# HG changeset patch
# User iuc
# Date 1430794035 14400
# Node ID 542d2008a462c8fdfb27ab0afe32eabd06b1e038
# Parent  76c128f4cef9dc7af14e98bd34f2404e2aea6d42
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit 344140b8df53b8b7024618bb04594607a045c03a

diff -r 76c128f4cef9 -r 542d2008a462 macros.xml
--- a/macros.xml	Wed Apr 29 22:46:52 2015 -0400
+++ b/macros.xml	Mon May 04 22:47:15 2015 -0400
@@ -4,7 +4,6 @@
             <requirement type="package" version="2.22">bedtools</requirement>
             <yield/>
         </requirements>
-        <version_command>bedtools --version</version_command>
     </xml>
     <token name="@WRAPPER_VERSION@">2.22</token>
     <xml name="stdio">
@@ -16,6 +15,7 @@
             <regex match="Error:" />
             <regex match="Exception:" />
         </stdio>
+        <version_command>bedtools --version</version_command>
     </xml>
     <xml name="reciprocal">
         <param name="reciprocal" type="boolean" checked="false" truevalue="-r" falsevalue=""
@@ -45,8 +45,8 @@
         </conditional>
     </xml>
     <xml name="split">
-        <param name="split" type="boolean" checked="false" truevalue="-split" falsevalue="" 
-            label="Treat split/spliced BAM or BED12 entries as distinct BED intervals when computing coverage." 
+        <param name="split" type="boolean" checked="false" truevalue="-split" falsevalue=""
+            label="Treat split/spliced BAM or BED12 entries as distinct BED intervals when computing coverage."
             help="If set, the coverage will be calculated based the spliced intervals only. For BAM files, this inspects the CIGAR N operation to infer the blocks for computing coverage. For BED12 files, this inspects the BlockCount, BlockStarts, and BlockEnds fields (i.e., columns 10,11,12). If this option is not set, coverage will be calculated based on the interval's START/END coordinates, and would include introns in the case of RNAseq data. (-split)" />
     </xml>
     <xml name="genome">