search for: getmethods

Running R2.4.0 on Apple Mac OS X 10.4.8, in Emacs ESS mode, and also R.app. In an attempt to learn a bit more about a particular method (geneNames in package affy) I invoked getMethods("geneNames") which produced geneNames methods, but not the one in affy (output below). I had to know the signature (AffyBatch) in order to find the method > getMethod("geneNames", "AffyBatch") Isn't getMethods() supposed to get them all? Is this a problem,...

Hi, How do I retrieve the var.test() function code? I had a similar problem once before with another function but getMethods() solved the problem then. Now I tried several combinations for var.test() without success. Regards benjamin -- Benjamin Otto Universitaetsklinikum Eppendorf Hamburg Institut fuer Klinische Chemie Martinistrasse 52 20246 Hamburg [[alternative HTML version deleted]]

For documentation we use a system that generates Rd files from special comments in the code. (inlinedocs). It is crucial to be able to get the defining source code for objects like methods to extract the comments from it. Here is an R session that shows how this works for several kinds of methods and (at the end of the session) how if fails for methods of "initialize" >

(I think this is being caused by the new methods package in RC.) In the RC (March 24) some of my packages are generating a Note Note: Method with signature "MySQLConnection#integer" chosen for function "coerce", target signature "TSMySQLConnection#integer". "dbObjectId#integer" would also be valid This is coming from a call to dbGetQuery() in package

...d (e.g., "+") the new one is valid. (for more details see example code below). Is this intended? Thanks for your help, Matthias, Thomas ########################################################### ## Example code ########################################################### require(distr) getMethods("/") # shows the corresponding methods of "distr" ## now define a new class "track" (see Chambers (1998)) ## and define "/" setClass("track", representation(x = "numeric", y = "numeric")) setMethod("/", signature(&qu...

Hi r-devels, I am stuck in some S4 inheritance problem: setClass("A",representation(a="numeric")) setClass("A1",representation(b="numeric"),contains="A") setClass("A2",representation(c="numeric"),contains="A1") if(!isGeneric("foo")){ setGeneric("foo", function(x,y,z, ...)

Dear list-member, I am currently developing a package with S4 classes. The NAMESPACE and DESCRIPTION is printed below. Within this package I have set a method "residuals" for two classes. In version 2.8.1 these two are reported whereas in R-Devel (2009-01-28 r47766). What have I missed? What has changed and how can I rectify the issue? Your help and pointers are welcome. For 2.8.1:

It would be really nice if R warned you when packages had conflicting methods. For example (and this took me a couple of hours to track down), RMySQL and RPostgreSQL both define setMethod("print", "dbObjectId"), so that: library(RMySQL) getMethod("print", "dbObjectId") library(RPostgreSQL) getMethod("print", "dbObjectId") Obviously

after this setClass("A") setGeneric("bar", function(x, y) standardGeneric("bar")) setMethod(bar, signature(x="A", y="A"), function(x, y) {}) setMethod(bar, signature(x="A", y="ANY"), function(x, y) {}) the method for signature c("A", "A") contains package information > str(getMethod(bar,

Dear list, I have the following example, from which I am hoping to retrieve numeric values of the factor levels (that is, without the brackets): > > x <- seq(1, 15, length=100) > y <- sin(x) > > my.cuts <- cut(which(abs(y) < 1e-1), 3) > levels(my.cuts) hist() does not suit me for this, as it does not necessarily respect the number of breaks. getAnywhere

Dear R developers, I am having a slightly weird issue with a S4 method defined in my package adegenet 1.2-4, with R 2.11.0. As far as I know, the problem is new, and the code implementing the method has not changed for more than a year and worked well so far. The problem is the following. I define, in the package, a method "[" for the S4 class 'genind'. The method's

...ull code is available below]]] # } # <environment: namespace:kml> # #Signatures: # Object # target "ClusterizLongData" # defined "ClusterizLongData" --- 8< ---- Everything seems fine. The code is correct. So I copy-and-paste the code that I get with getMethods("kml","ClusterizLongData") and I affect it to a function "func". Then I define again the method "kml". Then I run again the example that does not work before and it works... Any explanations? Christophe Genolini --- 8< -------------------------- ### ##...

...ar R People: In the function "decompose", the object has the class of "decomposed.ts". (from package stats) I would like to see the class definition and the method for the plotting. However, when I use isClass("decomposed.ts") I get "FALSE". When I check getMethods("plot") there is no method for plot on decomposed.ts Any suggestions, please? Thanks in advance! R Version 2.2.1 Windows Sincerely, Erin Hodgess Associate Professor Department of Computer and Mathematical Sciences University of Houston - Downtown mailto: hodgess at gator.uhd.edu

Hello R Power Users, There is a rather large introduction you may skip to go directly to my question about S4 classes. I am working on some toy code to help me get in through S4 classes. Doing this homework, I have some questions about S4 classes. I have carefully read available help and some additional material such as Robert Gentleman's slides and special attention to "Programming

...onment R.oo. Warning in setGenericS3.default(name, envir = envir, validators = validators) : Renamed the preexisting function gc to gc.default, which was defined in environment base. Warning in setGenericS3.default(name, envir = envir, validators = validators) : Renamed the preexisting function getMethods to getMethods.default, which was defined in environment base. Warning in setGenericS3.default(name, envir = envir, validators = validators) : Renamed the preexisting function getClasses to getClasses.default, which was defined in environment base. Warning in setMethodS3.default("throw",...

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 at .Data)") >show(norm.meth at .Data) Last show() displays this: function (object, ...) { .local <- function (object, method = c("median",

...lt ""; } class Annotated { @Red(info = "AWESOME") public void foo(String myParam) { System.out.println("This is " + myParam); } } class TestAnnotationParser { public void parse(Class clazz) throws Exception { Method[] methods = clazz.getMethods(); for (Method method : methods) { if (method.isAnnotationPresent(Red.class)) { Red test = method.getAnnotation(Red.class); String info = test.info(); if ("AWESOME".equals(info)) { System.out.println("info is awesom...

Dear R Gurus: How do you get source for functions which say "UseMethod" when you type in their names, please? I've tried getAnywhere and getMethods...I thought that might produce them. Thanks in advance. Sincerely, Edna

Hi, in the quest of learning from others' codes, I am still stumbling over the problem how to view some of the functions. I know about methods() & getAnywhere(), showMethods(), getMethods() but I still cannot view every function. How would I look at the code of the "merge" function? Thanks a million, Werner -- View this message in context: http://www.nabble.com/Viewing-function-code-tp24895753p24895753.html Sent from the R help mailing list archive at Nabble.com.

Folks, How would I find the code for a plot function that is in a package? I want to understand exactly what is being plotted. Thanks, KW -- [[alternative HTML version deleted]]