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-ER4-0h-Rep2-GSM1689025.35mers.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-ER4-0h-Rep2-GSM1689025-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-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.674695968628 s Creating peak regions... Creating peak regions took 42.7761058807 s Estimating background... Estimating background took 0.202030897141 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.510229825974 s Creating peak regions... Creating peak regions took 37.9754099846 s Estimating background... Estimating background took 0.192869186401 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.473204135895 s Creating peak regions... Creating peak regions took 38.848706007 s Estimating background... Estimating background took 0.187973022461 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.476780176163 s Creating peak regions... Creating peak regions took 37.248898983 s Estimating background... Estimating background took 0.195342063904 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.491922140121 s Creating peak regions... Creating peak regions took 38.3626070023 s Estimating background... Estimating background took 0.193027973175 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.440737962723 s Creating peak regions... Creating peak regions took 32.1314351559 s Estimating background... Estimating background took 0.182237148285 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.390158891678 s Creating peak regions... Creating peak regions took 30.3707520962 s Estimating background... Estimating background took 0.202629089355 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.376872062683 s Creating peak regions... Creating peak regions took 29.2399280071 s Estimating background... Estimating background took 0.183747053146 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.346840143204 s Creating peak regions... Creating peak regions took 27.8697369099 s Estimating background... Estimating background took 0.189384937286 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.29057097435 s Creating peak regions... Creating peak regions took 18.4208290577 s Estimating background... Estimating background took 0.201235055923 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.975335121155 s Creating peak regions... Creating peak regions took 60.7883648872 s Estimating background... Estimating background took 0.411560058594 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.0429470539093 s Creating peak regions... Creating peak regions took 0.174897193909 s Estimating background... Estimating background took 0.206781148911 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.0232930183411 s Creating peak regions... Creating peak regions took 0.201235055923 s Estimating background... Estimating background took 0.234872817993 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.0281319618225 s Creating peak regions... Creating peak regions took 0.172892093658 s Estimating background... Estimating background took 0.234727859497 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.911520004272 s Creating peak regions... Creating peak regions took 55.9740931988 s Estimating background... Estimating background took 0.345639944077 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.612811088562 s Creating peak regions... Creating peak regions took 49.5100228786 s Estimating background... Estimating background took 0.229754209518 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.623131990433 s Creating peak regions... Creating peak regions took 47.9791100025 s Estimating background... Estimating background took 0.243535041809 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.0382039546967 s Creating peak regions... Creating peak regions took 0.0983448028564 s Estimating background... Estimating background took 0.2305560112 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.673269033432 s Creating peak regions... Creating peak regions took 47.0121200085 s Estimating background... Estimating background took 0.231065988541 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.5998878479 s Creating peak regions... Creating peak regions took 46.4196209908 s Estimating background... Estimating background took 0.25553894043 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.742177009583 s Creating peak regions... Creating peak regions took 44.8667969704 s Estimating background... Estimating background took 0.393718957901 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.524099111557 s Creating peak regions... Creating peak regions took 40.0476920605 s Estimating background... Estimating background took 0.225131034851 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.609148025513 s Creating peak regions... Creating peak regions took 38.4347081184 s Estimating background... Estimating background took 0.394227981567 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.0423040390015 s Creating peak regions... Creating peak regions took 0.0247690677643 s Estimating background... Estimating background took 0.236134052277 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.0284149646759 s Creating peak regions... Creating peak regions took 0.0617251396179 s Estimating background... Estimating background took 0.237739801407 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.0221149921417 s Creating peak regions... Creating peak regions took 0.0439779758453 s Estimating background... Estimating background took 0.239777088165 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.021754026413 s Creating peak regions... Creating peak regions took 0.0290110111237 s Estimating background... Estimating background took 0.240485906601 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.022115945816 s Creating peak regions... Creating peak regions took 0.0144340991974 s Estimating background... Estimating background took 0.236824989319 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.0227520465851 s Creating peak regions... Creating peak regions took 0.0394868850708 s Estimating background... Estimating background took 0.24047088623 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.0241141319275 s Creating peak regions... Creating peak regions took 0.0602250099182 s Estimating background... Estimating background took 0.239639997482 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.0433778762817 s Creating peak regions... Creating peak regions took 0.0247619152069 s Estimating background... Estimating background took 0.238801956177 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.0269131660461 s Creating peak regions... Creating peak regions took 0.0378158092499 s Estimating background... Estimating background took 0.241232872009 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.0349130630493 s Creating peak regions... Creating peak regions took 0.040256023407 s Estimating background... Estimating background took 0.241075992584 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.029217004776 s Creating peak regions... Creating peak regions took 0.0814089775085 s Estimating background... Estimating background took 0.240921974182 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.0232808589935 s Creating peak regions... Creating peak regions took 0.0329411029816 s Estimating background... Estimating background took 0.239915847778 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.0388081073761 s Creating peak regions... Creating peak regions took 0.177048921585 s Estimating background... Estimating background took 0.24026799202 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.281867980957 s Creating peak regions... Creating peak regions took 52.7379009724 s Estimating background... Estimating background took 0.23996591568 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.0293078422546 s Creating peak regions... Creating peak regions took 0.385591983795 s Estimating background... Estimating background took 0.233133792877 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Reading data took 0.0277581214905 s Creating peak regions... Creating peak regions took 25.2933139801 s Estimating background... Estimating background took 0.246362924576 s Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep2-GSM1689025.35mers.unique.bam Reading in data...