Mercurial > repos > iuc > rgrnastar
diff macros.xml @ 28:3e94726bfa9d draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rgrnastar commit 452556bcdcc3fe4e9ace07201be2365cd6f99e2f
| author | iuc |
|---|---|
| date | Sun, 11 Feb 2024 00:01:54 +0000 |
| parents | 79de45b5069b |
| children | b0f2be869d6d |
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--- a/macros.xml Fri Sep 01 13:17:29 2023 +0000 +++ b/macros.xml Sun Feb 11 00:01:54 2024 +0000 @@ -4,8 +4,8 @@ The data manager uses a symlink to this macro file to keep the STAR and the index versions in sync, but you should manually update @IDX_VERSION_SUFFIX@ --> <!-- STAR version to be used --> - <token name="@TOOL_VERSION@">2.7.10b</token> - <token name="@VERSION_SUFFIX@">4</token> + <token name="@TOOL_VERSION@">2.7.11a</token> + <token name="@VERSION_SUFFIX@">0</token> <token name="@PROFILE@">21.01</token> <!-- STAR index version compatible with this version of STAR This is the STAR version that introduced the index structure expected @@ -15,14 +15,14 @@ or by looking for the versionGenome parameter in source/parametersDefault of STAR's source code --> <token name="@IDX_VERSION@">2.7.4a</token> - <token name="@IDX_VERSION_SUFFIX@">1</token> + <token name="@IDX_VERSION_SUFFIX@">0</token> <token name="@IDX_DATA_TABLE@">rnastar_index2x_versioned</token> <xml name="requirements"> <requirements> <requirement type="package" version="@TOOL_VERSION@">star</requirement> - <requirement type="package" version="1.16.1">samtools</requirement> - <requirement type="package" version="1.12">gzip</requirement> + <requirement type="package" version="1.18">samtools</requirement> + <requirement type="package" version="1.13">gzip</requirement> <yield /> </requirements> </xml> @@ -122,6 +122,13 @@ #if str($refGenomeSource.genomeSAindexNbases): --genomeSAindexNbases ${refGenomeSource.genomeSAindexNbases} #end if + ## Diploid mode + #if 'diploidconditional' in $refGenomeSource: + #if str($refGenomeSource.diploidconditional.diploid) == 'Yes': + --genomeTransformVCF '${refGenomeSource.diploidconditional.genomeTransformVCF}' + --genomeTransformType Diploid + #end if + #end if --runThreadN \${GALAXY_SLOTS:-4} ## in bytes --limitGenomeGenerateRAM \$((\${GALAXY_MEMORY_MB:-31000} * 1000000))