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='ZNF582-SRR5197188.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='ZNF582-SRR5197188/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 ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 10.7738029957 s Creating peak regions... Creating peak regions took 81.6267249584 s Estimating background... Estimating background took 80.8208658695 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.83321213722 s Creating peak regions... Creating peak regions took 46.0552511215 s Estimating background... Estimating background took 29.0776889324 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.67012095451 s Creating peak regions... Creating peak regions took 38.0773439407 s Estimating background... Estimating background took 26.3516881466 s Processing ZNF582-SRR5197188.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='ZNF582-SRR5197188.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='ZNF582-SRR5197188/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 ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 10.5276358128 s Creating peak regions... Creating peak regions took 82.1941020489 s Estimating background... Estimating background took 81.2415571213 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.56313514709 s Creating peak regions... Creating peak regions took 45.6349868774 s Estimating background... Estimating background took 31.2165279388 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.51674795151 s Creating peak regions... Creating peak regions took 43.8327541351 s Estimating background... Estimating background took 31.728867054 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.81506085396 s Creating peak regions... Creating peak regions took 43.3492000103 s Estimating background... Estimating background took 34.135286808 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.25794792175 s Creating peak regions... Creating peak regions took 37.9763000011 s Estimating background... Estimating background took 39.8754870892 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.97686719894 s Creating peak regions... Creating peak regions took 34.9105060101 s Estimating background... Estimating background took 21.3868019581 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.42591285706 s Creating peak regions... Creating peak regions took 32.2751188278 s Estimating background... Estimating background took 21.4237880707 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.57285189629 s Creating peak regions... Creating peak regions took 28.7115499973 s Estimating background... Estimating background took 20.2248389721 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.74455809593 s Creating peak regions... Creating peak regions took 27.2960441113 s Estimating background... Estimating background took 23.3469729424 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.94069910049 s Creating peak regions... Creating peak regions took 25.4727730751 s Estimating background... Estimating background took 16.6450941563 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.48719620705 s Creating peak regions... Creating peak regions took 19.1679999828 s Estimating background... Estimating background took 14.6413171291 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 9.31658005714 s Creating peak regions... Creating peak regions took 79.6414361 s Estimating background... Estimating background took 55.2323749065 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.02251005173 s Creating peak regions... Creating peak regions took 22.2697918415 s Estimating background... Estimating background took 17.6781601906 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.75385212898 s Creating peak regions... Creating peak regions took 15.0790841579 s Estimating background... Estimating background took 10.1175291538 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.05348992348 s Creating peak regions... Creating peak regions took 15.3859431744 s Estimating background... Estimating background took 15.1090970039 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 7.96559095383 s Creating peak regions... Creating peak regions took 62.2474830151 s Estimating background... Estimating background took 48.3049650192 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.84172105789 s Creating peak regions... Creating peak regions took 61.7373869419 s Estimating background... Estimating background took 36.0229589939 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 7.25238490105 s Creating peak regions... Creating peak regions took 59.2188510895 s Estimating background... Estimating background took 43.4152190685 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 7.64629197121 s Creating peak regions... Creating peak regions took 57.0575661659 s Estimating background... Estimating background took 48.5522778034 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.27503085136 s Creating peak regions... Creating peak regions took 48.820043087 s Estimating background... Estimating background took 38.9129519463 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.06237101555 s Creating peak regions... Creating peak regions took 44.2710900307 s Estimating background... Estimating background took 28.4721689224 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.30987811089 s Creating peak regions... Creating peak regions took 39.7809350491 s Estimating background... Estimating background took 25.4306879044 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.157516956329 s Creating peak regions... Creating peak regions took 0.249797105789 s Estimating background... Estimating background took 0.671128988266 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.2707130909 s Creating peak regions... Creating peak regions took 45.6529350281 s Estimating background... Estimating background took 45.2415459156 s Processing ZNF582-SRR5197188.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.336132049561 s Creating peak regions... Creating peak regions took 14.8001008034 s Estimating background... Estimating background took 1.32404208183 s