NAME
Bio::Biblio::IO::medlinexml - a converter of XML files with MEDLINE citations
VERSION
version 1.70
SYNOPSIS
Do not use this object directly, it is recommended to access it and use it through the Bio::Biblio::IO module:
use Bio::Biblio::IO;
my $io = Bio::Biblio::IO->new(-format => 'medlinexml');DESCRIPTION
This object reads bibliographic citations in XML/MEDLINE format and converts them into Bio::Biblio::RefI objects. It is an implementation of methods defined in Bio::Biblio::IO.
The main documentation details are to be found in Bio::Biblio::IO.
METHODS
next_bibref
FUNCTIONS
handle_doc_start
handle_doc_end
handle_char
handle_start
handle_end
INTERNAL METHODS
_initialize
_parse
_process_citation
What to do when we have the whole $citation ready
_add_element
Add $element into an array named $key to the top object at @ObjectStack; if $element is empty, take it from @PCDataStack
_data2obj
Remove top of @PCDataStack and put it into top object at @ObjectStack under name $key
_obj2obj
Remove top of @ObjectStack and put it into now-top at @ObjectStack under name $key
_eq_hash_elem
Check if a $key exists in a ref-hash $rh and if it is equal to $value
_debug_object_stack
--- only for debugging
FEEDBACK
Mailing lists
User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to the Bioperl mailing list. Your participation is much appreciated.
bioperl-l@bioperl.org - General discussion
http://bioperl.org/wiki/Mailing_lists - About the mailing listsSupport
Please direct usage questions or support issues to the mailing list: bioperl-l@bioperl.org
rather than to the module maintainer directly. Many experienced and reponsive experts will be able look at the problem and quickly address it. Please include a thorough description of the problem with code and data examples if at all possible.
Reporting bugs
Report bugs to the Bioperl bug tracking system to help us keep track of the bugs and their resolution. Bug reports can be submitted via the web:
https://redmine.open-bio.org/projects/bioperl/LEGAL
Authors
Martin Senger <senger@ebi.ac.uk>
Copyright and License
This software is Copyright (c) by 2002 European Bioinformatics Institute and released under the license of the same terms as the perl 5 programming language system itself