--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/mantel.xml	Fri May 19 05:32:35 2017 -0400
@@ -0,0 +1,67 @@
+<tool profile="16.07" id="mothur_mantel" name="Mantel" version="@WRAPPER_VERSION@.0">
+    <description>Mantel correlation coefficient between two matrices.</description>
+    <macros>
+        <import>macros.xml</import>
+    </macros>
+    <expand macro="requirements"/>
+    <expand macro="stdio"/>
+    <expand macro="version_command"/>
+    <command><![CDATA[
+        @SHELL_OPTIONS@
+
+        ## create symlinks to input datasets
+        ln -s "$dist" dist.dat &&
+        ln -s "$dist2" dist2.dat &&
+
+        echo 'mantel(
+            phylip1=dist.dat,
+            phylip2=dist2.dat,
+            method=$method,
+            iters=$iters
+        )'
+        | sed 's/ //g'  ## mothur trips over whitespace
+        | mothur
+        | tee mothur.out.log
+    ]]></command>
+    <inputs>
+        <param name="dist" type="data" format="mothur.dist,mothur.lower.dist,mothur.square.dist" label="phylip - Distance Matrix"/>
+        <param name="dist2" type="data" format="mothur.dist,mothur.lower.dist,mothur.square.dist" label="phylip2 - Distance Matrix"/>
+        <param name="method" type="select" optional="true" label="method - pearson, spearman, or kendall. Default: pearson">
+                <option value="pearson" selected="true">pearson</option>
+                <option value="spearman">spearman</option>
+                <option value="kendall">kendall</option>
+        </param>
+        <param name="iters" type="integer" value="1000" label="iters - Number of random configuration to try (default 1000)"/>
+    </inputs>
+    <outputs>
+        <expand macro="logfile-output"/>
+        <data name="mantel" format="tabular" from_work_dir="dist*.mantel" label="${tool.name} on ${on_string}: mantel"/>
+    </outputs>
+    <tests>
+        <test>
+            <param name="dist" value="veg.dist"/>
+            <param name="dist2" value="env.dist"/>
+            <output name="mantel" ftype="tabular">
+                <assert_contents>
+                    <has_line_matching expression="^Mantel\tpValue$"/>
+                </assert_contents>
+            </output>
+            <expand macro="logfile-test"/>
+        </test>
+    </tests>
+    <help>
+<![CDATA[
+
+@MOTHUR_OVERVIEW@
+
+**Command Documentation**
+
+The mantel_ command calculates the Mantel correlation coefficient between two matrices_.
+
+.. _matrices: //www.mothur.org/wiki/Phylip-formatted_distance_matrix
+.. _mantel: https://www.mothur.org/wiki/Mantel
+
+]]>
+    </help>
+    <expand macro="citations"/>
+</tool>