archetype-resources.pom.xml Maven / Gradle / Ivy

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Paxtools Maven archetype - sample Java project to quickly start using Paxtools library and BioPAX data.
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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/xsd/maven-4.0.0.xsd">
    <modelVersion>4.0.0</modelVersion>

    <groupId>${groupId}</groupId>
    <artifactId>${artifactId}</artifactId>
    <packaging>jar</packaging>
    <version>${version}</version>
    <build>
            <plugins>
                <plugin>
                  <groupId>org.apache.maven.plugins</groupId>
                  <artifactId>maven-compiler-plugin</artifactId>
                    <version>3.8.1</version>
                    <configuration>
                        <release>17</release>
                    </configuration>
                </plugin>
                <plugin>
                    <groupId>org.apache.maven.plugins</groupId>
                    <artifactId>maven-jar-plugin</artifactId>
                    <version>3.1.0</version>
                    <executions>
                        <execution>
                            <goals>
                                <goal>jar</goal>
                            </goals>
                        </execution>
                    </executions>
                </plugin>
				<plugin>
					<groupId>org.apache.maven.plugins</groupId>
					<artifactId>maven-shade-plugin</artifactId>
					<version>3.2.0</version>
					<configuration>
						<transformers>
							<transformer
								implementation="org.apache.maven.plugins.shade.resource.ManifestResourceTransformer">
								<mainClass>com.example.Example</mainClass>
							</transformer>
						</transformers>
						<finalName>example-exec</finalName>
						<shadedArtifactAttached>true</shadedArtifactAttached>
					</configuration>
					<executions>  
						<!-- "mvn install" command will also assembly the fat jar -->
						<execution>
							<phase>package</phase>
							<goals>
								<goal>shade</goal>
							</goals>
						</execution>
					</executions>
				</plugin> 
            </plugins>
    </build>

    <repositories>
        <repository>
            <id>ossrh</id>
            <name>OSSRH Repository</name>
            <url>https://oss.sonatype.org/content/groups/public/</url>
        </repository>
    </repositories>>

    <dependencies>
        <dependency>
            <groupId>org.biopax.paxtools</groupId>
            <artifactId>paxtools-core</artifactId>
            <version>${version}</version>
        </dependency>
        <dependency>
            <groupId>org.biopax.paxtools</groupId>
            <artifactId>pattern</artifactId>
            <version>${version}</version>
        </dependency>
        <dependency>
            <groupId>org.biopax.paxtools</groupId>
            <artifactId>paxtools-query</artifactId>
            <version>${version}</version>
        </dependency>
        <dependency>
            <groupId>log4j</groupId>
            <artifactId>log4j</artifactId>
            <version>1.2.12</version>
            <scope>runtime</scope>
            <optional>true</optional>
        </dependency>
        <dependency>
            <groupId>commons-cli</groupId>
            <artifactId>commons-cli</artifactId>
            <version>1.3</version>
        </dependency>
        <dependency>
            <groupId>junit</groupId>
            <artifactId>junit</artifactId>
            <version>4.12</version>
            <scope>test</scope>
        </dependency>
    </dependencies>
</project>