[Biococoa-dev] updated project in cvs
Koen van der Drift
kvddrift at earthlink.net
Sun Aug 14 21:25:27 EDT 2005
I am a little bit surprised that there has been hardly any response
to the new framework setup. The WWDC meeting brought some great
ideas, which we extensively discussed on the list. It was good to see
some life back on the forum, and to see that people are still
interested in further developing BioCocoa. I then started
implementing some of the new ideas, more or less to compensate for my
absence at WWDC, but also because I think they are good improvements.
But after that it has been awfully quiet. Maybe people are on
vacation, or just plain busy, that is very well possible.
That being said, has anyone had a chance to look at the updated
project? Any comments, suggestions, ideas?
As I posted a few days ago, I think that adding the code for mutable
sequences could be next. Also important is the transformation of
existing code to use the NSData sequence object, instead of the
On Jul 19, 2005, at 11:19 PM, Koen van der Drift wrote:
> I took the plunge and have committed a lot of changes to the
> project. These changes now incorporate:
> 1. The addition of NSData to hold the sequenceData
> 2. Merging of BCSequence and BCAbstractSequence and removal of
> sequence subclasses
> The new way to create a sequence is:
> BCSequence *mySequence = [[BCSequence alloc] initWithString:
> @"ELVISLIVES" symbolSet: [BCSymbolSet proteinSymbolSet]];
> The project compiles, with a few warnings, and the examples seem to
> work. There are of course still some parts that need attention. The
> most important are:
> 1. Start using the NSData in more places to replace the
> symbolArray. A good example is the translation code, but also in
> other sections. BCSequenceCodon is still in the project.
> 2. Implement the "type-guessing" code in BCSequence. See my notes
> in initWithString in BCSymbol. For now the examples use fasta
> files, and the code cannot yet see if it is a protein or dna. Make
> sure to un-comment the correct symbolSet in readFastaFile.
> 3. Implementation of a mutable sequence class
> 4. Update the documentation
> 5. Update the Test code
> - Koen.
> Biococoa-dev mailing list
> Biococoa-dev at bioinformatics.org
More information about the Biococoa-dev