# HG changeset patch
# User iuc
# Date 1652250620 0
# Node ID b4bee1aabdc0767104a4dc50813bca0f0b855a31
# Parent  c1452c725e7da377378d2de805ee9bbecc51a823
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 2f4c9bfc48d63075ae18a1687e8d01ffea509084

diff -r c1452c725e7d -r b4bee1aabdc0 macros.xml
--- a/macros.xml	Thu Apr 14 09:09:20 2022 +0000
+++ b/macros.xml	Wed May 11 06:30:20 2022 +0000
@@ -10,7 +10,7 @@
     </xml>
 
     <token name="@TOOL_VERSION@">2.55</token>
-    <token name="@VERSION_SUFFIX@">2</token>
+    <token name="@VERSION_SUFFIX@">3</token>
     <token name="@PROFILE@">20.05</token>
 
     <xml name="citation">
@@ -632,4 +632,8 @@
             <option value="--index_inline">@TYPE@ occurs in FASTQ header (Illumina i5 or i7 read) and is inline with sequence on single-end read (if single read data) or paired-end read (if paired data) (--index_inline)</option>
         </expand>
     </xml>
+    <!-- for tests that check the output for "stacks completed" -->
+    <xml name="test_element_stacks_completed" token_element_name="">
+        <element name="@ELEMENT_NAME@"><assert_contents><has_text text="stacks completed on" /></assert_contents></element>
+    </xml>
 </macros>
diff -r c1452c725e7d -r b4bee1aabdc0 stacks_cstacks.xml
--- a/stacks_cstacks.xml	Thu Apr 14 09:09:20 2022 +0000
+++ b/stacks_cstacks.xml	Wed May 11 06:30:20 2022 +0000
@@ -110,9 +110,9 @@
             <param name="add_log" value="yes"/>
             <output name="output_log"><assert_contents><has_text text="done."/></assert_contents></output>
             <output_collection name="catalog" type="list">
-                <element name="catalog.alleles"><assert_contents><has_text text="# cstacks completed on "/></assert_contents></element>
-                <element name="catalog.snps"><assert_contents><has_text text="# cstacks completed on "/></assert_contents></element>
-                <element name="catalog.tags"><assert_contents><has_text text="# cstacks completed on "/></assert_contents></element>
+                <expand macro="test_element_stacks_completed" element_name="catalog.alleles" />
+                <expand macro="test_element_stacks_completed" element_name="catalog.snps" />
+                <expand macro="test_element_stacks_completed" element_name="catalog.tags" />
             </output_collection>
         </test>
         <!-- test w non default options (wo gapped, because tested already in ustacks) -->
@@ -139,9 +139,9 @@
             <param name="add_log" value="no"/>
             <assert_stderr><has_text text="done."/></assert_stderr>
             <output_collection name="catalog" type="list">
-                <element name="catalog.alleles"><assert_contents><has_text text="# cstacks completed on "/></assert_contents></element>
-                <element name="catalog.snps"><assert_contents><has_text text="# cstacks completed on "/></assert_contents></element>
-                <element name="catalog.tags"><assert_contents><has_text text="# cstacks completed on "/></assert_contents></element>
+                <expand macro="test_element_stacks_completed" element_name="catalog.alleles" />
+                <expand macro="test_element_stacks_completed" element_name="catalog.snps" />
+                <expand macro="test_element_stacks_completed" element_name="catalog.tags" />
             </output_collection>
         </test>
     </tests>