Mercurial > repos > iuc > limma_voom
diff limma_voom.xml @ 26:119b069fc845 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/limma_voom commit b4d788c0f159d507159117a063b1f867b243c738
| author | iuc |
|---|---|
| date | Fri, 09 Feb 2024 17:06:25 +0000 |
| parents | d6f5fa4ee473 |
| children |
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--- a/limma_voom.xml Tue Mar 01 08:03:53 2022 +0000 +++ b/limma_voom.xml Fri Feb 09 17:06:25 2024 +0000 @@ -1,13 +1,12 @@ -<tool id="limma_voom" name="limma" version="@TOOL_VERSION@+galaxy0"> +<tool id="limma_voom" name="limma" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@"> <description> Perform differential expression with limma-voom or limma-trend </description> <macros> - <token name="@TOOL_VERSION@">3.50.1</token> + <token name="@TOOL_VERSION@">3.58.1</token> + <token name="@VERSION_SUFFIX@">0</token> + <token name="@PROFILE@">23.0</token> </macros> - <xrefs> - <xref type="bio.tools">limma</xref> - </xrefs> <edam_topics> <edam_topic>topic_3308</edam_topic> </edam_topics> @@ -15,16 +14,20 @@ <edam_operation>operation_3563</edam_operation> <edam_operation>operation_3223</edam_operation> </edam_operations> + <xrefs> + <xref type="bio.tools">limma</xref> + <xref type="bioconductor">limma</xref> + </xrefs> <requirements> <requirement type="package" version="@TOOL_VERSION@">bioconductor-limma</requirement> - <requirement type="package" version="3.36.0">bioconductor-edger</requirement> - <requirement type="package" version="1.4.36">r-statmod</requirement> - <requirement type="package" version="1.1.1">r-scales</requirement> + <requirement type="package" version="4.0.2">bioconductor-edger</requirement> + <requirement type="package" version="1.5.0">r-statmod</requirement> + <requirement type="package" version="1.3.0">r-scales</requirement> <requirement type="package" version="0.2.21">r-rjson</requirement> - <requirement type="package" version="1.20.3">r-getopt</requirement> - <requirement type="package" version="3.1.1">r-gplots</requirement> - <requirement type="package" version="2.4.0">bioconductor-glimma</requirement> + <requirement type="package" version="1.20.4">r-getopt</requirement> + <requirement type="package" version="3.1.3.1">r-gplots</requirement> + <requirement type="package" version="2.12.0">bioconductor-glimma</requirement> </requirements> <version_command><![CDATA[ @@ -733,6 +736,12 @@ <param name="normalisationOption" value="TMM" /> <param name="topgenes" value="6" /> <output_collection name="outTables" count="3"> + <element name="limma-voom_Mut-WT-WT-Mut" ftype="tabular" > + <assert_contents> + <has_text_matching expression="GeneID.*logFC.*AveExpr.*t.*P.Value.*adj.P.Val.*B" /> + <has_text_matching expression="11304.*0.9146" /> + </assert_contents> + </element> <element name="limma-voom_Mut-WT" ftype="tabular" > <assert_contents> <has_text_matching expression="GeneID.*logFC.*AveExpr.*t.*P.Value.*adj.P.Val.*B" /> @@ -745,12 +754,6 @@ <has_text_matching expression="11304.*-0.4573" /> </assert_contents> </element> - <element name="limma-voom_Mut-WT-WT-Mut" ftype="tabular" > - <assert_contents> - <has_text_matching expression="GeneID.*logFC.*AveExpr.*t.*P.Value.*adj.P.Val.*B" /> - <has_text_matching expression="11304.*0.9146" /> - </assert_contents> - </element> </output_collection> </test> </tests>