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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>org.molgenis</groupId>
<artifactId>molgenisapp</artifactId>
<version>1.0-SNAPSHOT</version>
<packaging>war</packaging>
<name>${app.name}</name>
<properties>
<endorsed.dir>${basedir}/endorsed</endorsed.dir>
<project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
<netbeans.hint.deploy.server>Tomcat</netbeans.hint.deploy.server>
<context.path>/${app.name}</context.path>
</properties>
<dependencies>
<dependency>
<groupId>org.springframework</groupId>
<artifactId>spring-context</artifactId>
<version>3.1.1.RELEASE</version>
</dependency>
<dependency>
<groupId>org.springframework</groupId>
<artifactId>spring-beans</artifactId>
<version>3.1.1.RELEASE</version>
</dependency>
<dependency>
<groupId>xml-apis</groupId>
<artifactId>xml-apis</artifactId>
<version>1.4.01</version>
</dependency>
<dependency>
<groupId>org.apache.xmlgraphics</groupId>
<artifactId>batik-ext</artifactId>
<version>1.7</version>
<scope>test</scope>
</dependency>
<!-- database hibernate, connectionpool, driver -->
<dependency>
<groupId>org.molgenis</groupId>
<artifactId>molgenis</artifactId>
<version>1.0-SNAPSHOT</version>
<!--
<exclusions>
<exclusion>
<artifactId>spring-web</artifactId>
<groupId>org.springframework</groupId>
</exclusion>
</exclusions>
-->
</dependency>
<dependency>
<groupId>commons-pool</groupId>
<artifactId>commons-pool</artifactId>
<version>20030825.183949</version>
<scope>runtime</scope>
</dependency>
<dependency>
<groupId>mysql</groupId>
<artifactId>mysql-connector-java</artifactId>
<version>5.1.20</version>
<!--
<scope>provided</scope>
-->
</dependency>
<dependency>
<groupId>c3p0</groupId>
<artifactId>c3p0</artifactId>
<version>0.9.1.2</version>
</dependency>
<!-- Testing -->
<dependency>
<groupId>org.testng</groupId>
<artifactId>testng</artifactId>
<version>6.4</version>
<scope>test</scope>
</dependency>
<dependency>
<groupId>junit</groupId>
<artifactId>junit</artifactId>
<version>4.10</version>
<scope>test</scope>
</dependency>
<dependency>
<groupId>org.seleniumhq.selenium</groupId>
<artifactId>selenium-java</artifactId>
<version>2.19.0</version>
<scope>test</scope>
</dependency>
<dependency>
<groupId>org.seleniumhq.selenium</groupId>
<artifactId>selenium-firefox-driver</artifactId>
<version>2.19.0</version>
<scope>test</scope>
<exclusions>
<exclusion>
<groupId>javax.servlet</groupId>
<artifactId>servlet-api</artifactId>
</exclusion>
</exclusions>
</dependency>
<dependency>
<groupId>org.seleniumhq.selenium</groupId>
<artifactId>selenium-server</artifactId>
<version>2.19.0</version>
<scope>test</scope>
</dependency>
<!-- Open ID -->
<dependency>
<groupId>org.expressme</groupId>
<artifactId>JOpenId</artifactId>
<version>1.08</version>
</dependency>
<!-- CAPTCHA -->
<dependency>
<groupId>org.gatein.captcha</groupId>
<artifactId>simplecaptcha</artifactId>
<version>1.1.1-GA-Patch01</version>
<exclusions>
<exclusion>
<groupId>javax.servlet</groupId>
<artifactId>servlet-api</artifactId>
</exclusion>
</exclusions>
</dependency>
<!-- RSS Feeds -->
<dependency>
<groupId>org.apache.abdera</groupId>
<artifactId>abdera-bundle</artifactId>
<version>1.1.2</version>
<exclusions>
<exclusion>
<groupId>javax.servlet</groupId>
<artifactId>servlet-api</artifactId>
</exclusion>
<exclusion>
<groupId>org.apache.lucene</groupId>
<artifactId>lucene-core</artifactId>
</exclusion>
<exclusion>
<groupId>org.springframework</groupId>
<artifactId>spring-web</artifactId>
</exclusion>
</exclusions>
</dependency>
<!-- Collections -->
<dependency>
<groupId>commons-collections</groupId>
<artifactId>commons-collections</artifactId>
<version>3.2.1</version>
</dependency>
<dependency>
<groupId>displaytag</groupId>
<artifactId>displaytag</artifactId>
<version>1.2</version>
<exclusions>
<exclusion>
<groupId>org.slf4j</groupId>
<artifactId>jcl104-over-slf4j</artifactId>
</exclusion>
</exclusions>
</dependency>
<dependency>
<groupId>displaytag</groupId>
<artifactId>displaytag-export-poi</artifactId>
<version>1.2</version>
</dependency>
<!-- Logging for displaytag -->
<dependency>
<groupId>org.slf4j</groupId>
<artifactId>slf4j-api</artifactId>
<version>1.6.1</version>
</dependency>
<dependency>
<groupId>org.slf4j</groupId>
<artifactId>slf4j-log4j12</artifactId>
<version>1.6.1</version>
</dependency>
<!-- taglibs -->
<dependency>
<groupId>taglibs</groupId>
<artifactId>standard</artifactId>
<version>1.1.2</version>
</dependency>
<dependency>
<groupId>javax.servlet</groupId>
<artifactId>jstl</artifactId>
<version>1.2</version>
<scope>runtime</scope>
</dependency>
</dependencies>
<build>
<testSourceDirectory>generated/java</testSourceDirectory>
<resources>
<!-- Persistence.xml -->
<resource>
<directory>generated/java/META-INF</directory>
<targetPath>META-INF</targetPath>
</resource>
<!-- copy freemarker templates -->
<resource>
<directory>apps/${app.name}/</directory>
<includes>
<include>**/*.ftl</include>
</includes>
</resource>
<resource>
<directory>modules/auth</directory>
<includes>
<include>**/*.ftl</include>
</includes>
</resource>
<resource>
<directory>modules/news</directory>
<includes>
<include>**/*.ftl</include>
</includes>
</resource>
<resource>
<directory>modules/pheno</directory>
<includes>
<include>**/*.ftl</include>
</includes>
</resource>
<resource>
<directory>modules/variant</directory>
<includes>
<include>**/*.ftl</include>
<include>**/*.xml</include>
</includes>
</resource>
</resources>
<plugins>
<plugin> <!-- makes it possible to build project with multiple src dirs -->
<groupId>org.codehaus.mojo</groupId>
<artifactId>build-helper-maven-plugin</artifactId>
<executions>
<execution>
<id>add-source</id>
<phase>generate-sources</phase>
<goals>
<goal>add-source</goal>
</goals>
<configuration>
<sources>
<source>generated/java</source>
<source>apps/${app.name}</source>
<source>modules/auth</source>
<source>modules/datamodel</source>
<source>modules/file</source>
<source>modules/news</source>
<source>modules/pheno</source>
<source>modules/settings</source>
<source>modules/variant</source>
<source>modules/decorators/auth</source>
<source>modules/decorators/core</source>
<source>modules/decorators/pheno</source>
<source>publicdata</source>
</sources>
<excludes>
<exclude>**/test/**</exclude>
<exclude>**/res/**</exclude>
</excludes>
</configuration>
</execution>
<execution>
<id>add-test-source</id>
<phase>generate-sources</phase>
<goals>
<goal>add-test-source</goal>
</goals>
<configuration>
<sources>
<source>generated/java</source>
<source>apps/${app.name}</source>
<source>modules/auth</source>
<source>modules/datamodel</source>
<source>modules/file</source>
<source>modules/news</source>
<source>modules/pheno</source>
<source>modules/settings</source>
<source>modules/variant</source>
<source>modules/decorators/auth</source>
<source>modules/decorators/core</source>
<source>modules/decorators/pheno</source>
<source>publicdata</source>
</sources>
</configuration>
</execution>
</executions>
</plugin>
<plugin>
<groupId>org.molgenis</groupId>
<artifactId>molgenis-maven-plugin</artifactId>
<version>1.0</version>
<configuration>
<propertiesPath>apps/${app.name}/org/molgenis/${app.name}/${app.name}.properties</propertiesPath>
</configuration>
</plugin>
<plugin>
<groupId>org.zeroturnaround</groupId>
<artifactId>jrebel-maven-plugin</artifactId>
<version>1.1.1</version>
<executions>
<execution>
<id>generate-rebel-xml</id>
<phase>process-resources</phase>
<goals>
<goal>generate</goal>
</goals>
</execution>
</executions>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-compiler-plugin</artifactId>
<version>2.3.2</version>
<configuration>
<source>1.6</source>
<target>1.6</target>
<compilerArguments>
<endorseddirs>${endorsed.dir}</endorseddirs>
</compilerArguments>
<excludes>
<exclude>**/test/**</exclude>
<exclude>**/res/**</exclude>
</excludes>
<testIncludes>
<testInclude>**/test/**</testInclude>
</testIncludes>
</configuration>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-war-plugin</artifactId>
<version>2.1.1</version>
<configuration>
<warSourceDirectory>WebContent</warSourceDirectory>
<failOnMissingWebXml>false</failOnMissingWebXml>
<archive>
<manifest>
<addClasspath>true</addClasspath>
</manifest>
</archive>
<!--
<webResources>
<resource>
<directory>apps/${app.name}/resources</directory>
<targetPath>/</targetPath>
</resource>
</webResources>
-->
</configuration>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-dependency-plugin</artifactId>
<version>2.1</version>
<executions>
<execution>
<id>copy-dependencies</id>
<phase>package</phase>
<goals>
<goal>copy-dependencies</goal>
</goals>
<configuration>
<outputDirectory>${basedir}/target/lib</outputDirectory>
</configuration>
</execution>
<execution>
<phase>validate</phase>
<goals>
<goal>copy</goal>
</goals>
<configuration>
<outputDirectory>${endorsed.dir}</outputDirectory>
<silent>true</silent>
<artifactItems>
<artifactItem>
<groupId>javax</groupId>
<artifactId>javaee-endorsed-api</artifactId>
<version>6.0</version>
<type>jar</type>
</artifactItem>
</artifactItems>
</configuration>
</execution>
</executions>
</plugin>
<plugin>
<groupId>org.mortbay.jetty</groupId>
<artifactId>jetty-maven-plugin</artifactId>
<configuration>
<webApp>
<contextPath>${context.path}</contextPath>
</webApp>
<port>8080</port>
<webAppSourceDirectory>${basedir}/WebContent</webAppSourceDirectory>
<scanIntervalSeconds>3</scanIntervalSeconds>
<stopPort>9966</stopPort>
<stopKey>jetty-stop</stopKey>
</configuration>
<dependencies>
<dependency>
<groupId>mysql</groupId>
<artifactId>mysql-connector-java</artifactId>
<version>5.1.20</version>
<scope>runtime</scope>
</dependency>
</dependencies>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-eclipse-plugin</artifactId>
<version>2.9</version>
<configuration>
<wtpversion>2.0</wtpversion>
</configuration>
</plugin>
<plugin>
<artifactId>maven-surefire-plugin</artifactId>
<version>2.6</version>
<configuration>
<suiteXmlFiles>
<suiteXmlFile>modules/datamodel/testng.xml</suiteXmlFile>
</suiteXmlFiles>
</configuration>
</plugin>
</plugins>
</build>
<reporting>
<plugins>
<plugin>
<groupId>org.codehaus.mojo</groupId>
<artifactId>findbugs-maven-plugin</artifactId>
<version>2.4.1-SNAPSHOT</version>
<configuration>
<xmlOutput>true</xmlOutput>
<xmlOutputDirectory>target/site</xmlOutputDirectory>
<!--
<effort>Default</effort>
<threshold>Normal</threshold>
-->
</configuration>
</plugin>
</plugins>
</reporting>
</project>