## net.sf.picard.metrics.StringHeader
# net.sf.picard.sam.MarkDuplicates INPUT=[/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-KAS/L1691-Haloferax_volcanii_standing/L1691-Haloferax_volcanii_standing.2x36mers.a.bam] OUTPUT=/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-KAS/L1691-Haloferax_volcanii_standing/L1691-Haloferax_volcanii_standing.2x36mers.a.dedup.bam METRICS_FILE=/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-KAS/L1691-Haloferax_volcanii_standing/L1691-Haloferax_volcanii_standing.2x36mers.a.dedup.metric REMOVE_DUPLICATES=true ASSUME_SORTED=true VALIDATION_STRINGENCY=LENIENT    PROGRAM_RECORD_ID=MarkDuplicates PROGRAM_GROUP_NAME=MarkDuplicates MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP=50000 MAX_FILE_HANDLES_FOR_READ_ENDS_MAP=8000 SORTING_COLLECTION_SIZE_RATIO=0.25 READ_NAME_REGEX=[a-zA-Z0-9]+:[0-9]:([0-9]+):([0-9]+):([0-9]+).* OPTICAL_DUPLICATE_PIXEL_DISTANCE=100 VERBOSITY=INFO QUIET=false COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false
## net.sf.picard.metrics.StringHeader
# Started on: Sat Jun 25 03:21:25 PDT 2022

## METRICS CLASS	net.sf.picard.sam.DuplicationMetrics
LIBRARY	UNPAIRED_READS_EXAMINED	READ_PAIRS_EXAMINED	UNMAPPED_READS	UNPAIRED_READ_DUPLICATES	READ_PAIR_DUPLICATES	READ_PAIR_OPTICAL_DUPLICATES	PERCENT_DUPLICATION	ESTIMATED_LIBRARY_SIZE
Unknown Library	0	3056353	741578	0	2356979	294536	0.771174	714328

## HISTOGRAM	java.lang.Double
BIN	VALUE
1.0	1.007224
2.0	1.021186
3.0	1.021379
4.0	1.021382
5.0	1.021382
6.0	1.021382
7.0	1.021382
8.0	1.021382
9.0	1.021382
10.0	1.021382
11.0	1.021382
12.0	1.021382
13.0	1.021382
14.0	1.021382
15.0	1.021382
16.0	1.021382
17.0	1.021382
18.0	1.021382
19.0	1.021382
20.0	1.021382
21.0	1.021382
22.0	1.021382
23.0	1.021382
24.0	1.021382
25.0	1.021382
26.0	1.021382
27.0	1.021382
28.0	1.021382
29.0	1.021382
30.0	1.021382
31.0	1.021382
32.0	1.021382
33.0	1.021382
34.0	1.021382
35.0	1.021382
36.0	1.021382
37.0	1.021382
38.0	1.021382
39.0	1.021382
40.0	1.021382
41.0	1.021382
42.0	1.021382
43.0	1.021382
44.0	1.021382
45.0	1.021382
46.0	1.021382
47.0	1.021382
48.0	1.021382
49.0	1.021382
50.0	1.021382
51.0	1.021382
52.0	1.021382
53.0	1.021382
54.0	1.021382
55.0	1.021382
56.0	1.021382
57.0	1.021382
58.0	1.021382
59.0	1.021382
60.0	1.021382
61.0	1.021382
62.0	1.021382
63.0	1.021382
64.0	1.021382
65.0	1.021382
66.0	1.021382
67.0	1.021382
68.0	1.021382
69.0	1.021382
70.0	1.021382
71.0	1.021382
72.0	1.021382
73.0	1.021382
74.0	1.021382
75.0	1.021382
76.0	1.021382
77.0	1.021382
78.0	1.021382
79.0	1.021382
80.0	1.021382
81.0	1.021382
82.0	1.021382
83.0	1.021382
84.0	1.021382
85.0	1.021382
86.0	1.021382
87.0	1.021382
88.0	1.021382
89.0	1.021382
90.0	1.021382
91.0	1.021382
92.0	1.021382
93.0	1.021382
94.0	1.021382
95.0	1.021382
96.0	1.021382
97.0	1.021382
98.0	1.021382
99.0	1.021382
100.0	1.021382