[Biojava-l] handling gap symbols

[Wim De Smet]

Hi Andreas,

Thank you, I'll use that code then. I don't suppose there's a maven 
repository that tracks recent dev versions?

regards,
Wim

On 21-05-10 03:56, Andreas Dräger wrote:
> Hi Wim,
>
> Yes, you are absolutely right. The alignment used two different Gap
> Symbols. I do not remember the details on this exactly, because the
> implementation has been massively changed in the mean time. So, if you
> can check out the latest code from the repository, you will find a
> version of the alignment algorithms that does use only one kind of Gap
> Symbol. The old version cannot be changed or further developed anymore,
> sorry. Many changes were necessary to finally ensure that the Alignment
> will be gathered in a useful data structure. I strongly recomment not to
> use the Alignment from the currently available release of BioJava but to
> use the latest version from the SVN repository. You can do an anonymeous
> check out by following the instructions of this web site:
> http://biojava.org/wiki/CVS_to_SVN_Migration
>
> I hope this helps!
>
> Best wishes
> Andreas
>
>
> Dipl.-Bioinform. Andreas Dräger
> Eberhard Karls University Tübingen
> Center for Bioinformatics (ZBIT)
> Sand 1
> 72076 Tübingen
> Germany
>
> Phone: +49-7071-29-70436
> Fax: +49-7071-29-5091


-- 
Wim De Smet
http://www.straininfo.net/