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-GSM1689034.35mers.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-GSM1689034-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-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.72701716423 s Creating peak regions... Creating peak regions took 43.8988068104 s Estimating background... Estimating background took 0.463104963303 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.834125995636 s Creating peak regions... Creating peak regions took 38.1676871777 s Estimating background... Estimating background took 0.638375997543 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.88245511055 s Creating peak regions... Creating peak regions took 37.2303841114 s Estimating background... Estimating background took 0.399425983429 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.803745985031 s Creating peak regions... Creating peak regions took 37.5001020432 s Estimating background... Estimating background took 0.423054933548 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.921844005585 s Creating peak regions... Creating peak regions took 39.0098700523 s Estimating background... Estimating background took 0.418682098389 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.712166070938 s Creating peak regions... Creating peak regions took 32.5979719162 s Estimating background... Estimating background took 0.438835144043 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.646403074265 s Creating peak regions... Creating peak regions took 30.5183689594 s Estimating background... Estimating background took 2.64430308342 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.534020185471 s Creating peak regions... Creating peak regions took 28.6276369095 s Estimating background... Estimating background took 0.527766942978 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.547592878342 s Creating peak regions... Creating peak regions took 27.7441520691 s Estimating background... Estimating background took 0.289785861969 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.450965881348 s Creating peak regions... Creating peak regions took 18.8455519676 s Estimating background... Estimating background took 0.284837961197 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 1.49150395393 s Creating peak regions... Creating peak regions took 61.35283494 s Estimating background... Estimating background took 0.779171943665 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0889489650726 s Creating peak regions... Creating peak regions took 0.1828520298 s Estimating background... Estimating background took 0.217975139618 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0325109958649 s Creating peak regions... Creating peak regions took 0.303538799286 s Estimating background... Estimating background took 0.219898939133 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0321698188782 s Creating peak regions... Creating peak regions took 0.185334920883 s Estimating background... Estimating background took 0.23680305481 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0293090343475 s Creating peak regions... Creating peak regions took 0.322648048401 s Estimating background... Estimating background took 0.212090969086 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 1.51068782806 s Creating peak regions... Creating peak regions took 57.0011148453 s Estimating background... Estimating background took 0.668209791183 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 1.0897359848 s Creating peak regions... Creating peak regions took 48.3158199787 s Estimating background... Estimating background took 0.449139118195 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 1.02484989166 s Creating peak regions... Creating peak regions took 49.2212159634 s Estimating background... Estimating background took 0.598773956299 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0774300098419 s Creating peak regions... Creating peak regions took 0.0824370384216 s Estimating background... Estimating background took 0.236941814423 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 1.04155898094 s Creating peak regions... Creating peak regions took 47.2845001221 s Estimating background... Estimating background took 0.613795042038 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0275812149048 s Creating peak regions... Creating peak regions took 0.738572835922 s Estimating background... Estimating background took 0.218855857849 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 1.02459597588 s Creating peak regions... Creating peak regions took 46.9120390415 s Estimating background... Estimating background took 0.437981128693 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 1.23930001259 s Creating peak regions... Creating peak regions took 45.6493859291 s Estimating background... Estimating background took 0.643650054932 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.834506034851 s Creating peak regions... Creating peak regions took 40.7339699268 s Estimating background... Estimating background took 4.46612596512 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.803369045258 s Creating peak regions... Creating peak regions took 38.7161228657 s Estimating background... Estimating background took 0.580770969391 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0755620002747 s Creating peak regions... Creating peak regions took 0.0443439483643 s Estimating background... Estimating background took 0.273705005646 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0353181362152 s Creating peak regions... Creating peak regions took 0.0601141452789 s Estimating background... Estimating background took 0.266685962677 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0325560569763 s Creating peak regions... Creating peak regions took 0.0303900241852 s Estimating background... Estimating background took 0.262099981308 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0311000347137 s Creating peak regions... Creating peak regions took 0.0460960865021 s Estimating background... Estimating background took 0.275344133377 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0351598262787 s Creating peak regions... Creating peak regions took 0.0600481033325 s Estimating background... Estimating background took 0.254008054733 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0339388847351 s Creating peak regions... Creating peak regions took 0.0534358024597 s Estimating background... Estimating background took 0.278670072556 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0349597930908 s Creating peak regions... Creating peak regions took 0.0322539806366 s Estimating background... Estimating background took 0.27917098999 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0353670120239 s Creating peak regions... Creating peak regions took 0.0427989959717 s Estimating background... Estimating background took 0.273591995239 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0302450656891 s Creating peak regions... Creating peak regions took 0.039843082428 s Estimating background... Estimating background took 0.269315004349 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0344579219818 s Creating peak regions... Creating peak regions took 0.110197067261 s Estimating background... Estimating background took 0.265732049942 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0351867675781 s Creating peak regions... Creating peak regions took 0.0366418361664 s Estimating background... Estimating background took 0.278424024582 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0336060523987 s Creating peak regions... Creating peak regions took 0.0800979137421 s Estimating background... Estimating background took 0.2788438797 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0306539535522 s Creating peak regions... Creating peak regions took 0.0378730297089 s Estimating background... Estimating background took 0.272403001785 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0743041038513 s Creating peak regions... Creating peak regions took 0.0516858100891 s Estimating background... Estimating background took 0.300192832947 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0355000495911 s Creating peak regions... Creating peak regions took 0.0439350605011 s Estimating background... Estimating background took 0.270336866379 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0448679924011 s Creating peak regions... Creating peak regions took 0.0948340892792 s Estimating background... Estimating background took 0.272536039352 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0364699363708 s Creating peak regions... Creating peak regions took 0.0809421539307 s Estimating background... Estimating background took 0.265219926834 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.03244805336 s Creating peak regions... Creating peak regions took 0.0361771583557 s Estimating background... Estimating background took 0.267776012421 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0490391254425 s Creating peak regions... Creating peak regions took 0.201291799545 s Estimating background... Estimating background took 0.31303691864 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.466480016708 s Creating peak regions... Creating peak regions took 52.8831479549 s Estimating background... Estimating background took 0.285773038864 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.055342912674 s Creating peak regions... Creating peak regions took 0.257843017578 s Estimating background... Estimating background took 0.267712831497 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Reading data took 0.0352001190186 s Creating peak regions... Creating peak regions took 25.7514750957 s Estimating background... Estimating background took 0.283299922943 s Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data... Processing TAL1-G1E-ER4-24h-Rep2-GSM1689034.35mers.unique.bam Reading in data...