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='GATA1_G1E-ER4_3h_Rep3-GSM1689016/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='GATA1_G1E-ER4_3h_Rep3-GSM1689016/', 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='GATA1_G1E-ER4_3h_Rep3-GSM1689016/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='GATA1_G1E-ER4_3h_Rep3-GSM1689016/', 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-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 1.33231306076 s Creating peak regions... Creating peak regions took 29.8801190853 s Estimating background... Estimating background took 4.63998794556 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 1.44911909103 s Creating peak regions... Creating peak regions took 34.832020998 s Estimating background... Estimating background took 6.06578612328 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 1.39029288292 s Creating peak regions... Creating peak regions took 30.6630420685 s Estimating background... Estimating background took 4.98705482483 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 1.17637705803 s Creating peak regions... Creating peak regions took 29.3875279427 s Estimating background... Estimating background took 4.78442001343 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 1.37078309059 s Creating peak regions... Creating peak regions took 29.5565049648 s Estimating background... Estimating background took 5.14475393295 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 1.06942200661 s Creating peak regions... Creating peak regions took 24.9645478725 s Estimating background... Estimating background took 4.26297092438 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.95095705986 s Creating peak regions... Creating peak regions took 22.6644670963 s Estimating background... Estimating background took 3.73692893982 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.933944940567 s Creating peak regions... Creating peak regions took 22.5749280453 s Estimating background... Estimating background took 4.03646087646 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 1.12356591225 s Creating peak regions... Creating peak regions took 24.3696839809 s Estimating background... Estimating background took 3.49709701538 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.721627950668 s Creating peak regions... Creating peak regions took 14.3390069008 s Estimating background... Estimating background took 2.79643702507 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 2.44291496277 s Creating peak regions... Creating peak regions took 48.6980848312 s Estimating background... Estimating background took 9.72324085236 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0581200122833 s Creating peak regions... Creating peak regions took 0.20165681839 s Estimating background... Estimating background took 0.264914035797 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0485029220581 s Creating peak regions... Creating peak regions took 0.2751557827 s Estimating background... Estimating background took 0.278102874756 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0571279525757 s Creating peak regions... Creating peak regions took 0.212662935257 s Estimating background... Estimating background took 0.279721021652 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0360150337219 s Creating peak regions... Creating peak regions took 0.238309144974 s Estimating background... Estimating background took 0.283411979675 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 2.67161512375 s Creating peak regions... Creating peak regions took 47.3217349052 s Estimating background... Estimating background took 8.08987879753 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 1.71527886391 s Creating peak regions... Creating peak regions took 37.575824976 s Estimating background... Estimating background took 6.26612305641 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 1.56654000282 s Creating peak regions... Creating peak regions took 38.3552248478 s Estimating background... Estimating background took 6.45167613029 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0531289577484 s Creating peak regions... Creating peak regions took 0.119513034821 s Estimating background... Estimating background took 0.290810823441 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0502870082855 s Creating peak regions... Creating peak regions took 0.0172870159149 s Estimating background... Estimating background took 0.284694910049 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 1.86491799355 s Creating peak regions... Creating peak regions took 37.48913908 s Estimating background... Estimating background took 6.02574110031 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0968301296234 s Creating peak regions... Creating peak regions took 0.19087600708 s Estimating background... Estimating background took 0.304325819016 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0341970920563 s Creating peak regions... Creating peak regions took 0.577898979187 s Estimating background... Estimating background took 0.304849863052 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 1.98339605331 s Creating peak regions... Creating peak regions took 41.8193259239 s Estimating background... Estimating background took 6.49080181122 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 2.03472208977 s Creating peak regions... Creating peak regions took 40.953494072 s Estimating background... Estimating background took 7.69656896591 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 1.51467990875 s Creating peak regions... Creating peak regions took 36.1450300217 s Estimating background... Estimating background took 5.51836800575 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 1.7336909771 s Creating peak regions... Creating peak regions took 33.6045620441 s Estimating background... Estimating background took 5.89130711555 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0863349437714 s Creating peak regions... Creating peak regions took 0.12341594696 s Estimating background... Estimating background took 0.427851915359 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0742089748383 s Creating peak regions... Creating peak regions took 0.0709991455078 s Estimating background... Estimating background took 0.327449798584 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.072762966156 s Creating peak regions... Creating peak regions took 0.0360078811646 s Estimating background... Estimating background took 0.331247091293 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0591390132904 s Creating peak regions... Creating peak regions took 0.041601896286 s Estimating background... Estimating background took 0.316428184509 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0729100704193 s Creating peak regions... Creating peak regions took 0.0679228305817 s Estimating background... Estimating background took 0.326246976852 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.064817905426 s Creating peak regions... Creating peak regions took 0.0579628944397 s Estimating background... Estimating background took 0.32369685173 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0606331825256 s Creating peak regions... Creating peak regions took 0.0275838375092 s Estimating background... Estimating background took 0.330229997635 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0729150772095 s Creating peak regions... Creating peak regions took 0.0412690639496 s Estimating background... Estimating background took 0.328925132751 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0684041976929 s Creating peak regions... Creating peak regions took 0.0496900081635 s Estimating background... Estimating background took 0.318583965302 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0728228092194 s Creating peak regions... Creating peak regions took 0.0487010478973 s Estimating background... Estimating background took 0.328752040863 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.072685956955 s Creating peak regions... Creating peak regions took 0.099072933197 s Estimating background... Estimating background took 0.32816696167 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0719730854034 s Creating peak regions... Creating peak regions took 0.0482759475708 s Estimating background... Estimating background took 0.283979892731 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0623128414154 s Creating peak regions... Creating peak regions took 0.0305581092834 s Estimating background... Estimating background took 0.311386108398 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0815789699554 s Creating peak regions... Creating peak regions took 0.079717874527 s Estimating background... Estimating background took 0.311350822449 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0479898452759 s Creating peak regions... Creating peak regions took 0.0561010837555 s Estimating background... Estimating background took 0.325642108917 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0735850334167 s Creating peak regions... Creating peak regions took 0.0452749729156 s Estimating background... Estimating background took 0.310595989227 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.122890949249 s Creating peak regions... Creating peak regions took 0.0469608306885 s Estimating background... Estimating background took 0.293421030045 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0797760486603 s Creating peak regions... Creating peak regions took 0.0636529922485 s Estimating background... Estimating background took 0.297313928604 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.061662197113 s Creating peak regions... Creating peak regions took 0.0439281463623 s Estimating background... Estimating background took 0.316971063614 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0778710842133 s Creating peak regions... Creating peak regions took 0.107672929764 s Estimating background... Estimating background took 0.311336040497 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0733649730682 s Creating peak regions... Creating peak regions took 0.0352780818939 s Estimating background... Estimating background took 0.289958953857 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0798029899597 s Creating peak regions... Creating peak regions took 0.0577960014343 s Estimating background... Estimating background took 0.291085004807 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.1101770401 s Creating peak regions... Creating peak regions took 0.152222156525 s Estimating background... Estimating background took 0.535487890244 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 1.0774641037 s Creating peak regions... Creating peak regions took 45.9370260239 s Estimating background... Estimating background took 4.38222098351 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0734910964966 s Creating peak regions... Creating peak regions took 0.272346973419 s Estimating background... Estimating background took 0.330494880676 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Reading data took 0.0788450241089 s Creating peak regions... Creating peak regions took 18.9947311878 s Estimating background... Estimating background took 0.33354306221 s Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_3h_Rep3-GSM1689016/aligned.36mers.unique.bam Reading in data...