## htsjdk.samtools.metrics.StringHeader
# MarkDuplicates MAX_FILE_HANDLES_FOR_READ_ENDS_MAP=1048576 INPUT=[unique.bam] OUTPUT=sampleB/bam/markDups.bam METRICS_FILE=sampleB/duplicates.txt TMP_DIR=[tmp] VALIDATION_STRINGENCY=LENIENT    MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP=50000 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 COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false GA4GH_CLIENT_SECRETS=client_secrets.json USE_JDK_DEFLATER=false USE_JDK_INFLATER=false
## htsjdk.samtools.metrics.StringHeader
# Started on: Wed Jul 20 10:17:12 PDT 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
Unknown Library	10	1447275	0	0	1	92	0	0.000064	11383239995

## HISTOGRAM	java.lang.Double
BIN	CoverageMult	all_sets	non_optical_sets
1.0	1	1435680	1435680
2.0	1.999873	92	92
3.0	2.999619	0	0
4.0	3.999237	0	0
5.0	4.998729	0	0
6.0	5.998093	0	0
7.0	6.997331	0	0
8.0	7.996441	0	0
9.0	8.995425	0	0
10.0	9.994281	0	0
11.0	10.99301	0	0
12.0	11.991613	0	0
13.0	12.990088	0	0
14.0	13.988437	0	0
15.0	14.986658	0	0
16.0	15.984753	0	0
17.0	16.982721	0	0
18.0	17.980562	0	0
19.0	18.978276	0	0
20.0	19.975863	0	0
21.0	20.973324	0	0
22.0	21.970657	0	0
23.0	22.967864	0	0
24.0	23.964944	0	0
25.0	24.961897	0	0
26.0	25.958724	0	0
27.0	26.955424	0	0
28.0	27.951997	0	0
29.0	28.948443	0	0
30.0	29.944763	0	0
31.0	30.940956	0	0
32.0	31.937022	0	0
33.0	32.932962	0	0
34.0	33.928775	0	0
35.0	34.924462	0	0
36.0	35.920022	0	0
37.0	36.915455	0	0
38.0	37.910762	0	0
39.0	38.905942	0	0
40.0	39.900996	0	0
41.0	40.895923	0	0
42.0	41.890724	0	0
43.0	42.885398	0	0
44.0	43.879946	0	0
45.0	44.874368	0	0
46.0	45.868663	0	0
47.0	46.862831	0	0
48.0	47.856873	0	0
49.0	48.850789	0	0
50.0	49.844579	0	0
51.0	50.838242	0	0
52.0	51.831779	0	0
53.0	52.825189	0	0
54.0	53.818473	0	0
55.0	54.811631	0	0
56.0	55.804663	0	0
57.0	56.797568	0	0
58.0	57.790347	0	0
59.0	58.783	0	0
60.0	59.775527	0	0
61.0	60.767928	0	0
62.0	61.760202	0	0
63.0	62.75235	0	0
64.0	63.744372	0	0
65.0	64.736268	0	0
66.0	65.728038	0	0
67.0	66.719682	0	0
68.0	67.7112	0	0
69.0	68.702592	0	0
70.0	69.693857	0	0
71.0	70.684997	0	0
72.0	71.67601	0	0
73.0	72.666898	0	0
74.0	73.65766	0	0
75.0	74.648295	0	0
76.0	75.638805	0	0
77.0	76.629189	0	0
78.0	77.619447	0	0
79.0	78.609579	0	0
80.0	79.599585	0	0
81.0	80.589465	0	0
82.0	81.57922	0	0
83.0	82.568848	0	0
84.0	83.558351	0	0
85.0	84.547728	0	0
86.0	85.536979	0	0
87.0	86.526105	0	0
88.0	87.515105	0	0
89.0	88.503979	0	0
90.0	89.492727	0	0
91.0	90.481349	0	0
92.0	91.469846	0	0
93.0	92.458217	0	0
94.0	93.446463	0	0
95.0	94.434583	0	0
96.0	95.422577	0	0
97.0	96.410446	0	0
98.0	97.398189	0	0
99.0	98.385806	0	0
100.0	99.373298	0	0