Mercurial > repos > sanbi-uwc > plink

changeset 2:51f95fbef112 draft

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planemo upload for repository https://github.com/CPGRZA/cpgr_ancestry/galaxy-tools/plink commit c72e05aafb59b32b964f3c4ae15a051cd17bd9ee
author sanbi-uwc
date Mon, 27 Aug 2018 09:35:06 -0400
parents af8a81160c4f
children 50f56c93c168
files plink.xml
diffstat 1 files changed, 3 insertions(+), 33 deletions(-) [+]
line wrap: on
line diff
--- a/plink.xml	Mon Aug 27 09:30:11 2018 -0400
+++ b/plink.xml	Mon Aug 27 09:35:06 2018 -0400
@@ -30,42 +30,12 @@
     <param name="input_bed_file" type="data" format="bed" label="Select the bed file"/> 
     <param name="chr_num" type="integer" value="22" label="Enter Chromosome Limit"/> 
     <!-- plink options -->
-    <conditional name="plink_noweb_options">
-        <param name="plink_noweb_selector" type="select" label="Plink noweb options"
-                help="Sets --noweb">
-            <option value="do_not_set" selected="true">Use defaults</option>
-            <option value="set">Set noweb options</option>
-        </param>
-        <when value="set">
-            <param name="noweb" argument="--noweb" type="boolean" truevalue="--noweb" falsevalue="" checked="false"                            
+    <param name="noweb" argument="--noweb" type="boolean" truevalue="--noweb" falsevalue="" checked="false"                            
                     label="Noweb has no effect since no web check is implemented yet. " /> 
-        </when>
-        <when value="do_not_set" />
-    </conditional>
-    <conditional name="plink_chr_options">
-        <param name="plink_chr_selector" type="select" label="Plink chromosome options"
-                help="Sets --chr">
-            <option value="do_not_set" selected="true">Use defaults</option>
-            <option value="set">Set chromosomes to exclude options</option>
-        </param>
-        <when value="set">
-            <param name="chr" argument="--chr" type="boolean" truevalue="--chr" falsevalue="" checked="false"                            
+    <param name="chr" argument="--chr" type="boolean" truevalue="--chr" falsevalue="" checked="false"                            
                     label="All variants not on this given chromosome(s)" /> 
-        </when>
-        <when value="do_not_set" />
-    </conditional>
-    <conditional name="plink_make_bed_options">
-        <param name="plink_make_deb_selector" type="select" label="Plink make-bed options"
-                help="Sets --make-bed">
-            <option value="do_not_set" selected="true">Use defaults</option>
-            <option value="set">Set make-bed options</option>
-        </param>
-        <when value="set">
-            <param name="makebed" argument="--make-bed" type="boolean" truevalue="--make-bed" falsevalue="" checked="false"                            
+    <param name="makebed" argument="--make-bed" type="boolean" truevalue="--make-bed" falsevalue="" checked="false"                            
                     label="Create a new binary fileset." /> 
-        </when>
-        <when value="do_not_set" />
-    </conditional>
   </inputs>
         
   <outputs>