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-ER4-0h-Rep1-GSM1689011.35mers.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-ER4-0h-Rep1-GSM1689011-peakXus/', 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='/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-ER4-0h-Rep1-GSM1689011.35mers.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-ER4-0h-Rep1-GSM1689011-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-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 1.08413410187 s Creating peak regions... 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-ER4-0h-Rep1-GSM1689011.35mers.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-ER4-0h-Rep1-GSM1689011-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-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.672115087509 s Creating peak regions... Creating peak regions took 42.0644590855 s Estimating background... Estimating background took 0.599373817444 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.843660116196 s Creating peak regions... Creating peak regions took 36.4021239281 s Estimating background... Estimating background took 0.917905092239 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.837048053741 s Creating peak regions... Creating peak regions took 36.2998418808 s Estimating background... Estimating background took 0.657091140747 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.789459943771 s Creating peak regions... Creating peak regions took 33.8403558731 s Estimating background... Estimating background took 0.607378005981 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.750391960144 s Creating peak regions... Creating peak regions took 38.0199398994 s Estimating background... Estimating background took 0.510726928711 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.713824987411 s Creating peak regions... Creating peak regions took 28.6333539486 s Estimating background... Estimating background took 0.515021800995 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.586258888245 s Creating peak regions... Creating peak regions took 25.0498991013 s Estimating background... Estimating background took 2.42926192284 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.443847894669 s Creating peak regions... Creating peak regions took 23.4700210094 s Estimating background... Estimating background took 0.524369001389 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.483234882355 s Creating peak regions... Creating peak regions took 22.7739109993 s Estimating background... Estimating background took 0.5315990448 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.423295974731 s Creating peak regions... Creating peak regions took 15.5657320023 s Estimating background... Estimating background took 0.540740013123 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 1.29961204529 s Creating peak regions... Creating peak regions took 50.0720729828 s Estimating background... Estimating background took 4.30063390732 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0307190418243 s Creating peak regions... Creating peak regions took 0.0841810703278 s Estimating background... Estimating background took 0.217985153198 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0421240329742 s Creating peak regions... Creating peak regions took 0.142179012299 s Estimating background... Estimating background took 0.213227033615 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0409200191498 s Creating peak regions... Creating peak regions took 0.119552135468 s Estimating background... Estimating background took 0.215084075928 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0314960479736 s Creating peak regions... Creating peak regions took 0.121036052704 s Estimating background... Estimating background took 0.214715957642 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 1.10361909866 s Creating peak regions... Creating peak regions took 45.57969594 s Estimating background... Estimating background took 0.860908031464 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 1.08102583885 s Creating peak regions... Creating peak regions took 44.0170640945 s Estimating background... Estimating background took 0.955718040466 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.955420017242 s Creating peak regions... Creating peak regions took 43.0316331387 s Estimating background... Estimating background took 0.742639064789 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0676600933075 s Creating peak regions... Creating peak regions took 0.0573511123657 s Estimating background... Estimating background took 0.229002952576 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0286390781403 s Creating peak regions... Creating peak regions took 0.0201959609985 s Estimating background... Estimating background took 0.225619077682 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 1.05788588524 s Creating peak regions... Creating peak regions took 42.244781971 s Estimating background... Estimating background took 0.750518798828 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0242071151733 s Creating peak regions... Creating peak regions took 0.580417156219 s Estimating background... Estimating background took 0.230391025543 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.917495965958 s Creating peak regions... Creating peak regions took 38.9186551571 s Estimating background... Estimating background took 0.792359113693 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 1.07433819771 s Creating peak regions... Creating peak regions took 40.5279710293 s Estimating background... Estimating background took 0.871654033661 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.719069004059 s Creating peak regions... Creating peak regions took 33.9222259521 s Estimating background... Estimating background took 3.44952583313 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.73122382164 s Creating peak regions... Creating peak regions took 32.5378010273 s Estimating background... Estimating background took 0.773353099823 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0654129981995 s Creating peak regions... Creating peak regions took 0.0523679256439 s Estimating background... Estimating background took 0.248938798904 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0338740348816 s Creating peak regions... Creating peak regions took 0.04856300354 s Estimating background... Estimating background took 0.255941152573 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.034451007843 s Creating peak regions... Creating peak regions took 0.0271081924438 s Estimating background... Estimating background took 0.251491069794 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0336709022522 s Creating peak regions... Creating peak regions took 0.04225897789 s Estimating background... Estimating background took 0.261759996414 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0347340106964 s Creating peak regions... Creating peak regions took 0.0513210296631 s Estimating background... Estimating background took 0.263068914413 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0349779129028 s Creating peak regions... Creating peak regions took 0.0445940494537 s Estimating background... Estimating background took 0.240488052368 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0335209369659 s Creating peak regions... Creating peak regions took 0.0270419120789 s Estimating background... Estimating background took 0.261618852615 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0296440124512 s Creating peak regions... Creating peak regions took 0.0154089927673 s Estimating background... Estimating background took 0.258204936981 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0340411663055 s Creating peak regions... Creating peak regions took 0.0826690196991 s Estimating background... Estimating background took 0.260619163513 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0349400043488 s Creating peak regions... Creating peak regions took 0.0350480079651 s Estimating background... Estimating background took 0.262283086777 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0304470062256 s Creating peak regions... Creating peak regions took 0.0531148910522 s Estimating background... Estimating background took 0.260426044464 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0286881923676 s Creating peak regions... Creating peak regions took 0.0221581459045 s Estimating background... Estimating background took 0.263219833374 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0519499778748 s Creating peak regions... Creating peak regions took 0.0343680381775 s Estimating background... Estimating background took 0.260532140732 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.035336971283 s Creating peak regions... Creating peak regions took 0.0334339141846 s Estimating background... Estimating background took 0.261411905289 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0391838550568 s Creating peak regions... Creating peak regions took 0.0474319458008 s Estimating background... Estimating background took 0.294407129288 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0348660945892 s Creating peak regions... Creating peak regions took 0.0712180137634 s Estimating background... Estimating background took 0.261833906174 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.03498005867 s Creating peak regions... Creating peak regions took 0.0283620357513 s Estimating background... Estimating background took 0.261829853058 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0354630947113 s Creating peak regions... Creating peak regions took 0.0296990871429 s Estimating background... Estimating background took 0.261438846588 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0436499118805 s Creating peak regions... Creating peak regions took 0.193702936172 s Estimating background... Estimating background took 0.29768705368 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.540474891663 s Creating peak regions... Creating peak regions took 44.2559318542 s Estimating background... Estimating background took 0.361539125443 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0473518371582 s Creating peak regions... Creating peak regions took 0.218623876572 s Estimating background... Estimating background took 0.246119022369 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Reading data took 0.0335848331451 s Creating peak regions... Creating peak regions took 21.5729031563 s Estimating background... Estimating background took 0.257665157318 s Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data... Processing GATA1-G1E-ER4-0h-Rep1-GSM1689011.35mers.unique.bam Reading in data...