Mercurial > repos > jjohnson > snpeff

diff data_manager/data_manager_snpEff_download.xml @ 2:6ad9205c1307

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Update to SnpEff version 3.3
author Jim Johnson <jj@umn.edu>
date Fri, 04 Oct 2013 09:09:29 -0500
parents e1d9f6a0ad53
children 47ddc9f4d0b6
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--- a/data_manager/data_manager_snpEff_download.xml	Thu Jul 04 09:49:15 2013 -0500
+++ b/data_manager/data_manager_snpEff_download.xml	Fri Oct 04 09:09:29 2013 -0500
@@ -1,10 +1,10 @@
-<tool id="data_manager_snpeff_download" name="SnpEff Download" version="3.2" tool_type="manage_data">
+<tool id="data_manager_snpeff_download" name="SnpEff Download" version="3.3" tool_type="manage_data">
     <description>Download a new database</description>
     <requirements>
-        <requirement type="package" version="3.2">snpEff</requirement>
+        <requirement type="package" version="3.3">snpEff</requirement>
     </requirements>
     <command interpreter="python">
-        data_manager_snpEff_download.py --jar_path \$JAVA_JAR_PATH/snpEff.jar --config \$JAVA_JAR_PATH/snpEff.config 
+        data_manager_snpEff_download.py --jar_path \$SNPEFF_JAR_PATH/snpEff.jar --config \$SNPEFF_JAR_PATH/snpEff.config 
         --genome_version "${genome_databases.fields.value}"
         --organism "${genome_databases.fields.name}"
         "$out_file"