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='ZNF766-SRR5197235.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='ZNF766-SRR5197235/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 ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.16442108154 s Creating peak regions... Creating peak regions took 77.9650950432 s Estimating background... Estimating background took 41.9572899342 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.0928170681 s Creating peak regions... Creating peak regions took 40.9279968739 s Estimating background... Estimating background took 16.8701138496 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.01740980148 s Creating peak regions... Creating peak regions took 40.4408788681 s Estimating background... Estimating background took 15.9081909657 s Processing ZNF766-SRR5197235.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='ZNF766-SRR5197235.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='ZNF766-SRR5197235/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 ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.11947917938 s Creating peak regions... Creating peak regions took 78.627341032 s Estimating background... Estimating background took 41.5493910313 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.09677696228 s Creating peak regions... Creating peak regions took 41.1391479969 s Estimating background... Estimating background took 17.0891079903 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.14077091217 s Creating peak regions... Creating peak regions took 40.8148899078 s Estimating background... Estimating background took 16.4713051319 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.15929698944 s Creating peak regions... Creating peak regions took 42.6238629818 s Estimating background... Estimating background took 18.0708799362 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.78165793419 s Creating peak regions... Creating peak regions took 34.8399500847 s Estimating background... Estimating background took 18.9702658653 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.17764806747 s Creating peak regions... Creating peak regions took 30.1370170116 s Estimating background... Estimating background took 11.6638240814 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.8885679245 s Creating peak regions... Creating peak regions took 31.3954241276 s Estimating background... Estimating background took 11.7171649933 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.87980103493 s Creating peak regions... Creating peak regions took 28.0877420902 s Estimating background... Estimating background took 10.3479249477 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.27276110649 s Creating peak regions... Creating peak regions took 26.5490219593 s Estimating background... Estimating background took 12.9884779453 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.58010792732 s Creating peak regions... Creating peak regions took 23.7873079777 s Estimating background... Estimating background took 9.37574887276 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.46853208542 s Creating peak regions... Creating peak regions took 16.9920129776 s Estimating background... Estimating background took 8.71831202507 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.16395902634 s Creating peak regions... Creating peak regions took 72.8729748726 s Estimating background... Estimating background took 29.17522192 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.53032398224 s Creating peak regions... Creating peak regions took 19.4690229893 s Estimating background... Estimating background took 8.78670907021 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.941241979599 s Creating peak regions... Creating peak regions took 14.8066399097 s Estimating background... Estimating background took 5.38071680069 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.20110297203 s Creating peak regions... Creating peak regions took 16.0052711964 s Estimating background... Estimating background took 7.9804520607 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.47356700897 s Creating peak regions... Creating peak regions took 60.4323179722 s Estimating background... Estimating background took 24.1011190414 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.51622986794 s Creating peak regions... Creating peak regions took 55.630382061 s Estimating background... Estimating background took 17.7231578827 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.18692302704 s Creating peak regions... Creating peak regions took 58.0905508995 s Estimating background... Estimating background took 22.4801719189 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.27232813835 s Creating peak regions... Creating peak regions took 55.7991528511 s Estimating background... Estimating background took 26.1269710064 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.97323799133 s Creating peak regions... Creating peak regions took 49.0044431686 s Estimating background... Estimating background took 22.1628170013 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.22814083099 s Creating peak regions... Creating peak regions took 43.3942878246 s Estimating background... Estimating background took 15.5647141933 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.70382404327 s Creating peak regions... Creating peak regions took 40.9539220333 s Estimating background... Estimating background took 14.9905750751 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.0943350791931 s Creating peak regions... Creating peak regions took 0.24621295929 s Estimating background... Estimating background took 1.49247407913 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.46674180031 s Creating peak regions... Creating peak regions took 46.3544631004 s Estimating background... Estimating background took 21.3989531994 s Processing ZNF766-SRR5197235.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.135464906693 s Creating peak regions... Creating peak regions took 15.2891469002 s Estimating background... Estimating background took 0.629505872726 s