Mercurial > repos > nilesh > rseqc
diff clipping_profile.xml @ 13:a7f9084572fe draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rseqc commit 8a91236cee4d408ae2b53a3e9b6daebc332d631a
| author | iuc |
|---|---|
| date | Sat, 10 Dec 2022 11:21:47 +0000 |
| parents | 57fad5deeb8e |
| children | b21f0167e197 |
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--- a/clipping_profile.xml Sat Dec 18 19:40:16 2021 +0000 +++ b/clipping_profile.xml Sat Dec 10 11:21:47 2022 +0000 @@ -1,12 +1,13 @@ -<tool id="rseqc_clipping_profile" name="Clipping Profile" version="@TOOL_VERSION@"> +<tool id="rseqc_clipping_profile" name="Clipping Profile" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@GALAXY_VERSION@"> <description> estimates clipping profile of RNA-seq reads from BAM or SAM file </description> - <expand macro="bio_tools"/> <macros> <import>rseqc_macros.xml</import> </macros> + <expand macro="bio_tools"/> + <expand macro="requirements" /> <expand macro="stdio" /> @@ -14,7 +15,8 @@ <version_command><![CDATA[clipping_profile.py --version]]></version_command> <command><![CDATA[ - clipping_profile.py -i '${input}' -o output -q ${mapq} -s "${layout}" + @BAM_SAM_INPUTS@ + clipping_profile.py -i 'input.${extension}' -o output -q ${mapq} -s "${layout}" ]]> </command> @@ -26,9 +28,9 @@ </inputs> <outputs> - <expand macro="pdf_output_data" filename="output.clipping_profile.pdf" /> - <expand macro="xls_output_data" filename="output.clipping_profile.xls" /> - <expand macro="rscript_output_data" filename="output.clipping_profile.r" /> + <expand macro="pdf_output_data" filename="output.clipping_profile.pdf" label="${tool.name} on ${on_string}: PDF"/> + <expand macro="xls_output_data" filename="output.clipping_profile.xls" label="${tool.name} on ${on_string}: XML"/> + <expand macro="rscript_output_data" filename="output.clipping_profile.r" label="${tool.name} on ${on_string}: Rscript"/> </outputs> <tests>