/
pom.xml
384 lines (370 loc) · 11 KB
/
pom.xml
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<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>bio.gcat</groupId>
<artifactId>gcat</artifactId>
<version>2.0.3</version>
<name>Genetic Code Analysis Toolkit</name>
<url>http://www.gcat.bio/</url>
<developers>
<developer>
<name>Kristian Kraljic</name>
<email>kris@kra.lc</email>
<organization>Mannheim University of Applied Sciences</organization>
<roles>
<role>Developer</role>
<role>Administrator</role>
</roles>
</developer>
<developer>
<name>Markus Gumbel</name>
<email>m.gumbel@hs-mannheim.de</email>
<organization>Mannheim University of Applied Sciences</organization>
<roles>
<role>Developer</role>
<role>Administrator</role>
</roles>
</developer>
</developers>
<inceptionYear>2014</inceptionYear>
<properties>
<project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
</properties>
<dependencies>
<dependency>
<groupId>org.biojava</groupId>
<artifactId>biojava-core</artifactId>
<version>4.2.8</version>
</dependency>
<dependency>
<groupId>org.apache.commons</groupId>
<artifactId>commons-math3</artifactId>
<version>3.2</version>
</dependency>
<dependency>
<groupId>com.google.guava</groupId>
<artifactId>guava</artifactId>
<version>18.0</version>
</dependency>
<dependency>
<groupId>org.javassist</groupId>
<artifactId>javassist</artifactId>
<version>3.19.0-GA</version>
</dependency>
<dependency>
<groupId>org.reflections</groupId>
<artifactId>reflections-maven</artifactId>
<version>0.9.9-RC1</version>
</dependency>
<dependency>
<groupId>org.slf4j</groupId>
<artifactId>slf4j-api</artifactId>
<version>1.7.12</version>
</dependency>
<dependency>
<groupId>org.slf4j</groupId>
<artifactId>slf4j-nop</artifactId>
<version>1.7.12</version>
</dependency>
<dependency>
<groupId>com.github.monkeysintown</groupId>
<artifactId>jgraphx</artifactId>
<version>3.1.2.1</version>
</dependency>
<dependency>
<groupId>com.googlecode.combinatoricslib</groupId>
<artifactId>combinatoricslib</artifactId>
<version>2.1</version>
</dependency>
<dependency>
<groupId>org.scala-lang</groupId>
<artifactId>scala-library</artifactId>
<version>2.11.7</version>
</dependency>
<dependency>
<groupId>org.scala-lang</groupId>
<artifactId>scala-actors</artifactId>
<version>2.11.7</version>
</dependency>
<dependency>
<groupId>org.hamcrest</groupId>
<artifactId>hamcrest-core</artifactId>
<version>1.3</version>
<scope>test</scope>
</dependency>
<dependency>
<groupId>junit</groupId>
<artifactId>junit</artifactId>
<version>4.11</version>
<!-- <scope>test</scope> -->
<!-- Needed for BDA demos -->
</dependency>
<dependency>
<groupId>org.hamcrest</groupId>
<artifactId>hamcrest-library</artifactId>
<version>1.3</version>
<scope>test</scope>
</dependency>
<dependency>
<groupId>com.eclipsesource.minimal-json</groupId>
<artifactId>minimal-json</artifactId>
<version>0.9.4</version>
</dependency>
<dependency>
<groupId>org.apache.httpcomponents</groupId>
<artifactId>httpclient</artifactId>
<version>4.5</version>
</dependency>
<dependency>
<groupId>lc.kra.characters</groupId>
<artifactId>characters</artifactId>
<version>0.1.0</version>
</dependency>
<dependency>
<groupId>net.sourceforge.argparse4j</groupId>
<artifactId>argparse4j</artifactId>
<version>0.7.0</version>
</dependency>
<!-- <dependency>
<groupId>javax.jnlp</groupId>
<artifactId>jnlp-api</artifactId>
<version>7.0</version>
<scope>system</scope>
<systemPath>${java.home}/lib/javaws.jar</systemPath>
</dependency> -->
<!-- Needed for JNLP sandbox -->
</dependencies>
<build>
<resources>
<resource>
<directory>src/main/resources</directory>
<filtering>true</filtering>
<includes>
<include>**/version.properties</include>
</includes>
</resource>
<resource>
<directory>src/main/resources</directory>
<filtering>false</filtering>
<excludes>
<exclude>**/version.properties</exclude>
</excludes>
</resource>
</resources>
<pluginManagement>
<plugins>
<!--
This plugin's configuration is used to store Eclipse m2e settings
only. It has no influence on the Maven build itself.
-->
<plugin>
<groupId>org.eclipse.m2e</groupId>
<artifactId>lifecycle-mapping</artifactId>
<version>1.0.0</version>
<configuration>
<lifecycleMappingMetadata>
<pluginExecutions>
<pluginExecution>
<pluginExecutionFilter>
<groupId>org.scala-tools</groupId>
<artifactId>maven-scala-plugin</artifactId>
<versionRange>[1.0,)</versionRange>
<goals>
<goal>add-source</goal>
<goal>testCompile</goal>
<goal>compile</goal>
</goals>
</pluginExecutionFilter>
<action>
<execute />
</action>
</pluginExecution>
</pluginExecutions>
</lifecycleMappingMetadata>
</configuration>
</plugin>
</plugins>
</pluginManagement>
<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>
</configuration>
</plugin>
<plugin>
<groupId>org.scala-tools</groupId>
<artifactId>maven-scala-plugin</artifactId>
<version>2.15.2</version>
<executions>
<execution>
<id>scala-compile-first</id>
<phase>process-resources</phase>
<goals>
<goal>add-source</goal>
<goal>compile</goal>
</goals>
</execution>
<execution>
<id>scala-test-compile</id>
<phase>process-test-resources</phase>
<goals>
<goal>testCompile</goal>
</goals>
</execution>
</executions>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-shade-plugin</artifactId>
<version>1.6</version>
<executions>
<execution>
<phase>package</phase>
<goals>
<goal>shade</goal>
</goals>
<configuration>
<transformers>
<transformer implementation="org.apache.maven.plugins.shade.resource.ManifestResourceTransformer">
<mainClass>bio.gcat.gui.AnalysisTool</mainClass>
<manifestEntries>
<Application-Name>Genetic Code Analysis Toolkit</Application-Name>
<Main-Class>bio.gcat.gui.AnalysisTool</Main-Class>
<!-- <Permissions>sandbox</Permissions> -->
<!-- To switch to sandbox uncomment line above and comment next three lines, also change launch.jnlp file(s) -->
<Permissions>all-permissions</Permissions>
<Trusted-Library>true</Trusted-Library>
<Trusted-Only>true</Trusted-Only>
<Codebase>*</Codebase>
<Build-By>University of Applied Sciences Mannheim</Build-By>
</manifestEntries>
</transformer>
</transformers>
</configuration>
</execution>
</executions>
</plugin>
<!--
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-jarsigner-plugin</artifactId>
<version>1.4</version>
<executions>
<execution>
<id>sign</id>
<phase>package</phase>
<goals>
<goal>sign</goal>
</goals>
</execution>
</executions>
<configuration>
<keystore>${signing.keystore}</keystore>
<storepass>${signing.storepass}</storepass>
<keypass>${signing.keypass}</keypass>
<alias>${signing.alias}</alias>
<tsa>${signing.tsa}</tsa>
</configuration>
</plugin>
-->
<plugin>
<groupId>com.akathist.maven.plugins.launch4j</groupId>
<artifactId>launch4j-maven-plugin</artifactId>
<version>1.7.8</version>
<executions>
<execution>
<id>l4j-clui</id>
<phase>package</phase>
<goals>
<goal>launch4j</goal>
</goals>
<configuration>
<headerType>gui</headerType>
<outfile>${project.build.directory}/${project.build.finalName}.exe</outfile>
<jar>${project.build.directory}/${project.build.finalName}.jar</jar>
<downloadUrl>http://java.com/download</downloadUrl>
<classPath>
<mainClass>bio.gcat.gui.AnalysisTool</mainClass>
<addDependencies>false</addDependencies>
<preCp>anything</preCp>
</classPath>
<icon>src/main/resources/bio/gcat/icon.ico</icon>
<jre>
<minVersion>1.8.0</minVersion>
<jdkPreference>preferJre</jdkPreference>
</jre>
<versionInfo>
<fileVersion>${project.version}.0</fileVersion>
<txtFileVersion>${project.version}.0</txtFileVersion>
<fileDescription>${project.name}</fileDescription>
<copyright>2016 Hochschule Mannheim</copyright>
<productVersion>${project.version}.0</productVersion>
<txtProductVersion>${project.version}.0</txtProductVersion>
<productName>${project.name}</productName>
<companyName>Hochschule Mannheim</companyName>
<internalName>Genetic Code Analysis Toolkit</internalName>
<originalFilename>${project.artifactId}.exe</originalFilename>
</versionInfo>
</configuration>
</execution>
</executions>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-antrun-plugin</artifactId>
<version>1.8</version>
<executions>
<execution>
<phase>package</phase>
<goals>
<goal>run</goal>
</goals>
<configuration>
<target>
<copy todir="${project.build.directory}/webapp">
<fileset dir="${basedir}/src/main/webapp" />
</copy>
<copy
file="${project.build.directory}/${project.build.finalName}.jar"
tofile="${project.build.directory}/webapp/${project.artifactId}.jar"
overwrite="true" />
<copy
file="${project.build.directory}/${project.build.finalName}.exe"
tofile="${project.build.directory}/webapp/${project.artifactId}.exe"
overwrite="true" />
</target>
</configuration>
</execution>
</executions>
</plugin>
</plugins>
</build>
<repositories>
<repository>
<id>central</id>
<name>Maven Repository Switchboard</name>
<layout>default</layout>
<url>http://repo1.maven.org/maven2</url>
<snapshots>
<enabled>false</enabled>
</snapshots>
</repository>
<repository>
<id>biojava-legacy-repo</id>
<name>BioJava's Git based legacy maven repo</name>
<url>https://github.com/biojava/maven-repo/raw/master/</url>
</repository>
<repository>
<id>characters-mvn-repo</id>
<url>https://raw.github.com/kristian/characters/mvn-repo/</url>
<snapshots>
<enabled>true</enabled>
<updatePolicy>always</updatePolicy>
</snapshots>
</repository>
</repositories>
</project>