[Biococoa-dev] biococoa svn and everything
sweetcocoa at mac.com
Fri Sep 21 03:57:36 EDT 2007
Great to see the BioCocoa project being alive again!
I would be happy to share admin access or give it to someone else
While I'm quite busy with Undercover these days (and with a new
microscopy app we are developing), I'm still very interested in
BioCocoa and my (probably naive) dream is that I will become an
active member again in the future. So while I don't have time to
contribute code to the project at this time, I'd be very interested
in helping out with smaller things and with spreading the word. I
think the NAR article is a great idea, btw.
On 19 Sep 2007, at 21:32, Scott Christley wrote:
> Hello Charles!
> I'm not sure if I'm nominating myself to be project leader, seems a
> bit ambitious for somebody new to the community, but I certainly
> have the time and (most importantly) the desire to move BioCocoa
> forward. What I worry about mostly is not losing the ability to
> add new developers if and when they come along, I remember that I
> tried to send an email to Peter Schols from bioinformatics.org and
> it went into a black hole, I had to find another email to reach
> him. He was responsive though (thanks Peter if you are out there)
> once I got the email right, but if he has moved on maybe it would
> be good to give some others admin access to the project?
> You are exactly right that there are a lot of avenues that can be
> taken. I keep thinking to myself that BioCocoa can differentiate
> itself by providing functionality not provided by the other
> packages like BioPerl and BioJava. Not sure what a "killer" app
> would be, one thing that I think would be very cool though is a
> desktop genome browser (versus the web-based ones) which integrates
> all the genome information with analysis tools.
> Has anybody thought about putting an article together and submit to
> Nucleic Acids Research journal? Might be a good way to get a
> little awareness as well as have a solid reference that research
> articles can point to.
> On Sep 13, 2007, at 12:48 PM, Charles Parnot wrote:
>> Hi there!
>> I was one of the people that did the "moving on" thing
>> I think there is a pretty strong basis in the framework, at least
>> for the export/import tools, and then for the basics BCSequence
>> stuff. I did set up the initial test suite, which I think would
>> need to be updated and extended.
>> When the project went into hibernation mode, the status was (at
>> least from my point of view):
>> * in search of a project leader, that would have some basic amount
>> of time to make decision as to where to go, and do some coding too
>> * needing a "killer" app to wrap the framework and put it to use.
>> This is the only way things would be tested in the real world by
>> real users. The killer app can be a simple sequence editor that
>> expose as much as possible of the underlying framework
>> * a design decision has to be made to allow 2 aspects of the
>> framework to coexist: a core framework that provides the basic
>> functionality; an extension mechanisms that allows people to
>> easily contribute additional more specialized functionality (we
>> had some talks for instance with Phil Seibel about how the NSImage
>> and NSImageRepresentation design could inspire something. But
>> really more thoughts need to be put into that, and nothing has
>> been decided). The idea is that not everybody will be interested
>> in the specialized stuff, so having optional modules would be a
>> good thing.
>> * one of the feature that was in the works was to add annotation/
>> feature to the basic BCSequence class
>> so, a big roadmap, with lots of avenues ;-)
>> And yes, if things start moving again, or a project leader self
>> nominates, that would certainly warrant a post on macresearch.
>> Hosting the project is also still a possibility, but that would
>> mean some additional work for the project leader too in setting
>> things up and maintaining it, as well as some kind of commitment
>> for a reasonable amount of time.
>> On Sep 12, 2007, at 5:47 AM, Koen van der Drift wrote:
>>>> Is the BioCocoa project still "alive"? Don't get me wrong, I've
>>>> received the last mail from the mailing list in... may 2007! How
>>>> people are involved?
>>> I don't think the project was ever officially shut down, however,
>>> the people working on it about two years ago have moved on in
>>> their lives, and have no more time to actively work on the
>>> project. There were about 5 or 6 people actively involved. The
>>> current released version 2.0 is more or less a good starting
>>> point to use in apps, but there are also still many things
>>> unfinished or missing. So any input is more than welcome!
>>> There was also some talk that macresearch.org would host the
>>> project (giving us a lot of visibility), but I have not heard
>>> about that in a long time.
>>> - Koen.
>>> Biococoa-dev mailing list
>>> Biococoa-dev at bioinformatics.org
>> Help science move fast forward:
>> Charles Parnot
>> charles.parnot at gmail.com
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