Bio::EnsEMBL::Pipeline::RunnableDB::ProteinAnnotation::Pfam

  my $seg = Bio::EnsEMBL::Pipeline::RunnableDB::ProteinAnnotation::Pfam->
    new ( -db      => $db,
    -input_id   => $input_id,
    -analysis   => $analysis,
                                                                      );
  $seg->fetch_input;  # gets sequence from DB
  $seg->run;
  $seg->write_output; # writes features to to DB

  This object wraps Bio::EnsEMBL::Pipeline::Runnable::Hmmpfam
  to add functionality to read and write to databases in 
  a Pfam-specific way.

  my ($self) = @_;
 
  $self->SUPER::fetch_input;
 
  my $run = Bio::EnsEMBL::Analysis::Runnable::ProteinAnnotation::Pfam->
      new(-query     => $self->query,
          -analysis  => $self->analysis,
          -database  => $self->analysis->db_file,
          %{$self->parameters_hash}
          );
  $self->runnable($run);