Hi Francesco,
You reached the right list.
Congratulations on getting this far, it is not always easy to fix all the R
CMD checks and BiocChecks.
If these packages are optional, they should be used conditionally:
if (requireNamespace("pkg", quietly = TRUE)) {
pkg::optional_function(...)
}
And be listed on the Suggested field of the DESCRIPTION file.
For more information read the Writing R Extensions section 1.1.3.1
<https://cran.r-project.org/doc/manuals/r-devel/R-exts.html#Suggested-packages>.
However, note that depending on packages not on CRAN is usually not
recommended as the quality and availability is not known by R and
Bioconductor processes.
Best wishes,
Lluís
On Tue, 13 May 2025 at 16:22, Francesco Cecere <
francesco.cecere...@gmail.com> wrote:
> Hello,
>
> This is the first time I’m writing to you; I hope I’m doing it correctly
> and contacting the right place.
>
> I have the package almost ready to send. *BiocCheck* works well; I have
> just one note about the length of a few functions. However, *R CMD check*
> gives me a warning about some GitHub packages that I have not listed in the
> DESCRIPTION or NAMESPACE. These packages implement methods that can be
> optionally selected in my framework, and I’ve documented the installation
> steps in the README if someone wants to use them.
>
> Should I leave the warning as is, or is there something I can do to resolve
> it?
>
> Thank you.
>
> Best regards,
> Francesco
>
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>
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