Mercurial > repos > jjohnson > data_manager_snpeff

diff data_manager_conf.xml @ 3:c6769a700e55

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Update loc data to separate version 4 databases
author Jim Johnson <jj@umn.edu>
date Tue, 21 Oct 2014 14:04:33 -0500
parents bc50aa3b328a
children 6a378d0f4856
line wrap: on
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--- a/data_manager_conf.xml	Mon Oct 20 13:17:12 2014 -0500
+++ b/data_manager_conf.xml	Tue Oct 21 14:04:33 2014 -0500
@@ -1,7 +1,7 @@
 <?xml version="1.0"?>
 <data_managers>
   <data_manager tool_file="data_manager/data_manager_snpEff_databases.xml" id="data_manager_snpeff_databases" >
-    <data_table name="snpeff_databases">  <!-- Defines a Data Table to be modified. -->
+    <data_table name="snpeff4_databases">  <!-- Defines a Data Table to be modified. -->
       <output> <!-- Handle the output of the Data Manager Tool -->
         <column name="value" /> <!-- columns that are going to be specified by the Data Manager Tool -->
         <column name="name" /> <!-- columns that are going to be specified by the Data Manager Tool -->
@@ -9,27 +9,27 @@
     </data_table>
   </data_manager>
   <data_manager tool_file="data_manager/data_manager_snpEff_download.xml" id="data_manager_snpeff_download" >
-    <data_table name="snpeff_genomedb">  <!-- Defines a Data Table to be modified. -->
+    <data_table name="snpeff4_genomedb">  <!-- Defines a Data Table to be modified. -->
       <output> <!-- Handle the output of the Data Manager Tool -->
         <column name="value" /> <!-- columns that are going to be specified by the Data Manager Tool -->
         <column name="name" />  <!-- columns that are going to be specified by the Data Manager Tool -->
         <column name="path" output_ref="out_file" >
           <move type="directory" relativize_symlinks="True">
-            <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">snpEff/data</target>
+            <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">snpEff/v4/data</target>
           </move>
-          <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/snpEff/data</value_translation>
+          <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/snpEff/v4/data</value_translation>
           <value_translation type="function">abspath</value_translation>
         </column>
       </output>
     </data_table>
-    <data_table name="snpeff_regulationdb">  <!-- Defines a Data Table to be modified. -->
+    <data_table name="snpeff4_regulationdb">  <!-- Defines a Data Table to be modified. -->
       <output> <!-- Handle the output of the Data Manager Tool -->
         <column name="genome" /> <!-- columns that are going to be specified by the Data Manager Tool -->
         <column name="value" /> <!-- columns that are going to be specified by the Data Manager Tool -->
         <column name="name" />  <!-- columns that are going to be specified by the Data Manager Tool -->
       </output>
     </data_table>
-    <data_table name="snpeff_annotations">  <!-- Defines a Data Table to be modified. -->
+    <data_table name="snpeff4_annotations">  <!-- Defines a Data Table to be modified. -->
       <output> <!-- Handle the output of the Data Manager Tool -->
         <column name="genome" /> <!-- columns that are going to be specified by the Data Manager Tool -->
         <column name="value" /> <!-- columns that are going to be specified by the Data Manager Tool -->