Mercurial > repos > iuc > trinotate

diff trinotate.xml @ 4:05409459bc25 draft default tip

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/trinotate commit a01a55b03c6160fa665e678131f9ac1318577ba0"
author iuc
date Sun, 21 Nov 2021 17:17:55 +0000
parents b12ba8e33604
children
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--- a/trinotate.xml	Fri Aug 14 20:53:41 2020 +0000
+++ b/trinotate.xml	Sun Nov 21 17:17:55 2021 +0000
@@ -1,15 +1,20 @@
-<tool id="trinotate" name="Trinotate" version="3.2.1">
+<tool id="trinotate" name="Trinotate" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.05">
+    <description>functional transcript annotation</description>
+    <macros>
+        <token name="@TOOL_VERSION@">3.2.2</token>
+        <token name="@VERSION_SUFFIX@">0</token>
+    </macros>
     <requirements>
-        <requirement type="package" version="3.2.1">trinotate</requirement>
+        <requirement type="package" version="@TOOL_VERSION@">trinotate</requirement>
         <requirement type="package" version="1.18">gnu-wget</requirement>
     </requirements>
-    <stdio>
-        <exit_code range="1:" />
-    </stdio>
+    <xrefs>
+        <xref type="bio.tools">trinotate</xref>
+    </xrefs>
     <version_command><![CDATA[
-            Trinotate version 3.2.1
+            Trinotate version @TOOL_VERSION@
     ]]></version_command>
-    <command><![CDATA[
+    <command detect_errors="exit_code"><![CDATA[
 
 #if str($cond_download.select_download) == "yes":
     Build_Trinotate_Boilerplate_SQLite_db.pl Trinotate &&
@@ -107,7 +112,13 @@
                 <param name="incl_trans" value="true" />
             </section>
             <param name="keep_sqlite" value="true" />
-            <output name="trinotate_out" file="trinotate_annotation_report_minus_tmhmm_signalp.xls" />
+            <output name="trinotate_out" ftype="tabular" >
+                <assert_contents>
+                    <has_size value="573911" delta="100"/>
+                    <has_text text="Meiotically up-regulated gene 56 protein"/>
+                    <has_text text="Serine/threonine-protein kinase tor1"/>
+                </assert_contents>
+            </output>
         </test>
     </tests>
     <help><![CDATA[