[R-pkg-devel] rcmdcheck reports wrong version of lattice

[Bill Dunlap]

I haven't followed all the code branches in tools:::.check_packages(),
but some of them use --vanilla when running the R subprocess that does
the checking.  I think that would mean that libraries in ~/R would not
be in the search path.

-BIll

On Mon, Mar 8, 2021 at 8:45 AM Thierry Onkelinx
<thierry.onkelinx using inbo.be> wrote:
>
> Yes, This was the problem. The recent version of lattice was in my home
> folder ~/R/x86_64-pc-linux-gnu-library/4.0 (first element of .libPaths()).
> An older version of lattice was in /usr/lib/R/library (last element of
> .libPaths()).
>
> install.packages("lattice", lib = "/usr/lib/R/library") solved the problem.
>
> So it looks like rcmdcheck ignored the first element of .libPaths(). I'm
> not sure if that is a bug of rcmdcheck. Shall I report an issue?
>
> Best regards,
>
> Thierry
>
> ir. Thierry Onkelinx
> Statisticus / Statistician
>
> Vlaamse Overheid / Government of Flanders
> INSTITUUT VOOR NATUUR- EN BOSONDERZOEK / RESEARCH INSTITUTE FOR NATURE AND
> FOREST
> Team Biometrie & Kwaliteitszorg / Team Biometrics & Quality Assurance
> thierry.onkelinx using inbo.be
> Havenlaan 88 bus 73, 1000 Brussel
> www.inbo.be
>
> ///////////////////////////////////////////////////////////////////////////////////////////
> To call in the statistician after the experiment is done may be no more
> than asking him to perform a post-mortem examination: he may be able to say
> what the experiment died of. ~ Sir Ronald Aylmer Fisher
> The plural of anecdote is not data. ~ Roger Brinner
> The combination of some data and an aching desire for an answer does not
> ensure that a reasonable answer can be extracted from a given body of data.
> ~ John Tukey
> ///////////////////////////////////////////////////////////////////////////////////////////
>
> <https://www.inbo.be>
>
>
> Op ma 8 mrt. 2021 om 17:28 schreef Gábor Csárdi <csardi.gabor using gmail.com>:
>
> > Hi,
> >
> > If you think this is a bug in rcmdcheck, then please report an issue
> > here: https://github.com/r-lib/rcmdcheck/issues
> >
> > My guess is that you have another version of lattice in another
> > library, and that version is used with `--as-cran`.
> >
> > Gabor
> >
> > On Mon, Mar 8, 2021 at 5:18 PM Thierry Onkelinx
> > <thierry.onkelinx using inbo.be> wrote:
> > >
> > > Dear all,
> > >
> > > rcmdcheck::rcmdcheck() runs fine on my package.
> > rcmdcheck::rcmdcheck(args
> > > = c("--as-cran")) reports an error: package ‘lattice’ was installed
> > before
> > > R 4.0.0: please re-install it
> > > The error persists, even when I reinstall lattice.
> > >
> > > What am I missing?
> > >
> > > Best regards,
> > >
> > > Thierry
> > >
> > > sessioninfo::session_info("lattice")
> > > ─ Session info
> > >
> > ────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
> > >  setting  value
> > >  version  R version 4.0.4 (2021-02-15)
> > >  os       Ubuntu 18.04.5 LTS
> > >  system   x86_64, linux-gnu
> > >  ui       RStudio
> > >  language nl_BE:nl
> > >  collate  nl_BE.UTF-8
> > >  ctype    nl_BE.UTF-8
> > >  tz       Europe/Brussels
> > >  date     2021-03-08
> > >
> > > ─ Packages
> > >
> > ────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
> > >  package * version date       lib source
> > >  lattice   0.20-41 2020-04-02 [1] CRAN (R 4.0.4)
> > >
> > >
> > > ir. Thierry Onkelinx
> > > Statisticus / Statistician
> > >
> > > Vlaamse Overheid / Government of Flanders
> > > INSTITUUT VOOR NATUUR- EN BOSONDERZOEK / RESEARCH INSTITUTE FOR NATURE
> > AND
> > > FOREST
> > > Team Biometrie & Kwaliteitszorg / Team Biometrics & Quality Assurance
> > > thierry.onkelinx using inbo.be
> > > Havenlaan 88 bus 73, 1000 Brussel
> > > www.inbo.be
> > >
> > >
> > ///////////////////////////////////////////////////////////////////////////////////////////
> > > To call in the statistician after the experiment is done may be no more
> > > than asking him to perform a post-mortem examination: he may be able to
> > say
> > > what the experiment died of. ~ Sir Ronald Aylmer Fisher
> > > The plural of anecdote is not data. ~ Roger Brinner
> > > The combination of some data and an aching desire for an answer does not
> > > ensure that a reasonable answer can be extracted from a given body of
> > data.
> > > ~ John Tukey
> > >
> > ///////////////////////////////////////////////////////////////////////////////////////////
> > >
> > > <https://www.inbo.be>
> > >
> > >         [[alternative HTML version deleted]]
> > >
> > > ______________________________________________
> > > R-package-devel using r-project.org mailing list
> > > https://stat.ethz.ch/mailman/listinfo/r-package-devel
> >
>
>         [[alternative HTML version deleted]]
>
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