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='HKR1-SRR5197034.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='HKR1-SRR5197034/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 HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 6.20836496353 s
Creating peak regions... Creating peak regions took 65.3234539032 s
Estimating background... Estimating background took 56.475427866 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.86864495277 s
Creating peak regions... Creating peak regions took 35.2503631115 s
Estimating background... Estimating background took 22.1283960342 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.86817789078 s
Creating peak regions... Creating peak regions took 35.0599200726 s
Estimating background... Estimating background took 23.9677958488 s


Processing HKR1-SRR5197034.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='HKR1-SRR5197034.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='HKR1-SRR5197034/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 HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 6.17665600777 s
Creating peak regions... Creating peak regions took 71.7469749451 s
Estimating background... Estimating background took 62.0163211823 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 3.12138390541 s
Creating peak regions... Creating peak regions took 38.5379240513 s
Estimating background... Estimating background took 23.9122209549 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 3.26764702797 s
Creating peak regions... Creating peak regions took 37.7477509975 s
Estimating background... Estimating background took 25.3806059361 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 3.16122698784 s
Creating peak regions... Creating peak regions took 36.6527149677 s
Estimating background... Estimating background took 26.0423960686 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.49810814857 s
Creating peak regions... Creating peak regions took 31.5906531811 s
Estimating background... Estimating background took 23.9910230637 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.04885482788 s
Creating peak regions... Creating peak regions took 28.5419111252 s
Estimating background... Estimating background took 16.0335569382 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.88573503494 s
Creating peak regions... Creating peak regions took 25.4646580219 s
Estimating background... Estimating background took 17.9232940674 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.0079138279 s
Creating peak regions... Creating peak regions took 24.5905649662 s
Estimating background... Estimating background took 18.2106978893 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.28826498985 s
Creating peak regions... Creating peak regions took 23.6579461098 s
Estimating background... Estimating background took 21.5477628708 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.5494799614 s
Creating peak regions... Creating peak regions took 20.7603509426 s
Estimating background... Estimating background took 11.1569840908 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.51976513863 s
Creating peak regions... Creating peak regions took 15.9076609612 s
Estimating background... Estimating background took 14.7332191467 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 4.75035405159 s
Creating peak regions... Creating peak regions took 63.6872460842 s
Estimating background... Estimating background took 38.4878380299 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.61264300346 s
Creating peak regions... Creating peak regions took 18.128950119 s
Estimating background... Estimating background took 14.5591878891 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 0.840923070908 s
Creating peak regions... Creating peak regions took 12.0480389595 s
Estimating background... Estimating background took 7.74060106277 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.43820595741 s
Creating peak regions... Creating peak regions took 14.7071280479 s
Estimating background... Estimating background took 14.0767118931 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 3.83622288704 s
Creating peak regions... Creating peak regions took 50.6511008739 s
Estimating background... Estimating background took 29.8573639393 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 3.18002796173 s
Creating peak regions... Creating peak regions took 48.2508409023 s
Estimating background... Estimating background took 23.1445508003 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 3.44856405258 s
Creating peak regions... Creating peak regions took 46.9416339397 s
Estimating background... Estimating background took 28.9291598797 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 4.02538990974 s
Creating peak regions... Creating peak regions took 45.7775990963 s
Estimating background... Estimating background took 34.027477026 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 3.66042780876 s
Creating peak regions... Creating peak regions took 42.7174890041 s
Estimating background... Estimating background took 30.4275369644 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.89532184601 s
Creating peak regions... Creating peak regions took 38.1762290001 s
Estimating background... Estimating background took 21.0956821442 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.51397609711 s
Creating peak regions... Creating peak regions took 35.5452899933 s
Estimating background... Estimating background took 21.0910978317 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 0.118943929672 s
Creating peak regions... Creating peak regions took 0.207426786423 s
Estimating background... Estimating background took 0.645725011826 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 3.94540596008 s
Creating peak regions... Creating peak regions took 44.9924499989 s
Estimating background... Estimating background took 34.5948050022 s


Processing HKR1-SRR5197034.hg20-male.36mers.unique.bam
Reading in data... Reading data took 0.195638179779 s
Creating peak regions... Creating peak regions took 15.0416321754 s
Estimating background... Estimating background took 0.780360937119 s