Mercurial > repos > iuc > bcftools_call

diff bcftools_call.xml @ 4:a4f3b1dbb345 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 5725fea947162618d77de7b8011d18b2f16c7094
author iuc
date Sat, 21 Jan 2017 06:51:16 -0500
parents 0812cba3c4c8
children 3e85f6c5cf8e
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line diff
--- a/bcftools_call.xml	Wed Jul 13 10:49:25 2016 -0400
+++ b/bcftools_call.xml	Sat Jan 21 06:51:16 2017 -0500
@@ -1,5 +1,5 @@
 <?xml version='1.0' encoding='utf-8'?>
-<tool name="bcftools @EXECUTABLE@" id="bcftools_@EXECUTABLE@" version="@VERSION@.0">
+<tool name="bcftools @EXECUTABLE@" id="bcftools_@EXECUTABLE@" version="@VERSION@.1">
     <description>SNP/indel variant calling from VCF/BCF</description>
     <macros>
         <token name="@EXECUTABLE@">call</token>
@@ -114,7 +114,7 @@
                         </when>
                         <when value="trio">
                             <expand macro="macro_targets" />
-                            <param name="novel_rate" type="float" label="Novel Rate" default="1e-8,1e-9,1e-9" optional="true" help="likelihood of novel mutation for constrained trio calling, see man page for details" />
+                            <param name="novel_rate" type="float" label="Novel Rate" value="1e-8,1e-9,1e-9" optional="true" help="likelihood of novel mutation for constrained trio calling, see man page for details" />
                         </when>
                     </conditional>
                     <param name="gvcf" type="integer" label="gvcf" optional="True" help="group non-variant sites into gVCF blocks by minimum per-sample DP" />
@@ -128,14 +128,14 @@
                         <when value="none">
                         </when>
                         <when value="trio">
-                            <param name="novel_rate" type="float" label="Novel Rate" default="1e-8,1e-9,1e-9" optional="true" help="likelihood of novel mutation for constrained trio calling, see man page for details" />
+                            <param name="novel_rate" type="float" label="Novel Rate" value="1e-8,1e-9,1e-9" optional="true" help="likelihood of novel mutation for constrained trio calling, see man page for details" />
                         </when>
                     </conditional>
                     <expand macro="macro_targets" />
                 </when>
             </conditional>
-            <param name="pval_threshold" type="float" label="Pval Threshold" default="0.5" optional="True" help="variant if P(ref|D)&lt;FLOAT with -c" />
-            <param name="prior" type="float" label="Prior" default="1.1e-3" optional="True" help="mutation rate (use bigger for greater sensitivity)" />
+            <param name="pval_threshold" type="float" label="Pval Threshold" value="0.5" optional="True" help="variant if P(ref|D)&lt;FLOAT with -c" />
+            <param name="prior" type="float" label="Prior" value="1.1e-3" optional="True" help="mutation rate (use bigger for greater sensitivity)" />
         </section>
         <section name="sec_file_format" expanded="false" title="File format Options">
             <param name="ploidy" type="select" label="Select Predefined Ploidy" optional="true">