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='ZNF3-SRR5197129.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='ZNF3-SRR5197129/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 ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 5.61279606819 s
Creating peak regions... Creating peak regions took 77.9980819225 s
Estimating background... Estimating background took 34.9008560181 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.70245599747 s
Creating peak regions... Creating peak regions took 39.4095799923 s
Estimating background... Estimating background took 13.0585858822 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.8333568573 s
Creating peak regions... Creating peak regions took 40.3633828163 s
Estimating background... Estimating background took 13.1580219269 s


Processing ZNF3-SRR5197129.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='ZNF3-SRR5197129.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='ZNF3-SRR5197129/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 ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 5.65343999863 s
Creating peak regions... Creating peak regions took 78.6137120724 s
Estimating background... Estimating background took 36.5815680027 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.78156995773 s
Creating peak regions... Creating peak regions took 42.0141119957 s
Estimating background... Estimating background took 13.3818700314 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.69185090065 s
Creating peak regions... Creating peak regions took 42.0408949852 s
Estimating background... Estimating background took 14.0256769657 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 3.00448489189 s
Creating peak regions... Creating peak regions took 43.3210091591 s
Estimating background... Estimating background took 14.1212630272 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.43969297409 s
Creating peak regions... Creating peak regions took 35.8427410126 s
Estimating background... Estimating background took 18.8762300014 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.09492611885 s
Creating peak regions... Creating peak regions took 33.088588953 s
Estimating background... Estimating background took 9.6855840683 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.01818013191 s
Creating peak regions... Creating peak regions took 31.036823988 s
Estimating background... Estimating background took 10.5949950218 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.69574999809 s
Creating peak regions... Creating peak regions took 27.0438687801 s
Estimating background... Estimating background took 8.84185600281 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.79726886749 s
Creating peak regions... Creating peak regions took 26.5113811493 s
Estimating background... Estimating background took 10.330862999 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.59734010696 s
Creating peak regions... Creating peak regions took 27.0500540733 s
Estimating background... Estimating background took 8.40565800667 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.35042095184 s
Creating peak regions... Creating peak regions took 18.7438008785 s
Estimating background... Estimating background took 6.00068902969 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 4.59252405167 s
Creating peak regions... Creating peak regions took 80.636605978 s
Estimating background... Estimating background took 24.6049058437 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.50861620903 s
Creating peak regions... Creating peak regions took 22.8796029091 s
Estimating background... Estimating background took 6.86843705177 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 0.954815149307 s
Creating peak regions... Creating peak regions took 15.3616220951 s
Estimating background... Estimating background took 4.38595604897 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.11030006409 s
Creating peak regions... Creating peak regions took 16.8395459652 s
Estimating background... Estimating background took 6.45990610123 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 3.99953699112 s
Creating peak regions... Creating peak regions took 64.8001589775 s
Estimating background... Estimating background took 18.2152080536 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 3.62605500221 s
Creating peak regions... Creating peak regions took 58.5051040649 s
Estimating background... Estimating background took 16.6896660328 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 3.83876395226 s
Creating peak regions... Creating peak regions took 60.7289149761 s
Estimating background... Estimating background took 17.694535017 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 3.89436292648 s
Creating peak regions... Creating peak regions took 57.5936610699 s
Estimating background... Estimating background took 21.28038311 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 3.71736907959 s
Creating peak regions... Creating peak regions took 49.9157390594 s
Estimating background... Estimating background took 18.0094559193 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 3.00420594215 s
Creating peak regions... Creating peak regions took 45.6760659218 s
Estimating background... Estimating background took 13.6969120502 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.56112885475 s
Creating peak regions... Creating peak regions took 41.919023037 s
Estimating background... Estimating background took 10.9882171154 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 0.113049983978 s
Creating peak regions... Creating peak regions took 0.158684968948 s
Estimating background... Estimating background took 0.771022081375 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 3.24074983597 s
Creating peak regions... Creating peak regions took 43.3736169338 s
Estimating background... Estimating background took 17.9935269356 s


Processing ZNF3-SRR5197129.hg20-male.36mers.unique.bam
Reading in data... Reading data took 0.149923086166 s
Creating peak regions... Creating peak regions took 14.7063288689 s
Estimating background... Estimating background took 0.582034111023 s