pom.xml

<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">
	<properties>
		<cytoscape.api.version>3.6.0</cytoscape.api.version>

		<maven-compiler-plugin.version>3.6.1</maven-compiler-plugin.version>
		<maven-bundle-plugin.version>5.1.1</maven-bundle-plugin.version>

		<osgi.api.version>4.2.0</osgi.api.version>

		<bundle.symbolicName>org.cytoscape.keggscape</bundle.symbolicName>
		<bundle.namespaece>org.cytoscape.keggscape</bundle.namespaece>
		<bundle.name>KEGGscape</bundle.name>
	</properties>

	<modelVersion>4.0.0</modelVersion>
	<groupId>org.cytoscape</groupId>
	<artifactId>keggscape</artifactId>
	<version>0.8.2</version>
	<name>KEGGScape</name>

	<packaging>bundle</packaging>

	<build>
		<finalName>KEGGscape</finalName>
		<plugins>
			<plugin>
				<groupId>org.codehaus.mojo</groupId>
				<artifactId>jaxb2-maven-plugin</artifactId>
				<version>2.5.0</version>
				<executions>
					<execution>
						<id>xjc</id>
						<goals>
							<goal>xjc</goal>
						</goals>
					</execution>
				</executions>
				<configuration>
					<packageName>org.cytoscape.keggscape.internal.generated</packageName>
					<sourceType>dtd</sourceType>
					<sources>
						<source>src/main/resources/KGML_v0.7.2_.dtd</source>
					</sources>
					<externalEntityProcessing>true</externalEntityProcessing>
				</configuration>
			</plugin>

			<plugin>
				<groupId>org.apache.maven.plugins</groupId>
				<artifactId>maven-compiler-plugin</artifactId>
				<version>${maven-compiler-plugin.version}</version>
				<configuration>
					<!-- These options indicate the source code is Java 1.8-compliant and
						the resulting class files should be Java 1.8-compatible. -->
					<source>1.8</source>
					<target>1.8</target>
				</configuration>
			</plugin>

			<plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-surefire-plugin</artifactId>
                <configuration>
                    <systemPropertyVariables>
                        <javax.xml.accessExternalDTD>all</javax.xml.accessExternalDTD>
                    </systemPropertyVariables>
                </configuration>
            </plugin>

			<plugin>
				<groupId>org.apache.felix</groupId>
				<artifactId>maven-bundle-plugin</artifactId>
				<version>${maven-bundle-plugin.version}</version>
				<extensions>true</extensions>
				<configuration>
					<instructions>
						<!-- TODO: Embed dependencies -->
						<Bundle-SymbolicName>org.cytoscape.keggscape</Bundle-SymbolicName>
						<Bundle-Version>${project.version}</Bundle-Version>
						<!-- This tells the bundle plugin which packages should not be exported. -->
						<Private-Package>org.cytoscape.keggscape.internal.*</Private-Package>
						<Bundle-Activator>org.cytoscape.keggscape.internal.CyActivator</Bundle-Activator>
						<Embed-Dependency>*;scope=!provided|test;groupId=!org.cytoscape</Embed-Dependency>
						<Embed-Transitive>true</Embed-Transitive>
						<Import-Package>*;resolution:=optional</Import-Package>
					</instructions>
				</configuration>
			</plugin>
		</plugins>
	</build>

	<repositories>
		<repository>
			<id>cytoscape_snapshots</id>
			<snapshots>
			</snapshots>
			<releases>
				<enabled>false</enabled>
			</releases>
			<name>Cytoscape Snapshots</name>
			<url>http://code.cytoscape.org/nexus/content/repositories/snapshots/</url>
		</repository>
		<repository>
			<id>cytoscape_releases</id>
			<snapshots>
				<enabled>false</enabled>
			</snapshots>
			<releases>
			</releases>
			<name>Cytoscape Releases</name>
			<url>http://code.cytoscape.org/nexus/content/repositories/releases/</url>
		</repository>
	</repositories>

	<dependencies>

		<!-- Cytoscape API dependencies -->
		<dependency>
			<groupId>org.cytoscape</groupId>
			<artifactId>service-api</artifactId>
			<version>${cytoscape.api.version}</version>
			<scope>provided</scope>
		</dependency>
		<dependency>
			<groupId>org.cytoscape</groupId>
			<artifactId>work-api</artifactId>
			<version>${cytoscape.api.version}</version>
			<scope>provided</scope>
		</dependency>
		<dependency>
			<groupId>org.cytoscape</groupId>
			<artifactId>model-api</artifactId>
			<version>${cytoscape.api.version}</version>
			<scope>provided</scope>
		</dependency>
		<dependency>
			<groupId>org.cytoscape</groupId>
			<artifactId>io-api</artifactId>
			<version>${cytoscape.api.version}</version>
			<scope>provided</scope>
		</dependency>
		<dependency>
			<groupId>org.cytoscape</groupId>
			<artifactId>viewmodel-api</artifactId>
			<version>${cytoscape.api.version}</version>
			<scope>provided</scope>
		</dependency>
		<dependency>
			<groupId>org.cytoscape</groupId>
			<artifactId>swing-application-api</artifactId>
			<version>${cytoscape.api.version}</version>
			<scope>provided</scope>
		</dependency>
		<dependency>
			<groupId>org.cytoscape</groupId>
			<artifactId>group-api</artifactId>
			<version>${cytoscape.api.version}</version>
			<scope>provided</scope>
		</dependency>
		<dependency>
			<groupId>org.cytoscape</groupId>
			<artifactId>core-task-api</artifactId>
			<version>${cytoscape.api.version}</version>
			<scope>provided</scope>
		</dependency>
		<dependency>
			<groupId>org.cytoscape</groupId>
			<artifactId>swing-util-api</artifactId>
			<version>${cytoscape.api.version}</version>
			<scope>provided</scope>
		</dependency>
		<dependency>
		 	<groupId>org.cytoscape</groupId>
  			<artifactId>ci-api</artifactId>
  			<version>${cytoscape.api.version}</version>
  			<scope>provided</scope>
		</dependency>

		<!-- Logger -->
		<dependency>
			<groupId>org.slf4j</groupId>
			<artifactId>slf4j-api</artifactId>
			<version>1.6.6</version>
			<scope>provided</scope>
		</dependency>

		<dependency>
			<groupId>org.osgi</groupId>
			<artifactId>org.osgi.core</artifactId>
			<version>${osgi.api.version}</version>
			<scope>provided</scope>
		</dependency>

		<!-- 3rd party libraries -->
		<dependency>
			<groupId>org.apache.httpcomponents</groupId>
			<artifactId>httpclient</artifactId>
			<version>4.3.5</version>
		</dependency>

		<dependency>
			<groupId>com.fasterxml.jackson.core</groupId>
			<artifactId>jackson-databind</artifactId>
			<version>2.4.2</version>
		</dependency>

<!-- https://search.maven.org/artifact/javax.xml.bind/jaxb-api/2.3.0/jar -->
<dependency>
  <groupId>javax.xml.bind</groupId>
  <artifactId>jaxb-api</artifactId>
  <version>2.3.0</version>
</dependency>

<!-- https://search.maven.org/artifact/javax.annotation/javax.annotation-api/1.3.2/jar -->
<dependency>
  <groupId>javax.annotation</groupId>
  <artifactId>javax.annotation-api</artifactId>
  <version>1.3.2</version>
</dependency>

		<!-- osgi jax-rs bundles -->

		<dependency>
			<groupId>org.osgi</groupId>
			<artifactId>org.osgi.compendium</artifactId>
			<version>${osgi.api.version}</version>
			<scope>provided</scope>
		</dependency>

         <dependency>
			<groupId>javax.ws.rs</groupId>
			<artifactId>javax.ws.rs-api</artifactId>
			<version>2.0</version>
			<scope>provided</scope>
		</dependency>

		<dependency>
			<groupId>io.swagger</groupId>
			<artifactId>swagger-annotations</artifactId>
			<version>1.5.7</version>
			<scope>provided</scope>
		</dependency>


		<!-- for Testing -->
		<dependency>
			<groupId>junit</groupId>
			<artifactId>junit</artifactId>
			<version>4.11</version>
			<scope>test</scope>
		</dependency>
		<dependency>
			<groupId>org.mockito</groupId>
			<artifactId>mockito-all</artifactId>
			<version>1.9.5</version>
			<scope>test</scope>
		</dependency>


		<dependency>
			<groupId>org.cytoscape</groupId>
			<artifactId>event-api</artifactId>
			<version>${cytoscape.api.version}</version>
			<type>test-jar</type>
			<scope>test</scope>
		</dependency>
		<dependency>
			<groupId>org.cytoscape</groupId>
			<artifactId>model-impl</artifactId>
			<version>${cytoscape.api.version}</version>
			<type>test-jar</type>
			<scope>test</scope>
		</dependency>
		<dependency>
			<groupId>org.cytoscape</groupId>
			<artifactId>model-impl</artifactId>
			<version>${cytoscape.api.version}</version>
			<scope>test</scope>
		</dependency>
		<dependency>
			<groupId>org.cytoscape</groupId>
			<artifactId>ding-presentation-impl</artifactId>
			<version>${cytoscape.api.version}</version>
			<type>test-jar</type>
			<scope>test</scope>
		</dependency>
		<dependency>
			<groupId>org.cytoscape</groupId>
			<artifactId>ding-presentation-impl</artifactId>
			<version>${cytoscape.api.version}</version>
			<scope>test</scope>
		</dependency>
		<dependency>
			<groupId>org.cytoscape</groupId>
			<artifactId>viewmodel-impl</artifactId>
			<version>${cytoscape.api.version}</version>
			<scope>test</scope>
		</dependency>
		<dependency>
			<groupId>org.cytoscape</groupId>
			<artifactId>viewmodel-impl</artifactId>
			<version>${cytoscape.api.version}</version>
			<type>test-jar</type>
			<scope>test</scope>
		</dependency>
		<dependency>
			<groupId>org.cytoscape</groupId>
			<artifactId>vizmap-impl</artifactId>
			<version>${cytoscape.api.version}</version>
			<scope>test</scope>
		</dependency>

	</dependencies>
</project>