[R-pkg-devel] R CMD Check: Tests running infinite

I don't think it is specific for testthat. R CMD check sets R_TESTS when it
runs the tests, so the separate R process it starts can have some special
startup options.

The problem happens if you start another R process from your R test, and
then R_TESTS confuses this process. (I am not sure how exactly.)

A lot of packages have to work around this:
https://github.com/search?q=user%3Acran+R_TESTS&type=Code

Most of these use testthat, but not all of them.

Gabor

On Mon, Feb 6, 2017 at 2:17 AM, Henrik Bengtsson
<henrik.bengtsson at gmail.com> wrote:

In case someone else bumps into this later and finds this thread; can
you confirm that this was a problem specific to using the testthat
package for running the tests?

/Henrik

On Sun, Feb 5, 2017 at 11:28 AM, Patrick Schratz
<patrick.schratz at gmail.com> wrote:

@gaborcsardi solved it :) See here:
https://github.com/hadley/testthat/issues/567#issuecomment-277536577


2017-02-05 16:07 GMT+01:00 Patrick Schratz <patrick.schratz at gmail.com>:

Thanks for the hint, Hendrik!
However, this change did not make a difference :/

I tried to use all cluster closing functions I came across but tests
are
still running infinite..

cl <- makeCluster(par.args$par.units, outfile = out.progress)
registerDoParallel(cl)

foreach()

parallel::stopCluster(cl)
doParallel::registerDoSEQ()
doParallel::stopImplicitCluster()

2017-02-05 15:04 GMT+01:00 Henrik Bengtsson
<henrik.bengtsson at gmail.com>:

Use

  registerDoParallel(cl)

The number of parallel workers is already contained in the 'cl'
object,
so don't specify 'cores'!  (If you do that, I suspect you create yet
another
cluster (a multicore one) which is used but never closed)

registerDoParallel() should ideally give an error in your case. Author
BCC:ed.

Henrik

On Feb 5, 2017 03:56, "Patrick Schratz" <patrick.schratz at gmail.com>
wrote:

Dear Uwe,

thanks for the hint. My cluster is closed after the `foreach`call
using
`stopCluster()`.

Before, I?ll do the following to init the cluster:

*cl <- makeCluster(par.args$par.units, outfile = out.progress)*
*registerDoParallel(cl, cores = par.args$par.units)*

*foreach()*

*stopCluster(cl)*


Do you know of any other package which is using foreach in
combination
with
tests and is hosted on Github? So I could compare settings.

Best, Patrick

2017-02-02 0:01 GMT+01:00 Uwe Ligges
<ligges at statistik.tu-dortmund.de>:

Check whether the parallel cluster is closed. Can it be that the
cluster
is still open and the check process waits for them to complete?

Best,
Uwe Ligges



On 31.01.2017 13:45, Patrick Schratz wrote:

Hello,

when running R CMD check / devtools::check, section "running
tests..." is
not finishing (40 min+).

*Checking tests only works:*

*==> Sourcing R files in 'tests' directory*

*testthat results
================================================================*
*OK: 7 SKIPPED: 0 FAILED: 0*

*Tests complete*


As well as running tests line-by-line.

How can I debug my tests to discover the problem during R CMD
check?

*Tests are using parallelization (foreach + doParallel)*

Best, Patrick

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