diff metaphlan2_macros.xml @ 0:f7353110d18c draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/metaphlan2_macros.xml	Sat Mar 04 12:24:23 2017 -0500
@@ -0,0 +1,40 @@
+<?xml version="1.0"?>
+<macros>
+    <token name="@WRAPPER_VERSION@">2.6.0</token>
+    <xml name="requirements">
+        <requirements>
+            <requirement type="package" version="@WRAPPER_VERSION@">metaphlan2</requirement>
+            <yield/>
+        </requirements>
+    </xml>
+    <xml name="stdio">
+        <stdio>
+            <exit_code range="1:" level="fatal"   description="" />
+            <regex match="ERROR"
+                   source="stderr"
+                   level="fatal"
+                   description="" />
+            <regex match="WARNING"
+                   source="stderr"
+                   level="warning"
+                   description="" />
+        </stdio>
+    </xml>
+    <xml name="citations">
+      <citations>
+          <citation type="doi">10.1038/nmeth.3589</citation>
+      </citations>
+    </xml>
+    <xml name="tax_lev">
+      <param argument="--tax_lev" type="select" label="Taxonomic level for the relative abundance output">
+        <option value="a" selected="true">All taxonomic levels</option>
+        <option value="k">Kingdoms (Bacteria and Archaea) only</option>
+        <option value="p">Phyla only</option>
+        <option value="c">Classes only</option>
+        <option value="o">Orders only</option>
+        <option value="f">Families only</option>
+        <option value="g">Genera only</option>
+        <option value="s">Species only</option>
+      </param>
+    </xml>
+</macros>