Interesting detective work. This is nasty.
Best,
Kasper
On Thu, May 16, 2019 at 2:19 AM Pages, Herve wrote:
> Let's try to go to the bottom of this. But let's leave
> SummarizedExperiment objects out of the picture for now and focus on what
> happens with a very simple reference object.
>
> Whe
Let's try to go to the bottom of this. But let's leave SummarizedExperiment
objects out of the picture for now and focus on what happens with a very simple
reference object.
When you create 2 instances of a reference class with the same content:
A <- setRefClass("A", fields=c(stuff="ANY"))
I would say it's much worse than mismatching class definitions.
https://github.com/Bioconductor/SummarizedExperiment/issues/16
-A
On 5/11/19 5:07 AM, Martin Morgan wrote:
I think it has to do with the use of reference classes in the assay slot, which
have different environments
se = Summa
I think it has to do with the use of reference classes in the assay slot, which
have different environments
se = SummarizedExperiment()
saveRDS(se, fl <- tempfile())
se1 = readRDS(fl)
and then
> all.equal(se@assays, se1@assays)
[1] "Class definitions are not identical"
> all.equal(se@assa
I would appreciate some background about the following:
> suppressPackageStartupMessages(library("SummarizedExperiment"))
> set.seed(1L)
> m <- matrix(rnorm(16), ncol = 4, dimnames = list(letters[1:4], LETTERS[1:4]))
> rowdata <- DataFrame(X = 1:4, row.names = letters[1:4])
> se1 <- SummarizedExpe
