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='ZNF100-rep3-SRR5197052.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='ZNF100-rep3-SRR5197052/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 ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.12443709373 s Creating peak regions... Creating peak regions took 69.7713170052 s Estimating background... Estimating background took 25.8325059414 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.94319009781 s Creating peak regions... Creating peak regions took 36.7723050117 s Estimating background... Estimating background took 10.464990139 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.13849306107 s Creating peak regions... Creating peak regions took 38.8595530987 s Estimating background... Estimating background took 10.5262479782 s Processing ZNF100-rep3-SRR5197052.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='ZNF100-rep3-SRR5197052.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='ZNF100-rep3-SRR5197052/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 ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.64768505096 s Creating peak regions... Creating peak regions took 63.4135599136 s Estimating background... Estimating background took 22.8926868439 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.6810400486 s Creating peak regions... Creating peak regions took 33.033839941 s Estimating background... Estimating background took 9.444699049 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.64993715286 s Creating peak regions... Creating peak regions took 35.7366418839 s Estimating background... Estimating background took 10.249464035 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.14021706581 s Creating peak regions... Creating peak regions took 36.7605969906 s Estimating background... Estimating background took 10.3733050823 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.75466990471 s Creating peak regions... Creating peak regions took 31.9168181419 s Estimating background... Estimating background took 11.8039181232 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.43435907364 s Creating peak regions... Creating peak regions took 27.4689369202 s Estimating background... Estimating background took 7.01670098305 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.21958994865 s Creating peak regions... Creating peak regions took 27.5743899345 s Estimating background... Estimating background took 7.19736385345 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.31814098358 s Creating peak regions... Creating peak regions took 22.0929951668 s Estimating background... Estimating background took 6.70242500305 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.52499198914 s Creating peak regions... Creating peak regions took 23.6646270752 s Estimating background... Estimating background took 8.20890021324 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.13166713715 s Creating peak regions... Creating peak regions took 22.0350210667 s Estimating background... Estimating background took 5.66929602623 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.00316977501 s Creating peak regions... Creating peak regions took 16.5151071548 s Estimating background... Estimating background took 5.3916208744 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.56268000603 s Creating peak regions... Creating peak regions took 67.527258873 s Estimating background... Estimating background took 17.1363630295 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.992666006088 s Creating peak regions... Creating peak regions took 18.6681640148 s Estimating background... Estimating background took 5.78934407234 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.575562000275 s Creating peak regions... Creating peak regions took 13.138092041 s Estimating background... Estimating background took 3.82457685471 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.826251029968 s Creating peak regions... Creating peak regions took 14.2531628609 s Estimating background... Estimating background took 5.1412768364 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.59240102768 s Creating peak regions... Creating peak regions took 54.8471360207 s Estimating background... Estimating background took 13.6518230438 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.31971597672 s Creating peak regions... Creating peak regions took 48.8393759727 s Estimating background... Estimating background took 11.5661389828 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.63824105263 s Creating peak regions... Creating peak regions took 49.0675630569 s Estimating background... Estimating background took 14.4126198292 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.68663311005 s Creating peak regions... Creating peak regions took 45.6695480347 s Estimating background... Estimating background took 15.159291029 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.44223403931 s Creating peak regions... Creating peak regions took 42.1932499409 s Estimating background... Estimating background took 13.5022010803 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.11430716515 s Creating peak regions... Creating peak regions took 40.445168972 s Estimating background... Estimating background took 10.1459112167 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.79478597641 s Creating peak regions... Creating peak regions took 38.1847491264 s Estimating background... Estimating background took 9.40412116051 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.0781240463257 s Creating peak regions... Creating peak regions took 0.166075944901 s Estimating background... Estimating background took 0.554989814758 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.63794088364 s Creating peak regions... Creating peak regions took 44.2167320251 s Estimating background... Estimating background took 14.3912498951 s Processing ZNF100-rep3-SRR5197052.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.107054948807 s Creating peak regions... Creating peak regions took 13.5524590015 s Estimating background... Estimating background took 0.557899951935 s