## htsjdk.samtools.metrics.StringHeader
# MarkDuplicates --INPUT H3K27ac_R1.target.filtered.sorted.bam --OUTPUT H3K27ac_R1.target.markdup.bam --METRICS_FILE H3K27ac_R1.target.markdup.MarkDuplicates.metrics.txt --REMOVE_DUPLICATES false --ASSUME_SORT_ORDER coordinate --TMP_DIR tmp --VALIDATION_STRINGENCY LENIENT --REFERENCE_SEQUENCE GCA_000001405.15_GRCh38_no_alt_plus_hs38d1_analysis_set.fna --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <optimized capture of last three ':' separated fields as numeric values> --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --GA4GH_CLIENT_SECRETS client_secrets.json --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
## htsjdk.samtools.metrics.StringHeader
# Started on: Fri May 26 22:03:58 GMT 2023

## METRICS CLASS	picard.sam.DuplicationMetrics
LIBRARY	UNPAIRED_READS_EXAMINED	READ_PAIRS_EXAMINED	SECONDARY_OR_SUPPLEMENTARY_RDS	UNMAPPED_READS	UNPAIRED_READ_DUPLICATES	READ_PAIR_DUPLICATES	READ_PAIR_OPTICAL_DUPLICATES	PERCENT_DUPLICATION	ESTIMATED_LIBRARY_SIZE
Unknown Library	0	13644545	0	0	0	454477	3000	0.033308	201519454

## HISTOGRAM	java.lang.Double
BIN	CoverageMult	all_sets	optical_sets	non_optical_sets
1.0	1.000213	12748440	0	12751150
2.0	1.934944	429168	2996	426738
3.0	2.808482	12086	2	11816
4.0	3.624832	365	0	355
5.0	4.387737	7	0	7
6.0	5.100698	0	0	0
7.0	5.766983	1	0	1
8.0	6.389649	0	0	0
9.0	6.97155	1	0	1
10.0	7.515356	0	0	0
11.0	8.023561	0	0	0
12.0	8.498495	0	0	0
13.0	8.942337	0	0	0
14.0	9.357122	0	0	0
15.0	9.744752	0	0	0
16.0	10.107005	0	0	0
17.0	10.445542	0	0	0
18.0	10.761916	0	0	0
19.0	11.057579	0	0	0
20.0	11.333885	0	0	0
21.0	11.592102	0	0	0
22.0	11.833415	0	0	0
23.0	12.058929	0	0	0
24.0	12.26968	0	0	0
25.0	12.466634	0	0	0
26.0	12.650693	0	0	0
27.0	12.822703	0	0	0
28.0	12.983452	0	0	0
29.0	13.133677	0	0	0
30.0	13.274067	0	0	0
31.0	13.405267	0	0	0
32.0	13.527877	0	0	0
33.0	13.64246	0	0	0
34.0	13.749542	0	0	0
35.0	13.849613	0	0	0
36.0	13.943133	0	0	0
37.0	14.030531	0	0	0
38.0	14.112207	0	0	0
39.0	14.188536	0	0	0
40.0	14.259868	0	0	0
41.0	14.32653	0	0	0
42.0	14.388827	0	0	0
43.0	14.447047	0	0	0
44.0	14.501455	0	0	0
45.0	14.552301	0	0	0
46.0	14.599818	0	0	0
47.0	14.644224	0	0	0
48.0	14.685724	0	0	0
49.0	14.724506	0	0	0
50.0	14.76075	0	0	0
51.0	14.79462	0	0	0
52.0	14.826274	0	0	0
53.0	14.855855	0	0	0
54.0	14.883499	0	0	0
55.0	14.909334	0	0	0
56.0	14.933477	0	0	0
57.0	14.95604	0	0	0
58.0	14.977126	0	0	0
59.0	14.996831	0	0	0
60.0	15.015246	0	0	0
61.0	15.032456	0	0	0
62.0	15.048539	0	0	0
63.0	15.063569	0	0	0
64.0	15.077615	0	0	0
65.0	15.090741	0	0	0
66.0	15.103009	0	0	0
67.0	15.114473	0	0	0
68.0	15.125186	0	0	0
69.0	15.135198	0	0	0
70.0	15.144555	0	0	0
71.0	15.153299	0	0	0
72.0	15.161471	0	0	0
73.0	15.169108	0	0	0
74.0	15.176244	0	0	0
75.0	15.182914	0	0	0
76.0	15.189147	0	0	0
77.0	15.194972	0	0	0
78.0	15.200415	0	0	0
79.0	15.205502	0	0	0
80.0	15.210257	0	0	0
81.0	15.214699	0	0	0
82.0	15.218851	0	0	0
83.0	15.222732	0	0	0
84.0	15.226358	0	0	0
85.0	15.229747	0	0	0
86.0	15.232914	0	0	0
87.0	15.235873	0	0	0
88.0	15.238639	0	0	0
89.0	15.241224	0	0	0
90.0	15.243639	0	0	0
91.0	15.245897	0	0	0
92.0	15.248006	0	0	0
93.0	15.249978	0	0	0
94.0	15.25182	0	0	0
95.0	15.253542	0	0	0
96.0	15.255151	0	0	0
97.0	15.256655	0	0	0
98.0	15.25806	0	0	0
99.0	15.259374	0	0	0
100.0	15.260601	0	0	0