## htsjdk.samtools.metrics.StringHeader
# MarkDuplicates --INPUT /dreamworld/ngs_data/NIPT/N40/IRs/N40.primary.bam --OUTPUT /dev/stdout --METRICS_FILE /dreamworld/ngs_data/NIPT/N40/N40.md_metrics.txt --REMOVE_DUPLICATES true --ASSUME_SORT_ORDER queryname --TMP_DIR /tmp/tmpchr7qe_l --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: Fri Sep 09 20:25:33 KRAT 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
LIB-N40-003	2236	660691	9596	7352	652	136060	13738	0.206081	1487613

## HISTOGRAM	java.lang.Double
BIN	CoverageMult	all_sets	optical_sets	non_optical_sets
1.0	1.016873	411861	0	420874
2.0	1.669078	93255	12866	87873
3.0	2.087392	16375	402	13620
4.0	2.355691	2632	20	1936
5.0	2.527773	417	2	269
6.0	2.638144	69	0	43
7.0	2.708934	13	0	7
8.0	2.754338	6	0	6
9.0	2.783459	2	0	2
10.0	2.802137	0	0	0
11.0	2.814116	1	0	1
12.0	2.8218	0	0	0
13.0	2.826728	0	0	0
14.0	2.829889	0	0	0
15.0	2.831916	0	0	0
16.0	2.833216	0	0	0
17.0	2.83405	0	0	0
18.0	2.834585	0	0	0
19.0	2.834928	0	0	0
20.0	2.835148	0	0	0
21.0	2.835289	0	0	0
22.0	2.83538	0	0	0
23.0	2.835438	0	0	0
24.0	2.835475	0	0	0
25.0	2.835499	0	0	0
26.0	2.835514	0	0	0
27.0	2.835524	0	0	0
28.0	2.83553	0	0	0
29.0	2.835534	0	0	0
30.0	2.835537	0	0	0
31.0	2.835539	0	0	0
32.0	2.83554	0	0	0
33.0	2.83554	0	0	0
34.0	2.835541	0	0	0
35.0	2.835541	0	0	0
36.0	2.835541	0	0	0
37.0	2.835541	0	0	0
38.0	2.835541	0	0	0
39.0	2.835541	0	0	0
40.0	2.835541	0	0	0
41.0	2.835542	0	0	0
42.0	2.835542	0	0	0
43.0	2.835542	0	0	0
44.0	2.835542	0	0	0
45.0	2.835542	0	0	0
46.0	2.835542	0	0	0
47.0	2.835542	0	0	0
48.0	2.835542	0	0	0
49.0	2.835542	0	0	0
50.0	2.835542	0	0	0
51.0	2.835542	0	0	0
52.0	2.835542	0	0	0
53.0	2.835542	0	0	0
54.0	2.835542	0	0	0
55.0	2.835542	0	0	0
56.0	2.835542	0	0	0
57.0	2.835542	0	0	0
58.0	2.835542	0	0	0
59.0	2.835542	0	0	0
60.0	2.835542	0	0	0
61.0	2.835542	0	0	0
62.0	2.835542	0	0	0
63.0	2.835542	0	0	0
64.0	2.835542	0	0	0
65.0	2.835542	0	0	0
66.0	2.835542	0	0	0
67.0	2.835542	0	0	0
68.0	2.835542	0	0	0
69.0	2.835542	0	0	0
70.0	2.835542	0	0	0
71.0	2.835542	0	0	0
72.0	2.835542	0	0	0
73.0	2.835542	0	0	0
74.0	2.835542	0	0	0
75.0	2.835542	0	0	0
76.0	2.835542	0	0	0
77.0	2.835542	0	0	0
78.0	2.835542	0	0	0
79.0	2.835542	0	0	0
80.0	2.835542	0	0	0
81.0	2.835542	0	0	0
82.0	2.835542	0	0	0
83.0	2.835542	0	0	0
84.0	2.835542	0	0	0
85.0	2.835542	0	0	0
86.0	2.835542	0	0	0
87.0	2.835542	0	0	0
88.0	2.835542	0	0	0
89.0	2.835542	0	0	0
90.0	2.835542	0	0	0
91.0	2.835542	0	0	0
92.0	2.835542	0	0	0
93.0	2.835542	0	0	0
94.0	2.835542	0	0	0
95.0	2.835542	0	0	0
96.0	2.835542	0	0	0
97.0	2.835542	0	0	0
98.0	2.835542	0	0	0
99.0	2.835542	0	0	0
100.0	2.835542	0	0	0