Mercurial > repos > iuc > mothur_sub_sample

changeset 5:2986f7b01e74 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 68e35d5f24a9219e5583ede7d38a78fa976f7dbb
author iuc
date Sat, 14 Jul 2018 23:11:05 -0400
parents 88d66f3b47e0
children 34e1fbd32a04
files sub.sample.xml
diffstat 1 files changed, 16 insertions(+), 0 deletions(-) [+]
line wrap: on
line diff
--- a/sub.sample.xml	Mon Apr 23 10:01:23 2018 -0400
+++ b/sub.sample.xml	Sat Jul 14 23:11:05 2018 -0400
@@ -174,6 +174,9 @@
         <data name="group_out" format="mothur.groups" from_work_dir="input_use_group_group_in*.subsample.*" label="${tool.name} on ${on_string}: subsample.groups">
             <filter>(input['format'] == 'fasta' or input['format'] == 'list') and input['use_group']['to_filter'] == 'yes'</filter>
         </data>
+        <data name="count_out" format="mothur.count_table" from_work_dir="count.subsample.*" label="${tool.name} on ${on_string}: subsample.count">
+            <filter>count</filter>
+        </data>
     </outputs>
     <tests>
         <test><!-- test with list -->
@@ -292,6 +295,19 @@
             <param name="savelog" value="true"/>
             <expand macro="logfile-test"/>
         </test>
+        <test><!-- test with count file -->
+            <param name="format" value="fasta"/>
+            <param name="otu" value="amazon.unique.fasta" ftype="fasta"/>
+            <param name="count" value="amazon.count_table" ftype="mothur.count_table"/>
+            <output name="count_out" ftype="mothur.count_table">
+                <assert_contents>
+                    <expand macro="test-count-format"/>
+                    <has_line_matching expression="^U\d+\t\d$"/>
+                </assert_contents>
+            </output>
+            <param name="savelog" value="true"/>
+            <expand macro="logfile-test"/>
+        </test>
     </tests>
     <help><![CDATA[