[Biococoa-dev] hello!

Alexander Griekspoor mek at mekentosj.com
Sat Feb 5 10:17:12 EST 2005

Hi Julian,

You're very welcome! Great to have you listen along, don't hesitate to 
ask for any introduction or clarification if you need it.

On 4-feb-05, at 15:02, Julian Blow wrote:

> Dear Biococoa-dev Subscribers,
> just a quick word to let you know I've added myself to the mailing 
> list as suggested by Koen. I'll keep an eye on what's going on, and 
> will contribute if and when I think I can add something.
> Regards,
> Julian
>> Dear Julian,
>> Thanks for your reply. Too bad you don't have enough time right now 
>> to join the development of BioCocoa - I completely understand it 
>> though, all current developers work on BioCocoa on the side. So 
>> either solution you suggested works fine for me. An alternative could 
>> be for you to for now only join the mailing list. This way you get an 
>> idea of the current developments in the project, and you can jump in 
>> in case there is a subject that is in your field. But it is 
>> completely up to you.
>> Regards,
>> - Koen.
>> On Jan 31, 2005, at 7:28 AM, Julian Blow wrote:
>>> Dear Koen
>>> I've had a look at what you're up to, and I think it sounds very 
>>> worthwhile. I'd be keen to support and help your project if I could. 
>>> However, I don't think I'd be much help in doing coding at present. 
>>> The main problem is that programming is only a sideline for me (it 
>>> has to be squeezed into my 'spare time' either late at night or 
>>> early in the morning) and most of my energy is directed to running 
>>> my lab. I already have two major software projects I'm committed to 
>>> at present; I guess these will take up most of my coding time for 
>>> the next 6 months at least.
>>> So what should I do? I'm happy to join if it would help you, but I 
>>> really would not be active, at least not until I've finished my 
>>> other projects. Alternatively, I could leave you my goodwill, and 
>>> you could contact me should you need anything you think I could 
>>> specifically help with, or I could contact you when my current 
>>> projects are done and I have coding time on my hands.
>>> Regards,
>>> Julian
>>>> Dear Julian,
>>>> I found your name on the CocoaDev mailing list. I am one of the 
>>>> core developers of the BioCocoa project, an open source Cocoa 
>>>> framework for reading, writing, and manipulating various biological 
>>>> sequences. Originally the framework only focused on reading and 
>>>> writing sequences, and was also aimed at GNUStep, which is still 
>>>> the official version that you can download from the website at 
>>>> http://bioinformatics.org/biococoa/. A few months ago a couple of 
>>>> mac loving bioscientists joined the project, and it was transformed 
>>>> in a Cocoa-only framework, and extended to be able to do other 
>>>> things with sequences than reading and writing. You could say that 
>>>> it is trying to be the Cocoa/ObjC sibling of BioJava, BioPerl, etc.
>>>> So far we have created a set of new classes, that we believe should 
>>>> be a solid base for extending the whole framework. However, we 
>>>> still have many discussions  what would be the best design. For 
>>>> instance, currently we have a core class BCSequence, with various 
>>>> subclasses for DNA, RNA, and proteins. We have had many discussions 
>>>> whether we actually should subclass BCSequence (compare eg BioJava 
>>>> which doesn't subclass it's main sequence class). As an 
>>>> alternative, recently we have been discussing if maybe we should 
>>>> use the class cluster design for the various sequence classes,
>>>> At the moment we are only a small group of developers, mainly with 
>>>> a scientific background. Based on the description on the CocoaDev 
>>>> webpage, it seems you could be a valuable addition to the BioCocoa 
>>>> project. So we were wondering if you would be interested in joining 
>>>> the development team, and the discussions on our mailing list (see 
>>>> http://bioinformatics.org/project/?group_id=318 for more info). To 
>>>> download the source code from CVS, please follow these 
>>>> instructions:
>>>> * First, log in by typing the following. When prompted for the 
>>>> password, just press Enter.
>>>> cvs -d:pserver:anonymous at bioinformatics.org:/cvsroot login
>>>> * Then, type the following to download the project:
>>>> cvs -d:pserver:anonymous at bioinformatics.org:/cvsroot checkout -P 
>>>> BioCocoa
>>>> Feel free to have a look at the code and the current discussions, 
>>>> and let me or one of the other developers know if you are 
>>>> interested. We look forward to your reply,
>>>> On behalf of the BioCocoa Team,
>>>> Best regards,
>>>> Koen van der Drift
> -- 
> Prof. J. Julian Blow, FRSE
> Cancer Research UK Chromosome Replication Research Group
> Wellcome Trust Biocentre, University of Dundee
> Dow Street, Dundee  DD1 5EH, Scotland, UK
> Tel: (+44) (0)1382-345797    Fax: (+44) (0)1382-348072
> E-mail: j.j.blow at dundee.ac.uk
> http://www.dundee.ac.uk/biocentre/
> _______________________________________________
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> Biococoa-dev at bioinformatics.org
> https://bioinformatics.org/mailman/listinfo/biococoa-dev
                     ** Alexander Griekspoor **
               The Netherlands Cancer Institute
               Department of Tumorbiology (H4)
          Plesmanlaan 121, 1066 CX, Amsterdam
                   Tel:  + 31 20 - 512 2023
                   Fax:  + 31 20 - 512 2029
                   AIM: mekentosj at mac.com
                   E-mail: a.griekspoor at nki.nl
               Web: http://www.mekentosj.com

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