Bio::SearchIO::IteratedSearchResultEventBuilder - Event Handler for SearchIO events.


# Do not use this object directly, this object is part of the SearchIO # event based parsing system.


This object handles Search Events generated by the SearchIO classes and build appropriate Bio::Search::* objects from them.


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AUTHOR - Steve Chervitz



Parts of code based on SearchResultEventBuilder by Jason Stajich

Sendu Bala,


The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _


 Title   : new
 Usage   : my $obj = Bio::SearchIO::IteratedSearchResultEventBuilder->new();
 Function: Builds a new Bio::SearchIO::IteratedSearchResultEventBuilder object
 Returns : Bio::SearchIO::IteratedSearchResultEventBuilder
 Args    : -hsp_factory    => Bio::Factory::ObjectFactoryI
           -hit_factory    => Bio::Factory::ObjectFactoryI
           -result_factory => Bio::Factory::ObjectFactoryI
           -iteration_factory => Bio::Factory::ObjectFactoryI
           -inclusion_threshold => e-value threshold for inclusion in the
                                   PSI-BLAST score matrix model (blastpgp)
           -signif      => float or scientific notation number to be used
                           as a P- or Expect value cutoff
           -score       => integer or scientific notation number to be used
                           as a blast score value cutoff
           -bits        => integer or scientific notation number to be used
                           as a bit score value cutoff
           -hit_filter  => reference to a function to be used for
                           filtering hits based on arbitrary criteria.

See Bio::SearchIO::SearchResultEventBuilder 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

SAX methods


 Title   : start_result
 Usage   : $handler->start_result($resulttype)
 Function: Begins a result event cycle
 Returns : none
 Args    : Type of Report


 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 Iteration event cycle
 Returns : Bio::Search::Iteration object
 Args    : type of event and associated hashref