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/mm10.blacklist.bed', center6=0, chromnames='/oak/stanford/groups/akundaje/marinovg/genomes/mm10/female.mm10.chrom.sizes', e4='PeakXus', fastq='TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.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='TAL1_G1E-ER4_0h_Rep5-GSM1689028/', p3=1.0, p7=1, q2=20, s3=1, skip0=0, t2=1, title5='PeakXus', verbosity=1, w3=5, w4=100, wg7=None)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/mm10.blacklist.bed', center6=0, chromnames='/oak/stanford/groups/akundaje/marinovg/genomes/mm10/mm10.chrom.sizes', e4='PeakXus', fastq='TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.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='TAL1_G1E-ER4_0h_Rep5-GSM1689028/', 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 TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 1.30485701561 s Creating peak regions... Creating peak regions took 30.7906520367 s Estimating background... Estimating background took 5.41037106514 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 1.41833901405 s Creating peak regions... Creating peak regions took 31.4403278828 s Estimating background... Estimating background took 7.09265112877 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 1.12111997604 s Creating peak regions... Creating peak regions took 30.1252338886 s Estimating background... Estimating background took 5.13799500465 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.979947090149 s Creating peak regions... Creating peak regions took 29.1909210682 s Estimating background... Estimating background took 5.38923311234 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 1.14495491982 s Creating peak regions... Creating peak regions took 30.5577819347 s Estimating background... Estimating background took 5.30736899376 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.89691400528 s Creating peak regions... Creating peak regions took 24.827188015 s Estimating background... Estimating background took 4.81709694862 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.971143007278 s Creating peak regions... Creating peak regions took 25.981415987 s Estimating background... Estimating background took 4.38103699684 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 1.15472793579 s Creating peak regions... Creating peak regions took 23.5344319344 s Estimating background... Estimating background took 4.5840549469 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.68267583847 s Creating peak regions... Creating peak regions took 23.8859980106 s Estimating background... Estimating background took 4.22896099091 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.726803064346 s Creating peak regions... Creating peak regions took 17.615571022 s Estimating background... Estimating background took 3.3215970993 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 2.02537798882 s Creating peak regions... Creating peak regions took 50.6184840202 s Estimating background... Estimating background took 10.9967498779 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0620009899139 s Creating peak regions... Creating peak regions took 0.235996007919 s Estimating background... Estimating background took 0.264214992523 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0727450847626 s Creating peak regions... Creating peak regions took 0.265341997147 s Estimating background... Estimating background took 0.267676115036 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0711109638214 s Creating peak regions... Creating peak regions took 0.228744983673 s Estimating background... Estimating background took 0.263528108597 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0424990653992 s Creating peak regions... Creating peak regions took 0.22411608696 s Estimating background... Estimating background took 0.267023086548 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 2.66877603531 s Creating peak regions... Creating peak regions took 44.8667609692 s Estimating background... Estimating background took 8.96824717522 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 1.73012900352 s Creating peak regions... Creating peak regions took 45.3539869785 s Estimating background... Estimating background took 7.24959421158 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 2.08658099174 s Creating peak regions... Creating peak regions took 47.1427800655 s Estimating background... Estimating background took 7.92921209335 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0671010017395 s Creating peak regions... Creating peak regions took 0.111854076385 s Estimating background... Estimating background took 0.328773021698 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0497159957886 s Creating peak regions... Creating peak regions took 0.0193009376526 s Estimating background... Estimating background took 0.326828956604 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 1.6873049736 s Creating peak regions... Creating peak regions took 39.4228959084 s Estimating background... Estimating background took 8.22883892059 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0676600933075 s Creating peak regions... Creating peak regions took 0.21541595459 s Estimating background... Estimating background took 0.322976827621 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0431740283966 s Creating peak regions... Creating peak regions took 0.660660028458 s Estimating background... Estimating background took 0.314283132553 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 2.24335980415 s Creating peak regions... Creating peak regions took 46.4437618256 s Estimating background... Estimating background took 7.36045908928 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 2.12962913513 s Creating peak regions... Creating peak regions took 41.3400378227 s Estimating background... Estimating background took 9.18649888039 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 1.30987811089 s Creating peak regions... Creating peak regions took 32.2252690792 s Estimating background... Estimating background took 6.30194306374 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 1.54244208336 s Creating peak regions... Creating peak regions took 31.3312370777 s Estimating background... Estimating background took 6.50431799889 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0646538734436 s Creating peak regions... Creating peak regions took 0.109838008881 s Estimating background... Estimating background took 0.275053977966 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.072585105896 s Creating peak regions... Creating peak regions took 0.0651378631592 s Estimating background... Estimating background took 0.294811010361 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.064505815506 s Creating peak regions... Creating peak regions took 0.0275218486786 s Estimating background... Estimating background took 0.306111812592 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0710217952728 s Creating peak regions... Creating peak regions took 0.0460329055786 s Estimating background... Estimating background took 0.299568891525 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0677320957184 s Creating peak regions... Creating peak regions took 0.0781581401825 s Estimating background... Estimating background took 0.310151100159 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.144194126129 s Creating peak regions... Creating peak regions took 0.0734779834747 s Estimating background... Estimating background took 0.295732021332 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0691599845886 s Creating peak regions... Creating peak regions took 0.0324470996857 s Estimating background... Estimating background took 0.2997610569 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0707559585571 s Creating peak regions... Creating peak regions took 0.0403919219971 s Estimating background... Estimating background took 0.304656028748 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0475981235504 s Creating peak regions... Creating peak regions took 0.0357539653778 s Estimating background... Estimating background took 0.304775953293 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0711209774017 s Creating peak regions... Creating peak regions took 0.0451719760895 s Estimating background... Estimating background took 0.312569141388 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0708191394806 s Creating peak regions... Creating peak regions took 0.101423978806 s Estimating background... Estimating background took 0.320777893066 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0841689109802 s Creating peak regions... Creating peak regions took 0.0409851074219 s Estimating background... Estimating background took 0.314327955246 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0493240356445 s Creating peak regions... Creating peak regions took 0.0298519134521 s Estimating background... Estimating background took 0.293606996536 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0838539600372 s Creating peak regions... Creating peak regions took 0.0829749107361 s Estimating background... Estimating background took 0.304089784622 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0804378986359 s Creating peak regions... Creating peak regions took 0.05686378479 s Estimating background... Estimating background took 0.304880142212 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0701289176941 s Creating peak regions... Creating peak regions took 0.0508530139923 s Estimating background... Estimating background took 0.295799970627 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.121974945068 s Creating peak regions... Creating peak regions took 0.0571022033691 s Estimating background... Estimating background took 0.30153799057 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0511879920959 s Creating peak regions... Creating peak regions took 0.0521810054779 s Estimating background... Estimating background took 0.29469704628 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0640349388123 s Creating peak regions... Creating peak regions took 0.0491600036621 s Estimating background... Estimating background took 0.293864965439 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0748178958893 s Creating peak regions... Creating peak regions took 0.105859994888 s Estimating background... Estimating background took 0.317043066025 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0708708763123 s Creating peak regions... Creating peak regions took 0.0361549854279 s Estimating background... Estimating background took 0.301398038864 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0743110179901 s Creating peak regions... Creating peak regions took 0.052011013031 s Estimating background... Estimating background took 0.294054985046 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0981428623199 s Creating peak regions... Creating peak regions took 0.155673027039 s Estimating background... Estimating background took 1.27827000618 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.593811035156 s Creating peak regions... Creating peak regions took 38.159455061 s Estimating background... Estimating background took 4.56982922554 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.0578157901764 s Creating peak regions... Creating peak regions took 0.184787988663 s Estimating background... Estimating background took 0.28181886673 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Reading data took 0.069237947464 s Creating peak regions... Creating peak regions took 18.8120939732 s Estimating background... Estimating background took 0.316419839859 s Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep5-GSM1689028/aligned.36mers.unique.bam Reading in data...