[Open-bio-l] Codefest 2010: Final details

[Heikki Lehvaslaiho]

Chris,

I'd love to hear an overview of Biome project (bioperl in perl6) and
design decisions you have taken there. That would help me understand
it better. Do you think you could do that?

     -Heikki

Heikki Lehvaslaiho - skype:heikki_lehvaslaiho
cell: +966 545 595 849  office: +966 2 808 2429

Computational Bioscience Research Centre (CBRC), Building #2, Office #4216
4700 King Abdullah University of Science and Technology (KAUST)
Thuwal 23955-6900, Kingdom of Saudi Arabia




On 4 July 2010 21:51, Brad Chapman <chapmanb at 50mail.com> wrote:
> Christopher, Chris, Heikki and Hilmar;
> Nice discussion. If you have an overview of what you are hoping
> to tackle on the BioPerl side, please add it on the wiki page. The
> getting started part of the coding sessions is always the hardest
> part, so it'll be a huge help if we can stand up at the beginning,
> describe the project ideas, and then let people break into groups:
>
> http://www.open-bio.org/wiki/Codefest_2010#ToDo_List
>
> Edit away and this'll point us all in the right direction.
> Looking forward to next week,
> Brad
>
>> I will be there on the afternoon of the 7th.  There are a couple of projects one can look into for Moose and Perl 6 (Biome and BioPerl6).  I think Hilmar was to do some DBIx::Class stuff for BioSQL at one point, not sure where that is (might be surplanted by SQLite work?).  Would be nice to talk with Mark re: the wrapper system for BioPerl as well.
>>
>> So lots of stuff to think over and plan for.  Maybe we should move this to open-bio-l, or bioperl-l?
>>
>> chris (fields)
>>
>> On Jul 3, 2010, at 12:44 AM, Heikki Lehvaslaiho wrote:
>>
>> > Chris,
>> >
>> > I do not have too much experience on cloud computing, either. There
>> > will be quite a few people from BioPerl . We'll meet and  come up with
>> > a plan first thing in the morning. Unless someone has a very good one
>> > ready for sharing...
>> >
>> >     -Heikki
>> >
>> > Heikki Lehvaslaiho - skype:heikki_lehvaslaiho
>> > cell: +966 545 595 849  office: +966 2 808 2429
>> >
>> > Computational Bioscience Research Centre (CBRC), Building #2, Office #4216
>> > 4700 King Abdullah University of Science and Technology (KAUST)
>> > Thuwal 23955-6900, Kingdom of Saudi Arabia
>> >
>> >
>> >
>> >
>> > On 3 July 2010 08:36, Christopher Bottoms <maizemu at gmail.com> wrote:
>> >> Hi all,
>> >>
>> >> I was originally planning on working on cloud computing at the Codefest.
>> >> However, the 2-day cloud computing tutorial that I was going to attend in
>> >> mid June was canceled. Does anyone have any programming that they would like
>> >> help with? I have experience with Perl 5, including Moose, and I am starting
>> >> to dabble in Perl 6. I have also programmed in Java in the past. I hear
>> >> Python is easy to learn, so I'd be open to working on a Python project as
>> >> well.
>> >>
>> >> Thanks,
>> >> Christopher Bottoms
>> >>
>> >> On Fri, Jul 2, 2010 at 8:38 AM, Brad Chapman <chapmanb at 50mail.com> wrote:
>> >>>
>> >>> Hi all;
>> >>> Codefest 2010 is finally here: next Wednesday and Thursday at
>> >>> Harvard Medical School and Massachusetts General Hospital in
>> >>> beautiful Boston. All of the logistics, directions and details
>> >>> are on the wiki page:
>> >>>
>> >>> http://www.open-bio.org/wiki/Codefest_2010
>> >>>
>> >>> If you want the short version: show up at Harvard Medical School on
>> >>> Wednesday at 10am and we'll take care of the rest. Thanks to the
>> >>> hard work of Oliver, Kimberly, Leah, Toshiaki, and Mitsuteru we'll
>> >>> have coffee, lunches and internet. Thanks to Steffen and Ntino,
>> >>> we'll have Amazon credits to utilize. And of course, there will be
>> >>> BBQ and drinking on Thursday night when we are finished.
>> >>>
>> >>> I'm looking forward to a fun and productive time. The general plan
>> >>> will be to spend a bit of time on Wednesday morning organizing
>> >>> ourselves into like minded groups of folks, and then commence with
>> >>> coding and collaborating.
>> >>>
>> >>> If you aren't able to make it and you're listed on the wiki page under
>> >>> participants, please do cross your name off so we have a good idea of
>> >>> final numbers. Likewise, if you are coming but haven't put your name up
>> >>> there please add it.
>> >>>
>> >>> If you are interested in helping with making software and data
>> >>> available on shared cloud resources, here are the latest Amazon
>> >>> AMIs, snapshots, and the code base:
>> >>>
>> >>> Cloud BioLinux images:
>> >>> 64bit: ami-d62cc4bf
>> >>> 32bit: ami-5423cb3d
>> >>>
>> >>> An EBS public snapshot with indexed genomes:
>> >>> snap-67446d0f
>> >>>
>> >>> Infrastructure:
>> >>> http://github.com/chapmanb/bcbb/tree/master/ec2/biolinux/
>> >>>
>> >>> Send an e-mail with any questions, thoughts or concerns. My phone
>> >>> number is 617-447-8586 in case you end up hopelessly lost somewhere
>> >>> in Boston and are desperate to begin programming.
>> >>>
>> >>> Looking forward to seeing everyone next Wednesday,
>> >>> Brad
>> >>
>> >>
>>
>