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='ZNF764-SRR5197233.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='ZNF764-SRR5197233/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 ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.95407891273 s Creating peak regions... Creating peak regions took 76.0285050869 s Estimating background... Estimating background took 29.3687720299 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.37254500389 s Creating peak regions... Creating peak regions took 41.1250681877 s Estimating background... Estimating background took 12.001278162 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.70170307159 s Creating peak regions... Creating peak regions took 42.4088189602 s Estimating background... Estimating background took 11.8014779091 s Processing ZNF764-SRR5197233.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='ZNF764-SRR5197233.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='ZNF764-SRR5197233/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 ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.27176308632 s Creating peak regions... Creating peak regions took 76.2873051167 s Estimating background... Estimating background took 29.2885558605 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.16452693939 s Creating peak regions... Creating peak regions took 38.9339740276 s Estimating background... Estimating background took 11.8686628342 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.20244288445 s Creating peak regions... Creating peak regions took 42.2667241096 s Estimating background... Estimating background took 12.1226830482 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.25607204437 s Creating peak regions... Creating peak regions took 41.6623120308 s Estimating background... Estimating background took 12.6004431248 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.96312403679 s Creating peak regions... Creating peak regions took 35.833067894 s Estimating background... Estimating background took 13.5221931934 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.59295201302 s Creating peak regions... Creating peak regions took 30.6733140945 s Estimating background... Estimating background took 8.26732492447 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.40285205841 s Creating peak regions... Creating peak regions took 31.3837778568 s Estimating background... Estimating background took 9.07167482376 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.44022393227 s Creating peak regions... Creating peak regions took 27.6241869926 s Estimating background... Estimating background took 8.54690885544 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.698595047 s Creating peak regions... Creating peak regions took 24.8762428761 s Estimating background... Estimating background took 10.2276549339 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.14305901527 s Creating peak regions... Creating peak regions took 24.8018422127 s Estimating background... Estimating background took 6.52510213852 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.08680987358 s Creating peak regions... Creating peak regions took 18.3115971088 s Estimating background... Estimating background took 6.84556818008 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.63251686096 s Creating peak regions... Creating peak regions took 70.9004349709 s Estimating background... Estimating background took 20.2156920433 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.22660493851 s Creating peak regions... Creating peak regions took 18.7912149429 s Estimating background... Estimating background took 7.34465885162 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.664381027222 s Creating peak regions... Creating peak regions took 13.8291819096 s Estimating background... Estimating background took 4.17257189751 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.918657064438 s Creating peak regions... Creating peak regions took 15.8036711216 s Estimating background... Estimating background took 6.57478713989 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.96331810951 s Creating peak regions... Creating peak regions took 58.5525989532 s Estimating background... Estimating background took 16.3170220852 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.50370001793 s Creating peak regions... Creating peak regions took 52.8066799641 s Estimating background... Estimating background took 12.9874200821 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.77479696274 s Creating peak regions... Creating peak regions took 51.5711889267 s Estimating background... Estimating background took 15.4862351418 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.95192408562 s Creating peak regions... Creating peak regions took 51.5335240364 s Estimating background... Estimating background took 17.5039079189 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.72696805 s Creating peak regions... Creating peak regions took 48.0138039589 s Estimating background... Estimating background took 16.0202040672 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.26323080063 s Creating peak regions... Creating peak regions took 42.0239920616 s Estimating background... Estimating background took 11.6136109829 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.92852091789 s Creating peak regions... Creating peak regions took 40.1145181656 s Estimating background... Estimating background took 11.4833269119 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.0914778709412 s Creating peak regions... Creating peak regions took 0.202008962631 s Estimating background... Estimating background took 0.794998884201 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.88958501816 s Creating peak regions... Creating peak regions took 44.736328125 s Estimating background... Estimating background took 16.3130300045 s Processing ZNF764-SRR5197233.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.116013050079 s Creating peak regions... Creating peak regions took 16.1182022095 s Estimating background... Estimating background took 0.554899930954 s