similar to: creating a package with internal (hiden) S4 classes and methods

Dear List Members, I'm struggling with the documentation of a generic S4 replacement method. I've created a S4 method "lows" via setGeneric("lows", function(object) standardGeneric("lows")) setGeneric("lows<-", function(object, value) standardGeneric("lows<-")) setMethod("lows", "myClass", function(object) {

Hi helpers, I've been programming in R for a few months now but I still have doubts about my code - I would like it to be completely S4-compatible. The current code works fine but is probably 'unclean'. I read the interesting article in the last R News and it helped me understand the difference on the whole between S3 and S4 classes, but I need a practical example. Could anyone

Dear all, Assume that I have an S4 class "MyClass" with a slot "myname", which is initialized to: myname="" in method("initialize"): myclass <- new("MyClass", myname="") Assume that class "MyClass" has a method "mymethod": "mymethod.MyClass" <- function(object, myname=character(0), ...) {

Dear all, Since my package is based on S4 classes, I would like to know how to add a slot to an existing S4 class without breaking the code of users of my package. Assume the following S4 class: setClass("MyClass", representation(name = "character", type = "character", data = "data.frame" ), prototype(name =

Dear listers, I am making a trial to move from S3 to S4... I have created some classes of interest and they work acceptably well for the purpose. I am now wondering how to make them operate in a package. In clear when a package is loaded (eg library(mypackage)) where should I put the class descriptions:

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" >

The %*% function is a primitive. As it says in the documentation under ?Methods_Details Methods may be defined for most primitives, and corresponding metadata objects will be created to store them. Calls to the primitive still go directly to the C code, which will sometimes check for applicable methods. The definition of ?sometimes? is that methods must have been detected

Hi all, I'm trying to implement the matrix multiplication operator, which is S4 generic, for an old-style S3 class. The following works as expected: x <- 1:10 class(x) <- "myClass" setOldClass("myClass") setGeneric("myMethod", function(x, y) standardGeneric("myMethod")) setMethod("myMethod", c("myClass", "myClass"),

A general goal for the next version of R is to make S4 and S3 play better together. As mentioned in a previous thread, one limitation has been that S3 generic functions, specifically the UseMethod() call, did not make use of S4 inheritance when dispatching on general S4 objects. This has been fixed in a version committed today (updated to rev 52267). The code change is not large, but it

I need some help in defining a "print" method for my new S4 class definition. So fer I have worked like this: setClass("MyClass", sealed=F, representation(slot1 = "list", #create a new class slot2 = "vector", slot3 = "vector", slot4 = "vector")) setMethod("print",

>>>>> Ezra Tucker >>>>> on Mon, 11 Nov 2019 21:47:41 +0000 writes: > Hi all, > > I came across an issue in using the Matrix package which made it that I > could only subset Matrices using the numeric class, but could not using > integers. Steps to reproduce the problem: > > library(Matrix) > > # this class has *nothing* to do with

Following my previous post on S3 method despatch, I put debug messages in the code of Axis, Axis.default and plot.default in graphics/R/axis.R and graphics/R/plot.R to print the class of x, at and y on plot. After recompiling R, what I see is that x *lost* its class attribute (at least for classes not known to 'graphics') in Axis, called directly from plot.default and this could be the

Hi all, I came across an issue in using the Matrix package which made it that I could only subset Matrices using the numeric class, but could not using integers. Steps to reproduce the problem: library(Matrix) # this class has *nothing* to do with Matrix setClass("MyClass", representation(myvalue = "numeric"), prototype(myvalue = NA_real_)) # this class also has

Dear all, I have created a new S4 class with name "MyClass". Please see below for it's definition. Now I want to create a method for the show() function for this class. In defining this method, what I want is, once user would like see an object of this class some values will be displayed. Then R will ask for **press Enter**. Once user presses enter then, remaining values will be

Hi, I ran into the following peculiarity involving S4 method dispatch and namespaces. I develop a package which have a namespace and which depends on 'pixmap' package, which itself does not have a namespace. Now, in my package I have a class which has a slot for objects from class "pixmap" and I want to have a "plot" method for this new class. Not to clutter the

Hello R users, I am trying to make a my first package and I get an error that I can understand. The package is build out of three files (one for functions, 1 for s4 classes and 1 for s4 methods). Once I source them I run package.skeleton( name="TDC" ) within a R session and I get Creating directories ... Creating DESCRIPTION ... Creating Read-and-delete-me ... Saving functions and

Dear list, here is a problem I met when trying to use a method for an S4 object, without loading the package in which the method was defined. I do not know if this is a bug, or a mistake of mine. Normally, I think the package in which the appropriate method is defined is loaded automatically when calling the method. The problem is that if the package is indeed loaded automatically, the

Hello: I have written some an elementary S4 classes around a matrix to strengthen control of some key attributes. When I run a fairly elementary function ("f") on the matrix outside the class it runs instantaneously (elapsed system.time = 0) but when I setMethod "f" on myClass -- returning an instance of myClass -- it runs perceptibly slower (elapsed system.time = .06). I

I'm using R 1.8.1 (Win32, Linux) and have some difficulties using validation functions for S4 classes. The problem is if I specify a validation function with setValidity("myclass", validate.myclass) object validation is only performed when I create an instance using new("myclass"), or when I explicitly call validObject(x) where x is of class "myclass", of

I do lots of analyses on large microarray data sets so memory use and speed and both important issues for me. I have been trying to estimate the overheads associated with using formal S4 data objects instead of ordinary lists for large data objects. In some simple experiments (using R 1.7.1 in Windows 2000) with large but simple objects it seems that giving a data object a formal class