[R-pkg-devel] vignette via devtools: sometimes found, sometimes not (same package)

Tue Apr 17 10:42:48 CEST 2018

Dear Alex,

Have a look at drat
(http://eddelbuettel.github.io/drat/DratForPackageAuthors.html). This
makes it easier to distribute prepackaged R packages (including When
you uploaded a new version, then the student would only have to do
drat::addRepo("your_repo") and then install.pakages("LM2GLMM") or
update.packages()

Best regards,

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 at inbo.be
Havenlaan 88 bus 73, 1000 Brussel
www.inbo.be

///////////////////////////////////////////////////////////////////////////////////////////
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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
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not ensure that a reasonable answer can be extracted from a given body
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2018-04-16 19:38 GMT+02:00 Alexandre Courtiol <alexandre.courtiol at gmail.com>:
> Re,
>
> On 16 April 2018 at 17:35, Georgi Boshnakov <
> georgi.boshnakov at manchester.ac.uk> wrote:
>
>> Hi,
>>
>> The problem is indeed difficult to debug but there are things that can be
>> done to narrow it down.
>>
>> 1. Are there 1/3 unlucky computers fixed? (I.e does the problem occur
>> always on the same computers) Also, do you really mean computer or user?
>>
>
> Yes, I mean computer, not user.
>
>>
>> 2. Are the students working under R studio? If so, does the same problem
>> appear if the same procedure is run outside R studio.
>>
>
> I will try tomorrow (but from memory I think the answer will be yes).
>
>>
>> 3. Further to 2.,  You mention development mode - do (some) students also
>> have a copy of your repository? This may be aproblem if they don't update
>> it too.
>>
>
> No, only me has the devel version.
>
>>
>> 4. What happens if R is restarted?
>
>
> I will try tomorrow (but I think the answer will be nothing).
>
>
>> 5. It may be worth checking .Rprofle and similar for the concerned
>> computers (or users, see 1.)
>>
>
> I will try as well but most had a fresh install and did not mess with
> settings.
>
>>
>> Hope this is of some help.
>>
>
> I will look at all this and also gather the session infos as Ben suggested.
> I think I know how to proceed to get to the bottom of that, but I was just
> hoping that the problem was already well known and the answer as well...
> If it is for anyone, please reply. Otherwise, I will investigate.
> Thanks to everyone.
> Alex
>
>
>>
>>
>>  Georgi Boshnakov
>>
>>
>> ________________________________________
>> From: R-package-devel [r-package-devel-bounces at r-project.org] on behalf
>> of Alexandre Courtiol [alexandre.courtiol at gmail.com]
>> Sent: 16 April 2018 14:40
>> To: List r-package-devel
>> Subject: [R-pkg-devel] vignette via devtools: sometimes found, sometimes
>> not (same package)
>>
>> Dear all,
>> I am teaching a class and for that I created a R package that mostly
>> contains vignettes (the slides of the course).
>> I host the package on GitHub because I want the students to download every
>> day the latest version of the package.
>> Building the vignettes takes a couple of hours so I pre-build the vignettes
>> using devtools::build_vignettes before pushing my updates to GitHub.
>> The student install the package using
>> devtools::install_github("courtiol/LM2GLMM").
>> Then, they do library(LM2GLMM) and browseVignettes(package = "LM2GLMM")...
>>
>> ... and that works on 2/3 of the computers, for the others it says
>> vignettes not found.
>>
>> Any idea why and what can I do to make it 100% success?
>> Of course on my laptop it works, so I cannot investigate.
>> Also, since they all use different versions of R, devtools or OS... I would
>> like to know the one thing that must be changed if it comes from that (but
>> I am not sure it does).
>>
>> I have added a back up function that works for the 1/3 of unfortunate
>> students:
>>
>> get_vignettes <- function() {
>>   utils::browseURL(paste0(find.package("LM2GLMM"), "/doc/")) ## for
>> installed
>>   utils::browseURL(paste0(find.package("LM2GLMM"), "/inst/doc/")) ## for
>> development
>>   return(invisible(NULL))
>> }
>>
>> This functions opens de vignette folder and that shows that all the
>> students actually have the html files installed correctly. But it is ugly
>> because then they have to find the good html file and so forth, so I would
>> rather have a better solution.
>>
>> Many thanks,
>>
>> Alex
>>
>> --
>> Alexandre Courtiol
>>
>> http://sites.google.com/site/alexandrecourtiol/home
>>
>> *"Science is the belief in the ignorance of experts"*, R. Feynman
>>
>>         [[alternative HTML version deleted]]
>>
>> ______________________________________________
>> R-package-devel at r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/r-package-devel
>>
>
>
>
> --
> Alexandre Courtiol
>
> http://sites.google.com/site/alexandrecourtiol/home
>
> *"Science is the belief in the ignorance of experts"*, R. Feynman
>
>         [[alternative HTML version deleted]]
>
> ______________________________________________
> R-package-devel at r-project.org mailing list
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