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comparison test-data/picard_MD_output1.txt @ 0:1cd7f3b42609

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author devteam
date Tue, 23 Oct 2012 13:14:29 -0400
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-1:000000000000 0:1cd7f3b42609
1 ## net.sf.picard.metrics.StringHeader
2 # net.sf.picard.sam.MarkDuplicates INPUT=picard_input_tiny_coord.bam OUTPUT=picard_MD_output2.bam METRICS_FILE=picard_MD_output1.txt REMOVE_DUPLICATES=false ASSUME_SORTED=true READ_NAME_REGEX=[a-zA-Z0-9]+:[0-9]:([0-9]+):([0-9]+):([0-9]+).* OPTICAL_DUPLICATE_PIXEL_DISTANCE=100 VALIDATION_STRINGENCY=LENIENT MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP=50000 MAX_FILE_HANDLES_FOR_READ_ENDS_MAP=8000 TMP_DIR=/tmp/kpvincent VERBOSITY=INFO QUIET=false COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false
3 ## net.sf.picard.metrics.StringHeader
4 # Started on: Tue Apr 19 15:28:21 EDT 2011
5
6 ## METRICS CLASS net.sf.picard.sam.DuplicationMetrics
7 LIBRARY UNPAIRED_READS_EXAMINED READ_PAIRS_EXAMINED UNMAPPED_READS UNPAIRED_READ_DUPLICATES READ_PAIR_DUPLICATES READ_PAIR_OPTICAL_DUPLICATES PERCENT_DUPLICATION ESTIMATED_LIBRARY_SIZE
8 1 3 1 1 1 0 0.428571 3
9
10 ## HISTOGRAM java.lang.Double
11 BIN VALUE
12 1.0 0.948181
13 2.0 1.296997
14 3.0 1.425319
15 4.0 1.472527
16 5.0 1.489893
17 6.0 1.496282
18 7.0 1.498632
19 8.0 1.499497
20 9.0 1.499815
21 10.0 1.499932
22 11.0 1.499975
23 12.0 1.499991
24 13.0 1.499997
25 14.0 1.499999
26 15.0 1.5
27 16.0 1.5
28 17.0 1.5
29 18.0 1.5
30 19.0 1.5
31 20.0 1.5
32 21.0 1.5
33 22.0 1.5
34 23.0 1.5
35 24.0 1.5
36 25.0 1.5
37 26.0 1.5
38 27.0 1.5
39 28.0 1.5
40 29.0 1.5
41 30.0 1.5
42 31.0 1.5
43 32.0 1.5
44 33.0 1.5
45 34.0 1.5
46 35.0 1.5
47 36.0 1.5
48 37.0 1.5
49 38.0 1.5
50 39.0 1.5
51 40.0 1.5
52 41.0 1.5
53 42.0 1.5
54 43.0 1.5
55 44.0 1.5
56 45.0 1.5
57 46.0 1.5
58 47.0 1.5
59 48.0 1.5
60 49.0 1.5
61 50.0 1.5
62 51.0 1.5
63 52.0 1.5
64 53.0 1.5
65 54.0 1.5
66 55.0 1.5
67 56.0 1.5
68 57.0 1.5
69 58.0 1.5
70 59.0 1.5
71 60.0 1.5
72 61.0 1.5
73 62.0 1.5
74 63.0 1.5
75 64.0 1.5
76 65.0 1.5
77 66.0 1.5
78 67.0 1.5
79 68.0 1.5
80 69.0 1.5
81 70.0 1.5
82 71.0 1.5
83 72.0 1.5
84 73.0 1.5
85 74.0 1.5
86 75.0 1.5
87 76.0 1.5
88 77.0 1.5
89 78.0 1.5
90 79.0 1.5
91 80.0 1.5
92 81.0 1.5
93 82.0 1.5
94 83.0 1.5
95 84.0 1.5
96 85.0 1.5
97 86.0 1.5
98 87.0 1.5
99 88.0 1.5
100 89.0 1.5
101 90.0 1.5
102 91.0 1.5
103 92.0 1.5
104 93.0 1.5
105 94.0 1.5
106 95.0 1.5
107 96.0 1.5
108 97.0 1.5
109 98.0 1.5
110 99.0 1.5
111 100.0 1.5
112