# HG changeset patch
# User nick
# Date 1370318826 14400
# Node ID a777a76205cc11a1292e678f3eed27974758869c
# Parent  99cda2ff12b83890a1c931f2f20b54cede3856f0
Current version - documentation and suppressing error on stderr messages

diff -r 99cda2ff12b8 -r a777a76205cc hetbox.xml
--- a/hetbox.xml	Tue Jun 04 00:06:36 2013 -0400
+++ b/hetbox.xml	Tue Jun 04 00:07:06 2013 -0400
@@ -4,7 +4,7 @@
   </command>
   <inputs>
     <param name="input" type="data" format="tabular" label="Input allele counts"/>
-    <param name="report" type="boolean" truevalue="yes" falsevalue="no" checked="True label="Also produce a text report" />
+    <param name="report" type="boolean" truevalue="yes" falsevalue="no" checked="True" label="Also produce a text report" />
   </inputs>
   <outputs>
     <data name="outplot" format="png"/>
@@ -12,6 +12,10 @@
       <filter>report is True</filter>
     </data>
   </outputs>
+  <stdio>
+    <exit_code range="1:" err_level="fatal"/>
+    <exit_code range=":-1" err_level="fatal"/>
+  </stdio>
 
   <help>
 
@@ -19,7 +23,13 @@
 
 **What it does**
 
-This will create a boxplot from the output of the "Count alleles" tool, showing the number of minor alleles per sample and the distribution of their frequencies (MAF). It can also, optionally, produce a textual report with these numbers.
+This will create a boxplot from the output of the "Count alleles" tool, showing the number of minor alleles per sample and the distribution of their frequencies (MAF). It can also, optionally, produce a text report with these numbers.
+
+.. class:: infomark
+
+**The boxplot**
+
+The graphic shows the distribution of the minor allele frequencies as a boxplot per sample. At the bottom of each plot, a count (N) is given of the number of minor alleles in the plot.
 
   </help>