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BioJava 4.2.1
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@josemduarte josemduarte released this 03 May 23:13
· 2411 commits to master since this release
biojava-4.2.1
8504664

BioJava 4.2.1 is compatible with Java 7 and 8.

About

BioJava 4.2.1 has been released and is available using Maven from Maven Central as well as manual download (see below). This is purely a bug fix release correcting issues found since the 4.2.0 release.

This release contains over 31 commits from 7 contributors.

Bug fixes

Biojava-structure

  • Nucleotide bonds are now generated
  • BIO: identifiers are now correctly handled
  • Several fixes for CE-Symm
  • Substructures now contain seqres groups (isse #449)
  • Structures containing insertion codes are now written correctly to mmCIF
  • AtomCache now uses the correct default parsing parameters (issue #455)
  • Fixed problem with some atom charges that weren't being added
  • CATH updated to 4.0.0
  • Better ECOD javadocs (issue #452)

Biojava-structure-gui

  • Removed javaws dependency (issue #459)

Maven Download

BioJava 4.2.1 requires Maven for the build process. All BioJava jar files are available via Maven Central as of this release.

You can create a BioJava dependency by adding the following XML to your project pom.xml file:

            <dependencies>
                    <dependency>
                            <groupId>org.biojava</groupId>
                            <artifactId>biojava-core</artifactId>
                            <version>4.2.1</version>
                    </dependency>
                    <!-- other biojava jars as needed -->
            </dependencies>

Manual Download

Module Binary Jar Source Jar Javadoc Jar
biojava-core biojava-core-4.2.1.jar biojava-core-4.2.1-sources.jar biojava-core-4.2.1-javadoc.jar
biojava-alignment biojava-alignment-4.2.1.jar biojava-alignment-4.2.1-sources.jar biojava-alignment-4.2.1-javadoc.jar
biojava-genome biojava-genome-4.2.1.jar biojava-genome-4.2.1-sources.jar biojava-genome-4.2.1-javadoc.jar
biojava-structure biojava-structure-4.2.1.jar biojava-structure-4.2.1-sources.jar biojava-structure-4.2.1-javadoc.jar
biojava-structure-gui biojava-structure-gui-4.2.1.jar biojava-structure-gui-4.2.1-sources.jar biojava-structure-gui-4.2.1-javadoc.jar
biojava-phylo biojava-phylo-4.2.1.jar biojava-phylo-4.2.1-sources.jar biojava-phylo-4.2.1-javadoc.jar
biojava-modfinder biojava-modfinder-4.2.1.jar biojava-modfinder-4.2.1-sources.jar biojava-modfinder-4.2.1-javadoc.jar
biojava-ws biojava-ws-4.2.1.jar biojava-ws-4.2.1-sources.jar biojava-ws-4.2.1-javadoc.jar
biojava-aa-prop biojava-aa-prop-4.2.1.jar biojava-aa-prop-4.2.1-sources.jar biojava-aa-prop-4.2.1-javadoc.jar
biojava-ontology biojava-ontology-4.2.1.jar biojava-ontology-4.2.1-sources.jar biojava-ontology-4.2.1-javadoc.jar
biojava-survival biojava-survival-4.2.1.jar biojava-survival-4.2.1-sources.jar biojava-survival-4.2.1-javadoc.jar
biojava-protein-disorder biojava-protein-disorder-4.2.1.jar biojava-protein-disorder-4.2.1-sources.jar biojava-protein-disorder-4.2.1-javadoc.jar
biojava-sequencing biojava-sequencing-4.2.1.jar biojava-sequencing-4.2.1-sources.jar biojava-sequencing-4.2.1-javadoc.jar

Browse API docs

You can also browse the documentation at BioJava 4.2.1 api

Release Date

BioJava 4.2.1 has been released on May 3rd, 2016

Assets 2