python ~/code/SAMstats.py all_libraries.merged.sorted.bam SAMstats-all_libraries.merged.sorted -bam ~/genomes/sacCer3/sacCer3.chrom.sizes ~/programs/samtools-0.1.18/samtools 
/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1034-Training_camp_4-HOG1-0min-rep1-ajberg5/L1034-Training_camp_4-HOG1-0min-rep1-ajberg5.190916_NB551514_0277_AHV3LKBGXB.end1.fastq.gz
/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1034-Training_camp_4-HOG1-0min-rep1-ajberg5/L1034-Training_camp_4-HOG1-0min-rep1-ajberg5.190916_NB551514_0277_AHV3LKBGXB.end2.fastq.gz
/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1035-Training_camp_5-YAP1-0min-rep2-annashch/L1035-Training_camp_5-YAP1-0min-rep2-annashch.190916_NB551514_0277_AHV3LKBGXB.end1.fastq.gz
/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1035-Training_camp_5-YAP1-0min-rep2-annashch/L1035-Training_camp_5-YAP1-0min-rep2-annashch.190916_NB551514_0277_AHV3LKBGXB.end2.fastq.gz
/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1037-Training_camp_7-MSN2-0min-rep2-annlin/L1037-Training_camp_7-MSN2-0min-rep2-annlin.190916_NB551514_0277_AHV3LKBGXB.end1.fastq.gz
/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1037-Training_camp_7-MSN2-0min-rep2-annlin/L1037-Training_camp_7-MSN2-0min-rep2-annlin.190916_NB551514_0277_AHV3LKBGXB.end2.fastq.gz
/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1040-Training_camp_10-MSN4-0min-rep2-clin5/L1040-Training_camp_10-MSN4-0min-rep2-clin5.190916_NB551514_0277_AHV3LKBGXB.end1.fastq.gz
/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1040-Training_camp_10-MSN4-0min-rep2-clin5/L1040-Training_camp_10-MSN4-0min-rep2-clin5.190916_NB551514_0277_AHV3LKBGXB.end2.fastq.gz
/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1042-Training_camp_12-YAP1-0min-rep1-courtrun/L1042-Training_camp_12-YAP1-0min-rep1-courtrun.190916_NB551514_0277_AHV3LKBGXB.end1.fastq.gz
/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1042-Training_camp_12-YAP1-0min-rep1-courtrun/L1042-Training_camp_12-YAP1-0min-rep1-courtrun.190916_NB551514_0277_AHV3LKBGXB.end2.fastq.gz
/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1043-Training_camp_13-MSN1-0min-rep2-cvduffy/L1043-Training_camp_13-MSN1-0min-rep2-cvduffy.190916_NB551514_0277_AHV3LKBGXB.end1.fastq.gz
/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1043-Training_camp_13-MSN1-0min-rep2-cvduffy/L1043-Training_camp_13-MSN1-0min-rep2-cvduffy.190916_NB551514_0277_AHV3LKBGXB.end2.fastq.gz
/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1045-Training_camp_15-WT-0min-rep1-genegra2/L1045-Training_camp_15-WT-0min-rep1-genegra2.190916_NB551514_0277_AHV3LKBGXB.end1.fastq.gz
/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1045-Training_camp_15-WT-0min-rep1-genegra2/L1045-Training_camp_15-WT-0min-rep1-genegra2.190916_NB551514_0277_AHV3LKBGXB.end2.fastq.gz
/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1048-Training_camp_18-SKN7-0min-rep2-jarhodes/L1048-Training_camp_18-SKN7-0min-rep2-jarhodes.190916_NB551514_0277_AHV3LKBGXB.end1.fastq.gz
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/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1052-Training_camp_22-SKN7-0min-rep1-makena/L1052-Training_camp_22-SKN7-0min-rep1-makena.190916_NB551514_0277_AHV3LKBGXB.end1.fastq.gz
/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1052-Training_camp_22-SKN7-0min-rep1-makena/L1052-Training_camp_22-SKN7-0min-rep1-makena.190916_NB551514_0277_AHV3LKBGXB.end2.fastq.gz
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/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1061-Training_camp_32-HOT1-0min-rep2-soumyak/L1061-Training_camp_32-HOT1-0min-rep2-soumyak.190916_NB551514_0277_AHV3LKBGXB.end1.fastq.gz
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/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1064-Training_camp_35-MSN2-0min-rep1-subkc/L1064-Training_camp_35-MSN2-0min-rep1-subkc.190916_NB551514_0277_AHV3LKBGXB.end1.fastq.gz
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/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1067-Training_camp_38-YAP7-0min-rep2-surag/L1067-Training_camp_38-YAP7-0min-rep2-surag.190916_NB551514_0277_AHV3LKBGXB.end1.fastq.gz
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/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L1068-Training_camp_39-YAP6-0min-rep2-zahoor/L1068-Training_camp_39-YAP6-0min-rep2-zahoor.190916_NB551514_0277_AHV3LKBGXB.end1.fastq.gz
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/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L394-Goddard_Page-Rtt109-YPD/L394-Goddard_Page-Rtt109-YPD.180909_NB551514_0023_AH5VFFBGX9.end1.fastq.gz
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/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ATAC/L402-Benjamin_Alyssa-Asf1-YPD/L402-Benjamin_Alyssa-Asf1-YPD.180909_NB551514_0023_AH5VFFBGX9.end1.fastq.gz
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