[R-pkg-devel] Fwd: [CRAN-pretest-archived] CRAN submission vioplot 0.3.0

Hong Ooi hongooi @ending from micro@oft@com
Wed Dec 26 15:38:53 CET 2018

Just a few comments:

- Given vioplot 0.2 is 12 years old, I wouldn't be TOO concerned with backward compatibility. I wouldn't ignore it either, but if I had to choose, I'd go for modern idioms over ensuring that everything works exactly the same.

- You don't need to keep HTML versions of the vignettes in the repo. They'll be built automatically from the Rmd files when you run install.packages("vioplot"). Also, if size is an issue, you can set output: rmarkdown::html_vignette instead of rmarkdown::html_document which reduces the output size considerably.

- Using attach() to evaluate a formula in the context of a data frame should never be necessary; use model.frame(*, data=df) or eval(*, envir=df). That said, I didn't see any uses of attach in the repo, so presumably you've already fixed this.

- BSD is a very permissive license. While I'm not a lawyer, I don't think there would be any conflicts if you changed it to, say, the MIT license which is also very permissive.

-----Original Message-----
From: R-package-devel <r-package-devel-bounces using r-project.org> On Behalf Of Tom Kelly
Sent: Wednesday, 26 December, 2018 7:01 PM
To: CRAN-submissions using r-project.org; r-package-devel using r-project.org
Subject: [R-pkg-devel] Fwd: [CRAN-pretest-archived] CRAN submission vioplot 0.3.0

Dear CRAN maintainers and R package developers,

I am still interested in submitting this update to the "vioplot" package. I would like to revisit the idea to update this package on CRAN. I think the changes that I've made here would be useful to a significant number of R users.

I am submitting to take over as maintainer as this package has been orphaned for years. I will of course take measures to attribute the original author and preserve the original LICENSE.

This is a major update with many additional features. This includes fine control over plotting parameters and formula inputs with documentation on these parameters. I've added tests and vignettes showing that these work.
However, it does not pass automated checks such as the LICENSE since some aspects of the original package are very outdated (the additional NOTEs from the CRAN checks were due to the outdated LICENSE and not being the current maintainer). Thus a manual review would be required. Otherwise, I have taken every measure I think is possible to reduce the number of errors from automated checks and ensure backwards compatibility. These additional features can be pushed to the repo without disrupting the behaviour of any existing scripts or packages calling this function.

I realise that the files may since been removed and I would need to resubmit if it is possible. These can be found at the following GitHub repo:


Kind regards,

Tom Kelly

---------- Forwarded message ---------
From: Tom Kelly <tomkellygenetics using gmail.com>
Date: Sun, Feb 25, 2018 at 10:33 AM
Subject: Re: [CRAN-pretest-archived] CRAN submission vioplot 0.3.0
To: <CRAN-submissions using r-project.org>
Cc: Tom Kelly <tom.kelly using postgrad.otago.ac.nz>

Dear CRAN team,

I have documented the NOTE issues in a cran-comments.md file. I think some of these are unavoidable as stated in this file. In particular, some issues with automated checks may arise due to legacy code and meta-data for compatibility with vioplot 0.2 (last updated in 2005). Please notice that many of the checks failed by the original package vioplot 0.2 have been resolved with this release. In addition, this supports range of added features and input methods consistent with similar plotting functions while preserving backwards-compatibility.

Due to the proposal to take over as maintainer of an orphaned package, I request that this submission be reviewed manually. Sorry for the inconvenience, I will do my best to resolve any further issues that should arise.

Kind Regards,

Tom Kelly

On Sun, Feb 25, 2018 at 12:34 AM, <Uwe.Ligges using r-project.org> wrote:

> Dear maintainer,
> package vioplot_0.3.0.tar.gz does not pass the incoming checks 
> automatically, please see the pre-test at:
> <
> https://win-builder.r-project.org/incoming_pretest/180224_163015_viopl
> ot_030/00check.log
> >
> Status: 5 NOTEs
> Current CRAN status: NOTE: 12
> See: 
> <https://CRAN.R-project.org/web/checks/check_results_vioplot.html>
> 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>
> 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/180224_163015_viopl
> ot_030
> >
> The files will be removed after roughly 7 days.
> Strong rev. depends: parviol regplot
> Best regards,
> CRAN teams' auto-check service

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