--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/wgmlst_import.xml	Thu Jun 16 12:32:28 2022 +0000
@@ -0,0 +1,51 @@
+<tool id="wgmlst_import_wrapper" name="Import cgMLST database" version="2.1.3">
+  <description></description>
+  <requirements>
+	<requirement type="package" version="2.1.3">pymlst</requirement>
+  </requirements>
+  <stdio>
+    <exit_code range="1:" level="fatal" />
+  </stdio>
+  <version_command>wgMLST -v</version_command>
+  <command>
+    wgMLST import --force --no-prompt
+	'${database}' '$search' &amp;> '${logfile}'
+  </command>
+  <inputs>
+	<param name="search" type="text" value="" optional="false" size="50"
+		   label="Species name to import"
+		   help="Bacterial species to download from cgMLST.org database" />
+  </inputs>
+  <outputs>
+    <data name="logfile" format="txt" label="${tool.name} import on ${search}: log" />
+    <data name="database" format="sqlite" label="cgMLST database on ${search}" />
+  </outputs>
+  <tests>
+	<test expect_num_outputs="2">
+      <param name="search" value="Escherichia" />
+      <output name="logfile" ftype="txt">
+		<assert_contents>
+		  <has_text text="One element found : Escherichia coli" />
+		  <has_text text="Downloading the core genome..." />
+		  <has_text text="Reverse-complemented genes: 1294" />
+		  <has_text text="Database initialized" />
+		</assert_contents>
+	  </output>
+    </test>
+  </tests>
+  <help>
+**What it does**
+
+Import a cgMLST database from cgmlst.org
+
+Example :
+- Pseudomonas aeruginosa
+- Escherichia
+
+**License and citation**
+
+This Galaxy tool is Copyright © 2022 `B. Valot` and is released under the `GPL3 license`.
+  </help>
+  <citations>
+  </citations>
+</tool>