Mercurial > repos > devteam > picard

annotate test-data/picard_EstimateLibraryComplexity_test1.tab @ 15:00fe2ff64467 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/picard commit f65b40f4eb3c3431b8d9213f86238deebfd6bc29
author devteam
date Thu, 08 Dec 2016 06:43:38 -0500
parents 05087b27692a
children 5053a18d9bc8
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
5
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
1 ## htsjdk.samtools.metrics.StringHeader
12
05087b27692a planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/picard commit 7491208ca0c917a053798a48c3e54c3e30e95d92
devteam
parents: 5
diff changeset
2 # picard.sam.markduplicates.EstimateLibraryComplexity INPUT=[/tmp/tmpiSG3kJ/files/000/dataset_1.dat] OUTPUT=/tmp/tmpiSG3kJ/files/000/dataset_2.dat MIN_IDENTICAL_BASES=5 MAX_DIFF_RATE=0.03 MIN_MEAN_QUALITY=20 MAX_GROUP_RATIO=500 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 MAX_READ_LENGTH=0 MIN_GROUP_COUNT=2 COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=3098916 CREATE_INDEX=false CREATE_MD5_FILE=false GA4GH_CLIENT_SECRETS=client_secrets.json
5
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
3 ## htsjdk.samtools.metrics.StringHeader
12
05087b27692a planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/picard commit 7491208ca0c917a053798a48c3e54c3e30e95d92
devteam
parents: 5
diff changeset
4 # Started on: Sun Nov 27 10:17:54 CET 2016
5
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
5
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
6 ## METRICS CLASS picard.sam.DuplicationMetrics
12
05087b27692a planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/picard commit 7491208ca0c917a053798a48c3e54c3e30e95d92
devteam
parents: 5
diff changeset
7 LIBRARY UNPAIRED_READS_EXAMINED READ_PAIRS_EXAMINED SECONDARY_OR_SUPPLEMENTARY_RDS UNMAPPED_READS UNPAIRED_READ_DUPLICATES READ_PAIR_DUPLICATES READ_PAIR_OPTICAL_DUPLICATES PERCENT_DUPLICATION ESTIMATED_LIBRARY_SIZE
05087b27692a planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/picard commit 7491208ca0c917a053798a48c3e54c3e30e95d92
devteam
parents: 5
diff changeset
8 Unknown 0 982 0 0 0 116 0 0.118126 3822
5
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
9
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
10 ## HISTOGRAM java.lang.Integer
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
11 duplication_group_count Unknown
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
12 1 781
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
13 2 65
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
14 3 12
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
15 4 5
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
16 5 3
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
17 6 1
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
18