Mercurial > repos > iuc > gemini_recessive_and_dominant

diff gemini_autosomal_recessive.xml @ 4:05124dc72dba draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gemini commit 283362494058ed64143b1f27afb447b8a1cb4313
author iuc
date Fri, 14 Dec 2018 12:43:22 -0500
parents 4086bb81f52a
children
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--- a/gemini_autosomal_recessive.xml	Wed Oct 17 13:29:08 2018 -0400
+++ b/gemini_autosomal_recessive.xml	Fri Dec 14 12:43:22 2018 -0500
@@ -1,4 +1,4 @@
-<tool id="gemini_recessive_and_dominant" name="GEMINI autosomal recessive/dominant" version="@VERSION@.0">
+<tool id="gemini_recessive_and_dominant" name="GEMINI autosomal recessive/dominant" version="@VERSION@.1">
     <description>Find variants meeting an autosomal recessive/dominant model</description>
     <macros>
         <import>gemini_macros.xml</import>
@@ -70,20 +70,32 @@
     </outputs>
     <tests>
         <test>
-            <param name="infile" value="gemini_autosomal_input.db" ftype="gemini.sqlite" />
+            <param name="infile" value="gemini_auto_dom_input.db" ftype="gemini.sqlite" />
             <param name="rec_or_dom" value="dominant" />
-            <param name="report_selector" value="column_filter" />
-            <param name="columns" value="gene,chrom,impact" />
+            <conditional name="report">
+                <param name="report_selector" value="column_filter" />
+                <param name="columns" value="gene,chrom,impact" />
+            </conditional>
             <param name="lenient" value="true" />
-            <output name="outfile" file="gemini_autosomal_dominant_result.tabular" />
+            <output name="outfile">
+                <assert_contents>
+                    <has_line_matching expression="gene&#009;chrom&#009;impact.*" />
+                </assert_contents>
+            </output>
         </test>
         <test>
-            <param name="infile" value="gemini_autosomal_input.db" ftype="gemini.sqlite" />
+            <param name="infile" value="gemini_auto_rec_input.db" ftype="gemini.sqlite" />
             <param name="rec_or_dom" value="recessive" />
-            <param name="report_selector" value="column_filter" />
-            <param name="columns" value="gene,chrom,impact" />
+            <conditional name="report">
+                <param name="report_selector" value="column_filter" />
+                <param name="columns" value="gene,chrom,impact" />
+            </conditional>
             <param name="lenient" value="true" />
-            <output name="outfile" file="gemini_autosomal_recessive.tabular" />
+            <output name="outfile">
+                <assert_contents>
+                    <has_line_matching expression="gene&#009;chrom&#009;impact.*" />
+                </assert_contents>
+            </output>
         </test>
     </tests>
     <help>