diff data_manager/data_manager_metaphlan2_download.xml @ 0:9c4ad82be5bd draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_metaphlan2_database_downloader commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/data_manager/data_manager_metaphlan2_download.xml	Sat Mar 04 12:11:20 2017 -0500
@@ -0,0 +1,40 @@
+<tool id="data_manager_metaphlan2_download" name="MetaPhlAn2 download" version="2.6.0" tool_type="manage_data">
+    <description>Download MetaPhlAn2 database</description>
+
+    <requirements>
+        <requirement type="package" version="2.6.0">metaphlan2</requirement>
+    </requirements>
+
+    <stdio>
+        <exit_code range=":-1" level="fatal" description="Error: Cannot open file" />
+        <exit_code range="1:" level="fatal" description="Error" />
+    </stdio>
+
+    <command><![CDATA[
+        python '$__tool_directory__/data_manager_metaphlan2_download.py'
+            --database $database
+            '${out_file}'
+    ]]></command>
+
+    <inputs>
+        <param name="database" type="select" label="Database to download">
+            <option value="db_v20" selected="true">MetaPhlAn2 clade-specific marker genes</option>
+          </param>
+    </inputs>
+
+    <outputs>
+           <data name="out_file" format="data_manager_json" label="${tool.name}"/>
+    </outputs>
+
+    <tests>
+    </tests>
+
+    <help><![CDATA[
+This tool downloads the MetaPhlAn2 databases.
+    ]]></help>
+
+    <citations>
+        <citation type="doi">10.1371/journal.pcbi.1003153</citation>
+        <yield />
+    </citations>
+</tool>