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
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