[Biojava-dev] BioJava3 release - code organization for "old" code - Blast info

[Keith Perry]

Hi all,
A couple of notes on the BioJava3 release.  I am not sure I would assume that everyone is using Maven (we are using Gradle at our company).  Could someone please package up the "manual download" files into a single zip/jar/tar.gz or some type of archive format (I would greatly appreciate it)?  Downloading 18 files individually is a pain.

I was pretty excited to see BioJava3 to get released, but then I realized that no support at all for blast (as far as I can tell).  It looks like you need to use the old biojava-legacy stuff in biojava 1.7.  Is there something that I could do to get this example:  http://www.biojava.org/wiki/BioJava:CookBook:Blast:Parser up to the new BioJava3 level?  If I need to take a couple modules and refactor, I would be willing to do it (or at least give it a try).

On another note, is there some type of chart that shows feature/version for all the features in both 1.7 and biojava3.  It would be nice for those new to the project, and it might let other developers know what holes biojava3 still has (as compared to the legacy).

Thanks,

Keith B. Perry | 319.626.9677 | kperry at idtdna.com | Integrated DNA Technologies > Bioinformatics Team > Software Systems Engineer