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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>nl.tudelft.context</groupId>
<artifactId>geex</artifactId>
<version>1.0</version>
<modules>
<module>geex-models</module>
<module>geex-core</module>
<module>geex-services</module>
<module>geex-workspace</module>
<module>geex-effects</module>
<module>geex-logger</module>
</modules>
<packaging>pom</packaging>
<name>Geex</name>
<url>http://github.com/AbeelLab/geex</url>
<properties>
<maven.compiler.source>1.8</maven.compiler.source>
<maven.compiler.target>1.8</maven.compiler.target>
<project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
<project.reporting.outputEncoding>UTF-8</project.reporting.outputEncoding>
</properties>
<description>
The application will specialize in comparative DNA sequence analysis on a large numbers of genomes.
This can not only be used to find convergent evolution and parallel evolution
but also has shown potential for unraveling the function of noncoding sequence.
By making the genome browser interactive with semantic zooming we make it possible
to quickly identify which parts of the data are relevant for research and allow omitting
non-relevant information at certain levels. We can also use semantic zooming to annotate parts of the data.
</description>
<!-- List the core committers -->
<developers>
<developer>
<id>qurben</id>
<name>Gerben Oolbekkink</name>
<email>[email protected]</email>
<roles>
<role>developer</role>
</roles>
</developer>
<developer>
<id>Vennik</id>
<name>René Vennik</name>
<email>[email protected]</email>
<roles>
<role>product owner</role>
<role>developer</role>
</roles>
</developer>
<developer>
<id>jnieuwdorp</id>
<name>Jasper Nieuwdorp</name>
<email>[email protected]</email>
<roles>
<role>scrum master</role>
<role>developer</role>
</roles>
</developer>
<developer>
<id>jboot</id>
<name>Jasper Boot</name>
<email>[email protected]</email>
<roles>
<role>developer</role>
</roles>
</developer>
<developer>
<id>jimhommes</id>
<name>Jim Hommes</name>
<email>[email protected]</email>
<roles>
<role>developer</role>
</roles>
</developer>
</developers>
<issueManagement>
<system>Github</system>
<url>https://github.com/AbeelLab/geex/issues</url>
</issueManagement>
<scm>
<connection>scm:git:[email protected]:AbeelLab/geex.git</connection>
<developerConnection>scm:git:[email protected]:AbeelLab/geex.git</developerConnection>
<tag>HEAD</tag>
<url>https://github.com/AbeelLab/geex</url>
</scm>
<ciManagement>
<system>travis-ci</system>
<url>https://travis-ci.org/AbeelLab/geex</url>
<notifiers/>
</ciManagement>
<distributionManagement>
<site>
<id>hup-geex</id>
<url>scpexe://hup.blue:/srv/geex</url>
</site>
</distributionManagement>
<dependencies>
<!-- Testing -->
<dependency>
<groupId>junit</groupId>
<artifactId>junit</artifactId>
<version>4.11</version>
<scope>test</scope>
</dependency>
<dependency>
<groupId>org.mockito</groupId>
<artifactId>mockito-all</artifactId>
<version>1.9.5</version>
<scope>test</scope>
</dependency>
<dependency>
<groupId>de.saxsys</groupId>
<artifactId>jfx-testrunner</artifactId>
<version>1.1</version>
<scope>test</scope>
</dependency>
<!-- Commons Lang -->
<dependency>
<groupId>commons-lang</groupId>
<artifactId>commons-lang</artifactId>
<version>2.6</version>
</dependency>
<!-- Commons Collections -->
<dependency>
<groupId>commons-collections</groupId>
<artifactId>commons-collections</artifactId>
<version>3.2.1</version>
</dependency>
</dependencies>
<profiles>
<profile>
<id>travis</id>
<build>
<plugins>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-checkstyle-plugin</artifactId>
<version>2.15</version>
<configuration>
<failOnViolation>false</failOnViolation>
<configLocation>src/site/checkstyle.xml</configLocation>
</configuration>
<executions>
<execution>
<id>verify-style</id>
<phase>process-classes</phase>
<goals>
<goal>checkstyle-aggregate</goal>
</goals>
</execution>
</executions>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-pmd-plugin</artifactId>
<version>3.4</version>
<configuration>
<format>xml</format>
<aggregate>true</aggregate>
</configuration>
<executions>
<execution>
<id>verify-pmd</id>
<phase>process-classes</phase>
<goals>
<goal>pmd</goal>
</goals>
</execution>
</executions>
</plugin>
<plugin>
<groupId>org.codehaus.mojo</groupId>
<artifactId>findbugs-maven-plugin</artifactId>
<version>3.0.1</version>
<configuration>
<failOnError>false</failOnError>
</configuration>
<executions>
<execution>
<id>verify-findbugs</id>
<phase>process-classes</phase>
<goals>
<goal>check</goal>
</goals>
</execution>
</executions>
</plugin>
</plugins>
</build>
</profile>
<profile>
<id>sonar</id>
<build>
<plugins>
<plugin>
<groupId>org.jacoco</groupId>
<artifactId>jacoco-maven-plugin</artifactId>
<version>0.7.4.201502262128</version>
<executions>
<execution>
<id>agent</id>
<goals>
<goal>prepare-agent</goal>
</goals>
</execution>
</executions>
</plugin>
</plugins>
</build>
</profile>
</profiles>
<build>
<plugins>
<plugin>
<groupId>org.jacoco</groupId>
<artifactId>jacoco-maven-plugin</artifactId>
<version>0.7.4.201502262128</version>
<executions>
<execution>
<id>agent</id>
<goals>
<goal>prepare-agent</goal>
</goals>
</execution>
</executions>
</plugin>
<plugin>
<groupId>com.github.jeluard</groupId>
<artifactId>plantuml-maven-plugin</artifactId>
<version>1.1</version>
<configuration>
<sourceFiles>
<directory>${basedir}/src/site</directory>
<includes>
<include>diagrams/**/*.puml</include>
</includes>
</sourceFiles>
<outputDirectory>${basedir}/target/site/images</outputDirectory>
</configuration>
<dependencies>
<dependency>
<groupId>net.sourceforge.plantuml</groupId>
<artifactId>plantuml</artifactId>
<version>8024</version>
</dependency>
</dependencies>
<executions>
<execution>
<inherited>false</inherited>
<phase>pre-site</phase>
<goals>
<goal>generate</goal>
</goals>
</execution>
</executions>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-site-plugin</artifactId>
<version>3.4</version>
<dependencies>
<dependency>
<groupId>org.apache.maven.wagon</groupId>
<artifactId>wagon-ssh-external</artifactId>
<version>2.9</version>
</dependency>
</dependencies>
</plugin>
</plugins>
<pluginManagement>
<plugins>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-assembly-plugin</artifactId>
<version>2.5.3</version>
</plugin>
</plugins>
</pluginManagement>
</build>
<reporting>
<plugins>
<plugin>
<artifactId>maven-project-info-reports-plugin</artifactId>
<version>2.8</version>
<reportSets>
<reportSet>
<reports>
<report>index</report>
<report>project-team</report>
<report>dependencies</report>
<report>dependency-convergence</report>
<report>issue-tracking</report>
<report>scm</report>
<report>plugins</report>
<report>cim</report>
</reports>
</reportSet>
</reportSets>
</plugin>
<plugin>
<groupId>org.codehaus.mojo</groupId>
<artifactId>cobertura-maven-plugin</artifactId>
<version>2.7</version>
<reportSets>
<reportSet>
<!-- defines cobertura projects- and aggregate-report -->
<id>cobertura</id>
<reports>
<report>cobertura</report>
</reports>
<configuration>
<aggregate>true</aggregate>
</configuration>
</reportSet>
</reportSets>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-pmd-plugin</artifactId>
<version>3.4</version>
<configuration>
<skipEmptyReport>false</skipEmptyReport>
<linkXRef>true</linkXRef>
</configuration>
<reportSets>
<reportSet>
<!-- defines pmd reports in the modules -->
<id>pmd-report</id>
<reports>
<report>pmd</report>
</reports>
</reportSet>
<reportSet>
<!-- defines pmd aggregate report -->
<id>pmd-aggregate</id>
<inherited>false</inherited>
<reports>
<report>pmd</report>
</reports>
<configuration>
<aggregate>true</aggregate>
</configuration>
</reportSet>
<reportSet>
<!-- defines cpd reports in the modules -->
<id>cpd-report</id>
<reports>
<report>cpd</report>
</reports>
</reportSet>
<reportSet>
<!-- defines cpd aggregate report -->
<id>cpd-aggregate</id>
<inherited>false</inherited>
<reports>
<report>cpd</report>
</reports>
<configuration>
<aggregate>true</aggregate>
</configuration>
</reportSet>
</reportSets>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-jxr-plugin</artifactId>
<version>2.3</version>
<reportSets>
<reportSet>
<!-- define jxr reports in the modules -->
<id>xref</id>
<reports>
<report>jxr</report>
</reports>
</reportSet>
<reportSet>
<!-- define jxr aggregate report -->
<id>aggregate</id>
<inherited>false</inherited>
<reports>
<report>aggregate</report>
</reports>
</reportSet>
</reportSets>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-checkstyle-plugin</artifactId>
<version>2.15</version>
<configuration>
<configLocation>src/site/checkstyle.xml</configLocation>
</configuration>
<reportSets>
<reportSet>
<!-- define checkstyle reports in the modules -->
<id>checkstyle</id>
<reports>
<report>checkstyle</report>
</reports>
</reportSet>
<reportSet>
<!-- define checkstyle aggregate report -->
<id>aggregate</id>
<inherited>false</inherited>
<reports>
<report>checkstyle-aggregate</report>
</reports>
</reportSet>
</reportSets>
</plugin>
<plugin>
<artifactId>maven-javadoc-plugin</artifactId>
<version>2.10.3</version>
<reportSets>
<reportSet>
<!-- define javadoc aggregate report -->
<id>aggregate</id>
<inherited>false</inherited>
<reports>
<report>aggregate</report>
</reports>
</reportSet>
</reportSets>
</plugin>
<plugin>
<groupId>org.codehaus.mojo</groupId>
<artifactId>findbugs-maven-plugin</artifactId>
<version>3.0.1</version>
</plugin>
</plugins>
</reporting>
</project>