[Bioperl-l] ESummary document

[Luis-Miguel Rodríguez Rojas]

It works perfectly,

Thanks!

--
Luis M. Rodriguez-R
[ http://thebio.me/lrr ]
---------------------------------
UMR Résistance des Plantes aux Bioagresseurs - Group effecteur/cible
Institut de Recherche pour le Développement, Montpellier, France
[ http://bioinfo-prod.mpl.ird.fr/xantho | Luismiguel.Rodriguez at ird.fr ]
+33 (0) 6.29.74.55.93

Unidad de Bioinformática del Laboratorio de Micología y Fitopatología
Universidad de Los Andes, Bogotá, Colombia
[ http://lamfu.uniandes.edu.co | luisrodr at uniandes.edu.co ]
+57 (1) 3.39.49.49 ext 2777



2011/4/23 Chris Fields <cjfields at illinois.edu>

> Luis,
>
> You should be able to use the Bio::Tools::EUtilities parsers directly:
>
>  # from Bio::DB::EUtilities
>   $factory->get_Response(-file=>$file);
>
>   my $parser = Bio::Tools::EUtilities->new(
>     -eutil    => 'einfo',
>     -file     => $file);
>
>  while (my $docsum = $parser->next_DocSum) { ... }
>
> There are some small caveats to this, but basically 95% or more of
> Bio::DB::EUtilities is just glue for submitting queries and passing the
> response output to the proper Bio::Tools::EUtilities parsers.
>
> chris
>
> On Apr 23, 2011, at 9:39 AM, Luis-Miguel Rodríguez Rojas wrote:
>
> > Hello,
> >
> > Does anyone now how can I initialize a
> > Bio::Tools::EUtilities::Summary::DocSum object from a DocSum file?
> >
> > Say, a script contains the following code:
> >
> > my $factory = Bio::DB::EUtilities->new(-eutil => 'esummary', ...);
> > $factory->get_Response(-file=>$file);
> >
> > Which effectively saves an eSummaryResult XML file in $file.  If I want
> to
> > retrieve the result from within the script, it is easy:
> >
> > my $docsum = $factory->next_DocSum;
> >
> > But, what about reading the file from another script?  I did not find
> > related documentation.
> >
> > Thanks, and congrats for the recent release.
> > LRR
> >
> > --
> > Luis M. Rodriguez-R
> > [ http://thebio.me/lrr ]
> > ---------------------------------
> > UMR Résistance des Plantes aux Bioagresseurs - Group effecteur/cible
> > Institut de Recherche pour le Développement, Montpellier, France
> > [ http://bioinfo-prod.mpl.ird.fr/xantho | Luismiguel.Rodriguez at ird.fr ]
> > +33 (0) 6.29.74.55.93
> >
> > Unidad de Bioinformática del Laboratorio de Micología y Fitopatología
> > Universidad de Los Andes, Bogotá, Colombia
> > [ http://lamfu.uniandes.edu.co | luisrodr at uniandes.edu.co ]
> > +57 (1) 3.39.49.49 ext 2777
> >
> > _______________________________________________
> > Bioperl-l mailing list
> > Bioperl-l at lists.open-bio.org
> > http://lists.open-bio.org/mailman/listinfo/bioperl-l
>
>