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='GATA1-G1E-Rep1-GSM1689010.35mers.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='GATA1-G1E-Rep1-GSM1689010-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 GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.309354066849 s Creating peak regions... Creating peak regions took 42.9917221069 s Estimating background... Estimating background took 0.219321966171 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.203644037247 s Creating peak regions... Creating peak regions took 38.1286509037 s Estimating background... Estimating background took 0.204653024673 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.234299898148 s Creating peak regions... Creating peak regions took 37.0457868576 s Estimating background... Estimating background took 0.183932065964 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.184046030045 s Creating peak regions... Creating peak regions took 37.128469944 s Estimating background... Estimating background took 0.206881999969 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.214518785477 s Creating peak regions... Creating peak regions took 37.6278858185 s Estimating background... Estimating background took 0.210827827454 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.173277854919 s Creating peak regions... Creating peak regions took 32.0450479984 s Estimating background... Estimating background took 0.210013866425 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.168377876282 s Creating peak regions... Creating peak regions took 29.2914440632 s Estimating background... Estimating background took 0.207911968231 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.160460948944 s Creating peak regions... Creating peak regions took 28.9050879478 s Estimating background... Estimating background took 0.185932159424 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.149645090103 s Creating peak regions... Creating peak regions took 26.8257901669 s Estimating background... Estimating background took 0.208328962326 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.123324155807 s Creating peak regions... Creating peak regions took 19.0079290867 s Estimating background... Estimating background took 0.204210996628 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.435921907425 s Creating peak regions... Creating peak regions took 60.6233401299 s Estimating background... Estimating background took 0.257364988327 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.0420911312103 s Creating peak regions... Creating peak regions took 0.163371086121 s Estimating background... Estimating background took 0.219702959061 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.0199420452118 s Creating peak regions... Creating peak regions took 0.161942958832 s Estimating background... Estimating background took 0.203804969788 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.320842981339 s Creating peak regions... Creating peak regions took 55.9971659184 s Estimating background... Estimating background took 0.304440975189 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.363731861115 s Creating peak regions... Creating peak regions took 49.8231840134 s Estimating background... Estimating background took 0.239747047424 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.252760887146 s Creating peak regions... Creating peak regions took 48.2580368519 s Estimating background... Estimating background took 0.25453710556 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.231678962708 s Creating peak regions... Creating peak regions took 47.2164609432 s Estimating background... Estimating background took 0.250669002533 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.22508597374 s Creating peak regions... Creating peak regions took 46.445734024 s Estimating background... Estimating background took 0.252223968506 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.23085308075 s Creating peak regions... Creating peak regions took 44.8701400757 s Estimating background... Estimating background took 0.23646402359 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.189867019653 s Creating peak regions... Creating peak regions took 38.6996929646 s Estimating background... Estimating background took 0.251191854477 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.220060110092 s Creating peak regions... Creating peak regions took 38.2126820087 s Estimating background... Estimating background took 0.247066020966 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.0353939533234 s Creating peak regions... Creating peak regions took 0.029492855072 s Estimating background... Estimating background took 0.22305393219 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.0242249965668 s Creating peak regions... Creating peak regions took 0.0459020137787 s Estimating background... Estimating background took 0.220527887344 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.0198950767517 s Creating peak regions... Creating peak regions took 0.0468339920044 s Estimating background... Estimating background took 0.234278202057 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.0253889560699 s Creating peak regions... Creating peak regions took 0.0350141525269 s Estimating background... Estimating background took 0.213840961456 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.0212779045105 s Creating peak regions... Creating peak regions took 0.101449012756 s Estimating background... Estimating background took 0.231855154037 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.0261750221252 s Creating peak regions... Creating peak regions took 0.0247399806976 s Estimating background... Estimating background took 0.2388048172 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.0224242210388 s Creating peak regions... Creating peak regions took 0.0646450519562 s Estimating background... Estimating background took 0.237518072128 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.0271260738373 s Creating peak regions... Creating peak regions took 0.0389490127563 s Estimating background... Estimating background took 0.279540061951 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.0239379405975 s Creating peak regions... Creating peak regions took 0.0396339893341 s Estimating background... Estimating background took 0.234889984131 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.0279941558838 s Creating peak regions... Creating peak regions took 0.0388920307159 s Estimating background... Estimating background took 0.237342119217 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.0275230407715 s Creating peak regions... Creating peak regions took 0.0719590187073 s Estimating background... Estimating background took 0.229874849319 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.0210409164429 s Creating peak regions... Creating peak regions took 0.031790971756 s Estimating background... Estimating background took 0.233565092087 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.0292551517487 s Creating peak regions... Creating peak regions took 0.172137022018 s Estimating background... Estimating background took 0.23407793045 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.129670143127 s Creating peak regions... Creating peak regions took 50.9194898605 s Estimating background... Estimating background took 0.254988908768 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.0334730148315 s Creating peak regions... Creating peak regions took 0.343307971954 s Estimating background... Estimating background took 0.232263803482 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Reading data took 0.0274629592896 s Creating peak regions... Creating peak regions took 25.92425704 s Estimating background... Estimating background took 0.241426944733 s Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data... Processing GATA1-G1E-Rep1-GSM1689010.35mers.unique.bam Reading in data...