[R-pkg-devel] Two problems with fda

[Greg Hunt]

Spencer,
For item 2: Could you have nested \code{}?

Greg

On Tue, 26 Apr 2022 at 06:06, Spencer Graves <
spencer.graves using effectivedefense.org> wrote:

> Hello, All:
>
>
>           Jim Ramsay and I have two problems with
> "https://github.com/JamesRamsay5/fda/":
>
>
>                     1. GitHub action reports, <<'"pdflatex"' not found>>
> with
> vignettes.  We have two problems with this:  (1.1) We don't know how to
> report them to the "GitHub action" maintainer(s).  (1.2) We don't know
> what in the vignettes require pdflatex, so we cannot easily remove that.
>
>
>                     2.  A CRAN submission now triggers a "win-builder"
> pretest on
> Debian, which complains, "fRegress.Rd:325:22: Warning: nested emphasis
> <code>".[1]  We have three problems with this:  (2.1) We cannot find any
> "nested emphasis" to fix in this.  (2.2) We don't know what the numbers
> "325:22" mean.  (2.3) We don't know how to run this win-builder on
> Debian other than to submit a new version to CRAN.  If we could run this
> Debian win-builder without submitting a version to CRAN, we could do a
> binary search submitting "fRegress.Rd" that we would not want to share
> with users but would still pass "R CMD build / check" for us locally
> until we isolated the problem.
>
>
>           Suggestions?
>           Thanks,
>           Spencer Graves
>
>
> [1]
>
> https://win-builder.r-project.org/incoming_pretest/fda_6.0.2_20220422_184836/Debian/00check.log
>
>
> -------- Forwarded Message --------
> Subject:        Fwd: [CRAN-pretest-archived] CRAN Submission fda 6.0.2
> Date:   Fri, 22 Apr 2022 18:13:56 +0000
> From:   James Owen Ramsay, Dr. <james.ramsay using mcgill.ca>
> To:     Spencer Graves <spencer.graves using effectivedefense.org>
>
>
>
> Rejection email:
>
> Jim Ramsay
> james.ramsay using mcgill.ca <mailto:james.ramsay using mcgill.ca>
>
>
>
> > Begin forwarded message:
> >
> > *From: *ligges using statistik.tu-dortmund.de
> > <mailto:ligges using statistik.tu-dortmund.de>
> > *Subject: **[CRAN-pretest-archived] CRAN Submission fda 6.0.2*
> > *Date: *April 22, 2022 at 1:01:55 PM EDT
> > *To: *ramsay using psych.mcgill.ca <mailto:ramsay using psych.mcgill.ca>
> > *Cc: *CRAN-submissions using R-project.org
> > <mailto:CRAN-submissions using R-project.org>
> > *Reply-To: *CRAN-submissions using R-project.org
> > <mailto:CRAN-submissions using R-project.org>
> >
> > Dear maintainer,
> >
> > package fda_6.0.2.tar.gz does not pass the incoming checks
> > automatically, please see the following pre-tests:
> > Windows:
> > <
> https://win-builder.r-project.org/incoming_pretest/fda_6.0.2_20220422_184836/Windows/00check.log
> > <
> https://win-builder.r-project.org/incoming_pretest/fda_6.0.2_20220422_184836/Windows/00check.log
> >>
> > Status: OK
> > Debian:
> > <
> https://win-builder.r-project.org/incoming_pretest/fda_6.0.2_20220422_184836/Debian/00check.log
> > <
> https://win-builder.r-project.org/incoming_pretest/fda_6.0.2_20220422_184836/Debian/00check.log
> >>
> > Status: 1 NOTE
> >
> > Last released version's CRAN status: OK: 12
> > See: <https://CRAN.R-project.org/web/checks/check_results_fda.html
> > <https://CRAN.R-project.org/web/checks/check_results_fda.html>>
> >
> > CRAN Web: <https://cran.r-project.org/package=fda
> > <https://cran.r-project.org/package=fda>>
> >
> > Please fix all problems and resubmit a fixed version via the webform.
> > If you are not sure how to fix the problems shown, please ask for help
> > on the R-package-devel mailing list:
> > <https://stat.ethz.ch/mailman/listinfo/r-package-devel
> > <https://stat.ethz.ch/mailman/listinfo/r-package-devel>>
> > If you are fairly certain the rejection is a false positive, please
> > reply-all to this message and explain.
> >
> > More details are given in the directory:
> > <
> https://win-builder.r-project.org/incoming_pretest/fda_6.0.2_20220422_184836/
> > <
> https://win-builder.r-project.org/incoming_pretest/fda_6.0.2_20220422_184836/
> >>
> > The files will be removed after roughly 7 days.
> >
> > *** Strong rev. depends ***: adass anacor BayesOrdDesign CausalKinetiX
> > CCA cfda clustEff CollocInfer Compack conformalInference.fd CSTE
> > ctmcmove cyphid dfrr dynr EBCHS Ecfun ExtremalDep FADPclust fda.usc
> > fdaACF fdaMocca fdANOVA fdatest FDRreg flars freqdom.fda ftsa
> > funcharts FuncNN funFEM funHDDC funLBM geofd GPFDA iWISA KFPCA LocKer
> > logitFD mar1s mixedClust MRmediation mxnorm NITPicker pcdpca pCODE
> > pencopulaCond pendensity penDvine PerFit pfica puls PupillometryR
> > quantreg.nonpar refund Rfssa robCompositions Rsfar sasfunclust SCCS
> > sde sft slasso SLFPCA srp stfit switchnpreg T4cluster TestGardener
> > trackeR vows warpMix
> >
> > Best regards,
> > CRAN teams' auto-check service
> > Flavor: r-devel-linux-x86_64-debian-gcc, r-devel-windows-x86_64
> > Check: CRAN incoming feasibility, Result: Note_to_CRAN_maintainers
> >  Maintainer: 'J. O. Ramsay <ramsay using psych.mcgill.ca
> > <mailto:ramsay using psych.mcgill.ca>>'
> >
> > Flavor: r-devel-linux-x86_64-debian-gcc
> > Check: HTML version of manual, Result: NOTE
> >  Found the following problems:
> >  fRegress.Rd:325:22: Warning: nested emphasis <code>
>
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