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='ZNF418-SRR5197131.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='ZNF418-SRR5197131/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 ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 12.5826539993 s Creating peak regions... Creating peak regions took 90.6319739819 s Estimating background... Estimating background took 152.836652994 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.37769198418 s Creating peak regions... Creating peak regions took 47.4561679363 s Estimating background... Estimating background took 54.0301849842 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.45823407173 s Creating peak regions... Creating peak regions took 40.0846071243 s Estimating background... Estimating background took 50.9989800453 s Processing ZNF418-SRR5197131.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='ZNF418-SRR5197131.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='ZNF418-SRR5197131/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 ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 13.2056050301 s Creating peak regions... Creating peak regions took 88.630863905 s Estimating background... Estimating background took 158.155425072 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.71139883995 s Creating peak regions... Creating peak regions took 47.0645470619 s Estimating background... Estimating background took 62.9471549988 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.72167301178 s Creating peak regions... Creating peak regions took 47.2887818813 s Estimating background... Estimating background took 63.0450730324 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 7.31785511971 s Creating peak regions... Creating peak regions took 50.1099629402 s Estimating background... Estimating background took 68.2379109859 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.65158081055 s Creating peak regions... Creating peak regions took 43.0777881145 s Estimating background... Estimating background took 77.9230828285 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.70070004463 s Creating peak regions... Creating peak regions took 37.3952600956 s Estimating background... Estimating background took 42.0658888817 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.10690116882 s Creating peak regions... Creating peak regions took 33.7500491142 s Estimating background... Estimating background took 42.5041451454 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.41289615631 s Creating peak regions... Creating peak regions took 31.9792170525 s Estimating background... Estimating background took 43.4169831276 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.36441493034 s Creating peak regions... Creating peak regions took 30.1240799427 s Estimating background... Estimating background took 55.4956700802 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.89883995056 s Creating peak regions... Creating peak regions took 29.0051519871 s Estimating background... Estimating background took 34.3235251904 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 3.35289311409 s Creating peak regions... Creating peak regions took 21.7222681046 s Estimating background... Estimating background took 31.4639060497 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 11.3463230133 s Creating peak regions... Creating peak regions took 80.2432749271 s Estimating background... Estimating background took 89.202080965 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 2.89167809486 s Creating peak regions... Creating peak regions took 22.2705459595 s Estimating background... Estimating background took 30.1352000237 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.64702296257 s Creating peak regions... Creating peak regions took 13.6742398739 s Estimating background... Estimating background took 15.6491708755 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 1.9147670269 s Creating peak regions... Creating peak regions took 14.7094900608 s Estimating background... Estimating background took 24.8057911396 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 7.47822380066 s Creating peak regions... Creating peak regions took 57.4911839962 s Estimating background... Estimating background took 80.7467300892 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.48391699791 s Creating peak regions... Creating peak regions took 54.9865839481 s Estimating background... Estimating background took 55.6141657829 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.97289991379 s Creating peak regions... Creating peak regions took 53.4881489277 s Estimating background... Estimating background took 68.4534151554 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 7.41945910454 s Creating peak regions... Creating peak regions took 52.469905138 s Estimating background... Estimating background took 79.8747320175 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.37175297737 s Creating peak regions... Creating peak regions took 47.9470710754 s Estimating background... Estimating background took 62.105396986 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 5.50438380241 s Creating peak regions... Creating peak regions took 42.8890740871 s Estimating background... Estimating background took 48.2956171036 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 4.66907691956 s Creating peak regions... Creating peak regions took 40.0297329426 s Estimating background... Estimating background took 45.2452030182 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.24619102478 s Creating peak regions... Creating peak regions took 0.309532880783 s Estimating background... Estimating background took 0.650941848755 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 6.50219583511 s Creating peak regions... Creating peak regions took 46.0379338264 s Estimating background... Estimating background took 70.7867438793 s Processing ZNF418-SRR5197131.hg20-male.36mers.unique.bam Reading in data... Reading data took 0.545917034149 s Creating peak regions... Creating peak regions took 15.2017738819 s Estimating background... Estimating background took 0.955183029175 s