## htsjdk.samtools.metrics.StringHeader
# MarkDuplicates --INPUT /project/scv/examples/bioinformatics/gatk/out/gatk_SRR062634_400_6400064/SRR062634-sort-rg.bam --OUTPUT /project/scv/examples/bioinformatics/gatk/out/gatk_SRR062634_400_6400064/SRR062634-sort-rg-dedup.bam --METRICS_FILE /project/scv/examples/bioinformatics/gatk/out/gatk_SRR062634_400_6400064/SRR062634-dedup-metric.txt --ASSUME_SORT_ORDER coordinate --CREATE_INDEX true --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 --ADD_PG_TAG_TO_READS true --REMOVE_DUPLICATES false --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 --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --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 07 13:01:53 EDT 2021

## 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
SRR062634	5	393	27	9	0	2	0	0.005057	38481

## HISTOGRAM	java.lang.Double
BIN	CoverageMult	all_sets	non_optical_sets
1.0	1	389	389
2.0	1.989839	2	2
3.0	2.969621	0	0
4.0	3.939447	0	0
5.0	4.899419	0	0
6.0	5.849636	0	0
7.0	6.790199	0	0
8.0	7.721205	0	0
9.0	8.642751	0	0
10.0	9.554933	0	0
11.0	10.457846	0	0
12.0	11.351586	0	0
13.0	12.236244	0	0
14.0	13.111913	0	0
15.0	13.978685	0	0
16.0	14.836649	0	0
17.0	15.685896	0	0
18.0	16.526514	0	0
19.0	17.35859	0	0
20.0	18.182212	0	0
21.0	18.997465	0	0
22.0	19.804435	0	0
23.0	20.603205	0	0
24.0	21.393858	0	0
25.0	22.176478	0	0
26.0	22.951146	0	0
27.0	23.717943	0	0
28.0	24.476948	0	0
29.0	25.228241	0	0
30.0	25.971901	0	0
31.0	26.708004	0	0
32.0	27.436628	0	0
33.0	28.157848	0	0
34.0	28.87174	0	0
35.0	29.578378	0	0
36.0	30.277837	0	0
37.0	30.970188	0	0
38.0	31.655504	0	0
39.0	32.333857	0	0
40.0	33.005317	0	0
41.0	33.669955	0	0
42.0	34.327839	0	0
43.0	34.979039	0	0
44.0	35.623622	0	0
45.0	36.261655	0	0
46.0	36.893206	0	0
47.0	37.518339	0	0
48.0	38.13712	0	0
49.0	38.749615	0	0
50.0	39.355885	0	0
51.0	39.955996	0	0
52.0	40.550008	0	0
53.0	41.137985	0	0
54.0	41.719988	0	0
55.0	42.296077	0	0
56.0	42.866313	0	0
57.0	43.430754	0	0
58.0	43.98946	0	0
59.0	44.54249	0	0
60.0	45.0899	0	0
61.0	45.631748	0	0
62.0	46.16809	0	0
63.0	46.698983	0	0
64.0	47.224481	0	0
65.0	47.744639	0	0
66.0	48.259513	0	0
67.0	48.769155	0	0
68.0	49.273618	0	0
69.0	49.772956	0	0
70.0	50.26722	0	0
71.0	50.756462	0	0
72.0	51.240733	0	0
73.0	51.720083	0	0
74.0	52.194562	0	0
75.0	52.664221	0	0
76.0	53.129107	0	0
77.0	53.58927	0	0
78.0	54.044757	0	0
79.0	54.495616	0	0
80.0	54.941893	0	0
81.0	55.383637	0	0
82.0	55.820891	0	0
83.0	56.253703	0	0
84.0	56.682117	0	0
85.0	57.106178	0	0
86.0	57.52593	0	0
87.0	57.941417	0	0
88.0	58.352683	0	0
89.0	58.75977	0	0
90.0	59.16272	0	0
91.0	59.561576	0	0
92.0	59.956379	0	0
93.0	60.347171	0	0
94.0	60.733992	0	0
95.0	61.116882	0	0
96.0	61.495882	0	0
97.0	61.871031	0	0
98.0	62.242368	0	0
99.0	62.609932	0	0
100.0	62.973762	0	0