--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/bmsb.xml	Mon Aug 01 11:16:51 2016 -0400
@@ -0,0 +1,49 @@
+<?xml version="."?>
+<tool id="bmsb" name="BMSB" version="1.0.0">
+    <description></description>
+    <requirements>
+        <requirement type="package" version="1.0">bmsb</requirement>
+    </requirements>
+    <command>
+        <![CDATA[
+            #import json
+            Rscript $__tool_directory__/bmsb.R
+            -o "$output"
+            #if str($output_r_logging_cond.output_r_logging) == "yes":
+                -s "true"
+                -m "$output_r_log"
+            #end if
+            #if str($output_r_logging_cond.output_r_logging) == "yes":
+                -e "true"
+                -x "$output_ex_report"
+            #end if
+        ]]>
+    </command>
+    <inputs>
+        <conditional name="output_r_logging_cond">
+            <param name="output_r_logging" type="select" label="Output R logging?" help="Generate an additional dataset consisting of R messages.">
+                <option value="yes" selected="True">Yes</option>
+                <option value="no">No</option>
+            </param>
+            <when value="no"/>
+            <when value="yes"/>
+        </conditional>
+    </inputs>
+    <outputs>
+        <data name="output_r_log" format="txt" label="${tool.name} on ${on_string}: R log">
+            <filter>output_r_logging_cond['output_r_logging'] == "yes"</filter>
+        </data>
+        <data name="output_ex_report" format="json" label="${tool.name} on ${on_string}: Experiment report">
+            <filter>output_experiment_report_cond['output_experiment_report'] == "yes"</filter>
+        </data>
+        <data name="output" format="RData"/>
+    </outputs>
+    <help>
+**What it does**
+ 
+BMSB prototype tool.
+    </help>
+    <citations>
+        <citation></citation>
+    </citations>
+</tool>