Re: [Rd] [Q] Get formal arguments of my implemented S4 method

[Roebuck,Paul L]

I'm attempting to reflect the information for use with corresponding
fields in GUI (in a different package), to provide default values,
argname as key for UI label lookups, etc.

So I want something much more like the formals of the implementation:

{
    "object",
    "method":             c("median", "vs", "tukey"),
    "calc.medians":       TRUE,
    "sweep.cols":         calc.medians,
    "recalc.after.sweep": sweep.cols,
    "Š"
}

not those of the generic:

{
    "object",
    "Š"
}


From:  Michael Lawrence <lawrence.mich...@gene.com>
Date:  Wednesday, January 28, 2015 11:28 AM
To:  "Roebuck,Paul L" <plroeb...@mdanderson.org>
Cc:  R-devel <r-devel@r-project.org>
Subject:  Re: [Rd] [Q] Get formal arguments of my implemented S4 method


Would you please clarify your exact use case?


Thanks,
Michael


On Wed, Jan 28, 2015 at 9:02 AM, Roebuck,Paul L
<plroeb...@mdanderson.org> wrote:

Interrogating some (of my own) code in another package.

>norm.meth <- getMethod("normalize", "MatrixLike")
>message("str(norm.meth)")
>str(norm.meth)

>message("show(norm.meth@.Data)")
>show(norm.meth@.Data)


Last show() displays this:

function (object, ...)
{
    .local <- function (object, method = c("median", "vs", "tukey"),
        calc.medians = TRUE, sweep.cols = calc.medians,
        recalc.after.sweep = sweep.cols, ...)
    {
        .do_normalize(object,
            method = match.arg(method),
            calc.medians = calc.medians,
            sweep.cols = sweep.cols,
            recalc.after.sweep = recalc.after.sweep,
            ...)
    }
    .local(object, ...)
}


Desire to be able to access formals() for the .local() function definition,
not the generic one. Have seen information desired available via "defined"
slot of returned 'MethodDefinition' object, but not using the code below.



====================

library(methods)

if (!isGeneric("normalize")) {
    ## Other packages also define this generic...
    setGeneric("normalize",
               function(object, ...) standardGeneric("normalize"))
}

setClassUnion("MatrixLike", c("matrix", "data.frame"))

.do_normalize <- function(concs,
                          method,
                          calc.medians,
                          sweep.cols,
                          recalc.after.sweep,
                          ...) {
    message("internal routine called!")
    NULL
}

setMethod("normalize", signature(object="MatrixLike"),
          function(object,
                   method=c("median", "vs", "tukey"),
                   calc.medians=TRUE,
                   sweep.cols=calc.medians,
                   recalc.after.sweep=sweep.cols,
                   ...) {

    .do_normalize <- function(object,
                            method=match.arg(method),
                            calc.medians=calc.medians,
                            sweep.cols=sweep.cols,
                            recalc.after.sweep=recalc.after.sweep,
                            ...)
}

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