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-Rep4-GSM1689027.35mers.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-Rep4-GSM1689027-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-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.325105905533 s Creating peak regions... Creating peak regions took 43.4856040478 s Estimating background... Estimating background took 0.21435713768 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.158331155777 s Creating peak regions... Creating peak regions took 37.7771708965 s Estimating background... Estimating background took 0.192240953445 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.150670051575 s Creating peak regions... Creating peak regions took 35.914801836 s Estimating background... Estimating background took 0.197134017944 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.145402908325 s Creating peak regions... Creating peak regions took 38.9366409779 s Estimating background... Estimating background took 0.200552940369 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.150005102158 s Creating peak regions... Creating peak regions took 38.4949650764 s Estimating background... Estimating background took 0.195955991745 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.129283905029 s Creating peak regions... Creating peak regions took 30.8290059566 s Estimating background... Estimating background took 0.188556194305 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.117621183395 s Creating peak regions... Creating peak regions took 30.2342629433 s Estimating background... Estimating background took 0.187785148621 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.121368169785 s Creating peak regions... Creating peak regions took 29.326280117 s Estimating background... Estimating background took 0.197327136993 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.110882997513 s Creating peak regions... Creating peak regions took 26.6634809971 s Estimating background... Estimating background took 0.189285993576 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.0961971282959 s Creating peak regions... Creating peak regions took 18.2335438728 s Estimating background... Estimating background took 0.248388051987 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.30060505867 s Creating peak regions... Creating peak regions took 60.8756949902 s Estimating background... Estimating background took 0.231199026108 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.0189211368561 s Creating peak regions... Creating peak regions took 0.168853998184 s Estimating background... Estimating background took 0.207805156708 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.0184459686279 s Creating peak regions... Creating peak regions took 0.153908014297 s Estimating background... Estimating background took 0.206610202789 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.25133395195 s Creating peak regions... Creating peak regions took 56.5741620064 s Estimating background... Estimating background took 0.229648113251 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.178004026413 s Creating peak regions... Creating peak regions took 49.0834450722 s Estimating background... Estimating background took 0.239126205444 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.18417096138 s Creating peak regions... Creating peak regions took 48.4596168995 s Estimating background... Estimating background took 0.242759943008 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.030727148056 s Creating peak regions... Creating peak regions took 0.0814309120178 s Estimating background... Estimating background took 0.209589004517 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.189024209976 s Creating peak regions... Creating peak regions took 46.7001190186 s Estimating background... Estimating background took 0.248153924942 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.167685985565 s Creating peak regions... Creating peak regions took 46.5799241066 s Estimating background... Estimating background took 0.240093946457 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.209460020065 s Creating peak regions... Creating peak regions took 45.0565569401 s Estimating background... Estimating background took 0.232208967209 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.15326499939 s Creating peak regions... Creating peak regions took 39.7074110508 s Estimating background... Estimating background took 0.265192985535 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.187304019928 s Creating peak regions... Creating peak regions took 38.4426469803 s Estimating background... Estimating background took 0.226673126221 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.0190448760986 s Creating peak regions... Creating peak regions took 0.0623931884766 s Estimating background... Estimating background took 0.240648984909 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.0187540054321 s Creating peak regions... Creating peak regions took 0.0445261001587 s Estimating background... Estimating background took 0.215867996216 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.0198481082916 s Creating peak regions... Creating peak regions took 0.0586919784546 s Estimating background... Estimating background took 0.231132030487 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.0248439311981 s Creating peak regions... Creating peak regions took 0.0364480018616 s Estimating background... Estimating background took 0.23762512207 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.0262868404388 s Creating peak regions... Creating peak regions took 0.0377790927887 s Estimating background... Estimating background took 0.219681978226 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.0247700214386 s Creating peak regions... Creating peak regions took 0.0383460521698 s Estimating background... Estimating background took 0.241673946381 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.0261669158936 s Creating peak regions... Creating peak regions took 0.0161798000336 s Estimating background... Estimating background took 0.239146947861 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.0207889080048 s Creating peak regions... Creating peak regions took 0.0322670936584 s Estimating background... Estimating background took 0.258897066116 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.0266580581665 s Creating peak regions... Creating peak regions took 0.168370008469 s Estimating background... Estimating background took 0.233238935471 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.0993151664734 s Creating peak regions... Creating peak regions took 50.65152812 s Estimating background... Estimating background took 0.256433963776 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Reading data took 0.0211119651794 s Creating peak regions... Creating peak regions took 26.0167939663 s Estimating background... Estimating background took 0.245138883591 s Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-0h-Rep4-GSM1689027.35mers.unique.bam Reading in data...