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/xsd/maven-4.0.0.xsd">
	<modelVersion>4.0.0</modelVersion>

	<groupId>org.rcsb</groupId>
	<artifactId>assembly</artifactId>
	<version>0.0.1-SNAPSHOT</version>
	<packaging>jar</packaging>

	<name>assembly</name>
	<url>http://maven.apache.org</url>

	<properties>
		<jdk.version>1.6</jdk.version>
		<project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
		<project.build.targetEncoding>UTF-8</project.build.targetEncoding>
		<maxmem>512M</maxmem>
		<slf4j.version>1.7.7</slf4j.version>
		<log4j.version>2.1</log4j.version>
	</properties>

	<dependencies>
		<dependency>
			<groupId>junit</groupId>
			<artifactId>junit</artifactId>
			<version>3.8.1</version>
			<scope>test</scope>
		</dependency>
		<dependency>
			<groupId>org.biojava</groupId>
			<artifactId>biojava3-structure</artifactId>
			<version>4.0.0-SNAPSHOT</version>
		</dependency>
		<dependency>
			<groupId>org.biojava</groupId>
			<artifactId>biojava3-structure-gui</artifactId>
			<version>4.0.0-SNAPSHOT</version>
		</dependency>
		<dependency>
			<groupId>net.sf.jung</groupId>
			<artifactId>jung2</artifactId>
			<version>2.0.1</version>
			<type>pom</type>
		</dependency>
		<dependency>
			<groupId>net.sf.jung</groupId>
			<artifactId>jung-graph-impl</artifactId>
			<version>2.0.1</version>
		</dependency>
		<dependency>
			<groupId>net.sf.jung</groupId>
			<artifactId>jung-visualization</artifactId>
			<version>2.0.1</version>
		</dependency>
		<dependency>
			<groupId>net.sf.jung</groupId>
			<artifactId>jung-3d</artifactId>
			<version>2.0.1</version>
		</dependency>
		<dependency>
			<groupId>net.sf.jung</groupId>
			<artifactId>jung-algorithms</artifactId>
			<version>2.0.1</version>
		</dependency>
		<dependency>
			<groupId>org.slf4j</groupId>
			<artifactId>slf4j-api</artifactId>
			<version>${slf4j.version}</version>
		</dependency>
		<!-- binding for log4j 2 -->
		<dependency>
			<groupId>org.apache.logging.log4j</groupId>
			<artifactId>log4j-slf4j-impl</artifactId>
			<version>${log4j.version}</version>
			<!-- runtime scope includes the test scope as well -->
			<scope>runtime</scope>
		</dependency>
		<!-- Log4j API and Core implementation required for binding -->
		<dependency>
			<groupId>org.apache.logging.log4j</groupId>
			<artifactId>log4j-api</artifactId>
			<version>${log4j.version}</version>
			<!-- runtime scope includes the test scope as well -->
			<scope>runtime</scope>
		</dependency>
		<dependency>
			<groupId>org.apache.logging.log4j</groupId>
			<artifactId>log4j-core</artifactId>
			<version>${log4j.version}</version>
			<!-- runtime scope includes the test scope as well -->
			<scope>runtime</scope>
		</dependency>
	</dependencies>

	<build>
		<plugins>
			<plugin>
				<artifactId>maven-compiler-plugin</artifactId>
				<version>3.1</version>
				<configuration>
					<source>${jdk.version}</source>
					<target>${jdk.version}</target>
				</configuration>
			</plugin>
		</plugins>
	</build>
</project>