gene-database.xml

<?xml version="1.0" encoding="UTF-8"?>

<conceptdatabase xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
                 xmlns="http://www.julielab.de/conceptdb"
                 xsi:schemaLocation="http://www.julielab.de/conceptdb julielab-concept-db-manager-core/src/main/resources/conceptdb.xsd
                 http://www.julielab.de/conceptdb/concepts/ncbigene http://www.julielab.de/conceptdb/concepts/ncbigeneconcepts-1.0.0.xsd
                 http://www.julielab.de/conceptdb/facets/default http://www.julielab.de/conceptdb/facets/defaultfacet-1.0.0.xsd
                http://www.julielab.de/conceptdb/exporters/serverplugin http://www.julielab.de/conceptdb/exporters/serverpluginexporter-1.0.0.xsd">
    <versioning>
        <version>1.0-test</version>
    </versioning>
    <connection>
        <uri>http://localhost:7474</uri>
        <user>neo4j</user>
    </connection>
    <imports>
        <import>
            <serverplugininserter>
                <pluginname>ConceptManager</pluginname>
                <pluginendpoint>insert_concepts</pluginendpoint>
            </serverplugininserter>
            <concepts>
                <creator xmlns="http://www.julielab.de/conceptdb/concepts/ncbigene">
                    <name>de.julielab.concepts.db.creators.NCBIGeneConceptCreator</name>
                    <configuration>
                        <basepath>src/test/resources/geneconcepts/</basepath>
                        <gene_info>genes/gene_info_test</gene_info>
                        <genedescriptions>genes/gene2summary_test</genedescriptions>
                        <organismlist>organisms/taxIdsForTests.lst</organismlist>
                        <organismnames>organisms/names_test.dmp</organismnames>
                        <homologene>genes/homologene_test.data</homologene>
                        <gene_group>genes/gene_group_test</gene_group>
                    </configuration>
                </creator>
            </concepts>
            <facet>
                <creator xmlns="http://www.julielab.de/conceptdb/facets/default">
                    <name>de.julielab.concepts.db.core.DefaultFacetCreator</name>
                    <configuration>
                        <name>Genes</name>
                        <shortname>genes</shortname>
                        <customid>genes</customid>
                        <sourcetype>hierarchical</sourcetype>
                        <labels>
                            <label>NCBI_GENE</label>
                        </labels>
                        <nofacet>false</nofacet>
                        <facetgroup>
                            <name>Biology</name>
                        </facetgroup>
                    </configuration>
                </creator>
            </facet>
        </import>
    </imports>
    <exports>
        <export xmlns="http://www.julielab.de/conceptdb/exporters/serverplugin">
                <pluginendpoint>
                    term_id_mapping
                </pluginendpoint>
                <configuration>
                    <decoding>
                        <json2bytearray>true</json2bytearray>
                        <base64>false</base64>
                        <gzip>true</gzip>
                    </decoding>
                    <outputfile>
                        genes.idmap
                    </outputfile>
                    <parameters>
                    </parameters>
                </configuration>
        </export>
        <export xmlns="http://www.julielab.de/conceptdb/exporters/serverplugin">
        </export>
        <export  xmlns="http://www.julielab.de/conceptdb/exporters/serverplugin">
                <pluginname>
                    Export
                </pluginname>
                <pluginendpoint>
                </pluginendpoint>
        </export>
    </exports>
</conceptdatabase>