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view data_manager_conf.xml @ 3:af0250fd023c draft

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planemo upload commit 0014df2cf8bb24ab227068ee24dc798b6ffa4799-dirty
author proteore
date Thu, 05 Sep 2019 07:45:16 -0400
parents 9ec42cb35abd
children e967a99d66b3
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<?xml version="1.0"?>
<data_managers>
    <data_manager tool_file="data_manager/resource_building.xml" id="resource_building">
        <data_table name="proteore_peptide_atlas">
            <output>
                <column name="id"/>
                <column name="name" />
                <column name="tissue" />
                <column name="value" output_ref="output" >
                    <move type="file">
                        <!--source>${path}/${value}.tsv</source-->
                        <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">peptide_atlas/</target>
                    </move>
                    <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/peptide_atlas/${id}.tsv</value_translation>
                    <value_translation type="function">abspath</value_translation>
                </column>
            </output>
        </data_table>
        <data_table name="proteore_protein_atlas_normal_tissue">
            <output>
                <column name="id"/>
                <column name="release"/>
                <column name="name" />
                <column name="tissue" />
                <column name="value" output_ref="output" >
                    <move type="file">
                        <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">protein_atlas/</target>
                    </move>
                    <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/protein_atlas/${release}.tsv</value_translation>
                    <value_translation type="function">abspath</value_translation>
                </column>
            </output>
        </data_table>
        <data_table name="proteore_protein_atlas_tumor_tissue">
            <output>
                <column name="id"/>
                <column name="release"/>
                <column name="name" />
                <column name="tissue" />
                <column name="value" output_ref="output" >
                    <move type="file">
                        <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">protein_atlas/</target>
                    </move>
                    <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/protein_atlas/${release}.tsv</value_translation>
                    <value_translation type="function">abspath</value_translation>
                </column>
            </output>
        </data_table>
        <data_table name="proteore_id_mapping_Human">
            <output>
                <column name="id" />
                <column name="release"/>
                <column name="name" />
                <column name="species" />
                <column name="value" output_ref="output" >
                    <move type="file">
                        <!--source>${path}</source-->
                        <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">id_mapping/</target>
                    </move>
                    <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/id_mapping/${release}.tsv</value_translation>
                    <value_translation type="function">abspath</value_translation>
                </column>
            </output>
        </data_table>
        <data_table name="proteore_id_mapping_Mouse">
            <output>
                <column name="id" />
                <column name="release"/>
                <column name="name" />
                <column name="species" />
                <column name="value" output_ref="output" >
                    <move type="file">
                        <!--source>${path}</source-->
                        <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">id_mapping/</target>
                    </move>
                    <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/id_mapping/${release}.tsv</value_translation>
                    <value_translation type="function">abspath</value_translation>
                </column>
            </output>
        </data_table>
        <data_table name="proteore_id_mapping_Rat">
            <output>
                <column name="id" />
                <column name="release"/>
                <column name="name" />
                <column name="species" />
                <column name="value" output_ref="output" >
                    <move type="file">
                        <!--source>${path}</source-->
                        <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">id_mapping/</target>
                    </move>
                    <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/id_mapping/${release}.tsv</value_translation>
                    <value_translation type="function">abspath</value_translation>
                </column>
            </output>
        </data_table>
        <data_table name="proteore_biogrid_dictionaries">
            <output>
                <column name="id" />
                <column name="release"/>
                <column name="name" />
                <column name="species" />
                <column name="value" output_ref="output" >
                    <move type="file">
                        <!--source>${path}</source-->
                        <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">PPI_dictionaries/</target>
                    </move>
                    <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${release}.json</value_translation>
                    <value_translation type="function">abspath</value_translation>
                </column>
            </output>
        </data_table>
        <data_table name="proteore_bioplex_dictionaries">
            <output>
                <column name="id" />
                <column name="release"/>
                <column name="name" />
                <column name="species" />
                <column name="value" output_ref="output" >
                    <move type="file">
                        <!--source>${path}</source-->
                        <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">PPI_dictionaries/</target>
                    </move>
                    <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${release}.json</value_translation>
                    <value_translation type="function">abspath</value_translation>
                </column>
            </output>
        </data_table>
        <data_table name="proteore_humap_dictionaries">
            <output>
                <column name="id" />
                <column name="release"/>
                <column name="name" />
                <column name="species" />
                <column name="value" output_ref="output" >
                    <move type="file">
                        <!--source>${path}</source-->
                        <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">PPI_dictionaries/</target>
                    </move>
                    <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${release}.json</value_translation>
                    <value_translation type="function">abspath</value_translation>
                </column>
            </output>
        </data_table>
        <data_table name="proteore_nextprot_ref">
            <output>
                <column name="id" />
                <column name="release"/>
                <column name="name" />
                <column name="value" output_ref="output" >
                    <move type="file">
                        <!--source>${path}</source-->
                        <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">proteore_nextprot_ref/</target>
                    </move>
                    <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/proteore_nextprot_ref/${release}.tsv</value_translation>
                    <value_translation type="function">abspath</value_translation>
                </column>
            </output>
        </data_table>
    </data_manager>
</data_managers>