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='ZNF44-SRR5197146.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='ZNF44-SRR5197146/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 ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 4.40408802032 s
Creating peak regions... Creating peak regions took 76.0643870831 s
Estimating background... Estimating background took 34.0519900322 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.2310090065 s
Creating peak regions... Creating peak regions took 39.3828670979 s
Estimating background... Estimating background took 13.9411458969 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.34216403961 s
Creating peak regions... Creating peak regions took 38.7795779705 s
Estimating background... Estimating background took 12.7577660084 s


Processing ZNF44-SRR5197146.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='ZNF44-SRR5197146.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='ZNF44-SRR5197146/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 ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 4.52784395218 s
Creating peak regions... Creating peak regions took 75.2935481071 s
Estimating background... Estimating background took 35.7828428745 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.56898498535 s
Creating peak regions... Creating peak regions took 38.8357610703 s
Estimating background... Estimating background took 13.6663060188 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.14390516281 s
Creating peak regions... Creating peak regions took 40.1457149982 s
Estimating background... Estimating background took 14.61855793 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.45540380478 s
Creating peak regions... Creating peak regions took 40.1010141373 s
Estimating background... Estimating background took 15.2994241714 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.62417602539 s
Creating peak regions... Creating peak regions took 35.1904141903 s
Estimating background... Estimating background took 14.4431619644 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.51009106636 s
Creating peak regions... Creating peak regions took 29.3027009964 s
Estimating background... Estimating background took 9.38650298119 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.41727519035 s
Creating peak regions... Creating peak regions took 29.0825510025 s
Estimating background... Estimating background took 10.0934529305 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.59924197197 s
Creating peak regions... Creating peak regions took 25.0096719265 s
Estimating background... Estimating background took 10.1327359676 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.79919910431 s
Creating peak regions... Creating peak regions took 26.5484490395 s
Estimating background... Estimating background took 13.594755888 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.19463396072 s
Creating peak regions... Creating peak regions took 22.7794680595 s
Estimating background... Estimating background took 7.44238495827 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.40116286278 s
Creating peak regions... Creating peak regions took 19.2941930294 s
Estimating background... Estimating background took 10.2379639149 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 3.9387178421 s
Creating peak regions... Creating peak regions took 76.3426568508 s
Estimating background... Estimating background took 24.3957240582 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.44206118584 s
Creating peak regions... Creating peak regions took 20.6859190464 s
Estimating background... Estimating background took 9.68594408035 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 0.853928804398 s
Creating peak regions... Creating peak regions took 14.0765140057 s
Estimating background... Estimating background took 4.64618802071 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 1.0343568325 s
Creating peak regions... Creating peak regions took 16.5157849789 s
Estimating background... Estimating background took 8.50354599953 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.96259498596 s
Creating peak regions... Creating peak regions took 61.8736641407 s
Estimating background... Estimating background took 16.8070950508 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.66816902161 s
Creating peak regions... Creating peak regions took 56.6858248711 s
Estimating background... Estimating background took 15.6736810207 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.95234704018 s
Creating peak regions... Creating peak regions took 53.997948885 s
Estimating background... Estimating background took 18.6549479961 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 3.04475212097 s
Creating peak regions... Creating peak regions took 50.762583971 s
Estimating background... Estimating background took 20.5116028786 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 3.0440621376 s
Creating peak regions... Creating peak regions took 48.9222350121 s
Estimating background... Estimating background took 20.0620651245 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.45221185684 s
Creating peak regions... Creating peak regions took 42.5914411545 s
Estimating background... Estimating background took 13.1069769859 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.09520792961 s
Creating peak regions... Creating peak regions took 42.7186410427 s
Estimating background... Estimating background took 13.0506279469 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 0.0854377746582 s
Creating peak regions... Creating peak regions took 0.157929897308 s
Estimating background... Estimating background took 0.569694042206 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 2.50938391685 s
Creating peak regions... Creating peak regions took 43.1567018032 s
Estimating background... Estimating background took 13.6875650883 s


Processing ZNF44-SRR5197146.hg20-male.36mers.unique.bam
Reading in data... Reading data took 0.0932710170746 s
Creating peak regions... Creating peak regions took 12.2693560123 s
Estimating background... Estimating background took 0.477245807648 s