Description

<dependency>
    <groupId>org.dishevelled</groupId>
    <artifactId>dsh-bio-adam</artifactId>
    <version>2.2</version>
</dependency>

<?xml version="1.0" encoding="UTF-8"?>
<!--

    dsh-bio-adam  Adapt dsh-bio models to ADAM.
    Copyright (c) 2013-2023 held jointly by the individual authors.

    This library is free software; you can redistribute it and/or modify it
    under the terms of the GNU Lesser General Public License as published
    by the Free Software Foundation; either version 3 of the License, or (at
    your option) any later version.

    This library is distributed in the hope that it will be useful, but WITHOUT
    ANY WARRANTY; with out even the implied warranty of MERCHANTABILITY or
    FITNESS FOR A PARTICULAR PURPOSE.  See the GNU Lesser General Public
    License for more details.

    You should have received a copy of the GNU Lesser General Public License
    along with this library;  if not, write to the Free Software Foundation,
    Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307  USA.

    > http://www.fsf.org/licensing/licenses/lgpl.html
    > http://www.opensource.org/licenses/lgpl-license.php


-->
<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>
  <packaging>jar</packaging>
  <parent>
    <groupId>org.dishevelled</groupId>
    <artifactId>dsh-bio</artifactId>
    <version>2.2</version>
  </parent>
  <artifactId>dsh-bio-adam</artifactId>
  <name>dsh-bio-adam</name>
  <description>Adapt dsh-bio models to ADAM.</description>
  <build>
    <plugins>
      <plugin>
        <groupId>org.apache.maven.plugins</groupId>
        <artifactId>maven-shade-plugin</artifactId>
        <configuration>
          <createDependencyReducedPom>false</createDependencyReducedPom>
          <filters>
            <filter>
              <artifact>*:*</artifact>
              <excludes>
                <exclude>META-INF/*.SF</exclude>
                <exclude>META-INF/*.DSA</exclude>
                <exclude>META-INF/*.RSA</exclude>
              </excludes>
            </filter>
          </filters>
          <relocations>
            <relocation>
              <!-- guava and guice both need to be shaded -->
              <pattern>com.google</pattern>
              <shadedPattern>org.dishevelled.bio.adam.shaded.com.google</shadedPattern>
            </relocation>
          </relocations>
        </configuration>
        <executions>
          <execution>
            <phase>package</phase>
            <goals>
              <goal>shade</goal>
            </goals>
            <configuration>
              <transformers>
                <transformer implementation="org.apache.maven.plugins.shade.resource.ServicesResourceTransformer" />
              </transformers>
            </configuration>
          </execution>
        </executions>
      </plugin>
    </plugins>
  </build>
  <dependencyManagement>
    <dependencies>
      <dependency>
        <groupId>org.dishevelled</groupId>
        <artifactId>dsh-bio-convert</artifactId>
        <version>${project.version}</version>
      </dependency>
      <dependency>
        <groupId>org.dishevelled</groupId>
        <artifactId>dsh-bio-convert-htsjdk</artifactId>
        <version>${project.version}</version>
      </dependency>
      <dependency>
        <groupId>org.dishevelled</groupId>
        <artifactId>dsh-bio-feature</artifactId>
        <version>${project.version}</version>
      </dependency>
    </dependencies>
  </dependencyManagement>
  <dependencies>
    <dependency>
      <groupId>de.javakaffee</groupId>
      <artifactId>kryo-serializers</artifactId>
      <scope>compile</scope>
    </dependency>
    <dependency>
      <groupId>junit</groupId>
      <artifactId>junit</artifactId>
      <scope>test</scope>
    </dependency>
    <dependency>
      <groupId>org.apache.spark</groupId>
      <artifactId>spark-core_${scala.version.prefix}</artifactId>
      <scope>provided</scope>
    </dependency>
    <dependency>
      <groupId>org.apache.spark</groupId>
      <artifactId>spark-sql_${scala.version.prefix}</artifactId>
      <scope>provided</scope>
    </dependency>
    <dependency>
      <groupId>org.bdgenomics.adam</groupId>
      <artifactId>adam-assembly-spark3_${scala.version.prefix}</artifactId>
      <scope>provided</scope>
    </dependency>
    <dependency>
      <groupId>org.dishevelled</groupId>
      <artifactId>dsh-bio-convert</artifactId>
      <scope>compile</scope>
    </dependency>
    <dependency>
      <groupId>org.dishevelled</groupId>
      <artifactId>dsh-bio-convert-htsjdk</artifactId>
      <scope>compile</scope>
    </dependency>
    <dependency>
      <groupId>org.dishevelled</groupId>
      <artifactId>dsh-bio-feature</artifactId>
      <scope>compile</scope>
    </dependency>
  </dependencies>
</project>