--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/humann2_join_tables.xml	Mon Feb 20 11:40:32 2017 -0500
@@ -0,0 +1,64 @@
+<tool id="humann2_join_tables" name="Join" version="@WRAPPER_VERSION@.0">
+    <description>HUMAnN2 generated tables</description>
+
+    <macros>
+        <import>humann2_macros.xml</import>
+    </macros>
+
+    <expand macro="requirements"/>
+    <expand macro="stdio"/>
+
+    <version_command>
+<![CDATA[
+    humann2_join_tables --version
+]]>
+    </version_command>
+
+    <command><![CDATA[
+        mkdir tmp_dir
+
+        && 
+
+        #for $table in $input_tables
+            cp '$table.input_table' 'tmp_dir' &&
+        #end for
+ 
+        humann2_join_tables
+            -i 'tmp_dir'
+            -o '$joined_table'          
+    ]]></command>
+
+    <inputs>
+        <repeat name="input_tables" title="Gene/pathway tables to join">
+            <param name="input_table" type="data" format="tsv,tabular" multiple="true" label="Gene/pathway table" help=""/>
+        </repeat>
+    </inputs>
+
+    <outputs>
+        <data format="tsv" name="joined_table" label="${tool.name} on ${on_string}: Joined table" />
+    </outputs>
+
+    <tests>
+        <test>
+            <param name="input_tables_0|input_table" value="demo_pathabundance.tsv"/>
+            <param name="input_tables_1|input_table" value="demo_pathcoverage.tsv"/>
+            <output name="joined_table">
+                <assert_contents>
+                    <has_text text="PWY490-3: nitrate reduction VI (assimilatory)|unclassified" />
+                    <has_text text="PWY-1269: CMP-3-deoxy-D-manno-octulosonate biosynthesis I" />
+                    <has_text text="VALSYN-PWY: L-valine biosynthesis" />
+                    <has_text text="UNINTEGRATED|g__Bacteroides.s__Bacteroides_vulgatus" />
+                </assert_contents>
+            </output>
+        </test>
+    </tests>
+
+    <help><![CDATA[
+**What it does**
+HUMAnN is a pipeline for efficiently and accuretly profiling the presence/absence and abundance of microbial pathways in a community from metagenomic or metatranscriptomic sequencing data. `Read more about the tool <http://huttenhower.sph.harvard.edu/humann2/manual>`_.
+
+Join HUMAnN2 tables is a tool to join gene or pathway tables of multiple samples into a single table.
+    ]]></help>
+
+    <expand macro="citations"/>
+</tool>