Re: [R-pkg-devel] R package development using GPU based on R package OpenCL

2022-10-11 Thread Martin Morgan
I�m not particularly experienced with this but wrote a �proof-of-concept� skeleton of a package at https://github.com/mtmorgan/ocl . The basics are * Import OpenCL in the DESCRIPTION file * Write OpenCL scripts in inst/ (dnorm implemented in OpenCL) * Use the helper function in

[R-pkg-devel] R package development using GPU based on R package OpenCL

2022-10-11 Thread Quirin Stier
Dear members, I have difficulties packing my OpenCL functions together as a complete R package. I did not find any exemplary R package building upon the R OpenCL Package. Currently I can only run the OpenCL functions as was presented by the OpenCL examples of the OpenCL package itself. So,

Re: [Rd] Bug with `[<-.POSIXlt` on specific OSes

2022-10-11 Thread Kurt Hornik
> Davis Vaughan writes: > I've got a bit more information about this one. It seems like it > (only? not sure) appears when `TZ = "UTC"`, which is why I didn't see > it before on my Mac, which defaults to `TZ = ""`. I think this is at > least explainable by the fact that those "optional"

Re: [Rd] Bug with `[<-.POSIXlt` on specific OSes

2022-10-11 Thread Davis Vaughan
I've got a bit more information about this one. It seems like it (only? not sure) appears when `TZ = "UTC"`, which is why I didn't see it before on my Mac, which defaults to `TZ = ""`. I think this is at least explainable by the fact that those "optional" fields aren't technically needed when the

Re: [Bioc-devel] Branch RELEASE_3_16 unavailable for MoonlightR package

2022-10-11 Thread Matteo Tiberti
Dear Lori, Thank you – and sorry I missed this in the documentation. I will not be creating the RELEASE directory and just push to master. Cheers Matteo Tiberti Danish Cancer Society Strandboulevarden 49 DK-2100 Copenhagen Telefon: +45 35 25 73 07

Re: [Bioc-devel] Interpreting BiocCheck output

2022-10-11 Thread Kern, Lori
If you are running locally, there is also a .BiocCheck folder that gets created with a log that has the more specific information as well. Cheers, Lori Shepherd - Kern Bioconductor Core Team Roswell Park Comprehensive Cancer Center Department of Biostatistics & Bioinformatics Elm &

Re: [Bioc-devel] Branch RELEASE_3_16 unavailable for MoonlightR package

2022-10-11 Thread Kern, Lori
There is no RELEASE_3_16 branch yet. Bioc 3.16 is still considered devel; release branches are only created at release time. Do NOT create it yourself; this is done by the core on git.bioconductor.org at release time. To update devel you would push to master. All of this is very well

Re: [Rd] Rscript -e EXPR fails to launch if stdin is closed

2022-10-11 Thread peter dalgaard
There's still 2 weeks till code freeze for 4.2.2, and porting the fix would be trivial. As long as there is no risk that someone will get the bright idea of changing a critical package to depend on R >= 4.2.2... - pd > On 10 Oct 2022, at 18:34 , Henrik Bengtsson > wrote: > > Thank you Peter

[Bioc-devel] Branch RELEASE_3_16 unavailable for MoonlightR package

2022-10-11 Thread Matteo Tiberti
Dear maintainers, I’d like to push a commit (and a version bump commit) to fix our build report error for our MoonlightR package, for the current development version 3.16. If I understood correctly, I would need to push directly to the RELEASE_3_16 branch in upstream (Bioc remote) which

Re: [Rd] A potential POSIXlt->Date bug introduced in r-devel

2022-10-11 Thread Martin Maechler
> Davis Vaughan > on Fri, 7 Oct 2022 11:00:23 -0400 writes: > Martin, > FWIW, I scoured the docs using GitHub's new code search preview but can't > seem to find any reference to the fact that POSIXlt fields are internally > recycled (even though lubridate seems to

Re: [R-pkg-devel] Identify Original Column Names of Model Matrix

2022-10-11 Thread Ivan Krylov
On Mon, 10 Oct 2022 08:00:04 + Dario Strbenac wrote: > It requires input data to be in one-hot encoding, which is created by > Matrix::sparse.model.matrix. For further analysis, such as variable > importance, is there a way to identify which original feature each > column of a

Re: [R-pkg-devel] Issue handling datetimes: possible differences between computers

2022-10-11 Thread Martin Maechler
> Ben Bolker > on Mon, 10 Oct 2022 16:59:35 -0400 writes: > Right now as.POSIXlt.Date() is just > function (x, ...) > .Internal(Date2POSIXlt(x)) It has been quite a bit different in R-devel for a little while. NEWS entries (there are more already, and more coming on