[Bioc-devel] wiggleplotr vignette build fails with R CMD build

[Kaur Alasoo]

Yes, I managed to solve it now. It was a bug introduced four years ago that
now broke the build, but it might have been that when I fixed another bug I
pushed the old bug into the bioconductor repository (perhaps it was
previously in my own github only). This is why I got so confused.

Best,
Kaur


On Mon, Oct 13, 2025 at 5:03 PM Vincent Carey <stvjc using channing.harvard.edu>
wrote:

> I gather that this is resolved?  If not please provide full
> sessionInfo after the
> error is triggered.
>
> On Mon, Oct 13, 2025 at 9:56 AM Kaur Alasoo <kauralasoo using gmail.com> wrote:
> >
> > Hello,
> >
> > I am the maintainer of the wiggleplotr package and I have an error in
> > the vignette that I cannot seem to figure out.
> >
> > When I look at the build report (
> >
> https://bioconductor.org/checkResults/devel/bioc-LATEST/wiggleplotr/nebbiolo2-buildsrc.html
> )
> > I see the following error:
> >
> > Quitting from wiggleplotr.Rmd:65-67 [unnamed-chunk-5]
> >
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> > <error/rlang_error>
> > Error in `plotTranscripts()`:
> > ! object 'ccds' not found
> > ---
> > Backtrace:
> >     ▆
> >  1. └─wiggleplotr::plotTranscripts(...)
> >
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> >
> > I can reproduce this error when I run R CMD build on my computer.
> However,
> > when I try to debug the code interactively in R then everything works
> fine.
> > I've not made any changes to the code or the package data outside the
> > vignette.
> >
> > Is there something obvious that I am missing?
> >
> > Best,
> > Kaur
> >
> >         [[alternative HTML version deleted]]
> >
> > _______________________________________________
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> > https://stat.ethz.ch/mailman/listinfo/bioc-devel
>
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