Mercurial > repos > devteam > picard
comparison picard_ReplaceSamHeader.xml @ 15:a5a13ea16d17 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 5ebd6c8453b49dd6a36e372eb1eb6e323bb7ad8a
| author | iuc |
|---|---|
| date | Tue, 19 Jun 2018 11:28:30 -0400 |
| parents | 486d7500da69 |
| children | 4740a2548206 |
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| 14:486d7500da69 | 15:a5a13ea16d17 |
|---|---|
| 1 <tool name="ReplaceSamHeader" id="picard_ReplaceSamHeader" version="@TOOL_VERSION@.@WRAPPER_VERSION@"> | 1 <tool name="ReplaceSamHeader" id="picard_ReplaceSamHeader" version="@TOOL_VERSION@.@WRAPPER_VERSION@"> |
| 2 <description>replace header in a SAM/BAM dataset</description> | 2 <description>replace header in a SAM/BAM dataset</description> |
| 3 <macros> | 3 <macros> |
| 4 <import>picard_macros.xml</import> | 4 <import>picard_macros.xml</import> |
| 5 <token name="@WRAPPER_VERSION@">0</token> | 5 <token name="@WRAPPER_VERSION@">1</token> |
| 6 </macros> | 6 </macros> |
| 7 <expand macro="requirements" /> | 7 <expand macro="requirements" /> |
| 8 <command detect_errors="exit_code"><![CDATA[ | 8 <command detect_errors="exit_code"><![CDATA[ |
| 9 @java_options@ | 9 @java_options@ |
| 10 @symlink_element_identifier@ | 10 @symlink_element_identifier@ |
| 20 HEADER="${header}" | 20 HEADER="${header}" |
| 21 OUTPUT="${outFile}" | 21 OUTPUT="${outFile}" |
| 22 | 22 |
| 23 QUIET=true | 23 QUIET=true |
| 24 VERBOSITY=ERROR | 24 VERBOSITY=ERROR |
| 25 @TMPDIR_OPTION@ | |
| 25 | 26 |
| 26 ]]></command> | 27 ]]></command> |
| 27 <inputs> | 28 <inputs> |
| 28 <param format="sam,bam" name="inputFile" type="data" label="Select SAM/BAM dataset or dataset collection (header recepient dataset)" help="If empty, upload or import a SAM/BAM dataset"/> | 29 <param format="sam,bam" name="inputFile" type="data" label="Select SAM/BAM dataset or dataset collection (header recepient dataset)" help="If empty, upload or import a SAM/BAM dataset"/> |
| 29 <param name="header" type="data" format="sam,bam" label="SAM/BAM dataset from which Header will be read (header source dataset)" help="HEADER; If empty, upload or import a SAM/BAM dataset"/> | 30 <param name="header" type="data" format="sam,bam" label="SAM/BAM dataset from which Header will be read (header source dataset)" help="HEADER; If empty, upload or import a SAM/BAM dataset"/> |