similar to: Print output during long tests?

I am the author of R package animint which uses testthat for unit tests. This means that there is a single test file (animint/tests/testthat.R) and during R CMD check we will see the following output * checking tests ... Running ?testthat.R? I run these tests on Travis, which has a policy that if no output is received after 10 minutes, it will kill the check. Because animint's testthat

Hi Toby, As Gabor pointed out the place where the various levers R CMD check supports is in the R-internals manual, but there is a link directly to that section in https://cloud.r-project.org/doc/manuals/r-release/R-exts.html#Checking-packages It could perhaps be more prominent, perhaps by moving the paragraph that appears in to before the detailed list of exact tests that are performed?

On Thu, 24 Oct 2024 13:23:56 -0400 Toby Hocking <tdhock5 at gmail.com> wrote: > The patch you are proposing to base R is > https://github.com/Rdatatable/data.table/issues/6566#issuecomment-2428912338 > right? Yes, it's this one, thank you for providing the link. Surprisingly, a very cursory check of 100 packages most downloaded from cloud.r-project.org in the last month

On 2/20/19 7:55 PM, Toby Hocking wrote: > Update: I have observed that stringi::stri_sub is linear time complexity, > and it computes the same thing as base::substring. figure > https://github.com/tdhock/namedCapture-article/blob/master/figure-substring-bug.png > source: > https://github.com/tdhock/namedCapture-article/blob/master/figure-substring-bug.R > > To me this is a

On Wed, 8 Jan 2020, I?aki Ucar wrote: > On Wed, 8 Jan 2020 at 19:21, Toby Hocking <tdhock5 at gmail.com> wrote: >> >> Hi R-core, I was wondering if somebody could please add jsslogo.jpg to the >> R sources? (as I reported yesterday in this bug) >> >> https://bugs.r-project.org/bugzilla/show_bug.cgi?id=17687 >> >> R already includes jss.cls which

Update: I have observed that stringi::stri_sub is linear time complexity, and it computes the same thing as base::substring. figure https://github.com/tdhock/namedCapture-article/blob/master/figure-substring-bug.png source: https://github.com/tdhock/namedCapture-article/blob/master/figure-substring-bug.R To me this is a clear indication of a bug in substring, but again it would be nice to have

Thanks for the quick response Ivan. readLines with encoding='latin1' works for me (on Ubuntu). However I was more concerned with the inconsistency in results between substr and regexpr. I was expecting that if one of them errors because of an unknown encoding then the other should as well. Even better, if regexpr works, why shouldn't substr work as well? Incidentally the analogous

Toby, > On Sep 2, 2015, at 1:12 PM, Toby Hocking <tdhock5 at gmail.com> wrote: > > Dear R-devel, > > I am running mclapply with many iterations over a function that modifies > nothing and makes no copies of anything. It is taking up a lot of memory, > so it seems to me like this is a bug. Should I post this to > bugs.r-project.org? > > A minimal reproducible

Well it's only a leak if you don't get the memory back after it returns, right? Anyway, one (untested by me) possibility is the copying of memory pages when the garbage collector touches objects, as pointed out by Radford Neal here: http://r.789695.n4.nabble.com/Re-R-devel-Digest-Vol-149-Issue-22-td4710367.html If so, I don't think this would be easily avoidable, but there may be

On Wed, 8 Jan 2020 at 19:21, Toby Hocking <tdhock5 at gmail.com> wrote: > > Hi R-core, I was wondering if somebody could please add jsslogo.jpg to the > R sources? (as I reported yesterday in this bug) > > https://bugs.r-project.org/bugzilla/show_bug.cgi?id=17687 > > R already includes jss.cls which is the document class file for Journal of > Statistical Software.

On Fri, 26 Jun 2020 15:57:06 -0700 Toby Hocking <tdhock5 at gmail.com> wrote: >invalid multibyte string at '<e4>gel-A<6b>iyoshi' >https://stat.ethz.ch/pipermail/r-devel/1999-November/author.html The server says that the text is UTF-8: curl -sI \ https://stat.ethz.ch/pipermail/r-devel/1999-November/author.html | \ grep Content-Type # Content-Type: text/html;

My message below sounds a little aggressive, I apologize in advance for that. But I can't think of better wording. This is a small change, which will have a small benefit, mainly for the data.table authors, who really brought it on themselves by choosing to (ab)use R extraction syntax to have side effects. Surely you or they should be the ones to run the test across all of CRAN? Duncan

thanks for your input Herv?. Glad to hear I'm not the only one still having this issue. In my opinion install.packages should stop with an error (instead of a warning) if this happens. However even if you want to keep the warning, at least make it so that users can set options(warn=2) to get an error if they want one. I tried setting options(warn=2) but for some reason I still get a warning.

Small correction to my previous email: the error can also be replicated by installing the package and then sourcing the tests. This is slightly faster than running R CMD check. It is also how we ran the tests with gdb. This will run the tests in a Docker container and raise the same error. (To run outside of a Docker container, simply leave out the first line). docker run --rm -ti pooltest

Hi Toby, AFAIK it has not been addressed in R. You can handle the problem on your package side, see https://github.com/Rdatatable/data.table/pull/3237 Regards, Jan On Thu, May 30, 2019 at 4:46 AM Toby Hocking <tdhock5 at gmail.com> wrote: > > Hi all, > > I am having an issue related to installing packages on windows with > R-3.6.0. When installing a package that is in use, I

Also note that this can lead to people not being able to load the package if the set of .Call entry points has changed between the old and new versions of the package. We strongly suspect that this is what happened to this Bioconductor user: https://support.bioconductor.org/p/121228/ Note that she's installing the binary and in this case no warning is issued. All we see is: package

Dear R-devel, I did a systematic comparison of write.csv with similar functions, and observed two asymptotic inefficiencies that could be improved. 1. write.csv is quadratic time (N^2) in the number of columns N. Can write.csv be improved to use a linear time algorithm, so it can handle CSV files with larger numbers of columns? For more details including figures and session info, please see

Hi all, I maintain the package ?qrandom? which is based on a web API. In last time the testthat tests failed because the website was down. I implemented the following code in v1.2.2 to ensure that tests are only run if the website is accessible and to avoid the CRAN checks to fail: > library(testthat) > library(qrandom) > check_qrng <- function(){ > tryCatch( >

Dear R-devel members, recently, I ran into the following error message (R-devel 2018-01-31): 'Rscript' should not be used without a path -- see par. 1.6 of the manual I would like to know more about it, why is it required to run Rscript with a path, and where is that par. 1.6 of the manual. I get this error message during Travis r-devel build of my package for generating makefiles. I

When running R CMD check on a package, we are encountering an error on R-devel (as of 72457) on Linux. Unfortunately, it is very hard to reproduce, and almost any change to the code makes the error go away. I believe that this is due to a bug in R-devel, which has been present since at least commit 72128 (on 2017-02-06). The test error occurs when R CMD check is run on Travis CI (on Ubuntu