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-Rep1-GSM1689032.35mers.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-Rep1-GSM1689032-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-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.938806056976 s Creating peak regions... Creating peak regions took 41.9144330025 s Estimating background... Estimating background took 0.199949026108 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.729776859283 s Creating peak regions... Creating peak regions took 39.8642430305 s Estimating background... Estimating background took 0.307614088058 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.703667879105 s Creating peak regions... Creating peak regions took 37.1998801231 s Estimating background... Estimating background took 0.186858892441 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.648211956024 s Creating peak regions... Creating peak regions took 37.4623289108 s Estimating background... Estimating background took 0.191191196442 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.718317985535 s Creating peak regions... Creating peak regions took 38.591039896 s Estimating background... Estimating background took 0.200968980789 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.643424034119 s Creating peak regions... Creating peak regions took 32.2971100807 s Estimating background... Estimating background took 0.196551084518 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.65901684761 s Creating peak regions... Creating peak regions took 30.4032330513 s Estimating background... Estimating background took 0.209676980972 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.595273017883 s Creating peak regions... Creating peak regions took 29.1217808723 s Estimating background... Estimating background took 0.299149036407 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.540255069733 s Creating peak regions... Creating peak regions took 28.2162790298 s Estimating background... Estimating background took 0.20235991478 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.421790122986 s Creating peak regions... Creating peak regions took 18.7852931023 s Estimating background... Estimating background took 0.19974899292 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 1.38685202599 s Creating peak regions... Creating peak regions took 60.645761013 s Estimating background... Estimating background took 0.353367090225 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.0447640419006 s Creating peak regions... Creating peak regions took 0.212651968002 s Estimating background... Estimating background took 0.232095003128 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.0298240184784 s Creating peak regions... Creating peak regions took 0.234246969223 s Estimating background... Estimating background took 0.220869064331 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.0270481109619 s Creating peak regions... Creating peak regions took 0.211879014969 s Estimating background... Estimating background took 0.208630800247 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.0218300819397 s Creating peak regions... Creating peak regions took 0.213831186295 s Estimating background... Estimating background took 0.236819982529 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 1.3481760025 s Creating peak regions... Creating peak regions took 56.5273809433 s Estimating background... Estimating background took 0.35765004158 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.886615991592 s Creating peak regions... Creating peak regions took 49.6632828712 s Estimating background... Estimating background took 0.233569860458 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.888640880585 s Creating peak regions... Creating peak regions took 48.7896761894 s Estimating background... Estimating background took 0.368736982346 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.0412888526917 s Creating peak regions... Creating peak regions took 0.0804591178894 s Estimating background... Estimating background took 0.215909957886 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.904159069061 s Creating peak regions... Creating peak regions took 46.9193160534 s Estimating background... Estimating background took 0.400454998016 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.0217139720917 s Creating peak regions... Creating peak regions took 0.385407924652 s Estimating background... Estimating background took 0.212277889252 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.880435943604 s Creating peak regions... Creating peak regions took 46.552850008 s Estimating background... Estimating background took 0.378901958466 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 1.10092902184 s Creating peak regions... Creating peak regions took 45.3447370529 s Estimating background... Estimating background took 0.363599061966 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.772035121918 s Creating peak regions... Creating peak regions took 39.9830639362 s Estimating background... Estimating background took 0.386573076248 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.866196870804 s Creating peak regions... Creating peak regions took 38.6236219406 s Estimating background... Estimating background took 0.348469018936 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.0421328544617 s Creating peak regions... Creating peak regions took 0.0265638828278 s Estimating background... Estimating background took 0.235414028168 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.0304608345032 s Creating peak regions... Creating peak regions took 0.0335121154785 s Estimating background... Estimating background took 0.235587835312 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.0230729579926 s Creating peak regions... Creating peak regions took 0.033460855484 s Estimating background... Estimating background took 0.212663888931 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.0228221416473 s Creating peak regions... Creating peak regions took 0.0236711502075 s Estimating background... Estimating background took 0.234172105789 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.0274949073792 s Creating peak regions... Creating peak regions took 0.0617210865021 s Estimating background... Estimating background took 0.23522400856 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.024307012558 s Creating peak regions... Creating peak regions took 0.0353100299835 s Estimating background... Estimating background took 0.214058876038 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.063460111618 s Creating peak regions... Creating peak regions took 0.0386030673981 s Estimating background... Estimating background took 0.240714788437 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.0317330360413 s Creating peak regions... Creating peak regions took 0.0409300327301 s Estimating background... Estimating background took 0.240368843079 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.0394191741943 s Creating peak regions... Creating peak regions took 0.0461540222168 s Estimating background... Estimating background took 0.223826169968 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.0283801555634 s Creating peak regions... Creating peak regions took 0.086571931839 s Estimating background... Estimating background took 0.238646030426 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.0253260135651 s Creating peak regions... Creating peak regions took 0.035952091217 s Estimating background... Estimating background took 0.235254049301 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.0419538021088 s Creating peak regions... Creating peak regions took 0.185021162033 s Estimating background... Estimating background took 0.240902900696 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.413378000259 s Creating peak regions... Creating peak regions took 51.047317028 s Estimating background... Estimating background took 0.250072956085 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.036169052124 s Creating peak regions... Creating peak regions took 0.464531898499 s Estimating background... Estimating background took 0.236997842789 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Reading data took 0.0311031341553 s Creating peak regions... Creating peak regions took 26.2641108036 s Estimating background... Estimating background took 0.247169971466 s Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep1-GSM1689032.35mers.unique.bam Reading in data...