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-SRR5197050.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-SRR5197050/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-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 7.54730415344 s Creating peak regions... Creating peak regions took 71.5756618977 s Estimating background... Estimating background took 36.8758020401 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.60279989243 s Creating peak regions... Creating peak regions took 37.6272470951 s Estimating background... Estimating background took 14.6895170212 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.6259188652 s Creating peak regions... Creating peak regions took 37.9281480312 s Estimating background... Estimating background took 14.7060778141 s Processing ZNF100-SRR5197050.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-SRR5197050.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-SRR5197050/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-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 7.21075391769 s Creating peak regions... Creating peak regions took 84.0827479362 s Estimating background... Estimating background took 39.7933471203 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.37709498405 s Creating peak regions... Creating peak regions took 45.9196581841 s Estimating background... Estimating background took 16.3985419273 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.84805107117 s Creating peak regions... Creating peak regions took 45.4712059498 s Estimating background... Estimating background took 16.7126510143 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.04586696625 s Creating peak regions... Creating peak regions took 44.8359389305 s Estimating background... Estimating background took 17.7262198925 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.28485608101 s Creating peak regions... Creating peak regions took 38.3342700005 s Estimating background... Estimating background took 19.5619001389 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.61945509911 s Creating peak regions... Creating peak regions took 34.6893658638 s Estimating background... Estimating background took 11.1489641666 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.24528193474 s Creating peak regions... Creating peak regions took 35.2352089882 s Estimating background... Estimating background took 12.4532289505 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.81035590172 s Creating peak regions... Creating peak regions took 28.2423360348 s Estimating background... Estimating background took 11.0132610798 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.56308794022 s Creating peak regions... Creating peak regions took 29.5487618446 s Estimating background... Estimating background took 13.7232041359 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.41177988052 s Creating peak regions... Creating peak regions took 25.3732910156 s Estimating background... Estimating background took 8.15881800652 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.26995801926 s Creating peak regions... Creating peak regions took 18.70596385 s Estimating background... Estimating background took 8.05722880363 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 7.85172700882 s Creating peak regions... Creating peak regions took 73.2994618416 s Estimating background... Estimating background took 25.6100859642 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.06451797485 s Creating peak regions... Creating peak regions took 20.4315991402 s Estimating background... Estimating background took 9.72235488892 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.81600499153 s Creating peak regions... Creating peak regions took 16.3916831017 s Estimating background... Estimating background took 5.43707489967 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.26266503334 s Creating peak regions... Creating peak regions took 17.6077439785 s Estimating background... Estimating background took 8.53918910027 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.75644803047 s Creating peak regions... Creating peak regions took 66.3078920841 s Estimating background... Estimating background took 24.3118951321 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.0758600235 s Creating peak regions... Creating peak regions took 59.7196149826 s Estimating background... Estimating background took 18.006155014 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.37409901619 s Creating peak regions... Creating peak regions took 64.1042709351 s Estimating background... Estimating background took 21.7883780003 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.35957193375 s Creating peak regions... Creating peak regions took 58.1499109268 s Estimating background... Estimating background took 26.0018210411 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.56831216812 s Creating peak regions... Creating peak regions took 53.5392179489 s Estimating background... Estimating background took 22.0782167912 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.86477303505 s Creating peak regions... Creating peak regions took 48.5164690018 s Estimating background... Estimating background took 15.9543850422 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.52980995178 s Creating peak regions... Creating peak regions took 45.5077970028 s Estimating background... Estimating background took 15.5314030647 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.10273194313 s Creating peak regions... Creating peak regions took 0.227761983871 s Estimating background... Estimating background took 0.655959129333 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.79646992683 s Creating peak regions... Creating peak regions took 52.3300039768 s Estimating background... Estimating background took 24.0251820087 s Processing ZNF100-SRR5197050.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.140594959259 s Creating peak regions... Creating peak regions took 17.3392350674 s Estimating background... Estimating background took 0.664399862289 s