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">
  <modelVersion>4.0.0</modelVersion>
  <groupId>org.nextprot.parser.cellosaurus</groupId>
  <artifactId>cello-parser</artifactId>
  <version>0.1</version>
  <inceptionYear>2008</inceptionYear>
  <properties>
    <scala.version>2.10.2</scala.version>
  </properties>

  <repositories>
    <repository>
      <id>scala-tools.org</id>
      <name>Scala-Tools Maven2 Repository</name>
      <url>http://scala-tools.org/repo-releases</url>
    </repository>
  </repositories>

  <pluginRepositories>
    <pluginRepository>
      <id>scala-tools.org</id>
      <name>Scala-Tools Maven2 Repository</name>
      <url>http://scala-tools.org/repo-releases</url>
    </pluginRepository>
  </pluginRepositories>

  <dependencies>
    <dependency>
      <groupId>org.scala-lang</groupId>
      <artifactId>scala-library</artifactId>
      <version>${scala.version}</version>
    </dependency>
    <dependency>
      <groupId>junit</groupId>
      <artifactId>junit</artifactId>
      <version>3.8.1</version>
      <scope>test</scope>
    </dependency>
  </dependencies>

  <build>
    <sourceDirectory>src/main/scala</sourceDirectory>
    <testSourceDirectory>src/test/scala</testSourceDirectory>
    <plugins>
    <plugin>
        <groupId>org.apache.maven.plugins</groupId>
        <artifactId>maven-assembly-plugin</artifactId>
        <version>2.2.1</version>
        <configuration>
        <archive>
          <manifest>
            <mainClass>org.nextprot.parser.cellosaurus.CelloParser</mainClass>
          </manifest>
        </archive>
        <descriptorRefs>
           <descriptorRef>jar-with-dependencies</descriptorRef>
        </descriptorRefs>
        </configuration>
        <executions>
            <execution>
                <id>assemble-all</id>
                <phase>package</phase>
                <goals>
                    <goal>single</goal>
                </goals>
            </execution>
        </executions>
    </plugin>     
    <plugin>
        <groupId>org.scala-tools</groupId>
        <artifactId>maven-scala-plugin</artifactId>
        <executions>
          <execution>
            <goals>
              <goal>compile</goal>
              <goal>testCompile</goal>
            </goals>
          </execution>
        </executions>
        <configuration>
          <scalaVersion>${scala.version}</scalaVersion>
        </configuration>
      </plugin>
      <plugin>
        <groupId>org.apache.maven.plugins</groupId>
        <artifactId>maven-eclipse-plugin</artifactId>
        <configuration>
          <downloadSources>true</downloadSources>
          <buildcommands>
            <buildcommand>ch.epfl.lamp.sdt.core.scalabuilder</buildcommand>
          </buildcommands>
          <additionalProjectnatures>
            <projectnature>ch.epfl.lamp.sdt.core.scalanature</projectnature>
          </additionalProjectnatures>
          <classpathContainers>
            <classpathContainer>org.eclipse.jdt.launching.JRE_CONTAINER</classpathContainer>
            <classpathContainer>ch.epfl.lamp.sdt.launching.SCALA_CONTAINER</classpathContainer>
          </classpathContainers>
        </configuration>
      </plugin>
          <plugin>
    <groupId>org.apache.maven.plugins</groupId>
    <artifactId>maven-jar-plugin</artifactId>
    <version>2.4</version>
    <configuration>
      <archive>
        <manifest>
  <mainClass>org.nextprot.parser.cellosaurus.App</mainClass>
        </manifest>
      </archive>
    </configuration>
    </plugin>
    </plugins>
  </build>
  <reporting>
    <plugins>
      <plugin>
        <groupId>org.scala-tools</groupId>
        <artifactId>maven-scala-plugin</artifactId>
        <configuration>
          <scalaVersion>${scala.version}</scalaVersion>
        </configuration>
      </plugin>
    </plugins>
  </reporting>
</project>