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_0h_Rep3-GSM1689013/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_0h_Rep3-GSM1689013/', 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_0h_Rep3-GSM1689013/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_0h_Rep3-GSM1689013/', 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_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 1.1243429184 s Creating peak regions... Creating peak regions took 36.1576368809 s Estimating background... Estimating background took 3.9451520443 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 1.22295403481 s Creating peak regions... Creating peak regions took 29.0593118668 s Estimating background... Estimating background took 4.192070961 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 1.24188280106 s Creating peak regions... Creating peak regions took 27.9318459034 s Estimating background... Estimating background took 3.61530399323 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 1.06201195717 s Creating peak regions... Creating peak regions took 27.8879671097 s Estimating background... Estimating background took 3.9546380043 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 1.35016083717 s Creating peak regions... Creating peak regions took 29.5305511951 s Estimating background... Estimating background took 4.096159935 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 1.01757597923 s Creating peak regions... Creating peak regions took 25.1146478653 s Estimating background... Estimating background took 3.42492103577 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.892955064774 s Creating peak regions... Creating peak regions took 25.4953341484 s Estimating background... Estimating background took 3.52397203445 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 1.32573699951 s Creating peak regions... Creating peak regions took 22.3140749931 s Estimating background... Estimating background took 3.30710077286 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 1.07139396667 s Creating peak regions... Creating peak regions took 25.5773909092 s Estimating background... Estimating background took 2.98132300377 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.664103984833 s Creating peak regions... Creating peak regions took 15.2447009087 s Estimating background... Estimating background took 2.43761610985 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 2.86023783684 s Creating peak regions... Creating peak regions took 50.4274020195 s Estimating background... Estimating background took 8.06283593178 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0661609172821 s Creating peak regions... Creating peak regions took 0.172217130661 s Estimating background... Estimating background took 0.249042987823 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0494539737701 s Creating peak regions... Creating peak regions took 0.252808094025 s Estimating background... Estimating background took 0.233149051666 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.040137052536 s Creating peak regions... Creating peak regions took 0.169086933136 s Estimating background... Estimating background took 0.245136022568 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0451040267944 s Creating peak regions... Creating peak regions took 0.191463947296 s Estimating background... Estimating background took 0.256947994232 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 2.53156709671 s Creating peak regions... Creating peak regions took 45.2754280567 s Estimating background... Estimating background took 6.57762503624 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 1.64755320549 s Creating peak regions... Creating peak regions took 40.4639101028 s Estimating background... Estimating background took 5.92511916161 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 1.82859611511 s Creating peak regions... Creating peak regions took 42.9616529942 s Estimating background... Estimating background took 5.05372095108 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0489711761475 s Creating peak regions... Creating peak regions took 0.0957758426666 s Estimating background... Estimating background took 0.280397891998 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0428900718689 s Creating peak regions... Creating peak regions took 0.0187129974365 s Estimating background... Estimating background took 0.283847093582 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.033478975296 s Creating peak regions... Creating peak regions took 0.00115013122559 s Estimating background... Estimating background took 0.283572912216 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 1.63998317719 s Creating peak regions... Creating peak regions took 37.6884810925 s Estimating background... Estimating background took 4.99732089043 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0742130279541 s Creating peak regions... Creating peak regions took 0.165448904037 s Estimating background... Estimating background took 0.311836957932 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0304868221283 s Creating peak regions... Creating peak regions took 0.425721883774 s Estimating background... Estimating background took 0.288264989853 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 1.73923110962 s Creating peak regions... Creating peak regions took 35.7953190804 s Estimating background... Estimating background took 4.9942688942 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 2.03111696243 s Creating peak regions... Creating peak regions took 40.4782669544 s Estimating background... Estimating background took 5.94351792336 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 1.10997200012 s Creating peak regions... Creating peak regions took 31.6456580162 s Estimating background... Estimating background took 4.66868710518 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 1.5198738575 s Creating peak regions... Creating peak regions took 35.2017450333 s Estimating background... Estimating background took 5.00770401955 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0541019439697 s Creating peak regions... Creating peak regions took 0.140860080719 s Estimating background... Estimating background took 0.337451934814 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0418820381165 s Creating peak regions... Creating peak regions took 0.0523550510406 s Estimating background... Estimating background took 0.298505783081 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0720679759979 s Creating peak regions... Creating peak regions took 0.0338559150696 s Estimating background... Estimating background took 0.32616019249 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0731108188629 s Creating peak regions... Creating peak regions took 0.0511538982391 s Estimating background... Estimating background took 0.328552007675 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0723021030426 s Creating peak regions... Creating peak regions took 0.0702409744263 s Estimating background... Estimating background took 0.288577079773 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0723509788513 s Creating peak regions... Creating peak regions took 0.060448884964 s Estimating background... Estimating background took 0.302255153656 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0442569255829 s Creating peak regions... Creating peak regions took 0.0223548412323 s Estimating background... Estimating background took 0.303182840347 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0705709457397 s Creating peak regions... Creating peak regions took 0.0381097793579 s Estimating background... Estimating background took 0.289201021194 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0700478553772 s Creating peak regions... Creating peak regions took 0.0411169528961 s Estimating background... Estimating background took 0.300559997559 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0424480438232 s Creating peak regions... Creating peak regions took 0.0303649902344 s Estimating background... Estimating background took 0.286388158798 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0708789825439 s Creating peak regions... Creating peak regions took 0.0891609191895 s Estimating background... Estimating background took 0.290797948837 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0441880226135 s Creating peak regions... Creating peak regions took 0.0278859138489 s Estimating background... Estimating background took 0.298499107361 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0427989959717 s Creating peak regions... Creating peak regions took 0.02365899086 s Estimating background... Estimating background took 0.285403013229 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0435287952423 s Creating peak regions... Creating peak regions took 0.06112408638 s Estimating background... Estimating background took 0.284828901291 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0383141040802 s Creating peak regions... Creating peak regions took 0.0359301567078 s Estimating background... Estimating background took 0.286859035492 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0716698169708 s Creating peak regions... Creating peak regions took 0.0422101020813 s Estimating background... Estimating background took 0.290022134781 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0983710289001 s Creating peak regions... Creating peak regions took 0.0439500808716 s Estimating background... Estimating background took 0.29181098938 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0399730205536 s Creating peak regions... Creating peak regions took 0.0501959323883 s Estimating background... Estimating background took 0.290874958038 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0537219047546 s Creating peak regions... Creating peak regions took 0.0394718647003 s Estimating background... Estimating background took 0.290219068527 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.041100025177 s Creating peak regions... Creating peak regions took 0.0813009738922 s Estimating background... Estimating background took 0.292796134949 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0707249641418 s Creating peak regions... Creating peak regions took 0.0363101959229 s Estimating background... Estimating background took 0.296790122986 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0697422027588 s Creating peak regions... Creating peak regions took 0.0450410842896 s Estimating background... Estimating background took 0.293223142624 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.105426073074 s Creating peak regions... Creating peak regions took 0.124310970306 s Estimating background... Estimating background took 0.37276506424 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.767043113708 s Creating peak regions... Creating peak regions took 39.4760649204 s Estimating background... Estimating background took 0.722886800766 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.157591104507 s Creating peak regions... Creating peak regions took 0.316039800644 s Estimating background... Estimating background took 0.294370174408 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Reading data took 0.0653841495514 s Creating peak regions... Creating peak regions took 19.8724122047 s Estimating background... Estimating background took 0.299789905548 s Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data... Processing GATA1_G1E-ER4_0h_Rep3-GSM1689013/aligned.36mers.unique.bam Reading in data...