Packaging of BioJava
BioJava is a long lasting initiative to get new algorithms for Bioinformatics developed with the Java language. It is less a workhorse for the typical Bioinformatician than ?BioPerl is but really a tool for development ... admittedly, you can indeed solve many problems with it.
BioJava comes with many subpackages
- biojava-live : core of everything
- ?
- ?
The current effort to bring BioJava to Debian is focused on BioJava-Live and the libraries it needs.
Issues
A first submission was rejected in 2007. Upstream has since added a reference to the LGPL license to a file that had previously "all rights reserved", and now everything should be in order - license-wise.
Libraries already in Debian
- bytecode
- common-*
- junit4
Libraries currently being packaged
- libjgrapht-0.7.3: Current issues are with the jgrapht library whose version is unclear. Debian's current installation is of version 0.6.0, which is outdated but currently remains in order to remain compatible with another program. The pkg-java svn has working packages of version 0.7.3, tests with which are pending.