Thanks, I'll try to add what I find out. It's a wiki after all. I'll just ask the mailing list if things are unclear before I add stuff to the wiki.
One thing that bugged me just now, and since I can't find documentation on it: Why is a sequence indexed by 1-(n+1) instead of 0-n? That's rather un-java-like, especially since you just get an OutOfBoundsException, and the range is not specified in the javadoc, or I could not find it easily in the complex class hierarchy. Hannes 2011/10/6 Scooter Willis <[email protected]>: > Hannes > > As you can tell we need to improve the cookbook examples. Since you are > going through that process would welcome any contributions you can make. > > Thanks > > Scooter > > On 10/6/11 4:07 AM, "Hannes Brandstätter-Müller" <[email protected]> > wrote: > >>On Thu, Oct 6, 2011 at 09:32, Hannes Brandstätter-Müller >><[email protected]> wrote: >>> Hi again! >>> What I ran into now is that most of the meta-information of a Sequence >>> seems to get lost during the MSA step. >> >>Okay, that was something caused by following another cookbook script >>(that, unfortunately, has absolutely no docs or comments) - I found >>the getOriginalSequence() method, can work with that. Thanks! >> >>Hannes >> >>_______________________________________________ >>Biojava-l mailing list - [email protected] >>http://lists.open-bio.org/mailman/listinfo/biojava-l > > _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l
