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/hg19/wgEncodeHg19ConsensusSignalArtifactRegions.bed', center6=0, chromnames='/oak/stanford/groups/akundaje/marinovg/genomes/hg19/female.hg19.chrom.sizes', e4='PeakXus', fastq='CTCF_ChIP-exo-rep2-GSM2098406/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='CTCF_ChIP-exo-rep2-GSM2098406/', 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 CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 11.873871088 s
Creating peak regions... Creating peak regions took 72.0402019024 s
Estimating background... Estimating background took 98.1343810558 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 9.59778094292 s
Creating peak regions... Creating peak regions took 79.7512359619 s
Estimating background... Estimating background took 56.991230011 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 10.37687397 s
Creating peak regions... Creating peak regions took 64.4387688637 s
Estimating background... Estimating background took 65.0142598152 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 5.9457051754 s
Creating peak regions... Creating peak regions took 54.4729120731 s
Estimating background... Estimating background took 30.4469079971 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 10.0302150249 s
Creating peak regions... Creating peak regions took 58.2553501129 s
Estimating background... Estimating background took 79.2501549721 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 8.68682098389 s
Creating peak regions... Creating peak regions took 56.556718111 s
Estimating background... Estimating background took 43.3768568039 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 8.32149910927 s
Creating peak regions... Creating peak regions took 60.5828590393 s
Estimating background... Estimating background took 53.9593482018 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 8.46582698822 s
Creating peak regions... Creating peak regions took 50.2961599827 s
Estimating background... Estimating background took 52.6866679192 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 8.61053991318 s
Creating peak regions... Creating peak regions took 49.0044240952 s
Estimating background... Estimating background took 52.3491590023 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 7.59535479546 s
Creating peak regions... Creating peak regions took 50.1411578655 s
Estimating background... Estimating background took 45.2459008694 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 8.7279510498 s
Creating peak regions... Creating peak regions took 60.1160478592 s
Estimating background... Estimating background took 57.9444417953 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 7.5770509243 s
Creating peak regions... Creating peak regions took 45.7578969002 s
Estimating background... Estimating background took 48.2248818874 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 4.82119488716 s
Creating peak regions... Creating peak regions took 36.9636149406 s
Estimating background... Estimating background took 20.3018910885 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 4.66876006126 s
Creating peak regions... Creating peak regions took 36.1373431683 s
Estimating background... Estimating background took 30.4550249577 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 5.65855002403 s
Creating peak regions... Creating peak regions took 32.0861241817 s
Estimating background... Estimating background took 39.6611008644 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 5.66153502464 s
Creating peak regions... Creating peak regions took 27.3393471241 s
Estimating background... Estimating background took 35.1039659977 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 5.4147400856 s
Creating peak regions... Creating peak regions took 30.0527029037 s
Estimating background... Estimating background took 36.6253359318 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 5.18447589874 s
Creating peak regions... Creating peak regions took 26.4596579075 s
Estimating background... Estimating background took 21.6289560795 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 3.71687102318 s
Creating peak regions... Creating peak regions took 19.2177360058 s
Estimating background... Estimating background took 27.5244500637 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 3.94742393494 s
Creating peak regions... Creating peak regions took 21.4403319359 s
Estimating background... Estimating background took 29.6848611832 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 2.57308506966 s
Creating peak regions... Creating peak regions took 15.7304990292 s
Estimating background... Estimating background took 14.2776811123 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 2.19225096703 s
Creating peak regions... Creating peak regions took 16.2718720436 s
Estimating background... Estimating background took 11.6934080124 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 5.36576890945 s
Creating peak regions... Creating peak regions took 44.5973629951 s
Estimating background... Estimating background took 31.811398983 s


Processing CTCF_ChIP-exo-rep2-GSM2098406/aligned.36mers.unique.bam
Reading in data... Reading data took 0.228638887405 s
Creating peak regions... Creating peak regions took 0.364710092545 s
Estimating background... Estimating background took 0.604523897171 s