INPUT PARAMETERS: Namespace(B2=None, N4=1000, N6=1000, S4=1, UMIs=None, adapters1=None, b3=0.05, blacklist='/home/users/marinovg/genomes/blacklists/mm10/mm10.blacklist.bed', center6=0, chromnames='/oak/stanford/groups/akundaje/marinovg/genomes/mm10/mm10.chrom.sizes', e4='PeakXus', fastq='TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.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-ER4-24h-Rep2-GSM1689033-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 TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 1.49190688133 s Creating peak regions... Creating peak regions took 43.9394037724 s Estimating background... Estimating background took 0.429912090302 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 1.68634414673 s Creating peak regions... Creating peak regions took 37.9237771034 s Estimating background... Estimating background took 0.599451065063 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 1.71080613136 s Creating peak regions... Creating peak regions took 37.0436089039 s Estimating background... Estimating background took 0.519184112549 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 1.55297613144 s Creating peak regions... Creating peak regions took 37.3886749744 s Estimating background... Estimating background took 0.437904119492 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 1.68832492828 s Creating peak regions... Creating peak regions took 38.817127943 s Estimating background... Estimating background took 0.467483997345 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 1.43726396561 s Creating peak regions... Creating peak regions took 32.1618599892 s Estimating background... Estimating background took 2.81123304367 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 1.12693500519 s Creating peak regions... Creating peak regions took 30.1148099899 s Estimating background... Estimating background took 0.32021689415 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 1.20873785019 s Creating peak regions... Creating peak regions took 29.4427330494 s Estimating background... Estimating background took 0.536633014679 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 1.25276589394 s Creating peak regions... Creating peak regions took 28.0950391293 s Estimating background... Estimating background took 0.312254905701 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.91806602478 s Creating peak regions... Creating peak regions took 18.9510259628 s Estimating background... Estimating background took 0.309319972992 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 3.12741208076 s Creating peak regions... Creating peak regions took 61.3343360424 s Estimating background... Estimating background took 0.78981590271 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0801908969879 s Creating peak regions... Creating peak regions took 0.212419033051 s Estimating background... Estimating background took 0.242369174957 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0340819358826 s Creating peak regions... Creating peak regions took 0.297796964645 s Estimating background... Estimating background took 0.248342037201 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0324499607086 s Creating peak regions... Creating peak regions took 0.221695899963 s Estimating background... Estimating background took 0.242156028748 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0293049812317 s Creating peak regions... Creating peak regions took 0.25964307785 s Estimating background... Estimating background took 0.256927967072 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 2.90037298203 s Creating peak regions... Creating peak regions took 56.4920170307 s Estimating background... Estimating background took 4.50324606895 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 1.74377202988 s Creating peak regions... Creating peak regions took 49.44790411 s Estimating background... Estimating background took 0.47202205658 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 1.88993906975 s Creating peak regions... Creating peak regions took 48.5074789524 s Estimating background... Estimating background took 0.562211036682 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0695171356201 s Creating peak regions... Creating peak regions took 0.0806698799133 s Estimating background... Estimating background took 0.25143122673 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 2.0225610733 s Creating peak regions... Creating peak regions took 45.639729023 s Estimating background... Estimating background took 0.591180801392 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0280628204346 s Creating peak regions... Creating peak regions took 0.522205114365 s Estimating background... Estimating background took 0.260050058365 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 2.0255279541 s Creating peak regions... Creating peak regions took 46.387223959 s Estimating background... Estimating background took 0.59897685051 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 2.5219399929 s Creating peak regions... Creating peak regions took 45.2088258266 s Estimating background... Estimating background took 3.85661196709 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 1.5096681118 s Creating peak regions... Creating peak regions took 39.8333671093 s Estimating background... Estimating background took 0.644157886505 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 1.86443591118 s Creating peak regions... Creating peak regions took 38.7618319988 s Estimating background... Estimating background took 0.709482908249 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0730450153351 s Creating peak regions... Creating peak regions took 0.0473520755768 s Estimating background... Estimating background took 0.276285886765 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0353031158447 s Creating peak regions... Creating peak regions took 0.0595490932465 s Estimating background... Estimating background took 0.278314113617 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0361089706421 s Creating peak regions... Creating peak regions took 0.0366690158844 s Estimating background... Estimating background took 0.282395839691 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.035343170166 s Creating peak regions... Creating peak regions took 0.0504031181335 s Estimating background... Estimating background took 0.280161142349 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0339639186859 s Creating peak regions... Creating peak regions took 0.0247118473053 s Estimating background... Estimating background took 0.281640052795 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0352520942688 s Creating peak regions... Creating peak regions took 0.0211691856384 s Estimating background... Estimating background took 0.278532028198 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0355038642883 s Creating peak regions... Creating peak regions took 0.0315418243408 s Estimating background... Estimating background took 0.274873018265 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0340049266815 s Creating peak regions... Creating peak regions took 0.0191760063171 s Estimating background... Estimating background took 0.275586128235 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0346319675446 s Creating peak regions... Creating peak regions took 0.0275180339813 s Estimating background... Estimating background took 0.27323102951 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0345311164856 s Creating peak regions... Creating peak regions took 0.0366349220276 s Estimating background... Estimating background took 0.267505168915 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0332639217377 s Creating peak regions... Creating peak regions took 0.0839049816132 s Estimating background... Estimating background took 0.271000146866 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.034126996994 s Creating peak regions... Creating peak regions took 0.0195870399475 s Estimating background... Estimating background took 0.273001909256 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0347020626068 s Creating peak regions... Creating peak regions took 0.0164921283722 s Estimating background... Estimating background took 0.264292001724 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0396931171417 s Creating peak regions... Creating peak regions took 0.0882778167725 s Estimating background... Estimating background took 0.272729873657 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0293030738831 s Creating peak regions... Creating peak regions took 0.0232121944427 s Estimating background... Estimating background took 0.274052143097 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.118019104004 s Creating peak regions... Creating peak regions took 0.0443689823151 s Estimating background... Estimating background took 0.279778003693 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0392029285431 s Creating peak regions... Creating peak regions took 0.0490479469299 s Estimating background... Estimating background took 0.276268005371 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0599710941315 s Creating peak regions... Creating peak regions took 0.0856230258942 s Estimating background... Estimating background took 0.312745094299 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0373599529266 s Creating peak regions... Creating peak regions took 0.0973060131073 s Estimating background... Estimating background took 0.26981306076 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0337278842926 s Creating peak regions... Creating peak regions took 0.039755821228 s Estimating background... Estimating background took 0.276157855988 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0378911495209 s Creating peak regions... Creating peak regions took 0.0369429588318 s Estimating background... Estimating background took 0.277709960938 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0644059181213 s Creating peak regions... Creating peak regions took 0.198496103287 s Estimating background... Estimating background took 0.27636885643 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.92423915863 s Creating peak regions... Creating peak regions took 52.7650439739 s Estimating background... Estimating background took 0.317536830902 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0546140670776 s Creating peak regions... Creating peak regions took 0.31164598465 s Estimating background... Estimating background took 0.27321100235 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Reading data took 0.0341510772705 s Creating peak regions... Creating peak regions took 22.7892570496 s Estimating background... Estimating background took 0.280586957932 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689033.35mers.unique.bam Reading in data...