[Bioperl-l] EUtilities help
cjfields at illinois.edu
Tue Aug 19 13:39:03 EDT 2008
As mentioned in previous posts and in the original POD, the original
Bio::DB::EUtilities was experimental (unstable API). It is deprecated
in favor of the bioperl-live interface, which splits the user agent
and parameter handling (Bio::DB::EUtilities, EUtilParameters) from the
parsers (Bio::Tools::EUtilities). Unfortunately, the original design
was too rushed so any XML changes broke the tools; I basically had to
start from the ground up again. Any changes to eutil output should
now be easier to deal with (famous last words).
I am still planning on adding a few things to it (including tests for
the parser and user agent) but it shouldn't change substantially from
what is in the cookbook.
On Aug 19, 2008, at 2:30 AM, Dave Messina wrote:
> Hi Warren,
> Are you upgrading to 1.5.2 or downgrading from bioperl-live?
> If the former, you might consider going all the way to bioperl-live,
> EUtilities support is improved significantly and documented
> If the latter, I don't believe there is, but Chris Fields will know
> for sure
> and will probably chime in.
> To get bioperl-live
> as a tarball: http://www.bioperl.org/DIST/nightly_builds/
> or via Subversion: http://www.bioperl.org/wiki/Using_Subversion
> Bioperl-l mailing list
> Bioperl-l at lists.open-bio.org
Lab of Dr. Marie-Claude Hofmann
College of Veterinary Medicine
University of Illinois Urbana-Champaign
More information about the Bioperl-l