[Bioperl-l] RE: Bioperl-l digest, Vol 1 #854 - 10 msgs

[Eley Greg]

Martin,

I have been working with Jason Stajich on this because I think it would
help many Windoze users tremendously.  I am not familiar with the
Windows Installer per se, but am working with the ActiveState ppm
installs. I think a gui windows installer would be great. Let me know
what your thoughts are.

Greg Eley
Booz Allen Hamilton
eley_greg@bah.com

Martin Lague wrote:
> 
> I would like to know if there's still some interest for a 'one click' GUI
> Bioperl install for 'command-line-phobic' windows users ?  I remember some
> talk about it at the Bioperl BoF.  I can work on such install if there is
> some interest.  I'm also volonteer to maintain/test ppd install if help is
> needed.
> 
> Martin Lague
> Solanum Genomics International Inc.
> email: mlague@fundy.net
> 
> -----Original Message-----
> Date: Sat, 10 Aug 2002 12:24:28 -0400 (EDT)
> From: Jason Stajich <jason@cgt.mc.duke.edu>
> To: Bioperl <bioperl-l@bioperl.org>
> Subject: [Bioperl-l] BOSC take home msgs
> 
> Just to give a heads up for those not at BOSC and the Bioperl BoF
> 
> Here are the take home messages:
> 
> - There is an interest from several companies using Bioperl in-house, for
>   a pay-for-service consultants to help them get up to speed and fully
>   realize bioperl's capabilities.  This is likely everything from
>   education to troubleshooting to systems design to technical support.
> 
>   To solve this I think the OBF would be willing to be a referral service
>   for consultants supporting open source bioinformatics software.  We have
>   to set up the logistics on our side which would include a few email
>   aliases, will send a note when this gets done.  If you have feedback on
>   this idea let us know.
> 
> - Martin has proposed Bio::AnalysisFactory - perhaps to be named
>   Bio::Tools::Run::AnalysisFactory - which will be where we will try and
>   aggregate a general factory for running analyses either at local or
>   remote hosts.  This will provide a transparent connection for the Pise,
>   Novella, local apps, and other analsysis queues.
> 
>   This will be part of his Novella bridge and likely a refactoring of the
>   way that Bio::Factory::EMBOSS is written - moving that to bioperl-run
>   cvs module.
> 
> - The mailing archives list should be searchable with a real local search
>   engine.  I've proposed ht://dig which should be reasonably easy to
>   setup.  I'll feel better about this in terms of disk space once we move
>   the CVS repository and all the user accounts to the new dev box which
>   has lots of disk space.
> 
> - A set of HOWTOs will be written, don't have the list of who
>   volunteered with me right now but these are to go into doc/howto.  For
>   those who want to write in SGML/Docbook you can put yours in
>   doc/howto/sgml and render the txt version in the dir above.
>   Sue will oversee testing these that they work and are correct as far as
>   she can.  Readability is a plus too!
> 
>   These are documents that should be designate either as for a user
>   or for a developer.  Do not try and do both.    If you have ideas
>   about interesting stories where you have used Bioperl to solve a
>   problem, or want to write a narrative of your interpretation of how to
>   use the objects in various situations this is the place.
> 
> - Objects to handle expression objects have been suggested by a couple of
>   different groups.  Typically expression handling is quite specific to
>   what a particular lab is doing so we may do a few iterations of
>   development on these modules to make them general enough for public
>   consuption.  We hope that people who have promised to submit their
>   modules will follow through as it will be very useful to have an
>   initial set of objects.
> 
> - Supporting Windows users.  None of the Bioperl core use windows for
>   their informatics work so are really not the best people to insure that
>   things work and/or are easy on Windows.  Todd Richmond has agreed to
>   write an install document.  I would like to suggest we create an
>   INSTALL.windows in the bioperl root directory to help point people in
>   the right diretion.  Greg Elay and others have also volunteered to help
>   maintain/test the ActiveState PPD system so that we can be sure it
>   works.
> 
> - The scripts/examples directory need to get a good overhaul, cataloged,
>   and those that use old APIs need to get chunked or put in a broken
>   directory.
> 
> --
> Jason Stajich
> Duke University
> jason at cgt.mc.duke.edu
> 
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