Mercurial > repos > gbcs-embl-heidelberg > je_markdupes

comparison test-data/markdupes_metrics.txt @ 0:d39a96961423 draft

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Initial upload
author gbcs-embl-heidelberg
date Wed, 25 Nov 2015 12:36:12 -0500
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-1:000000000000 0:d39a96961423
1 ## htsjdk.samtools.metrics.StringHeader
2 # org.embl.gbcs.je.jeduplicates.MarkDuplicatesWithMolecularCode MISMATCHES=2 MAX_NUMBER_OF_N=1 BARCODE_FILE=/var/folders/cf/k7c5rjhj1sggk6x8z1jnw4b80000gp/T/tmp2n_ITx/files/000/dataset_5.dat SLOTS=[-1, -2] INPUT=[/var/folders/cf/k7c5rjhj1sggk6x8z1jnw4b80000gp/T/tmp2n_ITx/files/000/dataset_4.dat] OUTPUT=/var/folders/cf/k7c5rjhj1sggk6x8z1jnw4b80000gp/T/tmp2n_ITx/files/000/dataset_6.dat METRICS_FILE=/var/folders/cf/k7c5rjhj1sggk6x8z1jnw4b80000gp/T/tmp2n_ITx/files/000/dataset_7.dat COMMENT=[test-run] REMOVE_DUPLICATES=true ASSUME_SORTED=true DUPLICATE_SCORING_STRATEGY=SUM_OF_BASE_QUALITIES READ_NAME_REGEX=[a-zA-Z0-9]+:[0-9]:([0-9]+):([0-9]+):([0-9]+).*. OPTICAL_DUPLICATE_PIXEL_DISTANCE=100 VERBOSITY=ERROR QUIET=true VALIDATION_STRINGENCY=LENIENT SPLIT_CHAR=: TRIM_HEADERS=false MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP=50000 MAX_FILE_HANDLES_FOR_READ_ENDS_MAP=8000 SORTING_COLLECTION_SIZE_RATIO=0.25 PROGRAM_RECORD_ID=MarkDuplicates PROGRAM_GROUP_NAME=MarkDuplicatesWithMolecularCode COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false GA4GH_CLIENT_SECRETS=client_secrets.json
3 ## htsjdk.samtools.metrics.StringHeader
4 # Started on: Tue Nov 10 17:01:18 CET 2015
5
6 ## METRICS CLASS 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 Unknown Library 196 674 196 186 467 0 0.725389 216
9
10 ## HISTOGRAM java.lang.Double
11 BIN VALUE
12 1.0 0.997418
13 2.0 1.041445
14 3.0 1.043389
15 4.0 1.043474
16 5.0 1.043478
17 6.0 1.043478
18 7.0 1.043478
19 8.0 1.043478
20 9.0 1.043478
21 10.0 1.043478
22 11.0 1.043478
23 12.0 1.043478
24 13.0 1.043478
25 14.0 1.043478
26 15.0 1.043478
27 16.0 1.043478
28 17.0 1.043478
29 18.0 1.043478
30 19.0 1.043478
31 20.0 1.043478
32 21.0 1.043478
33 22.0 1.043478
34 23.0 1.043478
35 24.0 1.043478
36 25.0 1.043478
37 26.0 1.043478
38 27.0 1.043478
39 28.0 1.043478
40 29.0 1.043478
41 30.0 1.043478
42 31.0 1.043478
43 32.0 1.043478
44 33.0 1.043478
45 34.0 1.043478
46 35.0 1.043478
47 36.0 1.043478
48 37.0 1.043478
49 38.0 1.043478
50 39.0 1.043478
51 40.0 1.043478
52 41.0 1.043478
53 42.0 1.043478
54 43.0 1.043478
55 44.0 1.043478
56 45.0 1.043478
57 46.0 1.043478
58 47.0 1.043478
59 48.0 1.043478
60 49.0 1.043478
61 50.0 1.043478
62 51.0 1.043478
63 52.0 1.043478
64 53.0 1.043478
65 54.0 1.043478
66 55.0 1.043478
67 56.0 1.043478
68 57.0 1.043478
69 58.0 1.043478
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91 80.0 1.043478
92 81.0 1.043478
93 82.0 1.043478
94 83.0 1.043478
95 84.0 1.043478
96 85.0 1.043478
97 86.0 1.043478
98 87.0 1.043478
99 88.0 1.043478
100 89.0 1.043478
101 90.0 1.043478
102 91.0 1.043478
103 92.0 1.043478
104 93.0 1.043478
105 94.0 1.043478
106 95.0 1.043478
107 96.0 1.043478
108 97.0 1.043478
109 98.0 1.043478
110 99.0 1.043478
111 100.0 1.043478
112