Description

<dependency>
    <groupId>org.colomoto</groupId>
    <artifactId>bioLQM</artifactId>
    <version>0.8</version>
</dependency>

<?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/maven-v4_0_0.xsd">
  <modelVersion>4.0.0</modelVersion>

  <!-- Project Description -->
  <groupId>org.colomoto</groupId>
  <artifactId>bioLQM</artifactId>
  <name>Logical Qualitative Models of biological network</name>
  <version>0.8</version>
  <description>simple toolbox for the manipulation of logical models (not edition)</description>
  <inceptionYear>2012</inceptionYear>
  <packaging>jar</packaging>
  <url>https://github.com/colomoto/bioLQM</url>

  <licenses>
    <license>
      <name>GNU Lesser General Public License Version 3 (LGPL v3+)</name>
      <url>https://www.gnu.org/licenses/lgpl-3.0.html</url>
    </license>
  </licenses>

  <developers>
    <developer>
      <name>Aurélien Naldi</name>
      <email>aurelien.naldi@gmail.com</email>
    </developer>
  </developers>

  <scm>
    <connection>scm:git:git://github.com/colomoto/bioLQM.git</connection>
    <developerConnection>scm:git:ssh://github.com:colomoto/bioLQM.git</developerConnection>
    <url>http://github.com/colomoto/bioLQM</url>
  </scm>

  <properties>
    <project.java.version>11</project.java.version>
    <project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
    <project.reporting.outputEncoding>UTF-8</project.reporting.outputEncoding>
  </properties>

  <dependencies>

    <dependency>
      <groupId>org.junit.jupiter</groupId>
      <artifactId>junit-jupiter-api</artifactId>
      <version>5.9.3</version>
      <scope>test</scope>
    </dependency>
    <dependency>
      <groupId>org.junit.vintage</groupId>
      <artifactId>junit-vintage-engine</artifactId>
      <version>5.9.3</version>
      <scope>test</scope>
    </dependency>


    <dependency>
      <groupId>org.kohsuke.metainf-services</groupId>
      <artifactId>metainf-services</artifactId>
      <version>1.11</version>
      <!-- only needed to compile: this allows to exclude it from copy-dependencies goal -->
      <scope>provided</scope>  
    </dependency>

    <dependency>
        <groupId>org.colomoto</groupId>
        <artifactId>MDDlib</artifactId>
        <version>0.4.1</version>
    </dependency>

    <dependency>
        <groupId>org.sbml.jsbml</groupId>
        <artifactId>jsbml</artifactId>
        <version>1.6.1</version>
    </dependency>

    <dependency>
          <groupId>org.antlr</groupId>
          <artifactId>antlr4-runtime</artifactId>
          <version>4.13.0</version>
    </dependency>

    <dependency>
        <groupId>de.fosd.typechef</groupId>
        <artifactId>javabdd_repackaged</artifactId>
        <version>1.0b2</version>
    </dependency>

    <dependency>
        <groupId>org.ow2.sat4j</groupId>
        <artifactId>org.ow2.sat4j.core</artifactId>
        <version>2.3.6</version>
    </dependency>
	
	<dependency>
		<groupId>org.yaml</groupId>
		<artifactId>snakeyaml</artifactId>
		<version>2.0</version>
	</dependency>
	
	<dependency>
		<groupId>org.json</groupId>
		<artifactId>json</artifactId>
		<version>20230618</version>
	</dependency>
	
	<dependency>
		<groupId>net.sf.saxon</groupId>
		<artifactId>Saxon-HE</artifactId>
		<version>12.2</version>
	</dependency>
	
	<dependency>
		<groupId>com.github.rjeschke</groupId>
		<artifactId>txtmark</artifactId>
		<version>0.13</version>
	</dependency>

  </dependencies>


  <build>
    <plugins>
      <plugin>
        <artifactId>maven-assembly-plugin</artifactId>
        <configuration>
          <archive>
            <manifest>
              <mainClass>org.colomoto.biolqm.LQMLauncher</mainClass>
            </manifest>
          </archive>
          <descriptorRefs>
            <descriptorRef>jar-with-dependencies</descriptorRef>
          </descriptorRefs>
        </configuration>
      </plugin>

      <plugin>
        <groupId>org.antlr</groupId>
        <artifactId>antlr4-maven-plugin</artifactId>
        <version>4.13.0</version>
        <executions>
          <execution>
            <goals>
             <goal>antlr4</goal>
            </goals>
          </execution>
        </executions>
      </plugin>

      <plugin>
        <groupId>org.apache.maven.plugins</groupId>
        <artifactId>maven-compiler-plugin</artifactId>
        <version>3.11.0</version>
        <configuration>
           <source>11</source>
           <target>11</target>
        </configuration>
      </plugin>

      <plugin>
        <groupId>org.apache.maven.plugins</groupId>
        <artifactId>maven-dependency-plugin</artifactId>
        <version>3.6.0</version>
        <executions>
          <execution>
            <phase>package</phase>
            <goals>
              <goal>copy-dependencies</goal>
            </goals>
            <configuration>
              <includeScope>runtime</includeScope>
              <excludeScope>provided</excludeScope>
              <outputDirectory>${project.build.directory}/lib</outputDirectory>
            </configuration>
          </execution>
        </executions>
      </plugin>

      <plugin>
        <groupId>org.apache.maven.plugins</groupId>
        <artifactId>maven-jar-plugin</artifactId>
        <version>3.3.0</version>
        <configuration>
          <archive>
            <manifest>
              <addClasspath>true</addClasspath>
              <classpathPrefix>lib/</classpathPrefix>
              <mainClass>org.colomoto.biolqm.LQMLauncher</mainClass>
              <useUniqueVersions>false</useUniqueVersions>
            </manifest>
          </archive>
        </configuration>
       </plugin>

      <plugin>
        <groupId>org.apache.maven.plugins</groupId>
        <artifactId>maven-javadoc-plugin</artifactId>
        <version>3.5.0</version>
        <executions>
          <execution>
            <id>attach-javadocs</id>
            <goals>
              <goal>jar</goal>
            </goals>
          </execution>
        </executions>
      </plugin>

      <plugin>
        <groupId>org.apache.maven.plugins</groupId>
        <artifactId>maven-source-plugin</artifactId>
        <version>3.3.0</version>
        <executions>
          <execution>
            <id>attach-sources</id>
            <goals>
              <goal>jar-no-fork</goal>
            </goals>
          </execution>
        </executions>
        </plugin>

      <plugin>
        <groupId>org.apache.maven.plugins</groupId>
        <artifactId>maven-surefire-plugin</artifactId>
        <version>3.1.2</version>
        <configuration>
          <includes>
            <include>**/*Test.java</include>
          </includes>
          <forkCount>1</forkCount>
          <useSystemClassLoader>false</useSystemClassLoader>
        </configuration>
      </plugin>

      <!-- sonatype central publishing -->
      <plugin>
        <groupId>org.sonatype.central</groupId>
        <artifactId>central-publishing-maven-plugin</artifactId>
        <version>0.9.0</version>
        <extensions>true</extensions>
        <configuration>
          <publishingServerId>central</publishingServerId>
	  <autoPublish>true</autoPublish>
        </configuration>
      </plugin>

    </plugins>
  </build>

  <profiles>
    <profile>
      <id>gh-pkg</id>
      <distributionManagement>
        <repository>
          <id>github</id>
          <name>GitHub Packages</name>
          <url>https://maven.pkg.github.com/colomoto/bioLQM</url>
        </repository>
      </distributionManagement>
    </profile>

    <profile>
      <id>release</id>
      <build>
        <plugins>
          <plugin>
            <groupId>org.apache.maven.plugins</groupId>
            <artifactId>maven-gpg-plugin</artifactId>
            <version>3.2.4</version>
            <executions>
              <execution>
                <id>sign-artifacts</id>
                <phase>verify</phase>
                <goals>
                  <goal>sign</goal>
                </goals>
              </execution>
            </executions>
            <configuration>
              <gpgArguments>
                <arg>--pinentry-mode</arg>
                <arg>loopback</arg>
              </gpgArguments>
            </configuration>
          </plugin>
        </plugins>
      </build>
    </profile>

  </profiles>

</project>