Description

<dependency>
    <groupId>eu.virtualparadox</groupId>
    <artifactId>minimap2-java</artifactId>
    <version>1.0.0</version>
</dependency>

<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 https://maven.apache.org/xsd/maven-4.0.0.xsd">
    <modelVersion>4.0.0</modelVersion>

    <groupId>eu.virtualparadox</groupId>
    <artifactId>minimap2-java</artifactId>
    <version>1.0.0</version>
    <packaging>jar</packaging>

    <name>minimap2-java</name>
    <description>Java bindings for minimap2 aligner (JNI wrapper with native builds)</description>
    <url>https://github.com/virtualparadox/minimap2-java</url>

    <licenses>
        <license>
            <name>Apache License, Version 2.0</name>
            <url>https://www.apache.org/licenses/LICENSE-2.0.txt</url>
            <distribution>repo</distribution>
        </license>
    </licenses>

    <scm>
        <connection>scm:git:git://github.com/virtualparadox/minimap2-java.git</connection>
        <developerConnection>scm:git:ssh://github.com:virtualparadox/minimap2-java.git</developerConnection>
        <url>https://github.com/virtualparadox/minimap2-java</url>
        <tag>HEAD</tag>
    </scm>

    <developers>
        <developer>
            <id>tothpeter</id>
            <name>Péter Tóth</name>
            <email>peter.toth@virtualparadox.eu</email>
            <organization>Virtual Paradox</organization>
            <organizationUrl>https://virtualparadox.eu</organizationUrl>
        </developer>
    </developers>

    <properties>
        <maven.compiler.source>21</maven.compiler.source>
        <maven.compiler.target>21</maven.compiler.target>
        <project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
    </properties>

    <!-- Új Central Publishing deployment config -->
    <distributionManagement>
        <repository>
            <id>central</id>
            <url>https://central.sonatype.com/api/v1/publisher/upload</url>
        </repository>
    </distributionManagement>

    <dependencies>
        <!-- JUnit 5 -->
        <dependency>
            <groupId>org.junit.jupiter</groupId>
            <artifactId>junit-jupiter</artifactId>
            <version>5.10.2</version>
            <scope>test</scope>
        </dependency>
    </dependencies>

    <profiles>
        <!-- OS-specifikus natív libek -->
        <profile>
            <id>linux</id>
            <activation>
                <os>
                    <family>unix</family>
                    <name>Linux</name>
                </os>
            </activation>
            <properties>
                <LIBMM2_PATH>${project.build.outputDirectory}/natives/libmm2.so</LIBMM2_PATH>
            </properties>
        </profile>

        <profile>
            <id>osx</id>
            <activation>
                <os>
                    <family>mac</family>
                </os>
            </activation>
            <properties>
                <LIBMM2_PATH>${project.build.outputDirectory}/natives/libmm2.dylib</LIBMM2_PATH>
            </properties>
        </profile>

        <profile>
            <id>windows</id>
            <activation>
                <os>
                    <family>windows</family>
                </os>
            </activation>
            <properties>
                <LIBMM2_PATH>${project.build.outputDirectory}/natives/mm2.dll</LIBMM2_PATH>
            </properties>
        </profile>
    </profiles>

    <build>
        <plugins>
            <!-- Compiler -->
            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-compiler-plugin</artifactId>
                <version>3.11.0</version>
                <configuration>
                    <release>21</release>
                </configuration>
            </plugin>

            <!-- Native build -->
            <plugin>
                <groupId>org.codehaus.mojo</groupId>
                <artifactId>exec-maven-plugin</artifactId>
                <version>3.1.0</version>
                <executions>
                    <execution>
                        <id>build-native</id>
                        <phase>compile</phase>
                        <goals>
                            <goal>exec</goal>
                        </goals>
                        <configuration>
                            <workingDirectory>${project.basedir}/src/main/c</workingDirectory>
                            <executable>make</executable>
                        </configuration>
                    </execution>
                </executions>
            </plugin>

            <!-- Copy native libs -->
            <plugin>
                <artifactId>maven-resources-plugin</artifactId>
                <version>3.3.1</version>
                <executions>
                    <execution>
                        <id>copy-natives</id>
                        <phase>process-resources</phase>
                        <goals>
                            <goal>copy-resources</goal>
                        </goals>
                        <configuration>
                            <outputDirectory>${project.build.outputDirectory}/natives</outputDirectory>
                            <resources>
                                <resource>
                                    <directory>${project.basedir}/src/main/c</directory>
                                    <includes>
                                        <include>*.so</include>
                                        <include>*.dylib</include>
                                        <include>*.dll</include>
                                    </includes>
                                </resource>
                            </resources>
                        </configuration>
                    </execution>
                </executions>
            </plugin>

            <!-- JUnit 5 -->
            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-surefire-plugin</artifactId>
                <version>3.2.5</version>
                <configuration>
                    <useModulePath>false</useModulePath>
                    <systemPropertyVariables>
                        <LIBMM2_PATH>${LIBMM2_PATH}</LIBMM2_PATH>
                    </systemPropertyVariables>
                    <forkCount>1</forkCount>
                    <reuseForks>false</reuseForks>
                </configuration>
            </plugin>

            <!-- Shade -->
            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-shade-plugin</artifactId>
                <version>3.5.1</version>
                <executions>
                    <execution>
                        <phase>package</phase>
                        <goals>
                            <goal>shade</goal>
                        </goals>
                        <configuration>
                            <createDependencyReducedPom>false</createDependencyReducedPom>
                            <shadedArtifactAttached>false</shadedArtifactAttached>
                            <transformers>
                                <transformer implementation="org.apache.maven.plugins.shade.resource.ServicesResourceTransformer"/>
                                <transformer implementation="org.apache.maven.plugins.shade.resource.ManifestResourceTransformer">
                                    <mainClass>eu.virtualparadox.minimap2.MiniMap2Initializer</mainClass>
                                </transformer>
                            </transformers>
                        </configuration>
                    </execution>
                </executions>
            </plugin>

            <!-- Sources -->
            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-source-plugin</artifactId>
                <version>3.3.1</version>
                <executions>
                    <execution>
                        <id>attach-sources</id>
                        <goals>
                            <goal>jar</goal>
                        </goals>
                    </execution>
                </executions>
            </plugin>

            <!-- Javadocs -->
            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-javadoc-plugin</artifactId>
                <version>3.6.3</version>
                <configuration>
                    <doclint>none</doclint>
                    <failOnError>false</failOnError>
                </configuration>
                <executions>
                    <execution>
                        <id>attach-javadocs</id>
                        <goals>
                            <goal>jar</goal>
                        </goals>
                    </execution>
                </executions>
            </plugin>

            <!-- Sign -->
            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-gpg-plugin</artifactId>
                <version>3.2.4</version>
                <configuration>
                    <keyname>0C4238D5A8FF369A</keyname>
                    <passphrase>${env.GPG_PASSPHRASE}</passphrase>
                    <gpgArguments>
                        <arg>--pinentry-mode</arg>
                        <arg>loopback</arg>
                    </gpgArguments>
                </configuration>
                <executions>
                    <execution>
                        <id>sign-artifacts</id>
                        <phase>verify</phase>
                        <goals>
                            <goal>sign</goal>
                        </goals>
                    </execution>
                </executions>
            </plugin>

            <!-- Új Central Publishing plugin -->
            <plugin>
                <groupId>org.sonatype.central</groupId>
                <artifactId>central-publishing-maven-plugin</artifactId>
                <version>0.5.0</version>
                <extensions>true</extensions>
                <configuration>
                    <publishingServerId>central</publishingServerId>
                </configuration>
            </plugin>
        </plugins>
    </build>
</project>