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.jboss</groupId>
    <artifactId>japit</artifactId>
    <version>1.1.0-SNAPSHOT</version>
    <packaging>jar</packaging>

    <name>JavaAPITools</name>
    <url>https://github.com/rsvoboda/japit</url>

    <properties>
        <project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
        <version.javassist>3.18.0-GA</version.javassist>
        <version.maven-compiler-plugin>3.1</version.maven-compiler-plugin>
        <version.maven-shade-plugin>2.1</version.maven-shade-plugin>
    </properties>

    <dependencies>
        <dependency>
            <groupId>org.javassist</groupId>
            <artifactId>javassist</artifactId>
            <version>${version.javassist}</version>
        </dependency>
        <dependency>
            <groupId>args4j</groupId>
            <artifactId>args4j</artifactId>
            <version>2.0.26</version>
        </dependency>
    </dependencies>

    <build>
        <finalName>${project.artifactId}</finalName>
        <resources>
            <resource>
                <directory>src/main/resources</directory>
                <filtering>true</filtering>
            </resource>
        </resources>

        <plugins>
            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-compiler-plugin</artifactId>
                <version>${version.maven-compiler-plugin}</version>
                <configuration>
                    <source>1.8</source>
                    <target>1.8</target>
                </configuration>
            </plugin>
            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-shade-plugin</artifactId>
                <version>${version.maven-shade-plugin}</version>
                <executions>
                    <execution>
                        <phase>package</phase>
                        <goals>
                            <goal>shade</goal>
                        </goals>
                        <configuration>
                            <transformers>
                                <transformer
                                    implementation="org.apache.maven.plugins.shade.resource.ManifestResourceTransformer">
                                    <mainClass>org.jboss.japit.Main</mainClass>
                                </transformer>
                            </transformers>
                        </configuration>
                    </execution>
                </executions>
            </plugin>
            <plugin>
                <artifactId>maven-resources-plugin</artifactId>
                <version>2.6</version>
                <executions>
                    <execution>
                        <id>copy-scripts</id>
                        <!-- here the phase you need -->
                        <phase>generate-resources</phase>
                        <goals>
                            <goal>copy-resources</goal>
                        </goals>
                        <configuration>
                            <outputDirectory>${basedir}/target</outputDirectory>
                            <resources>
                                <resource>
                                    <directory>src/main/scripts</directory>
                                </resource>
                            </resources>
                        </configuration>
                    </execution>
                </executions>
            </plugin>
            <!-- workaround for http://jira.codehaus.org/browse/MRESOURCES-132 
                - permissions broken by maven-resources-plugin -->
            <plugin>
                <artifactId>maven-antrun-plugin</artifactId>
                <version>1.7</version>
                <executions>
                    <execution>
                        <id>fix-permissions</id>
                        <phase>process-resources</phase>
                        <goals>
                            <goal>run</goal>
                        </goals>
                        <configuration>
                            <target>
                                <chmod file="target/japit" perm="755" />
                            </target>
                        </configuration>
                    </execution>
                </executions>
            </plugin>
        </plugins>
    </build>

</project>