## htsjdk.samtools.metrics.StringHeader
# MarkDuplicates --INPUT /Data/NGS_Data/2022-07-25-BGI/Result/P101/IRs/P101.primary.bam --OUTPUT /dev/stdout --METRICS_FILE /Data/NGS_Data/2022-07-25-BGI/Result/P101/P101.md_metrics.txt --REMOVE_DUPLICATES true --ASSUME_SORT_ORDER queryname --TMP_DIR /tmp/tmpeh8jitmi --VERBOSITY ERROR --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 --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 --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 2 --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: Thu Jul 28 23:02:38 NOVT 2022

## 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
L-001	3209	30805217	92881	26737	1877	2453131	0	0.07966	183007604

## HISTOGRAM	java.lang.Double
BIN	CoverageMult	all_sets	non_optical_sets
1.0	1	26108933	26108933
2.0	1.845077	2071201	2071201
3.0	2.559232	157780	157780
4.0	3.162748	12832	12832
5.0	3.672766	1042	1042
6.0	4.10377	108	108
7.0	4.468002	18	18
8.0	4.775805	9	9
9.0	5.035923	11	11
10.0	5.255743	10	10
11.0	5.441508	9	9
12.0	5.598493	10	10
13.0	5.731158	12	12
14.0	5.84327	8	8
15.0	5.938013	8	8
16.0	6.018078	3	3
17.0	6.085739	7	7
18.0	6.142918	8	8
19.0	6.191239	3	3
20.0	6.232074	6	6
21.0	6.266582	2	2
22.0	6.295745	1	1
23.0	6.320389	2	2
24.0	6.341215	0	0
25.0	6.358815	0	0
26.0	6.373689	1	1
27.0	6.386258	1	1
28.0	6.39688	0	0
29.0	6.405856	0	0
30.0	6.413441	1	1
31.0	6.419852	2	2
32.0	6.425269	0	0
33.0	6.429847	1	1
34.0	6.433716	0	0
35.0	6.436986	1	1
36.0	6.439748	0	0
37.0	6.442083	0	0
38.0	6.444056	1	1
39.0	6.445724	0	0
40.0	6.447133	1	1
41.0	6.448324	0	0
42.0	6.44933	1	1
43.0	6.450181	0	0
44.0	6.450899	0	0
45.0	6.451507	0	0
46.0	6.45202	1	1
47.0	6.452454	0	0
48.0	6.45282	2	2
49.0	6.45313	1	1
50.0	6.453392	2	2
51.0	6.453613	0	0
52.0	6.4538	1	1
53.0	6.453958	0	0
54.0	6.454091	0	0
55.0	6.454204	5	5
56.0	6.4543	1	1
57.0	6.45438	0	0
58.0	6.454448	1	1
59.0	6.454506	0	0
60.0	6.454554	3	3
61.0	6.454596	0	0
62.0	6.45463	1	1
63.0	6.45466	0	0
64.0	6.454684	0	0
65.0	6.454705	2	2
66.0	6.454723	0	0
67.0	6.454738	0	0
68.0	6.454751	0	0
69.0	6.454761	0	0
70.0	6.45477	1	1
71.0	6.454778	0	0
72.0	6.454785	1	1
73.0	6.45479	0	0
74.0	6.454795	0	0
75.0	6.454798	0	0
76.0	6.454802	0	0
77.0	6.454805	0	0
78.0	6.454807	0	0
79.0	6.454809	1	1
80.0	6.454811	0	0
81.0	6.454812	0	0
82.0	6.454813	0	0
83.0	6.454814	0	0
84.0	6.454815	0	0
85.0	6.454816	0	0
86.0	6.454816	0	0
87.0	6.454817	0	0
88.0	6.454817	0	0
89.0	6.454818	0	0
90.0	6.454818	1	1
91.0	6.454818	0	0
92.0	6.454819	0	0
93.0	6.454819	0	0
94.0	6.454819	0	0
95.0	6.454819	0	0
96.0	6.454819	0	0
97.0	6.454819	0	0
98.0	6.454819	0	0
99.0	6.454819	0	0
100.0	6.454819	0	0
106.0	0	1	1
107.0	0	1	1
117.0	0	1	1
118.0	0	1	1
121.0	0	1	1
122.0	0	1	1
130.0	0	1	1
140.0	0	1	1
144.0	0	1	1
152.0	0	1	1
168.0	0	1	1
173.0	0	1	1
255.0	0	1	1
303.0	0	1	1
400.0	0	1	1
406.0	0	1	1
417.0	0	1	1
437.0	0	2	2
478.0	0	1	1
479.0	0	1	1
508.0	0	1	1
634.0	0	1	1
963.0	0	1	1
1063.0	0	1	1
1111.0	0	1	1
2370.0	0	1	1
3611.0	0	1	1
4536.0	0	1	1