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-rep2-SRR5197051.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-rep2-SRR5197051/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-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.84267497063 s Creating peak regions... Creating peak regions took 72.7807149887 s Estimating background... Estimating background took 47.0020890236 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.93884015083 s Creating peak regions... Creating peak regions took 38.5405571461 s Estimating background... Estimating background took 19.3582270145 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.97281002998 s Creating peak regions... Creating peak regions took 37.5450098515 s Estimating background... Estimating background took 17.3097009659 s Processing ZNF100-rep2-SRR5197051.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-rep2-SRR5197051.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-rep2-SRR5197051/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-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.33834695816 s Creating peak regions... Creating peak regions took 66.7463321686 s Estimating background... Estimating background took 45.6031038761 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.11396193504 s Creating peak regions... Creating peak regions took 34.6818490028 s Estimating background... Estimating background took 19.6828329563 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.19361495972 s Creating peak regions... Creating peak regions took 37.059014082 s Estimating background... Estimating background took 18.5000469685 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.21694684029 s Creating peak regions... Creating peak regions took 37.3004307747 s Estimating background... Estimating background took 20.0426058769 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.9456679821 s Creating peak regions... Creating peak regions took 32.1250867844 s Estimating background... Estimating background took 20.795112133 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.28760099411 s Creating peak regions... Creating peak regions took 28.9035868645 s Estimating background... Estimating background took 13.2003538609 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.88828992844 s Creating peak regions... Creating peak regions took 27.3060429096 s Estimating background... Estimating background took 13.2690448761 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.11267900467 s Creating peak regions... Creating peak regions took 23.2375080585 s Estimating background... Estimating background took 12.9917778969 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.38508200645 s Creating peak regions... Creating peak regions took 22.7456200123 s Estimating background... Estimating background took 16.0407819748 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.54647684097 s Creating peak regions... Creating peak regions took 21.8029170036 s Estimating background... Estimating background took 9.3959338665 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.73356819153 s Creating peak regions... Creating peak regions took 16.0942530632 s Estimating background... Estimating background took 10.9512529373 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.14968490601 s Creating peak regions... Creating peak regions took 70.2874269485 s Estimating background... Estimating background took 32.530987978 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.90653705597 s Creating peak regions... Creating peak regions took 19.1998260021 s Estimating background... Estimating background took 10.5537321568 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.953273057938 s Creating peak regions... Creating peak regions took 12.696587801 s Estimating background... Estimating background took 6.3556599617 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.55315613747 s Creating peak regions... Creating peak regions took 14.1099631786 s Estimating background... Estimating background took 10.4778659344 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.45527791977 s Creating peak regions... Creating peak regions took 58.7472779751 s Estimating background... Estimating background took 26.5077271461 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.96110701561 s Creating peak regions... Creating peak regions took 51.6716167927 s Estimating background... Estimating background took 19.4690129757 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.14902210236 s Creating peak regions... Creating peak regions took 50.0733568668 s Estimating background... Estimating background took 24.1685409546 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.40701889992 s Creating peak regions... Creating peak regions took 48.8526530266 s Estimating background... Estimating background took 28.4426729679 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.90629887581 s Creating peak regions... Creating peak regions took 45.4274551868 s Estimating background... Estimating background took 24.6652719975 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.31209182739 s Creating peak regions... Creating peak regions took 40.7181689739 s Estimating background... Estimating background took 17.462608099 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.69006514549 s Creating peak regions... Creating peak regions took 37.7731380463 s Estimating background... Estimating background took 17.0905058384 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.110855102539 s Creating peak regions... Creating peak regions took 0.173126935959 s Estimating background... Estimating background took 0.656486034393 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.10881900787 s Creating peak regions... Creating peak regions took 45.5718531609 s Estimating background... Estimating background took 24.6268310547 s Processing ZNF100-rep2-SRR5197051.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.121765851974 s Creating peak regions... Creating peak regions took 13.7931559086 s Estimating background... Estimating background took 0.66565990448 s