Mercurial > repos > proteore > proteore_topgo
diff topGO.xml @ 11:fa2e27165d5d draft
planemo upload commit 4efc56eb769fbceb66c64181441ff8781d523454-dirty
author | proteore |
---|---|
date | Mon, 04 Mar 2019 08:37:49 -0500 |
parents | e3430084c996 |
children | 8eaa43ba1bfc |
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--- a/topGO.xml Tue Dec 18 10:06:00 2018 -0500 +++ b/topGO.xml Mon Mar 04 08:37:49 2019 -0500 @@ -1,4 +1,4 @@ -<tool id="topGO" name="Enrichment analysis for Gene Ontology" version="2018.12.17"> +<tool id="topGO" name="Enrichment analysis for Gene Ontology" version="2019.02.19"> <description>(Human, Mouse, Rat)[topGO]</description> <requirements> <requirement type="package" version="3.4.1">R</requirement> @@ -69,7 +69,9 @@ </when> <when value="file"> <param name="genelist" type="data" format="txt,tabular" label="Select your file" help=""/> - <param name="column" type="text" label="Column number of IDs" help="For example, fill in 'c1' if it is the first column, 'c2' if it is the second column and so on"/> + <param name="column" type="text" label="Column number of IDs" help="For example, fill in 'c1' if it is the first column, 'c2' if it is the second column and so on"> + <validator type="regex" message="Please enter a column number, for example: 'c1' for the first column">[c]{0,1}[0-9]+</validator> + </param> <param name="header" type="boolean" checked="true" truevalue="true" falsevalue="false" label="Does file contain header?" /> </when> </conditional> @@ -96,7 +98,9 @@ <when value="file"> <param name="genelist" type="data" format="txt,tabular" label="Select file that contains your background IDs list" help=""/> <param name="header" type="boolean" checked="true" truevalue="true" falsevalue="false" label="Does file contain header ?" /> - <param name="column" type="text" label="Column number of IDs" value="c1" help="For example, fill in 'c1' if it is the first column, 'c2' if it is the second column and so on"/> + <param name="column" type="text" label="Column number of IDs" value="c1" help="For example, fill in 'c1' if it is the first column, 'c2' if it is the second column and so on"> + <validator type="regex" message="Please enter a column number, for example: 'c1' for the first column">[c]{0,1}[0-9]+</validator> + </param> </when> </conditional> </when> @@ -141,16 +145,16 @@ </inputs> <outputs> - <data name="outputtext" format="tsv" label="Text output for topGO analysis $ontocat category" from_work_dir="result"> - <filter>textoutput</filter> + <data name="outputtext" format="tsv" label="Text output for topGO analysis $ontocat category" from_work_dir="result.tsv"> + <!--filter>textoutput</filter--> + </data> + + <data name="outputdotplot" format="png" label="Dotplot output for topGO analysis $ontocat category" from_work_dir="dotplot.png"> + <filter>'dotplot' in plot</filter> </data> <data name="outputbarplot" format="png" label="Barplot output for topGO analysis $ontocat category" from_work_dir="barplot.png"> - <filter>barplot</filter> - </data> - - <data name="outputdotplot" format="png" label="Dotplot output for topGO analysis $ontocat category" from_work_dir="dotplot.png"> - <filter>dotplot</filter> + <filter>'barplot' in plot</filter> </data> </outputs>