Bio::EnsEMBL::Hive::AnalysisJob

  An AnalysisJob is the link between the input_id control data, the analysis and
  the rule system.  It also tracks the state of the job as it is processed

  my $self = shift;
  $self->{'_adaptor'} = shift if(@_);
  return $self->{'_adaptor'};

  my $self = shift;
  $self->{'_analysis_id'} = shift if(@_);
  return $self->{'_analysis_id'};

  my $self = shift;
  $self->{'_branch_code'} = shift if(@_);
  $self->{'_branch_code'} = 1 unless(defined($self->{'_branch_code'}));
  return $self->{'_branch_code'};

  my $self = shift;
  $self->{'_completed'} = shift if(@_);
  return $self->{'_completed'};

  my $self = shift;
  $self->{'_dbID'} = shift if(@_);
  return $self->{'_dbID'};

  my $self = shift;
  $self->{'_hive_id'} = shift if(@_);
  return $self->{'_hive_id'};

  my $self = shift;
  $self->{'_input_id'} = shift if(@_);
  return $self->{'_input_id'};

  my $self = shift;
  $self->{'_job_claim'} = shift if(@_);
  return $self->{'_job_claim'};

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

  my $self = shift;
  my $logic_name ='';
  $logic_name = $self->adaptor->db->get_AnalysisAdaptor->fetch_by_dbID($self->analysis_id)->logic_name if($self->adaptor);
  printf("job_id=%d %s(%d) retry=%d input_id='%s'\n", 
       $self->dbID,
       $logic_name,
       $self->analysis_id,
       $self->retry_count,
       $self->input_id);
}

1;

  my $self = shift;
  $self->{'_query_count'} = shift if(@_);
  $self->{'_query_count'} = 0 unless(defined($self->{'_query_count'}));
  return $self->{'_query_count'};

  my $self = shift;
  $self->{'_retry_count'} = shift if(@_);
  $self->{'_retry_count'} = 0 unless(defined($self->{'_retry_count'}));
  return $self->{'_retry_count'};

  my $self = shift;
  $self->{'_runtime_msec'} = shift if(@_);
  $self->{'_runtime_msec'} = 0 unless(defined($self->{'_runtime_msec'}));
  return $self->{'_runtime_msec'};

  my $self = shift;
  $self->{'_status'} = shift if(@_);
  return $self->{'_status'};

  my $self = shift;
  $self->{'_stderr_file'} = shift if(@_);
  return $self->{'_stderr_file'};

  my $self = shift;
  $self->{'_stdout_file'} = shift if(@_);
  return $self->{'_stdout_file'};

  my ($self, $status ) = @_;
  return unless($self->adaptor);
  $self->status($status);
  $self->adaptor->update_status($self);

  Contact Jessica Severin on EnsEMBL::Hive implemetation/design detail: jessica@ebi.ac.uk
  Contact Ewan Birney on EnsEMBL in general: birney@sanger.ac.uk

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