[Bioperl-l] RE: bioperl-db - changes (Chris Mungall)

[Brian Desany]

> Oh, I'm just using the default branch rather than HEAD
>
> Should I be using HEAD?

I don't know. You're the active developer :)

I thought the default was HEAD anyway, which is consistent with there being
no difference in the files I get whether I use HEAD or the default.

I'll try to dig some more on the relationship between branches (eg MAIN) and
tags (eg HEAD) and mail if I figure it out.



> On Tue, 12 Feb 2002, Brian Desany wrote:
>
> > <scratching head> I'm doing a "cvs status" and getting this:
> >
> > >cvs status
> > cvs server: Examining .
> > ===================================================================
> > File: BUGS              Status: Up-to-date
> >
> >    Working revision:    1.2
> >    Repository revision: 1.2
> /home/repository/bioperl/bioperl-db/BUGS,v
> >    Sticky Tag:          HEAD (revision: 1.2)
> >    Sticky Date:         (none)
> >    Sticky Options:      (none)
> >
> > ===================================================================
> > etc.....
> > So it _seems_ like I've looking in the right spot for the
> right files
> > (correct me if I'm wrong).
> >
> > Also, since I'm not a cvs expert, I'll tell you that these
> two commands
> > bring me the same (old) files (after logging in anonymously):
> >
> > cvs -d
> :pserver:cvs@cvs.bioperl.org:/home/repository/bioperl co -r HEAD
> > bioperl-db
> > cvs -d
> :pserver:cvs@cvs.bioperl.org:/home/repository/bioperl co bioperl-db
> >
> > On the other hand, "cvs -d
> > :pserver:cvs@cvs.bioperl.org:/home/repository/bioperl co -r
> MAIN bioperl-db"
> > fails because MAIN isn't a tag (so it tells me). Am I just
> flat out issuing
> > the wrong checkout command? I don't do this too often...
> >
> > -Brian.
> >
> > > -----Original Message-----
> > > From: Chris Mungall [mailto:cjm@fruitfly.bdgp.berkeley.edu]
> > > Sent: Tuesday, February 12, 2002 1:17 PM
> > > To: Brian Desany
> > > Cc: bioperl-l@bioperl.org
> > > Subject: Re: [Bioperl-l] RE: bioperl-db - changes (Chris Mungall)
> > >
> > >
> > >
> > > Hmm, I just committed on the main branch - this is in the
> bioperl-db
> > > project remember.
> > >
> > > On Tue, 12 Feb 2002, Brian Desany wrote:
> > >
> > > > I don't see these changes when I do "cvs -n -q update" or
> > > "cvs status" or go
> > > > to WebCVS - is there normally some kind of a delay or is
> > > there some other
> > > > cvs command I need to use to find out which files have been
> > > changed? Do I
> > > > need to specify a particular branch maybe?
> > > >
> > > > Thanks,
> > > > -Brian.
> > > >
> > > > >
> > > > > I have committed some code to bioperl-db
> > > > >
> > > > > * Fuzzy Locations are now handled, using the
> > > location_qualifier_value
> > > > > table added to the biosql-schema during the hackathon.
> > > > >
> > > > > * Optimisations - all the features and locations for a
> > > > > sequence entry are
> > > > > now fetched in a few SQL calls rather than a number of calls
> > > > > proportional
> > > > > to the number of features.
> > > > >
> > > > > * Tidying - a lot of mysqlisms removed or pushed up to
> > > the BaseAdaptor
> > > > > layer, to allow for easier postgres support. Added a few
> > > > > generic ease of
> > > > > use methods to BaseAdaptor to more clearly expose the
> logic in the
> > > > > individual adaptor layer.
> > > > >
> > > > > * DBTestHarness now no longer uses the copy of the
> schema in the
> > > > > bioperl-db directory. Instead it checks
> > > > > ../biosql-schema/sql/biosqldb-mysql.sql - hmmm, this won't
> > > > > necessarily fit
> > > > > with the cvs re-organisation. How should we do this? An env
> > > > > var seems a
> > > > > bit nasty.
> > > > >
> > > > > ---
> > > > > Chris
> > > > >
> > > >
> > > > _______________________________________________
> > > > Bioperl-l mailing list
> > > > Bioperl-l@bioperl.org
> > > > http://bioperl.org/mailman/listinfo/bioperl-l
> > > >
> > >
> > >
> >
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>
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