Re: handling gap symbols
Andreas Prlic <[email protected]>
| Newsgroups | gmane.comp.java.bio.general |
|---|---|
| Message-ID | <[email protected]> |
Hi Wim, I started to play around with snapshot builds for biojava. So far (some) of the modules from SVN are available from here: http://www.biojava.org/download/maven/ Andreas On Tue, May 25, 2010 at 12:22 AM, Wim De Smet <[email protected]> wrote: > 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/ > _______________________________________________ > Biojava-l mailing list - [email protected] > http://lists.open-bio.org/mailman/listinfo/biojava-l > -- ----------------------------------------------------------------------- Dr. Andreas Prlic Senior Scientist, RCSB PDB Protein Data Bank University of California, San Diego (+1) 858.246.0526 ----------------------------------------------------------------------- _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l