[BioPython] BioSQL fixed plus other work towards a release

[Andrew Nunberg]

Brad,
When you make releases, are you tagging it in CVS?
It would be nice to be able to track/look at previous releases etc...
Andy
PS thanks for all you work, I am using more and more biopython everday. I
hope to one day actually contribute some code..

-- 
Andrew Nunberg
Bioinformagician
Orion Genomics
(314)-615-6989
www.oriongenomics.com


> From: Brad Chapman <chapmanb at uga.edu>
> Date: Thu, 12 Feb 2004 19:50:17 -0500
> To: biopython at biopython.org
> Subject: [BioPython] BioSQL fixed plus other work towards a release
> 
> Hello all;
> I've been taking some time over the past couple of days to get some
> work done on Biopython, as I'm thinking about trying to roll a
> release either this weekend or earlyish next week. New release go.
> Towards doing this I've done a bit of work in CVS:
> 
> -> BioSQL finally works again. Yay. Thanks to patches from Yves
> Bastide and some messing around on my part with what was left,
> Biopython now seems to work just fine with the current BioSQL
> schema. It works for me with both MySQL (4.0.17) and PostgreSQL
> (7.4.1) and all tests pass. I'd appreciate it if people who are
> interested in BioSQL take it for a spin and make sure everyone works
> for them.
> 
> -> I've been trying to hit on the bug database and get some things
> cleaned up. Towards this goal I've checked in some patches, killed
> some bugs which were already fixed, and also updated all the
> Iterator classes to be Python 2.2 compatible so that you should be
> able to do:
> 
> for rec in iter(your_iterator):
>  do_something_with(rec)
> 
> instead of:
> 
> while 1:
>   rec = your_iterator.next()
>   if not rec:
>       break
>   do_something_with(rec)
> 
> The old way should work as well, but people should be able to start
> migrating code over to the new semantics as it's a lot prettier.
> 
> -> All tests now pass for me, except for skipping the GFF and Wise
> tests since I don't have the right things installed.
> 
> So...how does everyone feel about a release within the next week?
> Any objections? Any code or fixes that people want to get in before
> the release?
> 
> If anyone has time I'd appreciate the normal testing on the code
> plus a look at the bug database to see if there's anything that you
> could fix or trash before the release.
> 
> New-release-of-Biopython-woo-woo-woo-ly yr's,
> Brad
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