BioJava:Download 3.1.0

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This page offers downloads for the BioJava 3.1.0 release.

BioJava 3.1.0 requires Java 6 or 7. Users of Java 8 should download the latest BioJava 4.0.0-SNAPSHOT.

Contents

About

BioJava 3.1.0 has been released and is available using Maven from http://biojava.org/download/maven/

New Features

This release includes several new features and bug fixes back-ported from ongoing development on version 4.0.0, which will mark the first major release to use semantic versioning.

New Features:

  • CE-CP version 1.4, with additional parameters
  • Update to SCOPe 2.04
  • Improvements in FASTQ parsing
  • Fix bugs in PDB parsing
  • Minor fixes in structure alignments

View the BioJava:Modules page for a list of current modules.

Maven Download

BioJava 3.1.0 requires Maven for the build process. We are providing a BioJava specific Maven repository at http://biojava.org/download/maven/ .

You can add the BioJava repository by adding the following XML to your project pom.xml file:

        <dependencies>
                ...
                <dependency>
                        <groupId>org.biojava</groupId>
                        <artifactId>biojava3-core</artifactId>
                        <version>3.1.0</version>
                </dependency>
                <!-- other biojava jars as needed -->
        </dependencies>
	<repositories>
		...
		<repository>
			<id>biojava-maven-repo</id>
			<name>BioJava repository</name>
			<url>http://www.biojava.org/download/maven/</url>			
		</repository>
	</repositories>

Manual Download

.tar.gz containing all jars, source and javadocs: biojava-3.1.0-all

Module Binary Jar Source Jar Javadoc Jar
biojava3-core biojava3-core-3.1.0.jar biojava3-core-3.1.0-sources.jar biojava3-core-3.1.0-javadoc.jar
biojava3-alignment biojava3-alignment-3.1.0.jar biojava3-alignment-3.1.0-sources.jar biojava3-alignment-3.1.0-javadoc.jar
biojava3-genome biojava3-genome-3.1.0.jar biojava3-genome-3.1.0-sources.jar biojava3-genome-3.1.0-javadoc.jar
biojava3-structure biojava3-structure-3.1.0.jar biojava3-structure-3.1.0-sources.jar biojava3-structure-3.1.0-javadoc.jar
biojava3-structure-gui biojava3-structure-gui-3.1.0.jar biojava3-structure-gui-3.1.0-sources.jar biojava3-structure-gui-3.1.0-javadoc.jar
biojava3-phylo biojava3-phylo-3.1.0.jar biojava3-phylo-3.1.0-sources.jar biojava3-phylo-3.1.0-javadoc.jar
biojava3-modfinder biojava3-modfinder-3.1.0.jar biojava3-modfinder-3.1.0-sources.jar biojava3-modfinder-3.1.0-javadoc.jar
biojava3-ws biojava3-ws-3.1.0.jar biojava3-ws-3.1.0-sources.jar biojava3-ws-3.1.0-javadoc.jar
biojava3-aa-prop biojava3-aa-prop-3.1.0.jar biojava3-aa-prop-3.1.0-sources.jar biojava3-aa-prop-3.1.0-javadoc.jar
biojava3-protein-disorder biojava3-protein-disorder-3.1.0.jar biojava3-protein-disorder-3.1.0-sources.jar biojava3-protein-disorder-3.1.0-javadoc.jar

Browse API docs

You can also browse the documentation at BioJava 3.1.0 api

Release Date

BioJava 3.1.0 has been released on August 25th 2014

Getting older versions

  • The release of 3.0.8 can be found here (requires Java 1.6+)
  • The release of 3.0.7 can be found here (requires Java 1.6+)
  • The release of 3.0.6 can be found here (requires Java 1.6+)
  • The release of 3.0.5 can be found here (requires Java 1.6+)
  • The release of 3.0.4 can be found here (requires Java 1.6+)
  • The release of 3.0.3 can be found here (requires Java 1.6+)
  • The release of 3.0.2 can be found here (requires Java 1.6+)
  • The release of 3.0.1 can be found here (requires Java 1.6+)
  • The release of 3.0 can be found here (requires Java 1.5+)
  • The legacy release of 1.9.1 can be found here (requires Java 1.5+)
  • The legacy release of 1.9.0 can be found here (requires Java 1.5+)
  • The legacy release of 1.8.5 can be found here (requires Java 1.5+)
  • The legacy release of 1.8.4 can be found here (requires Java 1.5+)
  • The legacy release of 1.8.2 can be found here (requires Java 1.5+)
  • The legacy release of 1.8.1 can be found here (requires Java 1.5+)
  • The legacy release of 1.7.1 can be found here (requires Java 1.5+)
  • The legacy release of 1.7 can be found here (requires Java 1.5+)
  • The legacy release of 1.6 can be found here (requires Java 1.5+)
  • The legacy release of 1.5 can be found here (requires Java 1.4.2+)
  • The legacy release of 1.4 can be found here
  • The legacy release 1.3 can be found here.
  • Older releases of BioJava can be found in the download area.
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