## net.sf.picard.metrics.StringHeader
# net.sf.picard.sam.MarkDuplicates INPUT=[/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-KAS/L1525-Haloferax_volcanii_standing_rep2-KAS/L1525-Haloferax_volcanii_standing_rep2-KAS.2x36mers.a.bam] OUTPUT=/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-KAS/L1525-Haloferax_volcanii_standing_rep2-KAS/L1525-Haloferax_volcanii_standing_rep2-KAS.2x36mers.a.dedup.bam METRICS_FILE=/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-KAS/L1525-Haloferax_volcanii_standing_rep2-KAS/L1525-Haloferax_volcanii_standing_rep2-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	9198529	1943498	0	995221	158507	0.108193	45772813

## HISTOGRAM	java.lang.Double
BIN	VALUE
1.0	1.015832
2.0	1.846726
3.0	2.526352
4.0	3.082248
5.0	3.536941
6.0	3.908854
7.0	4.213058
8.0	4.461881
9.0	4.665404
10.0	4.831874
11.0	4.968038
12.0	5.079412
13.0	5.170511
14.0	5.245024
15.0	5.305971
16.0	5.355823
17.0	5.396599
18.0	5.429952
19.0	5.457232
20.0	5.479546
21.0	5.497798
22.0	5.512727
23.0	5.524938
24.0	5.534926
25.0	5.543095
26.0	5.549777
27.0	5.555243
28.0	5.559714
29.0	5.56337
30.0	5.566361
31.0	5.568808
32.0	5.570809
33.0	5.572446
34.0	5.573784
35.0	5.574879
36.0	5.575775
37.0	5.576508
38.0	5.577107
39.0	5.577597
40.0	5.577998
41.0	5.578326
42.0	5.578594
43.0	5.578814
44.0	5.578993
45.0	5.57914
46.0	5.57926
47.0	5.579358
48.0	5.579439
49.0	5.579504
50.0	5.579558
51.0	5.579602
52.0	5.579638
53.0	5.579667
54.0	5.579691
55.0	5.579711
56.0	5.579727
57.0	5.57974
58.0	5.579751
59.0	5.57976
60.0	5.579767
61.0	5.579773
62.0	5.579778
63.0	5.579782
64.0	5.579785
65.0	5.579788
66.0	5.57979
67.0	5.579791
68.0	5.579793
69.0	5.579794
70.0	5.579795
71.0	5.579796
72.0	5.579796
73.0	5.579797
74.0	5.579797
75.0	5.579798
76.0	5.579798
77.0	5.579798
78.0	5.579799
79.0	5.579799
80.0	5.579799
81.0	5.579799
82.0	5.579799
83.0	5.579799
84.0	5.579799
85.0	5.579799
86.0	5.579799
87.0	5.579799
88.0	5.579799
89.0	5.579799
90.0	5.579799
91.0	5.579799
92.0	5.579799
93.0	5.579799
94.0	5.579799
95.0	5.579799
96.0	5.579799
97.0	5.579799
98.0	5.579799
99.0	5.579799
100.0	5.579799