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pom.xml
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<?xml version="1.0" encoding="UTF-8"?>
<project xmlns="http://maven.apache.org/POM/4.0.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/maven-v4_0_0.xsd">
<modelVersion>4.0.0</modelVersion>
<groupId>edu.isi.bmkeg</groupId>
<artifactId>UimaBioC</artifactId>
<version>0.2.1-SNAPSHOT</version>
<packaging>jar</packaging>
<properties>
<!-- <start-class>edu.isi.sciknowengine.kefed.io.KefedIoApplication</start-class> -->
<slf4j.version>1.7.5</slf4j.version>
<trove.version>3.0.3</trove.version>
<log4j.version>1.2.17</log4j.version>
<cleartk.version>2.0.0</cleartk.version>
<es.version>1.5.2</es.version>
<jena.version>3.0.0</jena.version>
</properties>
<name>UIMA BioC Integrated NLP</name>
<parent>
<groupId>org.springframework.boot</groupId>
<artifactId>spring-boot-starter-parent</artifactId>
<version>2.2.4.RELEASE</version>
</parent>
<repositories>
<!-- Maven Central -->
<repository>
<id>maven-central</id>
<name>maven</name>
<url>https://repo1.maven.org/maven2/</url>
</repository>
</repositories>
<pluginRepositories>
<pluginRepository>
<id>Maven Central</id>
<url>https://repo1.maven.org/maven2/</url>
<releases>
<enabled>true</enabled>
</releases>
<snapshots>
<enabled>false</enabled>
</snapshots>
</pluginRepository>
</pluginRepositories>
<build>
<plugins>
<!-- NOTE: We don't need a groupId specification because the group is
org.apache.maven.plugins ...which is assumed by default. -->
<plugin>
<artifactId>maven-assembly-plugin</artifactId>
<version>3.2.0</version>
<configuration>
<descriptorRefs>
<descriptorRef>jar-with-dependencies</descriptorRef>
</descriptorRefs>
</configuration>
<executions>
<execution>
<id>make-assembly</id> <!-- this is used for inheritance merges -->
<phase>package</phase> <!-- bind to the packaging phase -->
<goals>
<goal>single</goal>
</goals>
</execution>
</executions>
</plugin>
<plugin>
<groupId>org.codehaus.mojo</groupId>
<artifactId>build-helper-maven-plugin</artifactId>
<executions>
<execution>
<id>add-sources</id>
<configuration>
<sources>
<source>${project.build.directory}/generated-sources/jcasgen</source>
</sources>
</configuration>
<goals>
<goal>add-source</goal>
</goals>
</execution>
</executions>
</plugin>
<plugin>
<groupId>org.codehaus.mojo</groupId>
<artifactId>exec-maven-plugin</artifactId>
<executions>
<execution>
<phase>process-resources</phase>
<goals>
<goal>java</goal>
</goals>
</execution>
</executions>
<configuration>
<mainClass>org.uimafit.util.JCasGenPomFriendly</mainClass>
<arguments>
<argument>file:${project.basedir}/src/main/resources/bioc/TypeSystem.xml
</argument>
<argument>${project.build.directory}/generated-sources/jcasgen</argument>
</arguments>
</configuration>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-compiler-plugin</artifactId>
<configuration>
<source>1.8</source>
<target>1.8</target>
</configuration>
</plugin>
</plugins>
<pluginManagement>
<plugins>
<!--This plugin's configuration is used to store Eclipse m2e settings
only. It has no influence on the Maven build itself. -->
<plugin>
<groupId>org.eclipse.m2e</groupId>
<artifactId>lifecycle-mapping</artifactId>
<version>1.0.0</version>
<configuration>
<lifecycleMappingMetadata>
<pluginExecutions>
<pluginExecution>
<pluginExecutionFilter>
<groupId>
org.apache.maven.plugins
</groupId>
<artifactId>
maven-dependency-plugin
</artifactId>
<versionRange>
[2.6,)
</versionRange>
<goals>
<goal>copy</goal>
</goals>
</pluginExecutionFilter>
<action>
<ignore></ignore>
</action>
</pluginExecution>
<pluginExecution>
<pluginExecutionFilter>
<groupId>
org.codehaus.mojo
</groupId>
<artifactId>
exec-maven-plugin
</artifactId>
<versionRange>
[1.2,)
</versionRange>
<goals>
<goal>java</goal>
</goals>
</pluginExecutionFilter>
<action>
<ignore></ignore>
</action>
</pluginExecution>
</pluginExecutions>
</lifecycleMappingMetadata>
</configuration>
</plugin>
</plugins>
</pluginManagement>
</build>
<dependencies>
<dependency>
<groupId>org.projectlombok</groupId>
<artifactId>lombok</artifactId>
<scope>provided</scope>
<version>1.18.2</version>
</dependency>
<dependency>
<groupId>org.apache.commons</groupId>
<artifactId>commons-io</artifactId>
<version>1.3.2</version>
</dependency>
<dependency>
<groupId>org.apache.commons</groupId>
<artifactId>commons-math3</artifactId>
<version>3.0</version>
</dependency>
<dependency>
<groupId>args4j</groupId>
<artifactId>args4j</artifactId>
<version>2.0.16</version>
</dependency>
<dependency>
<groupId>org.jsoup</groupId>
<artifactId>jsoup</artifactId>
<version>1.7.3</version>
</dependency>
<dependency>
<groupId>org.apache.uima</groupId>
<artifactId>uimafit-core</artifactId>
<version>2.0.0</version>
</dependency>
<dependency>
<groupId>org.apache.uima</groupId>
<artifactId>uimafit-cpe</artifactId>
<version>2.0.0</version>
</dependency>
<!-- Omitting versions of clearTk dependencies because they are handle
in the dependency management imported from cleartk-release -->
<dependency>
<groupId>org.cleartk</groupId>
<artifactId>cleartk-type-system</artifactId>
<version>${cleartk.version}</version>
</dependency>
<!-- <dependency> <groupId>org.cleartk</groupId> <artifactId>cleartk-feature</artifactId>
<version>${cleartk.version}</version> </dependency> <dependency> <groupId>org.cleartk</groupId>
<artifactId>cleartk-test-util</artifactId> <version>${cleartk.version}</version>
</dependency> -->
<dependency>
<groupId>org.cleartk</groupId>
<artifactId>cleartk-util</artifactId>
<version>${cleartk.version}</version>
</dependency>
<!-- <dependency> <groupId>org.cleartk</groupId> <artifactId>cleartk-eval</artifactId>
<version>${cleartk.version}</version> </dependency> <dependency> <groupId>org.cleartk</groupId>
<artifactId>cleartk-ml</artifactId> <version>${cleartk.version}</version>
</dependency> -->
<dependency>
<groupId>org.cleartk</groupId>
<artifactId>cleartk-ml-opennlp-maxent</artifactId>
<version>${cleartk.version}</version>
</dependency>
<!--<dependency> <groupId>org.cleartk</groupId> <artifactId>cleartk-ml-svmlight</artifactId>
<version>${cleartk.version}</version> </dependency> <dependency> <groupId>org.cleartk</groupId>
<artifactId>cleartk-ml-tksvmlight</artifactId> <version>${cleartk.version}</version>
</dependency> <dependency> <groupId>org.cleartk</groupId> <artifactId>cleartk-corpus</artifactId>
<version>${cleartk.version}</version> </dependency> <dependency> <groupId>org.cleartk</groupId>
<artifactId>cleartk-ml-libsvm</artifactId> <version>${cleartk.version}</version>
</dependency> <dependency> <groupId>org.cleartk</groupId> <artifactId>cleartk-ml-liblinear</artifactId>
<version>${cleartk.version}</version> </dependency> <dependency> <groupId>org.cleartk</groupId>
<artifactId>cleartk-ml-tksvmlight</artifactId> <version>${cleartk.version}</version>
</dependency> <dependency> <groupId>org.cleartk</groupId> <artifactId>cleartk-ml-weka</artifactId>
<version>${cleartk.version}</version> </dependency> -->
<dependency>
<groupId>org.cleartk</groupId>
<artifactId>cleartk-ml-mallet</artifactId>
<version>${cleartk.version}</version>
</dependency>
<dependency>
<groupId>org.cleartk</groupId>
<artifactId>cleartk-ml-crfsuite</artifactId>
<version>${cleartk.version}</version>
</dependency>
<dependency>
<groupId>org.cleartk</groupId>
<artifactId>cleartk-token</artifactId>
<version>${cleartk.version}</version>
</dependency>
<dependency>
<groupId>org.cleartk</groupId>
<artifactId>cleartk-opennlp-tools</artifactId>
<version>${cleartk.version}</version>
<exclusions>
<exclusion>
<artifactId>opennlp-maxent</artifactId>
<groupId>org.apache.opennlp</groupId>
</exclusion>
</exclusions>
</dependency>
<!-- <dependency> <groupId>org.cleartk</groupId> <artifactId>cleartk-berkeleyparser</artifactId>
<version>${cleartk.version}</version> </dependency> <dependency> <groupId>org.cleartk</groupId>
<artifactId>cleartk-clearnlp</artifactId> <version>${cleartk.version}</version>
</dependency> <dependency> <groupId>org.cleartk</groupId> <artifactId>cleartk-maltparser</artifactId>
<version>${cleartk.version}</version> </dependency> -->
<!-- <dependency> <groupId>org.cleartk</groupId> <artifactId>cleartk-stanford-corenlp</artifactId>
<version>${cleartk.version}</version> </dependency> -->
<dependency>
<groupId>org.cleartk</groupId>
<artifactId>cleartk-snowball</artifactId>
<version>${cleartk.version}</version>
</dependency>
<!-- <dependency> <groupId>org.cleartk</groupId> <artifactId>cleartk-summarization</artifactId>
<version>${cleartk.version}</version> </dependency> <dependency> <groupId>org.cleartk</groupId>
<artifactId>cleartk-timeml</artifactId> <version>${cleartk.version}</version>
</dependency> -->
<dependency>
<groupId>bioc</groupId>
<artifactId>BioC_Java</artifactId>
<version>1.0</version>
</dependency>
<dependency>
<groupId>au.com.nicta.csp</groupId>
<artifactId>BRATEval</artifactId>
<version>0.1.0-SNAPSHOT</version>
</dependency>
<dependency>
<groupId>org.simmetrics</groupId>
<artifactId>simmetrics-core</artifactId>
<version>2.0.0</version>
</dependency>
<dependency>
<groupId>org.simmetrics</groupId>
<artifactId>simmetrics-chapman</artifactId>
<version>2.0.0</version>
</dependency>
<dependency>
<groupId>org.simmetrics</groupId>
<artifactId>simmetrics-taglink</artifactId>
<version>2.0.0</version>
</dependency>
<dependency>
<groupId>log4j</groupId>
<artifactId>log4j</artifactId>
<version>1.2.17</version>
</dependency>
<dependency>
<groupId>junit</groupId>
<artifactId>junit</artifactId>
</dependency>
<dependency>
<artifactId>lapdftext</artifactId>
<version>1.8.0-SNAPSHOT</version>
<groupId>edu.isi.bmkeg</groupId>
</dependency>
<dependency>
<groupId>edu.stanford.nlp</groupId>
<artifactId>stanford-corenlp</artifactId>
<version>3.5.1</version>
</dependency>
<dependency>
<groupId>edu.stanford.nlp</groupId>
<artifactId>stanford-corenlp</artifactId>
<version>3.5.1</version>
<classifier>models</classifier>
</dependency>
<dependency>
<groupId>edu.stanford.nlp</groupId>
<artifactId>stanford-parser</artifactId>
<version>3.5.1</version>
</dependency>
<dependency>
<groupId>org.springframework.boot</groupId>
<artifactId>spring-boot-starter-data-elasticsearch</artifactId>
</dependency>
<dependency>
<groupId>org.springframework.security</groupId>
<artifactId>spring-security-core</artifactId>
</dependency>
<dependency>
<groupId>org.springframework.security</groupId>
<artifactId>spring-security-web</artifactId>
</dependency>
<dependency>
<groupId>org.springframework.security</groupId>
<artifactId>spring-security-config</artifactId>
</dependency>
<dependency>
<groupId>org.springframework</groupId>
<artifactId>spring-test</artifactId>
</dependency>
<!-- <dependency>
<groupId>org.bigmech.fries</groupId>
<artifactId>vpdmf-fries-es</artifactId>
<version>0.15.1-SNAPSHOT</version>
</dependency> -->
<dependency>
<groupId>org.apache.jena</groupId>
<artifactId>apache-jena-libs</artifactId>
<type>pom</type>
<version>${jena.version}</version>
</dependency>
<dependency>
<groupId>org.apache.jena</groupId>
<artifactId>jena-text</artifactId>
<version>${jena.version}</version>
</dependency>
<dependency>
<groupId>com.google.code.gson</groupId>
<artifactId>gson</artifactId>
</dependency>
<!-- <dependency>
<groupId>com.google.code.gson</groupId>
<artifactId>gson-extras</artifactId>
<version>1.0-SNAPSHOT</version>
</dependency> -->
<dependency>
<groupId>org.reflections</groupId>
<artifactId>reflections</artifactId>
<version>0.9.10</version>
</dependency>
<dependency>
<artifactId>uimafit-spring</artifactId>
<groupId>org.apache.uima</groupId>
<version>2.0.0</version>
</dependency>
<dependency>
<groupId>org.clulab</groupId>
<artifactId>reach_2.11</artifactId>
<version>1.3.2</version>
<exclusions>
<exclusion>
<artifactId>lucene-core</artifactId>
<groupId>org.apache.lucene</groupId>
</exclusion>
</exclusions>
</dependency>
</dependencies>
</project>