[Bioperl-l] Pushing towards 1.0

[Jason Eric Stajich]

On Sun, 9 Dec 2001, Ewan Birney wrote:

>
> It should be perfectly obvious to most people that I would love to be able
> to say we have reached 1.0 branching for the Oreilly conference at the end
> of Janurary. This was just one month late from when we had roadmapped it
> out at Tivoli, so ... this should be doable ;)
>
I think so too.
>
> I actually think that we are pretty close to a feature-complete - in
> particular with the Structure objects coming in we have covered alot of
> bioinformatics. Our only missing hole is the Expression objects - noone
> really looked at bringing in the objects from BMS.
>
>
I've looked over them, I don't think it will be tremendously difficult to
integrate them into a bioperl framework.

>
> I'd like to suggest we go for a 0.9 series developer release this week
> (Jason - Hilmar - Heikki - sounds good?) I am happy to push it through its
> paces.
>
Great.
>
> (One thing - Chad - do we really need use FreezeThaw; in consed - It seems
> like we should be able to do without it - the tests definitely pass
> without them).
>
> (Jason - I am getting a failed test on mapmarker - no add_position on
> Bio/Map/OrderedPositionWithDistance )
>
I actually want to phase out Bio::Map::Mapmaker and t/mapmaker.t as these
are replaced by Bio::MapIO and t/MapIO.t - Just need to make sure Chad is
okay with that.
>
> Otherwise it all looks fine. (famous last words)
>
>
> We have 24 bugs in incoming, with I estimate about half of them being not
> really active, so we are looking good there.
>
I think I have tracked down the DB::GenBank/GenPept stuff by plugging in
the new ncbi cgi script so we seem to be getting better reliability here.
Time will tell..
>
>
> Before christmas we should discuss what we need to check off before the
> 1.0 release and then try to drive towards bug freedom on the main trunk
> over early Janurary for a branch and (hopeful) release late Jan.
>
>
>
> Is there anything else people really, really want to see in before we
> branch for 1.0?
>
>
Would like to see HMMer parsing ported to eventbased parsing of SearchIO.
I think I can do this by the end of the week.

We also talked about an Assembly object to hold data so that we can comply
with the BSANE/BioCORBA spec.  There may be other components there I am
missing.

>
>
> Jason/Hilmar/Heikki - do you think I am mad for pushing for this?
>

I think we should try really hard for a release the week of O'Reilly.
Most things are pretty academic to get in.  I kind of need the BioCORBA
stuff in runnable shape to for my talk so I hope to get that going again.
Should consider a documentation sweep to try and make sure that SYNOPSIS
code is runnable and every object has at least something written.

>
>
>
> ewan
>
>
>
>
>
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-- 
Jason Stajich
Duke University
jason@cgt.mc.duke.edu