diff shuffleBed.xml @ 12:c782e0edc4f1 draft default tip

Uploaded

--- a/shuffleBed.xml	Wed Jun 18 15:07:04 2014 -0400
+++ b/shuffleBed.xml	Thu Jun 19 10:12:00 2014 -0400
@@ -1,4 +1,4 @@
-<tool id="bedtools_shufflebed" name="ShuffleBed" version="0.2.0">
+<tool id="bedtools_shufflebed" name="ShuffleBed" version="@WRAPPER_VERSION@.0">
     <description></description>
     <macros>
         <import>macros.xml</import>
@@ -47,15 +47,14 @@
             </when>
         </conditional>
         
-        <param name="chromfirst" type="boolean" label="Instead of choosing a position randomly among the entire genome (the default), first choose a chrom randomly, and then choose a random start coordinate on that chrom. This leads to features being ~uniformly distributed among the chroms, as opposed to features being distribute as a function of chrom size" selected="False" truevalue="-chromFirst" falsevalue="" />
-
+        <param name="chromfirst" type="boolean" selected="False" truevalue="-chromFirst" falsevalue="" 
+            label="Instead of choosing a position randomly among the entire genome (the default), first choose a chrom randomly, and then choose a random start coordinate on that chrom. This leads to features being ~uniformly distributed among the chroms, as opposed to features being distribute as a function of chrom size" />
         <param name="maxtries" type="integer" value="1000" label="Max. number of attempts to find a home for a shuffled interval in the presence of -incl or -excl" />
-        <param name="nooverlap" type="boolean" label="Don’t allow shuffled intervals to overlap" selected="False" truevalue="-noOverlapping" falsevalue="" />
-        <param name="allowBeyond" type="boolean" label="Allow the original the length of the original records to extebd beyond the length of the chromosome." selected="False" truevalue="-allowBeyondChromEnd" falsevalue="" />
+        <param name="nooverlap" type="boolean" selected="False" truevalue="-noOverlapping" falsevalue="" label="Don’t allow shuffled intervals to overlap" />
+        <param name="allowBeyond" type="boolean" selected="False" truevalue="-allowBeyondChromEnd" falsevalue="" label="Allow the original the length of the original records to extebd beyond the length of the chromosome." />
     </inputs>
     <outputs>
         <data format="bed" name="output" />
-        
     </outputs>
     <help>