Mercurial > repos > devteam > cuffmerge
comparison cuffmerge_wrapper.xml @ 17:04adc9db1581 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffmerge commit 52b81aad3194e02a04ec09eea1aa0c1e9301e942
| author | iuc |
|---|---|
| date | Wed, 23 Oct 2024 22:12:19 +0000 |
| parents | 22cf48ad7b16 |
| children |
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| 16:22cf48ad7b16 | 17:04adc9db1581 |
|---|---|
| 1 <tool id="cuffmerge" name="Cuffmerge" version="@TOOL_VERSION@.4" profile="@PROFILE@"> | 1 <tool id="cuffmerge" name="Cuffmerge" version="@TOOL_VERSION@.5" profile="@PROFILE@"> |
| 2 <description>merge together several Cufflinks assemblies</description> | 2 <description>merge together several Cufflinks assemblies</description> |
| 3 <macros> | 3 <macros> |
| 4 <import>cuff_macros.xml</import> | 4 <import>cuff_macros.xml</import> |
| 5 </macros> | 5 </macros> |
| 6 <expand macro="requirements" /> | 6 <expand macro="requirements" /> |
| 7 <version_command>cuffmerge -v</version_command> | 7 <version_command>cuffmerge -v</version_command> |
| 8 <command detect_errors="aggressive"><![CDATA[ | 8 <command detect_errors="aggressive"><![CDATA[ |
| 9 @CUFFLINKS_LINK_GTF_INPUTS@ | 9 @CUFFLINKS_LINK_GTF_INPUTS@ |
| 10 echo @CUFFLINKS_GTF_INPUTS@ | sed 's/\s\+/\n/' > assembly_GTF_list.txt && | 10 echo @CUFFLINKS_GTF_INPUTS@ | sed 's/\s\+/\n/g' > assembly_GTF_list.txt && |
| 11 cuffmerge | 11 cuffmerge |
| 12 -o output | 12 -o output |
| 13 --num-threads="\${GALAXY_SLOTS:-4}" | 13 --num-threads="\${GALAXY_SLOTS:-4}" |
| 14 ## Use annotation reference? | 14 ## Use annotation reference? |
| 15 #if $annotation.use_ref_annotation == "Yes": | 15 #if $annotation.use_ref_annotation == "Yes": |