Mercurial > repos > bgruening > salmonquantmerge

diff salmonquantmerge.xml @ 0:43658f594542 draft

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"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/salmon commit 8f432498890670fd03a197bd3d1aa2638d1ff2b3"
author bgruening
date Mon, 09 Sep 2019 11:12:04 -0400
parents
children 88c07fc4024c
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/salmonquantmerge.xml	Mon Sep 09 11:12:04 2019 -0400
@@ -0,0 +1,39 @@
+<tool id="salmonquantmerge" name="Salmon quantmerge" version="@VERSION@">
+    <description>Merge multiple quantification results into a single file</description>
+    <macros>
+        <import>macros.xml</import>
+    </macros>
+    <expand macro="requirements"/>
+    <command detect_errors="exit_code"><![CDATA[
+        @qmerge@
+    ]]></command>
+    <inputs>
+        <expand macro="quantmerge"/>
+    </inputs>
+    <outputs>
+        <data name="mergedfile" format="tabular" label="${tool.name} on ${on_string}" from_work_dir="qmergeout.tab"/>
+    </outputs>
+    <tests>
+        <test expect_num_outputs="1">
+            <repeat name="quantfiles">
+                <param name="quants" value="quant2.sf"/>
+                <param name="names" value="asdf"/>
+            </repeat>
+            <repeat name="quantfiles">
+                <param name="quants" value="quant1.sf"/>
+                <param name="names" value="qwerty"/>
+            </repeat>
+            <output name="mergedfile" ftype="tabular">
+                <assert_contents>
+                    <has_text text="qwerty"/>
+                    <has_text text="NM_014621"/>
+                    <has_n_columns n="3"/>
+                </assert_contents>
+            </output>
+        </test>
+    </tests>
+    <help><![CDATA[
+        @salmonhelp@
+    ]]></help>
+    <expand macro="citations"/>
+</tool>