I have just tried to pipe all the messages to the main thread – the new
strategy is much easier to implement than I thought.
The new code works well. Indeed, as long as the Rprintf function is only called
by the main thread, it doesn’t matter how many worker threads are created.
From: Shian Su
Hopefully it could be implemented with minimal bloat, but I get your
point. The intent is to clarify the source of the class, since it
would not otherwise be imported. I think this is a fairly common case
that is worth solving if it doesn't add too much complexity.
On Wed, Jan 30, 2019 at 2:31 PM
Hi Michael,
So IIUC this upfront class registration wouldn't do much beside making
the "no definition for class 'seurat'" message issued by setMethod
disappear. Maybe that's not enough to justify adding more bloat to the
methods package?
My 2 cents,
H.
On 1/30/19 13:35, Michael Lawrence via
Unrelated to the specific question, a generic function introduces more
vocabulary into the ecosystem. Since SingleCellExperiment defines the
standard interface, why not make a new method on logcounts()?
Back on topic, what if the methods package were to support forward
class declarations? For exam
Thanks Martin!
The fun strategy (zzz.R .onLoad setHook trick) worked well, except for setting
this particular method:
setMethod(scClustViz::getDR,"SingleCellExperiment",function(x,DRtype) {
if
(any(grepl(DRtype,SingleCellExperiment::reducedDimNames(x),ignore.case=T))) {
Hi Marta,
I have fixed your repository in the Bioconductor repo.
g...@git.bioconductor.org:packages/hipathia.git
Please follow this document exactly as is, to sync your GitHub repository
(http://bioconductor.org/developers/how-to/git/sync-existing-repositories/). If
you are having issues with
A simple approach is to suppress the message (I think this is pragmatic, rather
than dumb __) about unknown class (along with DESCRIPTION Suggests: Seurat)
setGeneric("getGE", function(x) standardGeneric("getGE"))
suppressMessages({
setMethod("getGE", "seurat", function(x) Seurat::GetAssayDa
Hi Nitesh,
Thank you for your quick answer and sorry for the trouble.
Yes please, I think I'll need some help to fix this. Can you give me some
instructions?
Thank you again!
Marta
Marta Hidalgo
De: Nitesh Turaga
Enviado: mi
