## net.sf.picard.metrics.StringHeader
# net.sf.picard.sam.MarkDuplicates INPUT=[/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-KAS/L1524-Haloferax_volcanii_standing_rep1-KAS/L1524-Haloferax_volcanii_standing_rep1-KAS.2x36mers.a.bam] OUTPUT=/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-KAS/L1524-Haloferax_volcanii_standing_rep1-KAS/L1524-Haloferax_volcanii_standing_rep1-KAS.2x36mers.a.dedup.bam METRICS_FILE=/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-KAS/L1524-Haloferax_volcanii_standing_rep1-KAS/L1524-Haloferax_volcanii_standing_rep1-KAS.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	1035652	431072	0	186409	21962	0.179992	2776391

## HISTOGRAM	java.lang.Double
BIN	VALUE
1.0	1.01788
2.0	1.718843
3.0	2.201562
4.0	2.533987
5.0	2.762912
6.0	2.920561
7.0	3.029126
8.0	3.10389
9.0	3.155376
10.0	3.190832
11.0	3.215248
12.0	3.232063
13.0	3.243642
14.0	3.251616
15.0	3.257108
16.0	3.26089
17.0	3.263494
18.0	3.265287
19.0	3.266522
20.0	3.267373
21.0	3.267958
22.0	3.268362
23.0	3.26864
24.0	3.268831
25.0	3.268963
26.0	3.269053
27.0	3.269116
28.0	3.269159
29.0	3.269188
30.0	3.269209
31.0	3.269223
32.0	3.269233
33.0	3.269239
34.0	3.269244
35.0	3.269247
36.0	3.269249
37.0	3.269251
38.0	3.269252
39.0	3.269252
40.0	3.269253
41.0	3.269253
42.0	3.269253
43.0	3.269254
44.0	3.269254
45.0	3.269254
46.0	3.269254
47.0	3.269254
48.0	3.269254
49.0	3.269254
50.0	3.269254
51.0	3.269254
52.0	3.269254
53.0	3.269254
54.0	3.269254
55.0	3.269254
56.0	3.269254
57.0	3.269254
58.0	3.269254
59.0	3.269254
60.0	3.269254
61.0	3.269254
62.0	3.269254
63.0	3.269254
64.0	3.269254
65.0	3.269254
66.0	3.269254
67.0	3.269254
68.0	3.269254
69.0	3.269254
70.0	3.269254
71.0	3.269254
72.0	3.269254
73.0	3.269254
74.0	3.269254
75.0	3.269254
76.0	3.269254
77.0	3.269254
78.0	3.269254
79.0	3.269254
80.0	3.269254
81.0	3.269254
82.0	3.269254
83.0	3.269254
84.0	3.269254
85.0	3.269254
86.0	3.269254
87.0	3.269254
88.0	3.269254
89.0	3.269254
90.0	3.269254
91.0	3.269254
92.0	3.269254
93.0	3.269254
94.0	3.269254
95.0	3.269254
96.0	3.269254
97.0	3.269254
98.0	3.269254
99.0	3.269254
100.0	3.269254