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_Rep4-GSM1689027/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_Rep4-GSM1689027/', 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_Rep4-GSM1689027/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_Rep4-GSM1689027/', 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/aligned.36mers.unique.bam Reading in data... Reading data took 0.135060071945 s Creating peak regions... Creating peak regions took 27.7056629658 s Estimating background... Estimating background took 0.275953054428 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.186260938644 s Creating peak regions... Creating peak regions took 26.2333681583 s Estimating background... Estimating background took 0.212548017502 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.181612968445 s Creating peak regions... Creating peak regions took 25.7625801563 s Estimating background... Estimating background took 0.257031917572 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.225345134735 s Creating peak regions... Creating peak regions took 23.3971309662 s Estimating background... Estimating background took 0.233145952225 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.159919977188 s Creating peak regions... Creating peak regions took 26.2819650173 s Estimating background... Estimating background took 0.224505901337 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.135692119598 s Creating peak regions... Creating peak regions took 21.12885499 s Estimating background... Estimating background took 0.232299804688 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.143747091293 s Creating peak regions... Creating peak regions took 18.891710043 s Estimating background... Estimating background took 0.227649927139 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.154504060745 s Creating peak regions... Creating peak regions took 19.2285079956 s Estimating background... Estimating background took 0.229229927063 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.148733854294 s Creating peak regions... Creating peak regions took 17.9492950439 s Estimating background... Estimating background took 0.239084005356 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.135292053223 s Creating peak regions... Creating peak regions took 12.4531230927 s Estimating background... Estimating background took 0.237776041031 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.312572956085 s Creating peak regions... Creating peak regions took 43.921751976 s Estimating background... Estimating background took 0.371409893036 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.0263271331787 s Creating peak regions... Creating peak regions took 0.153170824051 s Estimating background... Estimating background took 0.261893033981 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.0247178077698 s Creating peak regions... Creating peak regions took 0.124472141266 s Estimating background... Estimating background took 0.243854999542 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.270326137543 s Creating peak regions... Creating peak regions took 38.9017400742 s Estimating background... Estimating background took 0.363185882568 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.207491874695 s Creating peak regions... Creating peak regions took 34.6364300251 s Estimating background... Estimating background took 0.264713048935 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.164386034012 s Creating peak regions... Creating peak regions took 33.5340468884 s Estimating background... Estimating background took 0.266998052597 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.0522871017456 s Creating peak regions... Creating peak regions took 0.0848639011383 s Estimating background... Estimating background took 0.266030073166 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.161396026611 s Creating peak regions... Creating peak regions took 36.1323940754 s Estimating background... Estimating background took 0.253164052963 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.143150091171 s Creating peak regions... Creating peak regions took 32.5939910412 s Estimating background... Estimating background took 0.248835086823 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.233654022217 s Creating peak regions... Creating peak regions took 30.829584837 s Estimating background... Estimating background took 0.265581130981 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.147156000137 s Creating peak regions... Creating peak regions took 25.8224401474 s Estimating background... Estimating background took 0.246232032776 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.203768968582 s Creating peak regions... Creating peak regions took 24.2188498974 s Estimating background... Estimating background took 0.263046979904 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.0242791175842 s Creating peak regions... Creating peak regions took 0.0460500717163 s Estimating background... Estimating background took 0.24879193306 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.0159499645233 s Creating peak regions... Creating peak regions took 0.0327360630035 s Estimating background... Estimating background took 0.254235982895 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.0228588581085 s Creating peak regions... Creating peak regions took 0.0458171367645 s Estimating background... Estimating background took 0.250763177872 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.0328938961029 s Creating peak regions... Creating peak regions took 0.0333290100098 s Estimating background... Estimating background took 0.244418859482 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.0707819461823 s Creating peak regions... Creating peak regions took 0.0488469600677 s Estimating background... Estimating background took 0.260471820831 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.0405969619751 s Creating peak regions... Creating peak regions took 0.0389039516449 s Estimating background... Estimating background took 0.253842115402 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.0181047916412 s Creating peak regions... Creating peak regions took 0.0100378990173 s Estimating background... Estimating background took 0.242209911346 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.0276670455933 s Creating peak regions... Creating peak regions took 0.0302369594574 s Estimating background... Estimating background took 0.258022069931 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.0420548915863 s Creating peak regions... Creating peak regions took 0.139585018158 s Estimating background... Estimating background took 0.242110013962 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.210807085037 s Creating peak regions... Creating peak regions took 34.7764220238 s Estimating background... Estimating background took 0.286365032196 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Reading data took 0.0234000682831 s Creating peak regions... Creating peak regions took 17.1908941269 s Estimating background... Estimating background took 0.263199090958 s Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data... Processing TAL1_G1E-ER4_0h_Rep4-GSM1689027/aligned.36mers.unique.bam Reading in data...