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-rep2-SRR5197250.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-rep2-SRR5197250/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-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.3958761692 s Creating peak regions... Creating peak regions took 76.2142050266 s Estimating background... Estimating background took 31.0385379791 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.40725398064 s Creating peak regions... Creating peak regions took 39.3432068825 s Estimating background... Estimating background took 12.6455249786 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.58607006073 s Creating peak regions... Creating peak regions took 42.4463400841 s Estimating background... Estimating background took 12.027616024 s Processing ZNF793-rep2-SRR5197250.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-rep2-SRR5197250.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-rep2-SRR5197250/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-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.22269415855 s Creating peak regions... Creating peak regions took 72.2168869972 s Estimating background... Estimating background took 29.0881140232 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.31870698929 s Creating peak regions... Creating peak regions took 38.0697760582 s Estimating background... Estimating background took 12.3366048336 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.30453491211 s Creating peak regions... Creating peak regions took 38.339140892 s Estimating background... Estimating background took 11.8600461483 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.40967488289 s Creating peak regions... Creating peak regions took 36.7466030121 s Estimating background... Estimating background took 12.6487560272 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.15957999229 s Creating peak regions... Creating peak regions took 31.7238411903 s Estimating background... Estimating background took 15.0771050453 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.68391704559 s Creating peak regions... Creating peak regions took 29.8195838928 s Estimating background... Estimating background took 8.59509682655 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.74352097511 s Creating peak regions... Creating peak regions took 27.9841768742 s Estimating background... Estimating background took 11.6694719791 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.65953612328 s Creating peak regions... Creating peak regions took 26.3985631466 s Estimating background... Estimating background took 8.27100491524 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.71960520744 s Creating peak regions... Creating peak regions took 23.1832699776 s Estimating background... Estimating background took 11.1375200748 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.32417106628 s Creating peak regions... Creating peak regions took 22.1214580536 s Estimating background... Estimating background took 6.9259121418 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.15811800957 s Creating peak regions... Creating peak regions took 17.4440560341 s Estimating background... Estimating background took 6.92889595032 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.8439810276 s Creating peak regions... Creating peak regions took 65.5397980213 s Estimating background... Estimating background took 20.719741106 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.07107901573 s Creating peak regions... Creating peak regions took 18.1294939518 s Estimating background... Estimating background took 6.70806193352 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.737062931061 s Creating peak regions... Creating peak regions took 13.2422170639 s Estimating background... Estimating background took 3.8985209465 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.860662937164 s Creating peak regions... Creating peak regions took 14.8520870209 s Estimating background... Estimating background took 6.34010505676 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.8831038475 s Creating peak regions... Creating peak regions took 54.1417789459 s Estimating background... Estimating background took 16.5449149609 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.64589881897 s Creating peak regions... Creating peak regions took 51.1351299286 s Estimating background... Estimating background took 13.3221428394 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.99573993683 s Creating peak regions... Creating peak regions took 52.5869209766 s Estimating background... Estimating background took 14.7764651775 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.90296006203 s Creating peak regions... Creating peak regions took 47.4223349094 s Estimating background... Estimating background took 16.409651041 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.76180791855 s Creating peak regions... Creating peak regions took 47.661149025 s Estimating background... Estimating background took 15.4356279373 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.27444601059 s Creating peak regions... Creating peak regions took 42.3499250412 s Estimating background... Estimating background took 11.1570389271 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.3115439415 s Creating peak regions... Creating peak regions took 39.6382591724 s Estimating background... Estimating background took 11.3901917934 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.0926189422607 s Creating peak regions... Creating peak regions took 0.176872968674 s Estimating background... Estimating background took 0.684762954712 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.87625598907 s Creating peak regions... Creating peak regions took 46.6737771034 s Estimating background... Estimating background took 16.5398881435 s Processing ZNF793-rep2-SRR5197250.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.106740951538 s Creating peak regions... Creating peak regions took 14.6929261684 s Estimating background... Estimating background took 0.563788890839 s