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pom.xml
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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>uk.ac.ebi.pride.tools</groupId>
<artifactId>jmzreader</artifactId>
<version>2.0.7</version>
<packaging>jar</packaging>
<name>jmzReader</name>
<description>The jmzReader library is a collection of parsers to process the most commonly used Mass Spectrometry text and xml based file formats using a single interface.</description>
<url>https://github.com/PRIDE-Utilities/jmzReader</url>
<parent>
<groupId>uk.ac.ebi.pride.architectural</groupId>
<artifactId>pride-core</artifactId>
<version>1.0.1</version>
</parent>
<developers>
<developer>
<id>jgriss</id>
<name>Johannes Griss</name>
<email>jgriss@ebi.ac.uk</email>
<organization>Proteomics Services Team - EBI</organization>
<organizationUrl>https://www.ebi.ac.uk/proteomics</organizationUrl>
<timezone>0</timezone>
</developer>
<developer>
<id>yperez</id>
<name>Yasset Perez-Riverol</name>
<email>yperez@ebi.ac.uk</email>
<organization>Proteomics Services Team - EBI</organization>
<organizationUrl>https://www.ebi.ac.uk/proteomics</organizationUrl>
<timezone>0</timezone>
</developer>
<developer>
<id>mbernal</id>
<name>Manuel Bernal-Llinares</name>
<organization>Proteomics Team, EMBL-European Bioinformatics Institute</organization>
<organizationUrl>https://www.ebi.ac.uk/pride</organizationUrl>
<roles>
<role>developer</role>
</roles>
<timezone>Europe/London</timezone>
</developer>
</developers>
<properties>
<!-- Logging capabilities -->
<uk.ac.ebi.pride.architectural-pride-logging.version>1.0.0</uk.ac.ebi.pride.architectural-pride-logging.version>
<uk.ac.ebi.pride.architectural-pride-tdd.version>1.0.3</uk.ac.ebi.pride.architectural-pride-tdd.version>
<uk.ac.ebi.jmzml-jmzml.version>1.7.11</uk.ac.ebi.jmzml-jmzml.version>
<uk.ac.ebi.pride.jaxb-pride-jaxb.version>1.0.22</uk.ac.ebi.pride.jaxb-pride-jaxb.version>
<!-- Dependencies -->
<psidev.psi.tools-xxindex.version>0.23</psidev.psi.tools-xxindex.version>
<uk.ac.ebi.pride.architectural-pride-xml-handling.version>1.0.3</uk.ac.ebi.pride.architectural-pride-xml-handling.version>
<org.jvnet.jaxb2.maven2-maven-jaxb2-plugin.version>0.14.0</org.jvnet.jaxb2.maven2-maven-jaxb2-plugin.version>
</properties>
<dependencies>
<!-- <dependency>-->
<!-- <groupId>uk.ac.ebi.pride.architectural</groupId>-->
<!-- <artifactId>pride-logging</artifactId>-->
<!-- <type>pom</type>-->
<!-- <version>${uk.ac.ebi.pride.architectural-pride-logging.version}</version>-->
<!-- </dependency>-->
<!-- <dependency>-->
<!-- <groupId>uk.ac.ebi.pride.architectural</groupId>-->
<!-- <artifactId>pride-tdd</artifactId>-->
<!-- <type>pom</type>-->
<!-- <version>${uk.ac.ebi.pride.architectural-pride-tdd.version}</version>-->
<!-- <scope>test</scope>-->
<!-- </dependency>-->
<!-- <dependency>-->
<!-- <groupId>uk.ac.ebi.pride.architectural</groupId>-->
<!-- <artifactId>pride-xml-handling</artifactId>-->
<!-- <type>pom</type>-->
<!-- <version>${uk.ac.ebi.pride.architectural-pride-xml-handling.version}</version>-->
<!-- </dependency>-->
<dependency>
<groupId>junit</groupId>
<artifactId>junit</artifactId>
<version>4.13.2</version>
<scope>test</scope>
</dependency>
<dependency>
<groupId>uk.ac.ebi.jmzml</groupId>
<artifactId>jmzml</artifactId>
<version>${uk.ac.ebi.jmzml-jmzml.version}</version>
</dependency>
<dependency>
<groupId>uk.ac.ebi.pride.jaxb</groupId>
<artifactId>pride-jaxb</artifactId>
<version>${uk.ac.ebi.pride.jaxb-pride-jaxb.version}</version>
</dependency>
<dependency>
<groupId>psidev.psi.tools</groupId>
<artifactId>xxindex</artifactId>
<version>${psidev.psi.tools-xxindex.version}</version>
</dependency>
<!-- needed for EscapingXMLStreamWriter to cope with ASCII control characters that are not properly escaped in JAXB -->
<dependency>
<groupId>it.unimi.dsi</groupId>
<artifactId>fastutil</artifactId>
<version>8.5.8</version>
</dependency>
<!-- jaxb dependencies-->
<dependency>
<groupId>com.sun.xml.bind</groupId>
<artifactId>jaxb-impl</artifactId>
<version>4.0.0</version>
</dependency>
<dependency>
<groupId>jakarta.xml.bind</groupId>
<artifactId>jakarta.xml.bind-api</artifactId>
<version>3.0.0</version>
</dependency>
<dependency>
<groupId>com.sun.xml.bind</groupId>
<artifactId>jaxb-core</artifactId>
<version>4.0.0</version>
</dependency>
<dependency>
<groupId>javax.xml.bind</groupId>
<artifactId>jaxb-api</artifactId>
<version>2.4.0-b180830.0359</version>
</dependency>
<dependency>
<groupId>com.sun.xml.bind</groupId>
<artifactId>jaxb-xjc</artifactId>
<version>4.0.0</version>
</dependency>
<!-- logger -->
<dependency>
<groupId>ch.qos.logback</groupId>
<artifactId>logback-classic</artifactId>
<version>1.2.9</version>
</dependency>
<dependency>
<groupId>ch.qos.logback</groupId>
<artifactId>logback-core</artifactId>
<version>1.2.9</version>
</dependency>
<dependency>
<groupId>commons-codec</groupId>
<artifactId>commons-codec</artifactId>
<version>1.13</version>
</dependency>
</dependencies>
<build>
<plugins>
<plugin>
<!-- you can use this plugin to generate the unimod object model from
the schema and binding files specified below. Note: this will
need an explicit maven goal call, since it is not integrated
into the standard mvn life cycle. The goal to use is:
org.jvnet.jaxb2.maven2:maven-jaxb2-plugin:0.6.3:generate
NOTE: the code generation may overwrite existing classes, so care
should be taken with files that were manually modified.
-->
<groupId>org.jvnet.jaxb2.maven2</groupId>
<artifactId>maven-jaxb2-plugin</artifactId>
<version>0.14.0</version>
<configuration>
<extension>true</extension>
<schemaDirectory>src/main/resources</schemaDirectory>
<schemaIncludes>
<include>mzdata.xsd</include>
<include>mzXML_3.2.xsd</include>
</schemaIncludes>
<bindingDirectory>src/main/resources</bindingDirectory>
<bindingIncludes>
<include>mzdata-bindings.xjb</include>
<include>mzxml-bindings.xjb</include>
</bindingIncludes>
<generateDirectory>src/main/java2</generateDirectory>
<removeOldOutput>false</removeOldOutput>
<forceRegenerate>true</forceRegenerate>
<verbose>true</verbose>
<args>
<arg>-no-header</arg>
</args>
</configuration>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-compiler-plugin</artifactId>
<version>3.5.1</version>
<configuration>
<source>${java.version}</source>
<target>${java.version}</target>
</configuration>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-source-plugin</artifactId>
<version>3.0.0</version>
<executions>
<execution>
<id>attach-source</id>
<goals>
<goal>jar</goal>
</goals>
</execution>
</executions>
</plugin>
</plugins>
</build>
<!-- Repos and distribution -->
<repositories>
<!-- EBI repo -->
<repository>
<id>pst-release</id>
<name>EBI Nexus Repository</name>
<url>https://www.ebi.ac.uk/Tools/maven/repos/content/repositories/pst-release</url>
</repository>
<!-- EBI SNAPSHOT repo -->
<repository>
<id>pst-snapshots</id>
<name>EBI Nexus Snapshots Repository</name>
<url>https://www.ebi.ac.uk/Tools/maven/repos/content/repositories/pst-snapshots</url>
</repository>
<repository>
<id>sonatype-release</id>
<name>Central Repository OSSRH</name>
<url>https://oss.sonatype.org/service/local/staging/deploy/maven2</url>
</repository>
<repository>
<id>sonatype-snapshopt</id>
<name>Central Repository OSSRH</name>
<url>https://oss.sonatype.org/content/repositories/snapshots</url>
</repository>
</repositories>
<distributionManagement>
<repository>
<id>pst-release</id>
<name>EBI Nexus Repository</name>
<url>https://www.ebi.ac.uk/Tools/maven/repos/content/repositories/pst-release</url>
</repository>
<snapshotRepository>
<id>pst-snapshots</id>
<name>EBI Nexus Snapshots Repository</name>
<url>https://www.ebi.ac.uk/Tools/maven/repos/content/repositories/pst-snapshots</url>
</snapshotRepository>
</distributionManagement>
<scm>
<connection>scm:git:https://github.com/PRIDE-Utilities/jmzReader.git</connection>
<developerConnection>scm:git:https://github.com/PRIDE-Utilities/jmzReader.git</developerConnection>
<url>https://github.com/PRIDE-Utilities/jmzReader.git</url>
<tag>HEAD</tag>
</scm>
</project>