diff peca.xml @ 0:f50bb34c1a37 draft

planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/peca.xml	Wed Feb 21 16:29:34 2018 -0500
@@ -0,0 +1,30 @@
+<tool id="peca" name="PECA: Probe-level expression change averaging" version="0.1.0">
+    <requirements>
+        <requirement type="package" version="1.14.0">bioconductor-peca</requirement>
+    </requirements>
+    <command detect_errors="exit_code"><![CDATA[
+        ## write group 1 to file
+        echo '$group1' > group1.txt &&
+        echo '$group2' > group2.txt && 
+        cat group1.txt &&
+        Rscript --vanilla '$__tool_directory__/peca.R' '$input' '$group1' '$group2' '$output'
+    ]]></command>
+    <inputs>
+        <param name="input" type="data" format="tabular"/>
+        <param name="group1" type="data_column" data_ref="input" multiple="true"/>
+        <param name="group2" type="data_column" data_ref="input" multiple="true"/> 
+    </inputs>
+    <outputs>
+        <data format="tabular" name="output"/>
+    </outputs>
+    <tests>
+        <test>
+            <param name="input" value="test.tab" ftype="tabular"/>
+            <param name="group1" value="2,3,4"/>
+            <param name="group2" value="4,5,6"/>
+            <output name="output" file="out.tab" ftype="tabular"/>
+        </test>
+    </tests>
+    <help><![CDATA[
+    ]]></help>
+</tool>