Mercurial > repos > devteam > data_manager_bwa_index_builder

view data_manager_conf.xml @ 0:367878cb3698 draft

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Uploaded data manager definition.
author devteam
date Fri, 28 Mar 2014 14:18:43 -0400
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<?xml version="1.0"?>
<data_managers>
    
    <data_manager tool_file="data_manager/bwa_index_builder.xml" id="bwa_index_builder" version="0.0.1">
        <data_table name="bwa_indexes">
            <output>
                <column name="value" />
                <column name="dbkey" />
                <column name="name" />
                <column name="path" output_ref="out_file" >
                    <move type="directory" relativize_symlinks="True">
                        <!-- <source>${path}</source>--> <!-- out_file.extra_files_path is used as base by default --> <!-- if no source, eg for type=directory, then refers to base -->
                        <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">${dbkey}/bwa_index/${value}</target>
                    </move>
                    <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/${dbkey}/bwa_index/${value}/${path}</value_translation>
                    <value_translation type="function">abspath</value_translation>
                </column>
            </output>
        </data_table>
    </data_manager>
    
    <data_manager tool_file="data_manager/bwa_color_space_index_builder.xml" id="bwa_color_space_index_builder" version="0.0.1">
        <data_table name="bwa_indexes_color">
            <output>
                <column name="value" />
                <column name="dbkey" />
                <column name="name" />
                <column name="path" output_ref="out_file" >
                    <move type="directory" relativize_symlinks="True">
                        <!-- <source>${path}</source>--> <!-- out_file.extra_files_path is used as base by default --> <!-- if no source, eg for type=directory, then refers to base -->
                        <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">${dbkey}/bwa_index/${value}/color</target> <!-- confirm this as preferred location -->
                    </move>
                    <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/${dbkey}/bwa_index/${value}/color/${path}</value_translation>
                    <value_translation type="function">abspath</value_translation>
                </column>
            </output>
        </data_table>
    </data_manager>
    
</data_managers>