From ebf8923704ba02f7c7086f3dc5b5f077ff84f178 Mon Sep 17 00:00:00 2001
From: Daniel Blankenberg <dan@bx.psu.edu>
Date: Wed, 1 Sep 2010 19:26:25 -0400
Subject: [PATCH] Fix for tools/filters/wig_to_bigwig.xml when coordinates
 extend beyond chromosome boundaries and -clip was specified.

---
 tools/filters/wig_to_bigwig.xml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/tools/filters/wig_to_bigwig.xml b/tools/filters/wig_to_bigwig.xml
index 310c6c231a8..50431e6e843 100644
--- a/tools/filters/wig_to_bigwig.xml
+++ b/tools/filters/wig_to_bigwig.xml
@@ -1,6 +1,6 @@
 <tool id="wig_to_bigWig" name="Wig to bigWig" version="1.0.0">
   <description>converter</description>
-  <command>grep -v "^track" $input1 | wigToBigWig stdin $chromInfo $out_file1 -blockSize=$blockSize -itemsPerSlot=$itemsPerSlot $clip $unc</command>
+  <command>grep -v "^track" $input1 | wigToBigWig stdin $chromInfo $out_file1 -blockSize=$blockSize -itemsPerSlot=$itemsPerSlot $clip $unc 2&gt;&amp;1 || echo "Error running wigToBigWig." >&amp;2</command>
   <requirements>
     <requirement type="binary">wigToBigWig</requirement>
   </requirements>