From jw12 at sanger.ac.uk Tue Apr 5 09:11:54 2011 From: jw12 at sanger.ac.uk (Jonathan Warren) Date: Tue, 5 Apr 2011 14:11:54 +0100 Subject: [DAS] Workshop Video links now available Message-ID: <498698A6-B765-466B-92F3-6C46CEFBD850@sanger.ac.uk> Links to videos of the presentations are now next to them in the schedule here: http://www.biodas.org/wiki/DASWorkshop2011#Day_2 Currently Jim Procter is winning the most viewed video competition with currently 143 views! ;) Jonathan Warren Senior Developer and DAS coordinator blog: http://biodasman.wordpress.com/ jw12 at sanger.ac.uk Ext: 2314 Telephone: 01223 492314 -- The Wellcome Trust Sanger Institute is operated by Genome Research Limited, a charity registered in England with number 1021457 and a company registered in England with number 2742969, whose registered office is 215 Euston Road, London, NW1 2BE. From rmb32 at cornell.edu Wed Apr 13 11:30:59 2011 From: rmb32 at cornell.edu (Robert Buels) Date: Wed, 13 Apr 2011 08:30:59 -0700 Subject: [DAS] last call for Google Summer of Code mentors Message-ID: <4DA5C1B3.4010504@cornell.edu> Hi all, This is the last call for mentors for Google Summer of Code. We have a good crop of student proposals this year for doing work on OBF projects, and money from Google to fund them, but we need experienced Bio* developers to mentor them. If you'd like to see the student proposals, participate in their scoring, and possibly volunteer to mentor them (remotely of course) over the summer, do two things: 1.) Create an account on http://google-melange.com and send a request to be an admin from the OBF page on there, http://www.google-melange.com/gsoc/org/google/gsoc2011/obf 2.) Join the OBF GSoC mentors mailing list at http://lists.open-bio.org/mailman/listinfo/gsoc-mentors Even if you just want to see the student applications and help with scoring, but don't necessarily have time to mentor a student, your input in the scoring process is appreciated. :-) Rob ---- Robert Buels OBF GSoC 2011 Administrator From dan.bolser at gmail.com Wed Apr 20 20:46:45 2011 From: dan.bolser at gmail.com (Dan Bolser) Date: Thu, 21 Apr 2011 01:46:45 +0100 Subject: [DAS] GBrowse within MediaWiki? Message-ID: Sorry for cross posting, hopefully these lists are largely orthogonal, At some point I remember seeing a demonstration of a GBrowse embedded within a MediaWiki page. Can anyone point me at that work? Unfortunately, this search http://goo.gl/kZXoU doesn't turn up anything :-/ Cheers, Dan. From rmb32 at cornell.edu Mon Apr 25 17:42:48 2011 From: rmb32 at cornell.edu (Robert Buels) Date: Mon, 25 Apr 2011 14:42:48 -0700 Subject: [DAS] Announcing OBF Google Summer of Code Accepted Students Message-ID: <4DB5EAD8.1020905@cornell.edu> Hello all, I'm very pleased and excited to announce that the Open Bioinformatics Foundation has selected 6 very capable students to work on OBF projects this summer as part of the Google Summer of Code program. The accepted students, their projects, and their mentors (in alphabetical order): Justinas Vygintas Daugmaudis Michele dos Santos da Silva (2 students!) Mocapy++Biopython: from data to probabilistic models of biomolecules mentored by Thomas Hamelryck and Eric Talevich Chuan Hock Koh BioJava - Amino acids physico-chemical properties calculation mentored by Peter Troshin, Andreas Prlic, and Jay Vyas Micha? Koziarski Representing bio-objects and related information with images (BioRuby) mentored by Raoul J.P. Bonnal and Francesco Strozzi Sheena Scroggins Major BioPerl Reorganization mentored by Robert Buels and Chris Fields Mikael Eric Trellet Interface analysis module for BioPython mentored by Jo?o Rodrigues and Eric Talevich Once again this year, we received many great applications and ideas. However, funding and mentor resources are limited, and we were not able to accept as many as we would have liked. Our deepest thanks to all the students who applied: we sincerely appreciate the time and effort you put into your applications, and hope you will still consider being a part of the OBF's open source projects, even without Google funding. I speak for myself and all of the mentors who read and scored applications when I say that we were truly honored by the number and quality of the applications we received. For the accepted students: congratulations! You have risen to the top of a very competitive application process. Now it's time to "put your money where your mouth is", as the saying goes. Let's get out there and write some great code this summer! Best regards, Rob ---- Robert Buels OBF GSoC 2011 Administrator From jw12 at sanger.ac.uk Tue Apr 5 13:11:54 2011 From: jw12 at sanger.ac.uk (Jonathan Warren) Date: Tue, 5 Apr 2011 14:11:54 +0100 Subject: [DAS] Workshop Video links now available Message-ID: <498698A6-B765-466B-92F3-6C46CEFBD850@sanger.ac.uk> Links to videos of the presentations are now next to them in the schedule here: http://www.biodas.org/wiki/DASWorkshop2011#Day_2 Currently Jim Procter is winning the most viewed video competition with currently 143 views! ;) Jonathan Warren Senior Developer and DAS coordinator blog: http://biodasman.wordpress.com/ jw12 at sanger.ac.uk Ext: 2314 Telephone: 01223 492314 -- The Wellcome Trust Sanger Institute is operated by Genome Research Limited, a charity registered in England with number 1021457 and a company registered in England with number 2742969, whose registered office is 215 Euston Road, London, NW1 2BE. From rmb32 at cornell.edu Wed Apr 13 15:30:59 2011 From: rmb32 at cornell.edu (Robert Buels) Date: Wed, 13 Apr 2011 08:30:59 -0700 Subject: [DAS] last call for Google Summer of Code mentors Message-ID: <4DA5C1B3.4010504@cornell.edu> Hi all, This is the last call for mentors for Google Summer of Code. We have a good crop of student proposals this year for doing work on OBF projects, and money from Google to fund them, but we need experienced Bio* developers to mentor them. If you'd like to see the student proposals, participate in their scoring, and possibly volunteer to mentor them (remotely of course) over the summer, do two things: 1.) Create an account on http://google-melange.com and send a request to be an admin from the OBF page on there, http://www.google-melange.com/gsoc/org/google/gsoc2011/obf 2.) Join the OBF GSoC mentors mailing list at http://lists.open-bio.org/mailman/listinfo/gsoc-mentors Even if you just want to see the student applications and help with scoring, but don't necessarily have time to mentor a student, your input in the scoring process is appreciated. :-) Rob ---- Robert Buels OBF GSoC 2011 Administrator From dan.bolser at gmail.com Thu Apr 21 00:46:45 2011 From: dan.bolser at gmail.com (Dan Bolser) Date: Thu, 21 Apr 2011 01:46:45 +0100 Subject: [DAS] GBrowse within MediaWiki? Message-ID: Sorry for cross posting, hopefully these lists are largely orthogonal, At some point I remember seeing a demonstration of a GBrowse embedded within a MediaWiki page. Can anyone point me at that work? Unfortunately, this search http://goo.gl/kZXoU doesn't turn up anything :-/ Cheers, Dan. From rmb32 at cornell.edu Mon Apr 25 21:42:48 2011 From: rmb32 at cornell.edu (Robert Buels) Date: Mon, 25 Apr 2011 14:42:48 -0700 Subject: [DAS] Announcing OBF Google Summer of Code Accepted Students Message-ID: <4DB5EAD8.1020905@cornell.edu> Hello all, I'm very pleased and excited to announce that the Open Bioinformatics Foundation has selected 6 very capable students to work on OBF projects this summer as part of the Google Summer of Code program. The accepted students, their projects, and their mentors (in alphabetical order): Justinas Vygintas Daugmaudis Michele dos Santos da Silva (2 students!) Mocapy++Biopython: from data to probabilistic models of biomolecules mentored by Thomas Hamelryck and Eric Talevich Chuan Hock Koh BioJava - Amino acids physico-chemical properties calculation mentored by Peter Troshin, Andreas Prlic, and Jay Vyas Micha? Koziarski Representing bio-objects and related information with images (BioRuby) mentored by Raoul J.P. Bonnal and Francesco Strozzi Sheena Scroggins Major BioPerl Reorganization mentored by Robert Buels and Chris Fields Mikael Eric Trellet Interface analysis module for BioPython mentored by Jo?o Rodrigues and Eric Talevich Once again this year, we received many great applications and ideas. However, funding and mentor resources are limited, and we were not able to accept as many as we would have liked. Our deepest thanks to all the students who applied: we sincerely appreciate the time and effort you put into your applications, and hope you will still consider being a part of the OBF's open source projects, even without Google funding. I speak for myself and all of the mentors who read and scored applications when I say that we were truly honored by the number and quality of the applications we received. For the accepted students: congratulations! You have risen to the top of a very competitive application process. Now it's time to "put your money where your mouth is", as the saying goes. Let's get out there and write some great code this summer! Best regards, Rob ---- Robert Buels OBF GSoC 2011 Administrator