Thank you so much for your help. Will aim at making a reproducible example next time, maybe if I had done that I would realized that the issue was that I was using Rscript, which does not load the methods library, which was the source of the problem. ________________________________________ From: Charles C. Berry [ccbe...@ucsd.edu] Sent: Monday, February 23, 2015 10:20 PM To: Ramiro Barrantes Cc: Rolf Turner; r-help@r-project.org Subject: Re: Not finding superclass in library
On Mon, 23 Feb 2015, Ramiro Barrantes wrote: > Thank you for pointing this out. I had no idea about the distinction > but there are some good references on the matter > (http://www.r-bloggers.com/packages-v-libraries-in-r/). I am pasting > the corrected version below, any suggestions appreciated: > > I have a package that I created that defines a parent class, > assayObject. > > I created other classes that inherit from it, say assayObjectDemo. > Each one of those classes I wanted to make in its own directory separate > from where the assayObject is defined (there are reasons for that). > > But now if I do: > > library(assayObject) #<--- where parent object is defined > source("assayObjectDemo.R") > > where assayObjectDemo.R is just: > > setClass("assayObjectDemo",contains="assayObject") > createDemoAssayObject <- function() { > df <- data.frame() > assay<-new(Class="assayObjectDemo") > assay > } > > I get: > > Error in reconcilePropertiesAndPrototype(name, slots, prototype, > superClasses, : > no definition was found for superclass “assayObject” in the specification of > class “assayObjectDemo” > > What can I do? Start with a reproducible example. Here is one: library(Matrix) tmpf <- tempfile(fileext=".R") cat('setClass("MatrixDemo",contains="Matrix")',file=tmpf) source(tmpf) slotNames("MatrixDemo") And it produces the expected output without error: [1] "Dim" "Dimnames" Since this works fine for a widely used package and fails for your (unspecified) package, I suspect there is a problem with your package. If I had to guess, I'd say it is a NAMESPACE issue. Be sure your exportClasses directive is correctly formed per Section 1.5.6 "Namespaces with S4 classes and methods" of R-exts. r-devel might be a better venue for this discussion. HTH, Chuck ______________________________________________ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.