Mercurial > repos > jjohnson > snpeff

diff snpEff.xml @ 13:4be8e0068bc3

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Update loc data to separate version 4 databases
author Jim Johnson <jj@umn.edu>
date Tue, 21 Oct 2014 14:05:27 -0500
parents 6d429d880a75
children fac49d7ea7d4
line wrap: on
line diff
--- a/snpEff.xml	Mon Oct 20 08:37:01 2014 -0500
+++ b/snpEff.xml	Tue Oct 21 14:05:27 2014 -0500
@@ -94,20 +94,20 @@
             <when value="cached">
                 <param name="genomeVersion" type="select" label="Genome">
                     <!--GENOME    DESCRIPTION-->
-                    <options from_data_table="snpeff_genomedb">
+                    <options from_data_table="snpeff4_genomedb">
                            <filter type="unique_value" column="0" />
                     </options>
                 </param>
                 <param name="extra_annotations" type="select" display="checkboxes" multiple="true" label="Additional Annotations">
                        <help>These are available for only a few genomes</help>
-                       <options from_data_table="snpeff_annotations">
+                       <options from_data_table="snpeff4_annotations">
                            <filter type="param_value" ref="genomeVersion" key="genome" column="0" />
                            <filter type="unique_value" column="1" />
                        </options>
                 </param>
                 <param name="regulation" type="select" display="checkboxes" multiple="true" label="Non-coding and regulatory Annotation">
                        <help>These are available for only a few genomes</help>
-                       <options from_data_table="snpeff_regulationdb">
+                       <options from_data_table="snpeff4_regulationdb">
                            <filter type="param_value" ref="genomeVersion" key="genome" column="0" />
                            <filter type="unique_value" column="1" />
                        </options>
@@ -130,7 +130,7 @@
                 </param>
             </when>
             <when value="named">
-                <param name="genome_version" type="text" value="GRCh37.68" label="Snpff Version Name"/>
+                <param name="genome_version" type="text" value="GRCh38.76" label="Snpff Version Name"/>
             </when>
         </conditional>