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annotate 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
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1 <?xml version="1.0"?>
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2 <data_managers>
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3 <data_manager tool_file="data_manager/data_manager_snpEff_databases.xml" id="data_manager_snpeff_databases" >
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4 <data_table name="snpeff4_databases"> <!-- Defines a Data Table to be modified. -->
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5 <output> <!-- Handle the output of the Data Manager Tool -->
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6 <column name="value" /> <!-- columns that are going to be specified by the Data Manager Tool -->
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7 <column name="name" /> <!-- columns that are going to be specified by the Data Manager Tool -->
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8 </output>
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9 </data_table>
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10 </data_manager>
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11 <data_manager tool_file="data_manager/data_manager_snpEff_download.xml" id="data_manager_snpeff_download" >
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12 <data_table name="snpeff4_genomedb"> <!-- Defines a Data Table to be modified. -->
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13 <output> <!-- Handle the output of the Data Manager Tool -->
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14 <column name="value" /> <!-- columns that are going to be specified by the Data Manager Tool -->
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15 <column name="name" /> <!-- columns that are going to be specified by the Data Manager Tool -->
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16 <column name="path" output_ref="out_file" >
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17 <move type="directory" relativize_symlinks="True">
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18 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">snpEff/v4/data</target>
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19 </move>
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20 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/snpEff/v4/data</value_translation>
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21 <value_translation type="function">abspath</value_translation>
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22 </column>
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23 </output>
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24 </data_table>
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25 <data_table name="snpeff4_regulationdb"> <!-- Defines a Data Table to be modified. -->
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26 <output> <!-- Handle the output of the Data Manager Tool -->
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27 <column name="genome" /> <!-- columns that are going to be specified by the Data Manager Tool -->
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28 <column name="value" /> <!-- columns that are going to be specified by the Data Manager Tool -->
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29 <column name="name" /> <!-- columns that are going to be specified by the Data Manager Tool -->
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30 </output>
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31 </data_table>
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32 <data_table name="snpeff4_annotations"> <!-- Defines a Data Table to be modified. -->
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33 <output> <!-- Handle the output of the Data Manager Tool -->
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34 <column name="genome" /> <!-- columns that are going to be specified by the Data Manager Tool -->
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35 <column name="value" /> <!-- columns that are going to be specified by the Data Manager Tool -->
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36 <column name="name" /> <!-- columns that are going to be specified by the Data Manager Tool -->
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37 </output>
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38 </data_table>
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39 </data_manager>
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40 </data_managers>
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