Bio::EnsEMBL::Pipeline::SeqFetcher::Pfetch

    my $obj = Bio::EnsEMBL::Pipeline::SeqFetcher::Pfetch->new(
							      -executable => $exe
							     );
    my $seq = $obj->get_Seq_by_acc($acc);

  Object to retrieve sequences as Bio::Seq, using pfetch.

  my ($self, $acc) = @_;
  
  if (!defined($acc)) {
    $self->throw("No accession input");
  }  
  
  if (defined($self->{_seqhash}{$acc})) {
     return $self->{_seqhash}{$acc};
  } else {
     $self->throw("Could not fetch sequence for [$acc]\n");
  }

  my ($self) = @_;

  my @ids = keys %{$self->{_seqhash}};

  return\@ ids;
}

1;

  my ($class, @args) = @_;
  my $self = bless {}, $class;

  my ($seqfile) = $self->_rearrange(['SEQFILE'], @args);

  if (defined($seqfile)) {
    $self->seqfile($seqfile);
  } else {
    $self->throw("Need a sequence file");
  }
  
  return $self; # success - we hope!

  my ($self,$file) = @_;


  if (defined($file)) {
    open (INDEX,"<$file") || $self->throw("Can't open $file");
    
    my $seqio = new Bio::SeqIO(-fh =>\* INDEX, -format => 'fasta');
    
    while (my $seq = $seqio->next_seq) {
      $self->{_seqhash}{$seq->id} = $seq;
    }
    
    close(INDEX);
  } else {
    $self->throw("Must supply a seqfile to Bio:EnsEMBL::Pipeline::SeqFetcher::FileIndex");
  }