Mercurial > repos > iuc > multiqc

diff gtdbtk_plugin.xml @ 27:7591bce96601 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/multiqc commit 327834d2ea9b16f0f0264fa4e9b675a2277f2fee
author: iuc
date: Tue, 18 Feb 2025 23:18:25 +0000
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/gtdbtk_plugin.xml	Tue Feb 18 23:18:25 2025 +0000
@@ -0,0 +1,32 @@
+<macros>
+    <token name="@GTDBTK_COMMAND@"><![CDATA[
+        #set $pattern = "user_genome\tclassification\tclosest_genome_reference\tclosest_genome_reference_radius\tclosest_genome_taxonomy\tclosest_genome_ani"
+        @LN_FILES@
+    ]]></token>
+    <xml name="gtdbtk_form">
+        <param name="input" type="data" format="tsv" multiple="true" label="Output of GTDB-Tk" help="It should contain 'user_genome\tclassification\tclosest_genome_reference\tclosest_genome_reference_radius\tclosest_genome_taxonomy\tclosest_genome_ani'"/>
+    </xml>
+    <xml name="gtdbtk_test">
+        <test expect_num_outputs="3">
+            <repeat name="results">
+                <conditional name="software_cond">
+                    <param name="software" value="gtdbtk"/>
+                    <param name="input" value="gtdbtk.tsv"/>
+                </conditional>
+            </repeat>
+            <param name="title" value="Title of the report"/>
+            <param name="comment" value="Commment for the report"/>
+            <param name="flat" value="true"/>
+            <param name="export" value="true"/>
+            <output name="html_report">
+                <assert_contents>
+                    <has_text text="Title of the report"/>
+                    <has_text text="Commment for the report"/>
+                    <has_text text="GTDB-Tk"/>
+                    <has_text text="genome_1_fna_gz"/>
+                </assert_contents>
+            </output>
+            <output_collection name="plots" type="list" count="0"/>
+        </test>
+    </xml>
+</macros>