## net.sf.picard.metrics.StringHeader
# net.sf.picard.sam.MarkDuplicates INPUT=[/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-KAS/L1529-Haloferax_volcanii_37C_rep2-KAS/L1529-Haloferax_volcanii_37C_rep2-KAS.2x36mers.a.bam] OUTPUT=/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-KAS/L1529-Haloferax_volcanii_37C_rep2-KAS/L1529-Haloferax_volcanii_37C_rep2-KAS.2x36mers.a.dedup.bam METRICS_FILE=/oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-KAS/L1529-Haloferax_volcanii_37C_rep2-KAS/L1529-Haloferax_volcanii_37C_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 03:21:11 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	3839026	330162	0	195183	47792	0.050842	47487502

## HISTOGRAM	java.lang.Double
BIN	VALUE
1.0	1.012103
2.0	1.945605
3.0	2.80661
4.0	3.600748
5.0	4.333212
6.0	5.008792
7.0	5.631906
8.0	6.206628
9.0	6.736716
10.0	7.225636
11.0	7.676587
12.0	8.092515
13.0	8.476143
14.0	8.829977
15.0	9.156332
16.0	9.457342
17.0	9.734975
18.0	9.991046
19.0	10.227231
20.0	10.445073
21.0	10.645998
22.0	10.831318
23.0	11.002246
24.0	11.1599
25.0	11.30531
26.0	11.439427
27.0	11.563128
28.0	11.677223
29.0	11.782457
30.0	11.879518
31.0	11.969042
32.0	12.051612
33.0	12.127771
34.0	12.198014
35.0	12.262803
36.0	12.32256
37.0	12.377676
38.0	12.428512
39.0	12.4754
40.0	12.518646
41.0	12.558534
42.0	12.595324
43.0	12.629257
44.0	12.660554
45.0	12.689421
46.0	12.716047
47.0	12.740604
48.0	12.763254
49.0	12.784145
50.0	12.803414
51.0	12.821187
52.0	12.837579
53.0	12.852698
54.0	12.866643
55.0	12.879505
56.0	12.891368
57.0	12.902309
58.0	12.912401
59.0	12.92171
60.0	12.930295
61.0	12.938214
62.0	12.945517
63.0	12.952254
64.0	12.958467
65.0	12.964198
66.0	12.969483
67.0	12.974358
68.0	12.978855
69.0	12.983002
70.0	12.986828
71.0	12.990356
72.0	12.99361
73.0	12.996611
74.0	12.99938
75.0	13.001933
76.0	13.004288
77.0	13.00646
78.0	13.008464
79.0	13.010312
80.0	13.012016
81.0	13.013588
82.0	13.015038
83.0	13.016375
84.0	13.017609
85.0	13.018747
86.0	13.019796
87.0	13.020764
88.0	13.021656
89.0	13.02248
90.0	13.023239
91.0	13.023939
92.0	13.024586
93.0	13.025181
94.0	13.025731
95.0	13.026238
96.0	13.026705
97.0	13.027137
98.0	13.027534
99.0	13.027901
100.0	13.02824