| Bio::SearchIO::EventHandlerI(3pm) | User Contributed Perl Documentation | Bio::SearchIO::EventHandlerI(3pm) |
Bio::SearchIO::EventHandlerI - An abstract Event Handler for Search Result parsing
# do not use this object directly it is an interface # See Bio::SearchIO::SearchResultEventBuilder for an implementation
use Bio::SearchIO::SearchResultEventBuilder;
my $handler = Bio::SearchIO::SearchResultEventBuilder->new();
This interface describes the basic methods needed to handle Events thrown from parsing a Search Result such as FASTA, BLAST, or HMMer.
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.
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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.
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:
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Email jason-at-bioperl.org
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
Title : start_result Usage : $handler->start_result($data) Function: Begins a result event cycle Returns : none Args : Type of Result
Title : end_result Usage : $handler->end_result($data) Function: Ends a result event cycle Returns : Bio::Search::Result::ResultI object Args : none
Title : start_hsp
Usage : $handler->start_hsp($data)
Function: Start a HSP event cycle
Returns : none
Args : type of element
associated hashref
Title : end_hsp Usage : $handler->end_hsp() Function: Ends a HSP event cycle Returns : Bio::Search::HSP::HSPI object Args : type of event and associated hashref
Title : start_hit Usage : $handler->start_hit() Function: Starts a Hit event cycle Returns : none Args : type of event and associated hashref
Title : end_hit Usage : $handler->end_hit() Function: Ends a Hit event cycle Returns : Bio::Search::Hit::HitI object Args : type of event and associated hashref
Title : start_iteration Usage : $handler->start_iteration() Function: Starts an Iteration event cycle Returns : none Args : type of event and associated hashref
Title : end_iteration Usage : $handler->end_iteration() Function: Ends an Iterationevent cycle Returns : Bio::Search::Iteration::IterationI object Args : type of event and associated hashref
Title : register_factory
Usage : $handler->register_factory('TYPE',$factory);
Function: Register a specific factory for a object type class
Returns : none
Args : string representing the class and
Bio::Factory::ObjectFactoryI
See Bio::Factory::ObjectFactoryI for more information
Title : factory
Usage : my $f = $handler->factory('TYPE');
Function: Retrieves the associated factory for requested 'TYPE'
Returns : a Bio::Factory::ObjectFactoryI
Throws : Bio::Root::BadParameter if none registered for the supplied type
Args : name of factory class to retrieve
See Bio::Factory::ObjectFactoryI for more information
Title : will_handle
Usage : if( $handler->will_handle($event_type) ) { ... }
Function: Tests if this event builder knows how to process a specific event
Returns : boolean
Args : event type name
See Bio::Event::EventHandlerI for the additional SAX methods.
| 2021-08-15 | perl v5.32.1 |