Description

<dependency>
    <groupId>org.phyloref</groupId>
    <artifactId>jphyloref</artifactId>
    <version>1.1.1</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>
  <groupId>org.phyloref</groupId>
  <artifactId>jphyloref</artifactId>
  <name>JPhyloRef</name>
  <version>1.1.1</version>
  <description>A tool for testing and resolving phyloreferences as OWL ontologies.</description>
  <url>https://github.com/phyloref/jphyloref</url>
  <developers>
    <developer>
      <name>Gaurav Vaidya</name>
      <email>gaurav@ggvaidya.com</email>
      <organization>Renaissance Computing Institute, University of North Carolina</organization>
      <organizationUrl>https://renci.org/</organizationUrl>
    </developer>
  </developers>
  <licenses>
    <license>
      <name>MIT License</name>
      <url>http://www.opensource.org/licenses/mit-license.php</url>
    </license>
  </licenses>
  <scm>
    <connection>scm:git:git://github.com/phyloref/jphyloref.git</connection>
    <developerConnection>scm:git:ssh://github.com:phyloref/jphyloref.git</developerConnection>
    <url>http://github.com/phyloref/jphyloref/</url>
  </scm>
  <build>
    <plugins>
      <plugin>
        <artifactId>maven-surefire-plugin</artifactId>
        <version>2.22.1</version>
        <configuration />
      </plugin>
      <plugin>
        <groupId>com.diffplug.spotless</groupId>
        <artifactId>spotless-maven-plugin</artifactId>
        <version>1.15.0</version>
        <executions>
          <execution>
            <id>test</id>
            <phase>test</phase>
            <goals>
              <goal>check</goal>
            </goals>
          </execution>
        </executions>
        <configuration>
          <java>
            <googleJavaFormat>
              <version>1.6</version>
              <style>GOOGLE</style>
            </googleJavaFormat>
            <removeUnusedImports />
          </java>
          <formats>
            <format>
              <includes>
                <include>**/*.xml</include>
                <include>**/*.md</include>
                <include>**/*.json</include>
              </includes>
              <excludes>
                <exclude>.idea/**</exclude>
                <exclude>target/**</exclude>
                <exclude>dependency-reduced-pom.xml</exclude>
              </excludes>
              <trimTrailingWhitespace />
              <endWithNewline />
              <indent>
                <spaces>true</spaces>
                <spacesPerTab>2</spacesPerTab>
              </indent>
            </format>
          </formats>
        </configuration>
      </plugin>
      <plugin>
        <groupId>org.jacoco</groupId>
        <artifactId>jacoco-maven-plugin</artifactId>
        <version>0.8.6</version>
        <executions>
          <execution>
            <id>prepare-agent</id>
            <goals>
              <goal>prepare-agent</goal>
            </goals>
          </execution>
          <execution>
            <id>check</id>
            <phase>test</phase>
            <goals>
              <goal>check</goal>
              <goal>report</goal>
            </goals>
          </execution>
        </executions>
        <configuration>
          <haltOnFailure>false</haltOnFailure>
          <rules>
            <rule>
              <element>SOURCEFILE</element>
              <limits>
                <limit>
                  <counter>INSTRUCTION</counter>
                  <value>COVEREDRATIO</value>
                  <minimum>0.04</minimum>
                </limit>
                <limit>
                  <counter>BRANCH</counter>
                  <value>COVEREDRATIO</value>
                  <minimum>0.00</minimum>
                </limit>
                <limit>
                  <counter>CLASS</counter>
                  <value>MISSEDCOUNT</value>
                  <maximum>1</maximum>
                </limit>
              </limits>
            </rule>
          </rules>
        </configuration>
      </plugin>
      <plugin>
        <artifactId>maven-compiler-plugin</artifactId>
        <version>3.8.0</version>
        <configuration>
          <compilerArgument>-Xlint:unchecked</compilerArgument>
          <showDeprecation>true</showDeprecation>
        </configuration>
      </plugin>
      <plugin>
        <artifactId>maven-jar-plugin</artifactId>
        <version>3.2.0</version>
        <configuration>
          <forceCreation>true</forceCreation>
        </configuration>
      </plugin>
      <plugin>
        <artifactId>maven-shade-plugin</artifactId>
        <version>3.0.0</version>
        <executions>
          <execution>
            <phase>package</phase>
            <goals>
              <goal>shade</goal>
            </goals>
          </execution>
        </executions>
        <configuration>
          <transformers>
            <transformer>
              <manifestEntries>
                <Main-Class>${mainClass}</Main-Class>
                <X-Compile-Source-JDK>${maven.compile.source}</X-Compile-Source-JDK>
                <X-Compile-Target-JDK>${maven.compile.target}</X-Compile-Target-JDK>
              </manifestEntries>
            </transformer>
          </transformers>
        </configuration>
      </plugin>
      <plugin>
        <groupId>org.sonatype.plugins</groupId>
        <artifactId>nexus-staging-maven-plugin</artifactId>
        <version>1.6.8</version>
        <extensions>true</extensions>
        <configuration>
          <serverId>ossrh</serverId>
          <nexusUrl>https://oss.sonatype.org/</nexusUrl>
          <autoReleaseAfterClose>true</autoReleaseAfterClose>
        </configuration>
      </plugin>
      <plugin>
        <artifactId>maven-source-plugin</artifactId>
        <version>3.2.1</version>
        <executions>
          <execution>
            <id>attach-sources</id>
            <goals>
              <goal>jar-no-fork</goal>
            </goals>
          </execution>
        </executions>
      </plugin>
      <plugin>
        <artifactId>maven-javadoc-plugin</artifactId>
        <version>3.2.0</version>
        <executions>
          <execution>
            <id>attach-javadocs</id>
            <goals>
              <goal>jar</goal>
            </goals>
          </execution>
        </executions>
      </plugin>
      <plugin>
        <artifactId>maven-gpg-plugin</artifactId>
        <version>1.6</version>
        <executions>
          <execution>
            <id>sign-artifacts</id>
            <phase>verify</phase>
            <goals>
              <goal>sign</goal>
            </goals>
          </execution>
        </executions>
      </plugin>
    </plugins>
  </build>
  <dependencies>
    <dependency>
      <groupId>org.junit.jupiter</groupId>
      <artifactId>junit-jupiter-engine</artifactId>
      <version>5.3.1</version>
      <scope>test</scope>
      <exclusions>
        <exclusion>
          <artifactId>apiguardian-api</artifactId>
          <groupId>org.apiguardian</groupId>
        </exclusion>
        <exclusion>
          <artifactId>junit-platform-engine</artifactId>
          <groupId>org.junit.platform</groupId>
        </exclusion>
        <exclusion>
          <artifactId>junit-jupiter-api</artifactId>
          <groupId>org.junit.jupiter</groupId>
        </exclusion>
      </exclusions>
    </dependency>
  </dependencies>
  <distributionManagement>
    <repository>
      <id>ossrh</id>
      <url>https://oss.sonatype.org/service/local/staging/deploy/maven2/</url>
    </repository>
    <snapshotRepository>
      <id>ossrh</id>
      <url>https://oss.sonatype.org/content/repositories/snapshots</url>
    </snapshotRepository>
  </distributionManagement>
  <properties>
    <maven.compiler.target>1.8</maven.compiler.target>
    <mainClass>org.phyloref.jphyloref.JPhyloRef</mainClass>
    <maven.compiler.source>1.8</maven.compiler.source>
    <project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
  </properties>
</project>