[Biojava-l] BioJava 3.0.1 released

Andreas Prlic andreas at sdsc.edu
Mon Feb 14 08:16:48 UTC 2011

BioJava 3.0.1 has been released and is available from
http://www.biojava.org/wiki/BioJava:Download .

The 3.0.1 release is mainly a bug fix release for the recent 3.0 code base,
which provides a major rewrite of the biojava.

A couple of noteworthy improvements:

- core: fixed an issue with sequence index positions, new utility methods
for memory efficient parsing of large fasta files

- structure: Fixed issues with PDB header parsing and more stability with
non-standard PDB files. Added new algorithm to automatically infer protein
domain boundaries.

- web services: Fixed wrong dependency on old codebase and overall
improvements in functionality of remote blast web service calls.

- protein modifications: Minor bugfixes

In parallel the biojava-legacy code base has been updated to version 1.8.1
and it contains a bug fix related to circular locations.

Thanks to all contributors for making this release possible.

About BioJava:

BioJava is a mature open-source project that provides a framework for
processing of biological data. BioJava contains powerful analysis and
statistical routines, tools for parsing common file formats, and
packages for manipulating sequences and 3D structures. It enables
rapid bioinformatics application development in the Java programming

Happy Biojava-ing


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