## net.sf.picard.metrics.StringHeader
# net.sf.picard.sam.MarkDuplicates INPUT=[/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-KAS/L1212-Haloferax-KAS-standing_culture/L1212-Haloferax-KAS-standing_culture.2x36mers.a.bam] OUTPUT=/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-KAS/L1212-Haloferax-KAS-standing_culture/L1212-Haloferax-KAS-standing_culture.2x36mers.a.dedup.bam METRICS_FILE=/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-KAS/L1212-Haloferax-KAS-standing_culture/L1212-Haloferax-KAS-standing_culture.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 03:21:05 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	6396973	1607906	0	986867	116334	0.154271	20510626

## HISTOGRAM	java.lang.Double
BIN	VALUE
1.0	1.015786
2.0	1.759408
3.0	2.303788
4.0	2.702309
5.0	2.994053
6.0	3.207628
7.0	3.363979
8.0	3.478438
9.0	3.56223
10.0	3.62357
11.0	3.668476
12.0	3.70135
13.0	3.725415
14.0	3.743033
15.0	3.75593
16.0	3.765372
17.0	3.772284
18.0	3.777344
19.0	3.781048
20.0	3.78376
21.0	3.785745
22.0	3.787198
23.0	3.788262
24.0	3.789041
25.0	3.789611
26.0	3.790029
27.0	3.790334
28.0	3.790558
29.0	3.790722
30.0	3.790841
31.0	3.790929
32.0	3.790993
33.0	3.79104
34.0	3.791075
35.0	3.7911
36.0	3.791119
37.0	3.791132
38.0	3.791142
39.0	3.791149
40.0	3.791154
41.0	3.791158
42.0	3.791161
43.0	3.791163
44.0	3.791165
45.0	3.791166
46.0	3.791167
47.0	3.791167
48.0	3.791168
49.0	3.791168
50.0	3.791168
51.0	3.791169
52.0	3.791169
53.0	3.791169
54.0	3.791169
55.0	3.791169
56.0	3.791169
57.0	3.791169
58.0	3.791169
59.0	3.791169
60.0	3.791169
61.0	3.791169
62.0	3.791169
63.0	3.791169
64.0	3.791169
65.0	3.791169
66.0	3.791169
67.0	3.791169
68.0	3.791169
69.0	3.791169
70.0	3.791169
71.0	3.791169
72.0	3.791169
73.0	3.791169
74.0	3.791169
75.0	3.791169
76.0	3.791169
77.0	3.791169
78.0	3.791169
79.0	3.791169
80.0	3.791169
81.0	3.791169
82.0	3.791169
83.0	3.791169
84.0	3.791169
85.0	3.791169
86.0	3.791169
87.0	3.791169
88.0	3.791169
89.0	3.791169
90.0	3.791169
91.0	3.791169
92.0	3.791169
93.0	3.791169
94.0	3.791169
95.0	3.791169
96.0	3.791169
97.0	3.791169
98.0	3.791169
99.0	3.791169
100.0	3.791169