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package LLNL::LAVA::OligoEnumerator;

use strict;
use Carp;

use LLNL::LAVA::Oligo; # Subclasses are esponsible for returning these

# POD-formatted documentation
#-------------------------------------------------------------------------------

=head1 NAME

LLNL::LAVA::OligoEnumerator - Abstract base class for different methods of
creating sets of oligos based on a BioPerl sequence or MSA

=head1 SYNOPSIS

do not use OligoEnumerator directly, use a concrete sub-class.

=head1 EXAMPLES

See synopsis.

=head1 DESCRIPTION

OligoEnumerator is an abstract base class which defines the interface for
concrete OligoEnumerator implementations (such as Primer3Conserved).

=head1 APPENDIX

The following documentation describes the functions in this package

=cut

#-------------------------------------------------------------------------------

=head2 new

 Usage     : $oligoEnumerator = LLNL::LAVA::OligoEnumerator->new();
 Function  : Creates a new LLNL::LAVA::OligoEnumerator, only sub-classes 
             should use this
 Arguments : <n/a>
 Example   : See Usage
 Returns   : A new LLNL::LAVA::OligoEnumerator

=cut

sub new
{
  my ($classType) = @_;

  # It's always awkward to make non-idiomatic behavior in loose scripting
  # languages, but it has worked for me so far :)
  my $this = {};
  bless($this, $classType);

  return $this;
}

#-------------------------------------------------------------------------------

=head2 getOligos

 Usage     : Do not use this directly 
 Function  : Sub-class implementation must return a set of LLNL::LAVA::Oligo
             objects.
 Arguments : <n/a> 
 Example   : See Usage
 Returns   : Array of L<LLNL::LAVA::Oligo> - the oligos found for the input

=cut

sub getOligos
{
  my ($this) = @_;

  confess("failure - function getOligos() not implemented for class type \"" . 
    ref($this) . "\"");
}

1; # Got one?

__END__

=head1 AUTHOR

Clinton Torres (clinton.torres@llnl.gov)

=head1 SEE ALSO

=cut