Mercurial > repos > iuc > bedtools

diff maskFastaBed.xml @ 19:a8eabd2838f6 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit 542ddc9e98cee5cc2a9e4caae945dee4b2c747b8
author iuc
date Fri, 08 Dec 2017 03:26:42 -0500
parents c78cf6fe3018
children 95a3b2c25bd1
line wrap: on
line diff
--- a/maskFastaBed.xml	Sat Oct 21 07:57:53 2017 -0400
+++ b/maskFastaBed.xml	Fri Dec 08 03:26:42 2017 -0500
@@ -9,10 +9,11 @@
 <![CDATA[
         bedtools maskfasta
             $soft
-            -mc "${mc}"
-            -fi "${fasta}"
-            -bed "${input}"
-            -fo "${output}"
+            -mc '${mc}'
+            -fi '${fasta}'
+            -bed '${input}'
+            -fo '${output}'
+            $fullheader
 ]]>
     </command>
     <inputs>
@@ -24,6 +25,9 @@
         <param name="mc" type="text"  value="N"
             label="Replace masking character"
             help="That is, instead of masking with Ns, use another character. (-mc)" />
+        <param argument="-fullheader" type="boolean" truevalue="-fullheader" falsevalue=""
+            label="Use full fasta header." 
+            help="By default, only the word before the first space or tab is used"/>
     </inputs>
     <outputs>
         <data format="fasta" name="output" />