regions took 15.415774107 s Estimating background... Estimating background took 2.43277788162 s