Mercurial > repos > devteam > picard
comparison picard_FilterSamReads.xml @ 28:c943f4a04af0 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 285fab1660daa944d6833ae1e059b30cb1e88309
author | iuc |
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date | Mon, 25 Sep 2023 08:31:14 +0000 |
parents | a5a13ea16d17 |
children |
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27:fdca9493e09b | 28:c943f4a04af0 |
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16 OUTPUT=query_sorted_bam.bam | 16 OUTPUT=query_sorted_bam.bam |
17 SORT_ORDER=queryname | 17 SORT_ORDER=queryname |
18 VALIDATION_STRINGENCY=LENIENT | 18 VALIDATION_STRINGENCY=LENIENT |
19 QUIET=true | 19 QUIET=true |
20 VERBOSITY=ERROR | 20 VERBOSITY=ERROR |
21 @TMPDIR_OPTION@ | |
22 | 21 |
23 && | 22 && |
24 | 23 |
25 picard | 24 picard |
26 FilterSamReads | 25 FilterSamReads |
34 OUTPUT="${outFile}" | 33 OUTPUT="${outFile}" |
35 SORT_ORDER=coordinate | 34 SORT_ORDER=coordinate |
36 VALIDATION_STRINGENCY="${validation_stringency}" | 35 VALIDATION_STRINGENCY="${validation_stringency}" |
37 QUIET=true | 36 QUIET=true |
38 VERBOSITY=ERROR | 37 VERBOSITY=ERROR |
39 @TMPDIR_OPTION@ | |
40 | 38 |
41 ]]></command> | 39 ]]></command> |
42 <inputs> | 40 <inputs> |
43 <param name="inputFile" type="data" format="sam,bam" label="Select SAM/BAM dataset or dataset collection" help="If empty, upload or import a SAM/BAM dataset"/> | 41 <param name="inputFile" type="data" format="sam,bam" label="Select SAM/BAM dataset or dataset collection" help="If empty, upload or import a SAM/BAM dataset"/> |
44 <conditional name="filter_type"> | 42 <conditional name="filter_type"> |