Mercurial > repos > iuc > rgrnastar
comparison macros.xml @ 26:3ea5a2a63fa2 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rgrnastar commit 7474e67190d0dcf2bd54c6b3cbfa30e54134c8a0
author | iuc |
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date | Mon, 27 Mar 2023 16:37:27 +0000 |
parents | c7c55b694974 |
children | 79de45b5069b |
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25:c7c55b694974 | 26:3ea5a2a63fa2 |
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3 whenever you make changes to the @TOOL_VERSION@ token! | 3 whenever you make changes to the @TOOL_VERSION@ token! |
4 The data manager uses a symlink to this macro file to keep the STAR and | 4 The data manager uses a symlink to this macro file to keep the STAR and |
5 the index versions in sync, but you should manually update @IDX_VERSION_SUFFIX@ --> | 5 the index versions in sync, but you should manually update @IDX_VERSION_SUFFIX@ --> |
6 <!-- STAR version to be used --> | 6 <!-- STAR version to be used --> |
7 <token name="@TOOL_VERSION@">2.7.10b</token> | 7 <token name="@TOOL_VERSION@">2.7.10b</token> |
8 <token name="@VERSION_SUFFIX@">2</token> | 8 <token name="@VERSION_SUFFIX@">3</token> |
9 <token name="@PROFILE@">21.01</token> | 9 <token name="@PROFILE@">21.01</token> |
10 <!-- STAR index version compatible with this version of STAR | 10 <!-- STAR index version compatible with this version of STAR |
11 This is the STAR version that introduced the index structure expected | 11 This is the STAR version that introduced the index structure expected |
12 by the current version. | 12 by the current version. |
13 It can be found for any specific version of STAR with: | 13 It can be found for any specific version of STAR with: |
307 <param name="outWigTypeSecondWord" type="select" label="Input for coverage"> | 307 <param name="outWigTypeSecondWord" type="select" label="Input for coverage"> |
308 <option value="">Default (everything that mapped)</option> | 308 <option value="">Default (everything that mapped)</option> |
309 <option value="read_5p">signal from only 5’ of the 1st read</option> | 309 <option value="read_5p">signal from only 5’ of the 1st read</option> |
310 <option value="read2">signal from only 2nd read</option> | 310 <option value="read2">signal from only 2nd read</option> |
311 </param> | 311 </param> |
312 <param argument="--outWigStrand" type="boolean" truevalue="Stranded" falsevalue="Unstranded" checked="true" label="collapse strands (unstranded coverage)" help="By default, the strands are separated."/> | 312 <param argument="--outWigStrand" type="boolean" truevalue="Stranded" falsevalue="Unstranded" checked="true" label="Generate a coverage for each strand (stranded coverage)"/> |
313 <param argument="--outWigReferencesPrefix" type="text" value="-" label="prefix matching reference name" help="For example, set 'chr' if you mapped on an ensembl genome but you want to display on UCSC"/> | 313 <param argument="--outWigReferencesPrefix" type="text" value="-" label="prefix matching reference name" help="For example, set 'chr' if you mapped on an ensembl genome but you want to display on UCSC"/> |
314 <param argument="--outWigNorm" type="boolean" truevalue="RPM" falsevalue="None" checked="true" label="Normalize coverage to million of mapped reads (RPM)"/> | 314 <param argument="--outWigNorm" type="boolean" truevalue="RPM" falsevalue="None" checked="true" label="Normalize coverage to million of mapped reads (RPM)"/> |
315 </xml> | 315 </xml> |
316 <token name="@OUTWIG@"><![CDATA[ | 316 <token name="@OUTWIG@"><![CDATA[ |
317 #if str($outWig.outWigType) != 'None': | 317 #if str($outWig.outWigType) != 'None': |