pom.xml

<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>

	<groupId>uk.ac.ebi.uniprot</groupId>
	<version>0.0.1-SNAPSHOT</version>
	<name>Blast fasta file against Uniprot</name>
	<description>Given a fasta file, blast all sequences against UniProt DB using UniProt JAPI</description>
	<artifactId>blast_fasta</artifactId>

	<repositories>
		<repository>
			<id>ebi-repo</id>
			<name>ebi-repo</name>
			<url>http://www.ebi.ac.uk/~maven/m2repo</url>
		</repository>
	</repositories>
	<dependencies>
		<dependency>
			<groupId>uk.ac.ebi.uniprot</groupId>
			<artifactId>japi</artifactId>
			<version>1.0.11</version>
		</dependency>
	</dependencies>
	<build>
		<plugins>
			<plugin>
				<groupId>org.apache.maven.plugins</groupId>
				<artifactId>maven-compiler-plugin</artifactId>
				<version>3.1</version>
				<configuration>
					<source>1.8</source>
					<target>1.8</target>
					<fork>true</fork>
					<meminitial>128m</meminitial>
					<maxmem>512m</maxmem>
					<showDeprecation>true</showDeprecation>
					<showWarnings>true</showWarnings>
				</configuration>
			</plugin>
		</plugins>
	</build>
	<profiles>
		<profile>
			<id>deploy_shade</id>
			<build>
				<plugins>
					<!-- This is to create an uber-jar which contains all the dependencies. -->
					<!-- The artifact generated will have a classifier named "shade". -->
					<plugin>
						<groupId>org.apache.maven.plugins</groupId>
						<artifactId>maven-shade-plugin</artifactId>
						<executions>
							<execution>
								<phase>package</phase>
								<goals>
									<goal>shade</goal>
								</goals>
							</execution>
						</executions>
					</plugin>
				</plugins>
			</build>
		</profile>
	</profiles>
</project>