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# BioPerl module for Bio::Seq::LargeSeqI
#
# Please direct questions and support issues to <bioperl-l@bioperl.org>
#
# Cared for by Albert Vilella
#
# Copyright Albert Vilella
#
# You may distribute this module under the same terms as perl itself
# POD documentation - main docs before the code
=head1 NAME
Bio::Seq::LargeSeqI - Interface class for sequences that cache their
residues in a temporary file
=head1 SYNOPSIS
#
=head1 DESCRIPTION
The interface class defines a group of sequence classes that do not
keep their sequence information in memory but store it in a file. This
makes it possible to work with very large files even with limited RAM.
The most important consequence of file caching for sequences is that
you do not want to inspect the sequence unless absolutely
necessary. These sequences typically override the length() method not
to check the sequence.
The seq() method is not resetable, if you want to add to the end of the
sequence you have to use add_sequence_as_string(), for any other sequence changes you'll
have to create a new object.
=head1 FEEDBACK
=head2 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
=head2 Support
Please direct usage questions or support issues to the mailing list:
I<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.
=head2 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
email or the web:
https://github.com/bioperl/bioperl-live/issues
=head1 AUTHOR - Albert Vilella
Email avilella-AT-gmail-DOT-com
=head1 CONTRIBUTORS
Heikki Lehvaslaiho, heikki-at-bioperl-dot-org
=head1 APPENDIX
The rest of the documentation details each of the object methods.
Internal methods are usually preceded with a _
=cut
# Let the code begin...
package Bio::Seq::LargeSeqI;
use strict;
use base qw(Bio::Root::RootI);
=head2 add_sequence_as_string
Title : add_sequence_as_string
Usage : $seq->add_sequence_as_string("CATGAT");
Function: Appends additional residues to an existing object.
This allows one to build up a large sequence without
storing entire object in memory.
Returns : Current length of sequence
Args : string to append
=cut
sub add_sequence_as_string {
my ($self) = @_;
$self->throw_not_implemented();
}
1;
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