Mercurial > repos > jjohnson > snpeff

diff snpEff.xml @ 21:c780e3f75b3d

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Filter genome history snpeffdb by snpeff_version
author Jim Johnson <jj@umn.edu>
date Wed, 14 Jan 2015 12:03:21 -0600
parents 2e37b58fc24d
children bb0797deab78
line wrap: on
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--- a/snpEff.xml	Tue Jan 13 16:01:31 2015 -0600
+++ b/snpEff.xml	Wed Jan 14 12:03:21 2015 -0600
@@ -1,4 +1,4 @@
-<tool id="snpEff" name="SnpEff" version="@WRAPPER_VERSION@.2">
+<tool id="snpEff" name="SnpEff" version="@WRAPPER_VERSION@.3">
     <description>Variant effect and annotation</description>
     <expand macro="requirements" />
     <macros>
@@ -118,7 +118,7 @@
                 <param name="genomeVersion" type="select" label="Genome">
                     <!--GENOME    DESCRIPTION-->
                     <options from_data_table="snpeffv_genomedb">
-                           <filter type="static_value" name="snpeff_version" value="SnpEff4.0" column="1"/>
+                           <filter type="static_value" name="snpeff_version" value="@SNPEFF_VERSION@" column="1"/>
                            <filter type="unique_value" column="2" />
                     </options>
                 </param>
@@ -138,7 +138,12 @@
                 </param>
             </when>
             <when value="history">
-                <param format="snpeffdbv40" name="snpeff_db" type="data" label="SnpEff Genome Version Data"/>
+                <param format="snpeffdb" name="snpeff_db" type="data" label="@SNPEFF_VERSION@ Genome Data">
+                    <options options_filter_attribute="metadata.snpeff_version" >
+                        <filter type="add_value" value="@SNPEFF_VERSION@" />
+                    </options>
+                    <validator type="expression" message="This version of SnpEff will only work with @SNPEFF_VERSION@ Genome databases.">value is not None and value.metadata.snpeff_version == "@SNPEFF_VERSION@"</validator>
+                </param>
                 <!-- From metadata -->
                 <param name="extra_annotations" type="select" display="checkboxes" multiple="true" label="Additional annotations">
                     <help>These are available for only a few genomes</help>