[Bioc-devel] WARNING on builders from rgl package

[Martin Grigorov]

Hi Matteo,

I see your package failed on kunpeng2 (Linux ARM64) -
https://bioconductor.org/checkResults/3.20/bioc-LATEST/MoonlightR/kunpeng2-buildsrc.html
This issue has been fixed earlier today. It was reported by Oleksii here on
the mailing list.
It should be OK in the next build (tomorrow).
Sorry for the inconvenience!

Martin

On Fri, Oct 25, 2024 at 12:12 PM Matteo Tiberti via Bioc-devel <
bioc-devel using r-project.org> wrote:

> Dear developers,
>
> We have a couple of warnings from the builders from our MoonlightR and
> Moonlight2R packages, which we haven't had before:
>
> Found the following significant warnings:
>   Warning: 'rgl.init' failed, running with 'rgl.useNULL = TRUE'.
> See '/home/biocbuild/bbs-3.20-bioc/meat/Moonlight2R.Rcheck/00install.out'
> for details.
>
> I've seen this on our local servers and it could be related to either
> missing OpenGL support and/or the fact that it is running on a headless
> server (not sure why it pops up on nebbiolo2 and not teran2 though). Since
> rgl.init is run upon package load, I don’t know if we can do anything at
> code level. A workaround might be to set the system variable RGL_USE_NULL
> to TRUE prior to building (as implied in the docs<
> https://rdrr.io/rforge/rgl/man/rgl.useNULL.html>). Any other suggestion?
>
> I’ve also just noticed this other error on top, which seems to be hitting
> many packages on kungpeng2:
>
> ** byte-compile and prepare package for lazy loading
> Error in dyn.load(file, DLLpath = DLLpath, ...) :
>   unable to load shared object
> '/home/biocbuild/R/R-4.4.1/site-library/BiocParallel/libs/BiocParallel.so':
>   /usr/lib64/libstdc++.so.6: version `CXXABI_1.3.15' not found (required
> by /home/biocbuild/R/R-4.4.1/site-library/BiocParallel/libs/BiocParallel.so)
> Calls: <Anonymous> ... asNamespace -> loadNamespace -> library.dynam ->
> dyn.load
>
> Thank your for your help
>
> Kind regards,
>
> Matteo Tiberti
>
> Danish Cancer Institute
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