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='ZNF793-SRR5197249.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='ZNF793-SRR5197249/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 ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.15204000473 s Creating peak regions... Creating peak regions took 76.8685679436 s Estimating background... Estimating background took 35.6326458454 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.81867599487 s Creating peak regions... Creating peak regions took 42.1640660763 s Estimating background... Estimating background took 15.1061389446 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.8902888298 s Creating peak regions... Creating peak regions took 39.9108190536 s Estimating background... Estimating background took 13.0314741135 s Processing ZNF793-SRR5197249.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='ZNF793-SRR5197249.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='ZNF793-SRR5197249/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 ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.59711909294 s Creating peak regions... Creating peak regions took 72.62885499 s Estimating background... Estimating background took 32.7749371529 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.48337483406 s Creating peak regions... Creating peak regions took 38.2243690491 s Estimating background... Estimating background took 14.2472641468 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.56450200081 s Creating peak regions... Creating peak regions took 38.063929081 s Estimating background... Estimating background took 13.5933008194 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.46737599373 s Creating peak regions... Creating peak regions took 36.8909599781 s Estimating background... Estimating background took 14.5076079369 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.18795800209 s Creating peak regions... Creating peak regions took 32.0482480526 s Estimating background... Estimating background took 17.8739931583 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.80297398567 s Creating peak regions... Creating peak regions took 28.0599770546 s Estimating background... Estimating background took 9.68571090698 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.59357905388 s Creating peak regions... Creating peak regions took 29.9979958534 s Estimating background... Estimating background took 9.92525601387 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.5043900013 s Creating peak regions... Creating peak regions took 25.9551448822 s Estimating background... Estimating background took 8.55425906181 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.67506504059 s Creating peak regions... Creating peak regions took 24.9686758518 s Estimating background... Estimating background took 11.2371900082 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.19941902161 s Creating peak regions... Creating peak regions took 21.981965065 s Estimating background... Estimating background took 7.72623109818 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.20387816429 s Creating peak regions... Creating peak regions took 17.6465010643 s Estimating background... Estimating background took 7.77044081688 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.8870010376 s Creating peak regions... Creating peak regions took 65.3616201878 s Estimating background... Estimating background took 23.4663898945 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.36070299149 s Creating peak regions... Creating peak regions took 18.5643780231 s Estimating background... Estimating background took 8.18894219398 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.708842039108 s Creating peak regions... Creating peak regions took 13.7431190014 s Estimating background... Estimating background took 4.75500106812 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.935719013214 s Creating peak regions... Creating peak regions took 14.8463180065 s Estimating background... Estimating background took 6.48141098022 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.19266319275 s Creating peak regions... Creating peak regions took 55.5821769238 s Estimating background... Estimating background took 18.8313088417 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.88983106613 s Creating peak regions... Creating peak regions took 52.1821858883 s Estimating background... Estimating background took 16.3804271221 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.90956401825 s Creating peak regions... Creating peak regions took 50.0177180767 s Estimating background... Estimating background took 17.302947998 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.04785203934 s Creating peak regions... Creating peak regions took 48.2848119736 s Estimating background... Estimating background took 20.8734769821 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.79496502876 s Creating peak regions... Creating peak regions took 44.8167271614 s Estimating background... Estimating background took 18.0550420284 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.5027859211 s Creating peak regions... Creating peak regions took 37.5122048855 s Estimating background... Estimating background took 13.0975868702 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.00533413887 s Creating peak regions... Creating peak regions took 37.3713979721 s Estimating background... Estimating background took 12.6471419334 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.0846951007843 s Creating peak regions... Creating peak regions took 0.166507005692 s Estimating background... Estimating background took 0.567122936249 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.90160489082 s Creating peak regions... Creating peak regions took 44.1691968441 s Estimating background... Estimating background took 17.3958520889 s Processing ZNF793-SRR5197249.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.20018696785 s Creating peak regions... Creating peak regions took 14.1639750004 s Estimating background... Estimating background took 0.588103055954 s