[Bioperl-l] bioperl-1.2.1 - Release Candidiate 2

[Heikki Lehvaslaiho]

The fixes are in, HEAD and branch. I touched Bio::PrimarySeqI slightly,
too. 

These being quite central classes in BioPerl, here is a summary of the
changes:

Bio::LocatableSeq
=================

- silence spurious warnings in location_from_column()
- correct trunc() documentation: arguments are column location not 
  residues
- fix trunc() for returned start positions
- override revcom from Bio::PrimarySeqI to include start, end and strand

t/LocatebleSeq.t
================

-tests for trunc() and revcom()

Bio::PrimarySeqI
================
value of verbose() is now passed on to new sequence objects created by
trunc(), revcom() and translate()


	-Heikk


On Mon, 2003-03-31 at 12:46, Ewan Birney wrote:
> On 31 Mar 2003, Heikki Lehvaslaiho wrote:
> 
> > I noticed yesterday that Bio::LocatableSeq is not overriding revcom
> > method it inherits from Bio::PrimarySeqI and the as consequence looses
> > start, end and strand values.
> > 
> > I'll get that in to the release today.
> > 
> 
> Cool. I'll wait for your commit therefore. 
> 
-- 
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      _/      _/                      http://www.ebi.ac.uk/mutations/
     _/  _/  _/  Heikki Lehvaslaiho          heikki at ebi.ac.uk
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