setGeneric              package:methods              R Documentation

_D_e_f_i_n_e _a _N_e_w _G_e_n_e_r_i_c _F_u_n_c_t_i_o_n

_D_e_s_c_r_i_p_t_i_o_n:

     Create a new generic function of the given name, for which formal
     methods can then be defined.  Typically, an existing non-generic
     function becomes the default method, but there is much optional
     control.  See the details section.

_U_s_a_g_e:

     setGeneric(name, def= , group=list(), valueClass=character(), where= ,
                package= , signature= , useAsDefault= , genericFunction= )

     setGroupGeneric(name, def= , group=list(), valueClass=character(),
                     knownMembers=list(), package= , where= )

_A_r_g_u_m_e_n_t_s:

    name: The character string name of the generic function.  In the
          simplest and most common case, a function of this name is
          already defined.  The existing function may be non-generic or
          already a generic (see the details). 

     def: An optional function object, defining the generic.  This
          argument is usually only needed (and is then required) if
          there is no current function of this name. In that case, the
          formal arguments and default values for the generic are taken
          from 'def'.  You can also supply this argument if you want
          the generic function to do something other than just dispatch
          methods (an advanced topic best left alone unless you are
          sure you want it).

          Note that 'def' is _not_ the default method; use argument
          'useAsDefault' if you want to specify the default separately. 

   group: Optionally, a character string giving the group of generic
          functions to which this function belongs.  Methods can be
          defined for the corresponding group generic, and these will
          then define methods for this specific generic function, if no
          method has been explicitly defined for the corresponding
          signature.  See the references for more discussion. 

valueClass: An optional character vector or unevaluated expression. 
          The value returned by the generic function must have (or
          extend) this class, or one of the classes; otherwise, an
          error is generated.  See the details section for supplying an
          expression. 

 package: The name of the package with which this function is
          associated.  Usually determined automatically (as the package
          containing the non-generic version if there is one, or else
          the package where this generic is to be saved). 

   where: Where to store the resulting initial methods definition, and
          possibly the generic function; by default, stored into the
          top-level environment. 

signature: Optionally, the signature of arguments in the function that
          can be used in methods for this generic.  By default, all
          arguments other than '...' can be used.  The signature
          argument can prohibit methods from using some arguments.  The
          argument, if provided, is a vector of formal argument names. 

genericFunction: The object to be used as a (nonstandard) generic
          function definition. Supply this explicitly _only_ if you
          know what you are doing! 

useAsDefault: Override the usual choice of default argument (an
          existing non-generic function or no default if there is no
          such function). Argument 'useAsDefault' can be supplied,
          either as a function to use for the default, or as a logical
          value. 'FALSE' says not to have a default method at all, so
          that an error occurs if there is not an explicit or inherited
          method for a call. 'TRUE' says to use the existing function
          as default, unconditionally (hardly ever needed as an
          explicit argument). See the section on details. 

knownMembers: (For 'setGroupGeneric' only)  The names of functions that
          are known to be members of this group.  This information is
          used to reset cached definitions of the member generics when
          information about the group generic is changed. 

_D_e_t_a_i_l_s:

     The 'setGeneric' function is called to initialize a generic
     function in an environment (usually the global environment), as
     preparation for defining some methods for that function.

     The simplest and most common situation is that 'name' is already
     an ordinary non-generic function, and you now want to turn this
     function into a generic. In this case you will most often supply
     only 'name'.  The existing function becomes the default method,
     and the special 'group' and 'valueClass' properties remain
     unspecified.

     A second situation is that you want to create a new, generic
     function, unrelated to any existing function.  In this case, you
     need to supply a skeleton of the function definition, to define
     the arguments for the function.  The body of a generic function is
     usually a standard form, 'standardGeneric(name)' where 'name' is
     the quoted name of the generic function.

     When calling 'setGeneric' in this form, you would normally supply
     the 'def' argument as a function of this form.  If not told
     otherwise, 'setGeneric' will try to find a non-generic version of
     the function to use as a default.  If you don't want this to
     happen, supply the argument 'useAsDefault'.  That argument can be
     the function you want to be the default method.  You can supply
     the argument as 'FALSE' to force no default (i.e., to cause an
     error if there is not direct or inherited method on call to the
     function).

     The same no-default situation occurs if there is no non-generic
     form of the function, and 'useAsDefault=FALSE'.  Remember, though,
     you can also just assign the default you want (even one that
     generates an error) rather than relying on the prior situation.

     You cannot (and never need to) create an explicit generic for the
     primitive functions in the base library.  These are dispatched
     from C code for efficiency and are not to be redefined in any
     case.

     As mentioned, the body of a generic function usually does nothing
     except for dispatching methods by a call to 'standardGeneric'.
     Under some circumstances you might just want to do some additional
     computation in the generic function itself.  As long as your
     function eventually calls 'standardGeneric' that is permissible
     (though perhaps not a good idea, in that it makes the behavior of
     your function different from the usual S model).  If your explicit
     definition of the generic function does _not_ call
     'standardGeneric' you are in trouble, because none of the methods
     for the function will ever be dispatched.

     By default, the generic function can return any object. If
     'valueClass' is supplied, it should be a vector of class names;
     the value returned by a method is then required to satisfy
     'is(object, Class)' for one of the specified classes. An empty
     (i.e., zero length) vector of classes means anything is allowed.
     Note that more complicated requirements on the result can be
     specified explicitly, by defining a non-standard generic function.

     The 'setGroupGeneric' function behaves like 'setGeneric' except
     that it constructs a group generic function, differing in two ways
     from an ordinary generic function.  First, this function cannot be
     called directly, and the body of the function created will contain
     a stop call with this information.  Second, the group generic
     function contains information about the known members of the
     group, used to keep the members up to date when the group
     definition changes, through changes in the search list or direct
     specification of methods, etc.

_V_a_l_u_e:

     The 'setGeneric' function exists for its side effect: saving the
     generic function to allow methods to be specified later.  It
     returns 'name'.

_G_e_n_e_r_i_c _F_u_n_c_t_i_o_n_s _a_n_d _P_r_i_m_i_t_i_v_e _F_u_n_c_t_i_o_n_s:

     A number of the basic R functions are specially implemented as
     primitive functions, to be evaluated directly in the underlying C
     code rather than by evaluating an S language definition. 
     Primitive functions are eligible to have methods, but are handled
     differently by 'setGeneric' and 'setGroupGeneric'.  A call to
     'setGeneric' for a primitive function does not create a new
     definition of the function, and the call is allowed only to "turn
     on" methods for that function.

     A call to 'setGeneric' for a primitive causes the evaluator to
     look for methods for that generic; a call to 'setGroupGeneric' for
     any of the groups that include primitives ('"Arith", "Logic",
     "Compare", "Ops", "Math", "Math2", "Summary",' and '"Complex"')
     does the same for each of the functions in that group.

     You usually only need to use either function if the methods are
     being defined only for the group generic.  Defining a method for a
     primitive function, say '"+"', by a call to 'setMethod' turns on
     method dispatch for that function.  But in R defining a method for
     the corresponding group generic, '"Arith"', does not currently
     turn on method dispatch (for efficiency reasons).  If there are no
     non-group methods for the functions, you have two choices.

     You can turn on method dispatch for _all_ the functions in the
     group by calling 'setGroupGeneric("Arith")', or you can turn on
     method dispatch for only some of the functions by calling
     'setGeneric("+")', etc.  Note that in either case you should give
     the name of the generic function as the only argument.

_R_e_f_e_r_e_n_c_e_s:

     The R package 'methods' implements, with a few exceptions, the
     programming interface for classes and methods in the book
     _Programming with Data_ (John M. Chambers, Springer, 1998), in
     particular sections 1.6, 2.7, 2.8, and chapters 7 and 8.

     While the programming interface for the 'methods' package follows
     the reference, the R software is an original implementation, so
     details in the reference that reflect the S4 implementation may
     appear differently in R.  Also, there are extensions to the
     programming interface developed more recently than the reference. 
     For a discussion of details see '?Methods' and the links from that
     documentation.

_S_e_e _A_l_s_o:

     'Methods' for a discussion of other functions to specify and
     manipulate the methods of generic functions.

_E_x_a_m_p_l_e_s:

     ###   A non-standard generic function.  It insists that the methods
     ###   return a non-empty character vector (a stronger requirement than
     ###    valueClass = "character" in the call to setGeneric)

     setGeneric("authorNames",
         function(text) {
           value <- standardGeneric("authorNames")
           if(!(is(value, "character") && any(nchar(value)>0)))
             stop("authorNames methods must return non-empty strings")
           value
           })



     ## An example of group generic methods, using the class
     ## "track"; see the documentation of setClass for its definition

     ## define a method for the Arith group

     setMethod("Arith", c("track", "numeric"),
      function(e1, e2) {
       e1@y <- callGeneric(e1@y , e2)
       e1
     })

     setMethod("Arith", c("numeric", "track"),
      function(e1, e2) {
       e2@y <- callGeneric(e1, e2@y)
       e2
     })

     ## now arithmetic operators  will dispatch methods:

     t1 <- new("track", x=1:10, y=sort(rnorm(10)))

     t1 - 100
     1/t1

