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-rep1-GSM2098405/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-rep1-GSM2098405/', 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-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 13.5538790226 s
Creating peak regions... 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-rep1-GSM2098405/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-rep1-GSM2098405/', 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-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 16.6431450844 s
Creating peak regions... Creating peak regions took 75.4582099915 s
Estimating background... Estimating background took 137.155555964 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 13.2949149609 s
Creating peak regions... Creating peak regions took 87.3592858315 s
Estimating background... Estimating background took 77.4986150265 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 15.2803051472 s
Creating peak regions... Creating peak regions took 85.4177260399 s
Estimating background... Estimating background took 91.8367350101 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 8.78653717041 s
Creating peak regions... Creating peak regions took 73.0649709702 s
Estimating background... Estimating background took 42.8888399601 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 12.7539219856 s
Creating peak regions... Creating peak regions took 78.137169838 s
Estimating background... Estimating background took 111.77071619 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 9.52766489983 s
Creating peak regions... Creating peak regions took 60.3297021389 s
Estimating background... Estimating background took 60.7035009861 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 10.2799959183 s
Creating peak regions... Creating peak regions took 52.3980710506 s
Estimating background... Estimating background took 74.2890920639 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 9.97800302505 s
Creating peak regions... Creating peak regions took 54.141450882 s
Estimating background... Estimating background took 76.9950950146 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 9.59212899208 s
Creating peak regions... Creating peak regions took 62.8632318974 s
Estimating background... Estimating background took 71.8098120689 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 10.4846229553 s
Creating peak regions... Creating peak regions took 52.8565380573 s
Estimating background... Estimating background took 64.6550178528 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 12.5149400234 s
Creating peak regions... Creating peak regions took 53.9022510052 s
Estimating background... Estimating background took 85.9276819229 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 11.423208952 s
Creating peak regions... Creating peak regions took 53.961067915 s
Estimating background... Estimating background took 69.6621079445 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 5.54640412331 s
Creating peak regions... Creating peak regions took 39.2126209736 s
Estimating background... Estimating background took 27.7291119099 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 5.27259683609 s
Creating peak regions... Creating peak regions took 33.2360179424 s
Estimating background... Estimating background took 42.9094259739 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 8.33031201363 s
Creating peak regions... Creating peak regions took 43.6362309456 s
Estimating background... Estimating background took 58.6328527927 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 6.90080094337 s
Creating peak regions... Creating peak regions took 33.3230638504 s
Estimating background... Estimating background took 48.1290149689 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 7.03873610497 s
Creating peak regions... Creating peak regions took 31.2917780876 s
Estimating background... Estimating background took 44.9519889355 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 4.31470298767 s
Creating peak regions... Creating peak regions took 24.2959179878 s
Estimating background... Estimating background took 26.719769001 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 4.80107808113 s
Creating peak regions... Creating peak regions took 19.756870985 s
Estimating background... Estimating background took 36.8205001354 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 5.45619487762 s
Creating peak regions... Creating peak regions took 22.4594020844 s
Estimating background... Estimating background took 41.6294260025 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 3.5074338913 s
Creating peak regions... Creating peak regions took 20.5432400703 s
Estimating background... Estimating background took 18.112626791 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 2.55201816559 s
Creating peak regions... Creating peak regions took 15.6217169762 s
Estimating background... Estimating background took 18.0034520626 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 6.83224391937 s
Creating peak regions... Creating peak regions took 45.4806940556 s
Estimating background... Estimating background took 43.3113839626 s


Processing CTCF_ChIP-exo-rep1-GSM2098405/aligned.36mers.unique.bam
Reading in data... Reading data took 0.287506103516 s
Creating peak regions... Creating peak regions took 0.473420858383 s
Estimating background... Estimating background took 0.746617794037 s