## htsjdk.samtools.metrics.StringHeader
# picard.sam.markduplicates.MarkDuplicates INPUT=[/home/rceprian/tutorial_VariantSeq/05_addreplacegroups/picardAddReplaceReadGroups/CAN3_R.bam] OUTPUT=/home/rceprian/tutorial_VariantSeq/06_MarkDuplicates/picardMarkDuplicates/CAN3_R.bam METRICS_FILE=/home/rceprian/tutorial_VariantSeq/06_MarkDuplicates/picardMarkDuplicates/CAN3_R.metrics.txt VALIDATION_STRINGENCY=LENIENT 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 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 VERBOSITY=INFO QUIET=false COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_MD5_FILE=false GA4GH_CLIENT_SECRETS=client_secrets.json
## htsjdk.samtools.metrics.StringHeader
# Started on: Mon Feb 21 10:31:38 CET 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
CAN3_R	46144	31851307	1627645	52494	29851	13620600	43453	0.42779	25658175

## HISTOGRAM	java.lang.Double
BIN	VALUE
1.0	1.000689
2.0	1.289876
3.0	1.373448
4.0	1.397599
5.0	1.404579
6.0	1.406595
7.0	1.407178
8.0	1.407347
9.0	1.407395
10.0	1.40741
11.0	1.407414
12.0	1.407415
13.0	1.407415
14.0	1.407415
15.0	1.407415
16.0	1.407415
17.0	1.407415
18.0	1.407415
19.0	1.407415
20.0	1.407415
21.0	1.407415
22.0	1.407415
23.0	1.407415
24.0	1.407415
25.0	1.407415
26.0	1.407415
27.0	1.407415
28.0	1.407415
29.0	1.407415
30.0	1.407415
31.0	1.407415
32.0	1.407415
33.0	1.407415
34.0	1.407415
35.0	1.407415
36.0	1.407415
37.0	1.407415
38.0	1.407415
39.0	1.407415
40.0	1.407415
41.0	1.407415
42.0	1.407415
43.0	1.407415
44.0	1.407415
45.0	1.407415
46.0	1.407415
47.0	1.407415
48.0	1.407415
49.0	1.407415
50.0	1.407415
51.0	1.407415
52.0	1.407415
53.0	1.407415
54.0	1.407415
55.0	1.407415
56.0	1.407415
57.0	1.407415
58.0	1.407415
59.0	1.407415
60.0	1.407415
61.0	1.407415
62.0	1.407415
63.0	1.407415
64.0	1.407415
65.0	1.407415
66.0	1.407415
67.0	1.407415
68.0	1.407415
69.0	1.407415
70.0	1.407415
71.0	1.407415
72.0	1.407415
73.0	1.407415
74.0	1.407415
75.0	1.407415
76.0	1.407415
77.0	1.407415
78.0	1.407415
79.0	1.407415
80.0	1.407415
81.0	1.407415
82.0	1.407415
83.0	1.407415
84.0	1.407415
85.0	1.407415
86.0	1.407415
87.0	1.407415
88.0	1.407415
89.0	1.407415
90.0	1.407415
91.0	1.407415
92.0	1.407415
93.0	1.407415
94.0	1.407415
95.0	1.407415
96.0	1.407415
97.0	1.407415
98.0	1.407415
99.0	1.407415
100.0	1.407415