onto-term.patch

   1 Index: Bio/Annotation/OntologyTerm.pm
   2 *** Bio/Annotation/OntologyTerm.pm      28 Feb 2003 05:15:42 -0000      1.5
   3 --- Bio/Annotation/OntologyTerm.pm      4 Apr 2003 15:39:25 -0000
   4 ***************
   5 *** 388,392 ****
   6 --- 388,490 ----
   7       return shift->term()->remove_synonyms(@_);
   8   } # remove_synonyms
   9
  10 + =head2 get_dblinks
  11 +
  12 +  Title   : get_dblinks()
  13 +  Usage   : @ds = $term->get_dblinks();
  14 +  Function: Returns a list of each dblinks of this GO term.
  15 +  Returns : A list of dblinks [array of [scalars]].
  16 +  Args    :
  17 +
  18 + =cut
  19 +
  20 + sub get_dblinks {
  21 +     return shift->term->get_dblinks(@_);
  22 + } # get_dblinks
  23 +
  24 +
  25 + =head2 add_dblink
  26 +
  27 +  Title   : add_dblink
  28 +  Usage   : $term->add_dblink( @dbls );
  29 +            or
  30 +            $term->add_dblink( $dbl );
  31 +  Function: Pushes one or more dblinks
  32 +            into the list of dblinks.
  33 +  Returns :
  34 +  Args    : One  dblink [scalar] or a list of
  35 +             dblinks [array of [scalars]].
  36 +
  37 + =cut
  38 +
  39 + sub add_dblink {
  40 +     return shift->term->add_dblink(@_);
  41 + } # add_dblink
  42 +
  43 +
  44 + =head2 remove_dblinks
  45 +
  46 +  Title   : remove_dblinks()
  47 +  Usage   : $term->remove_dblinks();
  48 +  Function: Deletes (and returns) the definition references of this GO term.
  49 +  Returns : A list of definition references [array of [scalars]].
  50 +  Args    :
  51 +
  52 + =cut
  53 +
  54 + sub remove_dblinks {
  55 +     return shift->term->remove_dblinks(@_);
  56 + } # remove_dblinks
  57 +
  58 + =head2 get_secondary_ids
  59 +
  60 +  Title   : get_secondary_ids
  61 +  Usage   : @ids = $term->get_secondary_ids();
  62 +  Function: Returns a list of secondary identifiers of this Term.
  63 +
  64 +            Secondary identifiers mostly originate from merging terms,
  65 +            or possibly also from splitting terms.
  66 +
  67 +  Returns : A list of secondary identifiers [array of [scalar]]
  68 +  Args    :
  69 +
  70 + =cut
  71 +
  72 + sub get_secondary_ids {
  73 +     return shift->term->get_secondary_ids(@_);
  74 + } # get_secondary_ids
  75 +
  76 +
  77 + =head2 add_secondary_id
  78 +
  79 +  Title   : add_secondary_id
  80 +  Usage   : $term->add_secondary_id( @ids );
  81 +            or
  82 +            $term->add_secondary_id( $id );
  83 +  Function: Adds one or more secondary identifiers to this term.
  84 +  Returns :
  85 +  Args    : One or more secondary identifiers [scalars]
  86 +
  87 + =cut
  88 +
  89 + sub add_secondary_id {
  90 +     return shift->term->add_secondary_id(@_);
  91 + } # add_secondary_id
  92 +
  93 +
  94 + =head2 remove_secondary_ids
  95 +
  96 +  Title   : remove_secondary_ids
  97 +  Usage   : $term->remove_secondary_ids();
  98 +  Function: Deletes (and returns) the secondary identifiers of this Term.
  99 +  Returns : The previous list of secondary identifiers [array of [scalars]]
 100 +  Args    :
 101 +
 102 + =cut
 103 +
 104 + sub remove_secondary_ids {
 105 +     return shift->term->remove_secondary_ids(@_);
 106 + } # remove_secondary_ids
 107 +
 108
 109   1;