Description

<dependency>
    <groupId>org.biojava</groupId>
    <artifactId>biojava-protein-comparison-tool</artifactId>
    <version>7.2.4</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">
  <parent>
    <artifactId>biojava</artifactId>
    <groupId>org.biojava</groupId>
    <version>7.2.4</version>
  </parent>
  <modelVersion>4.0.0</modelVersion>
  <artifactId>biojava-protein-comparison-tool</artifactId>
  <name>biojava-protein-comparison-tool</name>
  <url>http://source.rcsb.org</url>
  <licenses>
    <license>
      <name>GNU LGPL v2</name>
      <url>http://www.gnu.org/licenses/old-licenses/lgpl-2.1.txt</url>
      <distribution>repo</distribution>
    </license>
  </licenses>
  <build>
    <plugins>
      <plugin>
        <artifactId>maven-shade-plugin</artifactId>
        <executions>
          <execution>
            <phase>package</phase>
            <goals>
              <goal>shade</goal>
            </goals>
            <configuration>
              <minimizeJar>false</minimizeJar>
              <artifactSet>
                <excludes>
                  <exclude>junit:junit</exclude>
                </excludes>
              </artifactSet>
              <filters>
                <filter>
                  <artifact>net.sourceforge.jmol:jmol</artifact>
                  <excludes>
                    <exclude>javax/vecmath/**</exclude>
                  </excludes>
                </filter>
                <filter>
                  <artifact>org.biojava:biojava-structure</artifact>
                  <excludes>
                    <exclude>demo/DemoFATCAT*</exclude>
                    <exclude>demo/DemoCE*</exclude>
                  </excludes>
                </filter>
                <filter>
                  <artifact>*:*</artifact>
                  <excludes>
                    <exclude>META-INF/*.SF</exclude>
                    <exclude>META-INF/*.DSA</exclude>
                    <exclude>META-INF/*.RSA</exclude>
                  </excludes>
                </filter>
              </filters>
              <transformers>
                <transformer>
                  <manifestEntries>
                    <Specification-Vendor>Open Bioinformatics Foundation</Specification-Vendor>
                    <Implementation-Vendor>Open Bioinformatics Foundation</Implementation-Vendor>
                    <Specification-Version>${project.version}</Specification-Version>
                    <Implementation-Version>${project.version}</Implementation-Version>
                    <Specification-Title>${project.name}</Specification-Title>
                    <Implementation-Title>${project.name}</Implementation-Title>
                    <Main-Class>org.biojava.nbio.structure.align.gui.AlignmentGui</Main-Class>
                    <Implementation-Build>${buildNumber}</Implementation-Build>
                  </manifestEntries>
                </transformer>
                <transformer />
              </transformers>
            </configuration>
          </execution>
        </executions>
      </plugin>
      <plugin>
        <artifactId>maven-assembly-plugin</artifactId>
        <executions>
          <execution>
            <id>assemble</id>
            <phase>package</phase>
            <goals>
              <goal>single</goal>
            </goals>
            <configuration>
              <finalName>${project.artifactId}-${project.version}</finalName>
              <appendAssemblyId>false</appendAssemblyId>
            </configuration>
          </execution>
        </executions>
        <configuration>
          <descriptors>
            <descriptor>src/main/assembly/assembly.xml</descriptor>
          </descriptors>
        </configuration>
      </plugin>
      <plugin>
        <groupId>org.codehaus.mojo</groupId>
        <artifactId>buildnumber-maven-plugin</artifactId>
        <executions>
          <execution>
            <phase>validate</phase>
            <goals>
              <goal>create</goal>
            </goals>
          </execution>
        </executions>
        <configuration>
          <doCheck>false</doCheck>
          <doUpdate>false</doUpdate>
        </configuration>
      </plugin>
    </plugins>
  </build>
  <dependencies>
    <dependency>
      <groupId>junit</groupId>
      <artifactId>junit</artifactId>
      <version>4.13.2</version>
      <scope>test</scope>
      <exclusions>
        <exclusion>
          <artifactId>hamcrest-core</artifactId>
          <groupId>org.hamcrest</groupId>
        </exclusion>
      </exclusions>
    </dependency>
  </dependencies>
  <properties>
    <project.build.targetEncoding>UTF-8</project.build.targetEncoding>
    <maven.build.timestamp.format>yyyyMMdd</maven.build.timestamp.format>
    <project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
    <timestamp>${maven.build.timestamp}</timestamp>
  </properties>
</project>