# HG changeset patch
# User iuc
# Date 1432262911 14400
# Node ID bdb4509d9482d273bb05b87e3d6b742ba7caf52f
# Parent  542d2008a462c8fdfb27ab0afe32eabd06b1e038
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit e8e971905f5fce11a99d51b1399af45288389d76

diff -r 542d2008a462 -r bdb4509d9482 macros.xml
--- a/macros.xml	Mon May 04 22:47:15 2015 -0400
+++ b/macros.xml	Thu May 21 22:48:31 2015 -0400
@@ -90,7 +90,7 @@
     </xml>
 
     <xml name="choose_column">
-        <param name="col" type="data_column" data_ref="input" label="Specify the column(s) that should be summarized" help="(-c)" />
+        <param name="col" type="data_column" data_ref="inputA" label="Specify the column(s) that should be summarized" help="(-c)" />
     </xml>
 
     <token name="@C_AND_O_ARGUMENT@">
diff -r 542d2008a462 -r bdb4509d9482 mapBed.xml
--- a/mapBed.xml	Mon May 04 22:47:15 2015 -0400
+++ b/mapBed.xml	Thu May 21 22:48:31 2015 -0400
@@ -49,7 +49,7 @@
             <param name="inputA" value="mapBed1.bed" ftype="bed" />
             <param name="inputB" value="mapBed2.bed" ftype="bed" />
             <repeat name="c_and_o_argument_repeat">
-                <param name="cols" value="5" />
+                <param name="col" value="5" />
                 <param name="operation" value="mean" />
             </repeat>
             <output name="output" file="mapBed_result1.bed" ftype="bed" />
@@ -67,7 +67,7 @@
             <param name="inputA" value="mapBed1.bed" ftype="bed" />
             <param name="inputB" value="mapBed2.bed" ftype="bed" />
             <repeat name="c_and_o_argument_repeat">
-                <param name="cols" value="5" />
+                <param name="col" value="5" />
                 <param name="operation" value="collapse" />
             </repeat>
             <param name="strand" value="-S" />
@@ -77,7 +77,7 @@
             <param name="inputA" value="mapBed1.bed" ftype="bed" />
             <param name="inputB" value="mapBed2.bed" ftype="bed" />
             <repeat name="c_and_o_argument_repeat">
-                <param name="cols" value="5" />
+                <param name="col" value="5" />
                 <param name="operation" value="collapse" />
             </repeat>
             <param name="strand" value="-s" />
diff -r 542d2008a462 -r bdb4509d9482 shuffleBed.xml
--- a/shuffleBed.xml	Mon May 04 22:47:15 2015 -0400
+++ b/shuffleBed.xml	Thu May 21 22:48:31 2015 -0400
@@ -42,6 +42,7 @@
                 <option value="not_be">Coordinates in which features from -i should not be placed?</option>
                 <option value="be">coordinates in which features from -i should be placed?</option>
             </param>
+            <when value="no" />
             <when value="not_be">
                 <param name="excl" type="data" format="bed" label="Choose File" />
                 <expand macro="overlap" />