[R-pkg-devel] CRAN submission struggle
Christiaan Pieterse
p|et|e@cjp@1908 @end|ng |rom gm@||@com
Sat Jan 6 12:50:49 CET 2024
Good day
I think I finally have a final package that only yields the expected 'New
submission' note.
The package is available at:
https://github.com/WoutersResearchGroup/R-IO-PS/tree/CRAN-prep.
Is there a way to confirm that this package is ready for submission?
I submitted it to https://win-builder.r-project.org/ and
https://mac.r-project.org/macbuilder/submit.html and
https://builder.r-hub.io/. All of these seem to only show the expected new
submission note.
I see the CRAN package submission web form is unavailable until the 8th, so
any confirmation that my package should be fine for submission would be
appreciated.
Thank you
Christiaan
On Tue, 2 Jan 2024 at 14:59, Uwe Ligges <ligges using statistik.tu-dortmund.de>
wrote:
>
>
> On 29.12.2023 09:13, Greg Hunt wrote:
> > Christaan,
> > The elapsed time note is because CRAN expects that examples will be
> > configured to run single threaded and some package that you use, or a
> > package used by a package that you use is multi-threading by default and
> > using more CPU time than clock time. If you cannot figure out how to
> > reconfigure the multi-threaded package, a number of people have found
> that
> > the simplest thing to do is disable running the example (which reduces
> the
> > effective test coverage provided by the example).
>
>
> No and no:
>
> 1.
> user system elapsed
> IOPS 10.06 3.35 35.04
>
> suggests that either the machines this ran on is heavily loaded (so that
> elapsed >> user) or something is waiting like some internet access. [For
> multithreading it would be user > elapsed.]
>
> 2. The solution is not to exclude examples ebtirely, as we need runtime
> checks.
>
> For internet access: Set a timeout and let the exampe fail gracefully in
> case web access takes more than, e.g., 2. sec.
>
> In general: Please reduce each example to less than 5 sec.
>
> So use small toy examples. If you really want to add rel world examples
> that may take longer, then add them in addition to toy examples and wrap
> in \donttest{}.
>
> Best,
> Uwe Ligges
>
>
>
>
>
>
>
>
> >
> > I haven’t encountered the miktex exception file before but i suspect its
> a
> > side effect of a miktex error. Packages should not leave files behind in
> > the temp directory. If you expect a miktex error you need to remove the
> > file. If you don’t you need to track down and fix or work around the bug.
> > The build process is really a quality check on your package.
> >
> > Greg
> >
> > On Fri, 29 Dec 2023 at 3:01 am, Christiaan Pieterse <
> > pietie.cjp.1908 using gmail.com> wrote:
> >
> >> Hi,
> >>
> >> Thank you for showing the difference in the ExampleTradeData. I've fixed
> >> this by adding a .Gitignore file and a "data-raw" folder to load the
> >> ExampleTradeData. I hope I did this correctly. When I check the package
> (
> >> https://github.com/WoutersResearchGroup/R-IO-PS/tree/CRAN-prep) in
> >> RStudio.
> >> I only get 3 notes (see below), and if I run it in PositCloud, it
> crashes
> >> or yields the same 1 ERROR and 2 NOTES result as before. Why might this
> be?
> >> Is it a problem or is it fine if I continue working in RStudio since I
> >> cannot increase the specs in PositCloud because I'm working on a
> research
> >> group account?
> >>
> >> Here are the 3 notes I receive in RStudio:
> >>
> >> The first is the expected New Submission Note.
> >>
> >> The second is the runtime that is too long:
> >> * checking examples ... [43s] NOTE
> >> Examples with CPU (user + system) or elapsed time > 5s
> >> user system elapsed
> >> IOPS 10.06 3.35 35.04
> >> How can I reduce this time? I'm not sure how to reduce the size of my
> >> ExampleTradeData without the check giving errors when running the
> example.
> >>
> >> The third note I am unsure what it means:
> >> * checking for detritus in the temp directory ... NOTE
> >> Found the following files/directories:
> >> 'lastMiKTeXException'
> >>
> >> Kind regards
> >> Christiaan
> >>
> >> On Thu, 28 Dec 2023 at 15:55, Ivan Krylov <krylov.r00t using gmail.com>
> wrote:
> >>
> >>> Hi Christiaan,
> >>>
> >>> В Thu, 28 Dec 2023 14:57:55 +0200
> >>> Christiaan Pieterse <pietie.cjp.1908 using gmail.com> пишет:
> >>>
> >>>> Still, I couldn't figure out why I ran into this problem, so I
> >>>> created a test file called "Test Example.R" (available at the same
> >>>> GitHub repository:
> >>>> https://github.com/WoutersResearchGroup/R-IO-PS/tree/CRAN-prep).
> >>>
> >>> I see you're always adding or updating files to the GitHub repo by
> >>> means of uploading. While that's certainly one way to use GitHub, it's
> >>> combines the least convenient aspects of two approaches to using
> GitHub.
> >>>
> >>> With GitHub purely in the browser, GitHub is just a website where you
> >>> keep and edit code, running nothing else on the local computer. Code
> >>> can be run in Codespaces or using GitHub Actions. Microsoft will want
> >>> to be paid money to run code on their computers.
> >>>
> >>> With GitHub as a Git remote, there is a local checkout [*] that's kept
> >>> in sync with GitHub by means of commits [**] and pushes [***], letting
> >>> you create meaningful, describable snapshots of changes in your code
> >>> spanning multiple files at the same time.
> >>>
> >>> Right now, it probably feels like Dropbox but worse.
> >>>
> >>>> This file creates the function in the global environment (note that
> >>>> this is the same function code as available in the package
> >>>> "R/iopspackage2.0.R" file), and then runs this function with the same
> >>>> example as in the package (If you want to try this yourself, just
> >>>> load the data/ExampleTradeData.rda in before running the Test Example
> >>>> file). This test file yields no errors when I run it and produces the
> >>>> correct results. When I then proceed to build and check the package,
> >>>> it yields the same example error as before. I do not understand why
> >>>> or what could cause this issue.
> >>>
> >>> The difference is in the ExampleTradeData variable, which "Test
> >>> Example.R" doesn't define.
> >>>
> >>> With data(ExampleTradeData), the script works.
> >>>
> >>> With ExampleTradeData <-
> >>>
> >>>
> >>
> read.csv(system.file("extdata","ExampleTradeData.csv",package="iopspackage")),
> >>> the script fails exactly the same way as example(IOPS) does.
> >>>
> >>>> I'm not sure if I should send out another email to the developers to
> >>>> see if someone else spots something I'm not seeing.
> >>>
> >>> It may help to keep Cc: r-package-devel using r-project.org in the e-mails
> >>> for the search engines to index the potential solutions in the mailing
> >>> list archives.
> >>>
> >>> --
> >>> Best regards,
> >>> Ivan
> >>>
> >>> [*]
> >>> https://git-scm.com/book/en/v2/Git-Basics-Getting-a-Git-Repository
> >>>
> >>> [**]
> >>>
> >>>
> >>
> https://git-scm.com/book/en/v2/Git-Basics-Recording-Changes-to-the-Repository
> >>>
> >>> [***]
> >>> https://git-scm.com/book/en/v2/Git-Basics-Working-with-Remotes
> >>>
> >>
> >> [[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]]
> >
> > ______________________________________________
> > R-package-devel using r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/r-package-devel
>
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