Mercurial > repos > geert-vandeweyer > mutect_wrapper
comparison mutect_wrapper.xml @ 16:52efdea30175 draft default tip
Fixes. MuTect now works
| author | geert-vandeweyer |
|---|---|
| date | Mon, 17 Feb 2014 11:54:09 -0500 |
| parents | 72fbc37494ab |
| children |
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| 15:37a8219b62de | 16:52efdea30175 |
|---|---|
| 3 <macros> | 3 <macros> |
| 4 <import>mutect_macros.xml</import> | 4 <import>mutect_macros.xml</import> |
| 5 </macros> | 5 </macros> |
| 6 | 6 |
| 7 <command interpreter="python"> | 7 <command interpreter="python"> |
| 8 mutect_wrapper.py -j "@JAR_PATH@" -T MuTect | 8 mutect_wrapper.py -j '@JAR_PATH@' |
| 9 -T MuTect | |
| 10 | |
| 9 #if $genomeSource.refGenomeSource == "history": | 11 #if $genomeSource.refGenomeSource == "history": |
| 10 --ref "${genomeSource.ownFile}" | 12 --ref "${genomeSource.ownFile}" |
| 11 #else: | 13 #else: |
| 12 --ref "${genomeSource.index.fields.path}" | 14 --ref "${genomeSource.index.fields.path}" |
| 13 #end if | 15 #end if |