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bio::search::databasei(3pm) [debian man page]

Bio::Search::DatabaseI(3pm)				User Contributed Perl Documentation			       Bio::Search::DatabaseI(3pm)

NAME

       Bio::Search::DatabaseI - Interface for a database used in a sequence search

SYNOPSIS

       Bio::Search::DatabaseI objects should not be instantiated since this module defines a pure interface.

       Given an object that implements the Bio::Search::DatabaseI  interface, you can do the following things with it:

	   $name = $db->name();

	   $date = $db->date();

	   $num_letters = $db->letters();

	   $num_entries = $db->entries();

DESCRIPTION

       This module defines methods for an object that provides metadata information about a database used for sequence searching.

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 one
       of the Bioperl mailing lists.  Your participation is much appreciated.

	 bioperl-l@bioperl.org			- General discussion
	 http://bioperl.org/wiki/Mailing_lists	- About the mailing lists

   Support
       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 the bugs and their resolution. Bug reports can be submitted via the
       web:

	 https://redmine.open-bio.org/projects/bioperl/

AUTHOR

       Steve Chervitz <sac@bioperl.org>

       See the FEEDBACK section  for where to send bug reports and comments.

COPYRIGHT

       Copyright (c) 2001 Steve Chervitz. All Rights Reserved.

DISCLAIMER

       This software is provided "as is" without warranty of any kind.

APPENDIX

       The rest of the documentation details each of the object methods.

   name
	Usage	  : $name = $db->name();
	Purpose   : Get the name of the database searched.
	Returns   : String
	Argument  : n/a

   date
	Usage	  : $date = $db->date();
	Purpose   : Get the creation date of the queried database.
	Returns   : String
	Argument  : n/a

   letters
	Usage	  : $num_letters = $db->letters();
	Purpose   : Get the number of letters in the queried database.
	Returns   : Integer
	Argument  : n/a

   entries
	Usage	  : $num_entries = $db->entries();
	Purpose   : Get the number of entries in the queried database.
	Returns   : Integer
	Argument  : n/a

perl v5.14.2							    2012-03-02					       Bio::Search::DatabaseI(3pm)

Check Out this Related Man Page

Bio::Search::HSP::HSPFactory(3pm)			User Contributed Perl Documentation			 Bio::Search::HSP::HSPFactory(3pm)

NAME

       Bio::Search::HSP::HSPFactory - A factory to create Bio::Search::HSP::HSPI objects

SYNOPSIS

	   use Bio::Search::HSP::HSPFactory;
	   my $factory = Bio::Search::HSP::HSPFactory->new();
	   my $resultobj = $factory->create(@args);

DESCRIPTION

       This is a general way of hiding the object creation process so that we can dynamically change the objects that are created by the SearchIO
       parser depending on what format report we are parsing.

       This object is for creating new HSPs.

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 lists

   Support
       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/

AUTHOR - Jason Stajich
       Email jason-at-bioperl.org

APPENDIX

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

   new
	Title	: new
	Usage	: my $obj = Bio::Search::HSP::HSPFactory->new();
	Function: Builds a new Bio::Search::HSP::HSPFactory object
	Returns : Bio::Search::HSP::HSPFactory
	Args	:

   create
	Title	: create
	Usage	: $factory->create(%args)
	Function: Create a new L<Bio::Search::HSP::HSPI> object
	Returns : L<Bio::Search::HSP::HSPI>
	Args	: hash of initialization parameters

   type
	Title	: type
	Usage	: $factory->type('Bio::Search::HSP::GenericHSP');
	Function: Get/Set the HSP creation type
	Returns : string
	Args	: [optional] string to set

perl v5.14.2							    2012-03-02					 Bio::Search::HSP::HSPFactory(3pm)
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