4.0.0 gene-id-mapper jar Gene ID Mapper Mapper to find database entries of gene entity mentions. de.julielab julielab-gene-mapper 2.5.0 ../pom.xml clojars Clojars Repo true false http://clojars.org/repo/ bionlp-sourceforge https://svn.code.sf.net/p/bionlp/code/repo maven.aksw.internal AKSW Internal Release Repository https://maven.aksw.org/repository/internal de.julielab gene-species-assignment 1.0.0 de.julielab gene-candidate-retrieval 2.5.0 com.google.inject guice 5.0.1 com.google.inject.extensions guice-testlib 5.0.1 test de.julielab java-stdio-ipc 1.0.3 com.fasterxml.jackson.core jackson-databind 2.9.9 edu.ucdenver.ccp biolemmatizer-core 1.2 org.apache.lucene lucene-core org.slf4j slf4j-api ch.qos.logback logback-classic runtime true org.assertj assertj-core stax stax 1.2.0 com.google.guava guava ${guava-version} org.junit.jupiter junit-jupiter-engine org.junit.jupiter junit-jupiter-params org.junit.platform junit-platform-launcher 1.6.2 test org.mockito mockito-core 3.11.2 test com.fulmicoton multiregexp 0.3 tw.edu.ntu.csie libsvm 3.24 de.julielab jcore-types 2.6.0 de.julielab jcore-xmi-splitter 2.4.0 de.julielab jcore-mallet-2.0.9 2.1.0 junit junit org.jdom jdom de.julielab jcore-utilities ${jcore-utilities-version} de.julielab julielab-entity-evaluator 1.3.0 org.apache.commons commons-io de.julielab julielab-java-utilities 1.4.4 org.apache.lucene lucene-analyzers-common org.apache.lucene lucene-suggest ${lucene-version} commons-io commons-io 2.6 de.julielab julie-xml-tools de.julielab jcore-descriptor-creator org.apache.uima ruta-core 2.8.1 commons-codec commons-codec 1.13 com.sparkjava spark-core 2.7.1 de.julielab julielab-ranklib-mallet 1.0.0 cc.mallet mallet de.julielab julielab-smac-utilities 1.0.0 org.ehcache ehcache 3.8.1 javax.cache cache-api 1.1.1 org.jetbrains annotations RELEASE compile org.apache.maven.plugins maven-dependency-plugin 3.1.2 compile copy-dependencies ${project.build.directory}/lib org.apache.maven.plugins maven-compiler-plugin 3.0 org/apache/uima/ruta/type/*.java org.apache.maven.plugins maven-jar-plugin 3.2.0 **/logback.xml org.apache.uima ruta-maven-plugin 2.8.1 ${project.build.directory}/classes ${project.build.directory}/classes src/main/resources/ruta/RutaAETemplateDescriptor.xml / / resources/ruta Engine TypeSystem UTF-8 true false -1 default process-resources generate org.apache.maven.plugins maven-antrun-plugin 1.8 copy-ruta-descriptors-to-resources process-resources run org.apache.uima jcasgen-maven-plugin ${uima-version} generate target/classes/de/julielab/jcore/ae/genemapper/desc/ProteinOffsetExpansionTypeSystem.xml target/classes/de/julielab/jcore/ae/genemapper/desc/FamilyAndSynonymsExtractionTypeSystem.xml target/classes/de/julielab/jcore/ae/genemapper/desc/OrganismEnumerationTypeSystem.xml target/classes/de/julielab/jcore/ae/genemapper/desc/FamilyResolutionTypeSystem.xml target/classes/de/julielab/jcore/ae/genemapper/desc/WikipediaFamilyParsingTypeSystem.xml target/classes/de/julielab/jcore/ae/genemapper/desc/NonGeneEntityRecognizerTypeSystem.xml src/main/java true