[Bioc-devel] WARNING from Rgl package

[Martin Grigorov]

Hi Matteo,

On Wed, Apr 9, 2025 at 10:25 AM Matteo Tiberti <tiberti using cancer.dk> wrote:

> Hi Martin,
>
> just to confirm that the new builds are in and the warning gone.
>

Glad to hear that!


> We still have yet another issue with downloading a file, but that is again
> I guess momentary (also because it's only on one of the builds)
>

Do you mean
https://bioconductor.org/checkResults/3.21/bioc-LATEST/Moonlight2R/lconway-buildsrc.html
?
The error is not very clear to me. Nothing tells me that a download failed.
The same error happens for all 3.20 builds -
https://bioconductor.org/checkResults/3.20/bioc-LATEST/Moonlight2R/kjohnson1-buildsrc.html


"iconway" machine is maintained by the Bioconductor core team.
I maintain the Linux ARM64 machines (kunpeng2 (3.21) and taishan (3.20)).



>
> thank you again and kind regards,
>
>
> Matteo Tiberti
>
> *Danish Cancer Society Research Center*
> Strandboulevarden 49
> DK-2100 Copenhagen
> *Telephone*: +45 35 25 73 07
>
>
>
> <https://www.cancer.dk/?utm_source=email&utm_medium=medarbejderemail&utm_campaign=medarbejderemail&utm_content=cancerdk>
>
> www.cancer.dk <https://www.cancer.dk/international/> | Vores
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>
> ------------------------------
> *From:* Martin Grigorov <martin.grigorov using gmail.com>
> *Sent:* 07 April 2025 09:25
> *To:* Matteo Tiberti <tiberti using cancer.dk>
> *Cc:* bioc-devel using r-project.org <bioc-devel using r-project.org>
> *Subject:* Re: [Bioc-devel] WARNING from Rgl package
>
> Hi Matteo,
>
> The problem has been fixed and the next build should be fine!
>
> biocbuild using kunpeng2 ~/git> R CMD INSTALL Moonlight2R
> * installing to library ‘/home/biocbuild/R/R-devel_2025-02-19/site-library’
> * installing *source* package ‘Moonlight2R’ ...
> ** this is package ‘Moonlight2R’ version ‘1.5.4’
> ** using staged installation
> ** R
> ** data
> ** inst
> ** byte-compile and prepare package for lazy loading
> ** help
> *** installing help indices
> ** building package indices
> ** installing vignettes
> ** testing if installed package can be loaded from temporary location
> ** testing if installed package can be loaded from final location
> ** testing if installed package keeps a record of temporary installation
> path
> * DONE (Moonlight2R)
>
> On Fri, Apr 4, 2025 at 3:31 PM Martin Grigorov <mgrigorov using apache.org>
> wrote:
>
> Hi,
>
> On Fri, 4 Apr 2025 at 14:00, Matteo Tiberti via Bioc-devel <
> bioc-devel using r-project.org> wrote:
>
> Dear all,
>
> We are seeing the same warning from the builders for our MoonlightR and
> Moonlight2R packages, on kungpeng2 only:
>
> * checking whether package ‘Moonlight2R’ can be installed ... WARNING
> Found the following significant warnings:
>   Warning: 'rgl.init' failed, will use the null device.
>   Warning: no DISPLAY variable so Tk is not available
> See ‘/home/biocbuild/bbs-3.21-bioc/meat/Moonlight2R.Rcheck/00install.out’
> for details.
>
>
>
> I’ll investigate this next week.
>
>
>
> I assume this should be a problem with the builders, since it's triggered
> when the Rgl package is loaded there isn't very much we can do about it.
> Could you please let me know if this is the case, or is there anything we
> can do to fix it?
>
> I also see Moonlight2R also raises an error in the last build cycle - that
> is because it couldn't download a file from the internet. I assume this is
> a temporary problem that would be fixed at the next build.
>
>
>
> I guess so too.
>
>
>
> Thank you and kind regards
>
> Matteo Tiberti
>
>
> Danish Cancer Society Research Center
> Strandboulevarden 49
> DK-2100 Copenhagen
> Telephone: +45 35 25 73 07
>
>
> [https://i.xink.io/Images/Get/K116/d1.png]<
> https://www.cancer.dk/?utm_source=email&utm_medium=medarbejderemail&utm_campaign=medarbejderemail&utm_content=cancerdk
> >
>
> www.cancer.dk<https://www.cancer.dk/international/> | Vores
> privatlivspolitik<https://www.cancer.dk/om-os/privatlivspolitik/>
>
>
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