Mercurial > repos > iuc > edger

diff edger.xml @ 10:df0c8d0a5992 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/edger commit 38cf93fd693c810b4150c5d8aa3763aebc988b07"
author iuc
date Mon, 29 Nov 2021 11:04:53 +0000
parents 6e53e565fc6a
children f2843df56434
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--- a/edger.xml	Sat Jun 26 19:09:53 2021 +0000
+++ b/edger.xml	Mon Nov 29 11:04:53 2021 +0000
@@ -1,7 +1,11 @@
-<tool id="edger" name="edgeR" version="3.34.0+galaxy1">
+<tool id="edger" name="edgeR" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@">
     <description>
         Perform differential expression of count data
     </description>
+    <macros>
+        <token name="@TOOL_VERSION@">3.34.0</token>
+        <token name="@VERSION_SUFFIX@">2</token>
+    </macros>
     <xrefs>
         <xref type="bio.tools">edger</xref>
     </xrefs>
@@ -14,7 +18,7 @@
     </edam_operations>
 
     <requirements>
-        <requirement type="package" version="3.34.0">bioconductor-edger</requirement>
+        <requirement type="package" version="@TOOL_VERSION@">bioconductor-edger</requirement>
         <requirement type="package" version="3.48.0">bioconductor-limma</requirement>
         <requirement type="package" version="0.2.20">r-rjson</requirement>
         <requirement type="package" version="1.20.3">r-getopt</requirement>
@@ -216,9 +220,7 @@
                                     <option value="total">Total</option>
                                     <option value="sample">Sample</option>
                                 </param>
-                                <when value="total">
-                                    <param name="totReq" type="boolean" truevalue="1" falsevalue="0" checked="false" label="Filter on Total Count" help="Apply the Minimum Count filter to genes after summing counts for all samples. See the Filter Low Counts section below for more information." />
-                                </when>
+                                <when value="total"/>
                                 <when value="sample">
                                     <param name="cntSampleReq" type="integer" value="0" min="0" label="Minimum Samples"
                                     help="Filter out all genes that do not meet the Minimum Count in at least this many samples. See the Filter Low Counts section below for more information."/>