Mercurial > repos > iuc > data_manager_snpeff

annotate data_manager_conf.xml @ 1:c33041cee35a draft

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planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 47cd0cc3b680295e6bea84acc89f18c79b6d3f0c
author iuc
date Tue, 07 Jun 2016 15:43:55 -0400
parents 111fc9457ec6
children a9cace1ee2b7
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111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
parents:
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1 <?xml version="1.0"?>
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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2 <data_managers>
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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3 <data_manager tool_file="data_manager/data_manager_snpEff_databases.xml" id="data_manager_snpeff_databases" >
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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4 <data_table name="snpeffv_databases"> <!-- Defines a Data Table to be modified. -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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5 <output> <!-- Handle the output of the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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6 <column name="key" /> <!-- columns that are going to be specified by the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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7 <column name="version" /> <!-- columns that are going to be specified by the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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8 <column name="value" /> <!-- columns that are going to be specified by the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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9 <column name="name" /> <!-- columns that are going to be specified by the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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10 </output>
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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11 </data_table>
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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12 </data_manager>
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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13 <data_manager tool_file="data_manager/data_manager_snpEff_download.xml" id="data_manager_snpeff_download" >
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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14 <data_table name="snpeffv_genomedb"> <!-- Defines a Data Table to be modified. -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
parents:
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15 <output> <!-- Handle the output of the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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16 <column name="key" /> <!-- columns that are going to be specified by the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
parents:
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17 <column name="version" /> <!-- columns that are going to be specified by the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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18 <column name="value" /> <!-- columns that are going to be specified by the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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19 <column name="name" /> <!-- columns that are going to be specified by the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
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20 <column name="path" output_ref="out_file" >
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
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21 <move type="directory" relativize_symlinks="True">
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c33041cee35a planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 47cd0cc3b680295e6bea84acc89f18c79b6d3f0c
iuc
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22 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">snpEff/v4_1/data</target>
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111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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23 </move>
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c33041cee35a planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 47cd0cc3b680295e6bea84acc89f18c79b6d3f0c
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24 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/snpEff/v4_1/data</value_translation>
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111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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25 <value_translation type="function">abspath</value_translation>
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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26 </column>
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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27 </output>
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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28 </data_table>
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
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29 <data_table name="snpeffv_regulationdb"> <!-- Defines a Data Table to be modified. -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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30 <output> <!-- Handle the output of the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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31 <column name="key" /> <!-- columns that are going to be specified by the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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32 <column name="version" /> <!-- columns that are going to be specified by the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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33 <column name="genome" /> <!-- columns that are going to be specified by the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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34 <column name="value" /> <!-- columns that are going to be specified by the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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35 <column name="name" /> <!-- columns that are going to be specified by the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
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36 </output>
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
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37 </data_table>
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
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38 <data_table name="snpeffv_annotations"> <!-- Defines a Data Table to be modified. -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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39 <output> <!-- Handle the output of the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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40 <column name="key" /> <!-- columns that are going to be specified by the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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41 <column name="version" /> <!-- columns that are going to be specified by the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
parents:
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42 <column name="genome" /> <!-- columns that are going to be specified by the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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43 <column name="value" /> <!-- columns that are going to be specified by the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
iuc
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44 <column name="name" /> <!-- columns that are going to be specified by the Data Manager Tool -->
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
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45 </output>
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
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46 </data_table>
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
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47 </data_manager>
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
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48 </data_managers>
111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
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111fc9457ec6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_snpeff commit 88c982c5adcd32b11d98428fc554a4fdfcc19584
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