[Rd] Test suite failures in R-devel_2017-02-25_r72256
Prof Brian Ripley
ripley at stats.ox.ac.uk
Wed Mar 1 08:35:32 CET 2017
On 27/02/2017 09:30, Peter Simons wrote:
> I tried compiling the latest pre-release for R 3.3.3 for the NixOS Linux
> distribution , but the build fails during the "make check" phase
> because of the following 2 issues:
Hmm, R-devel (your subject line) is not a pre-release of R 3.3.3: it is
'R Under development' for what is planned as R 3.4.0. Pre-release
tarballs for 3.3.3 are things like R-rc_2017-02-26_r72260.tar.gz (and
were previously labelled R-beta).
Your first point only occurs in R-devel, and was something already
reported and under investigation. Note that test does not actually
depend on network access: it depends on having an accessible CRAN
mirror. The latter could be local (and is on the CRAN check farm, for
example). So we have been working on a more sophisticated condition to
run that test.
There are lots of possible check environments: it is very time-consuming
to check them all and reasonable coverage is only attempted once a
pre-release reaches 'alpha' status -- 3.4.0 has not done so but is
planned to be in late March.
I have just re-checked on Linux, and R 3.3.3 RC passed its checks
without Internet access (which is checked for where needed).
I also re-checked 3.3.3 RC without recommended packages and got the
expected messages about incomplete testing but no failures except in
'make check-recommended' (expected!).
Our posting guide does ask you to include the output of sessionInfo():
that would have avoided the version confusion (and might even have
alerted you to it).
> 1) The "tools" test in "tests/Examples" requires network access, which
> it doesn't have in our build environment. Therefore, it fails as
> follows according to "tools-Ex.Rout.fail":
> | [...]
> | > set.seed(11)
> | > ## End(Don't show)
> | > pdb <- CRAN_package_db()
> | Warning in url(sprintf("%s/%s", cran, path), open = "rb") :
> | URL 'http://CRAN.R-project.org/web/packages/packages.rds': status was 'Couldn't resolve host name'
> | Error in url(sprintf("%s/%s", cran, path), open = "rb") :
> | cannot open the connection to 'http://CRAN.R-project.org/web/packages/packages.rds'
> | Calls: CRAN_package_db -> as.data.frame -> read_CRAN_object -> gzcon -> url
> | Execution halted
> I'm wondering whether it would be possible to extend the test suite
> with a configure-time flag that disable tests which depend on network
> access? My experience is that most modern Linux distributions run
> their builds in a restricted environment and therefore will run into
> trouble if the suite assumes that it can access the Internet.
> 2) When R is compiled with the --without-recommended-packages flag
> (which is our preferred configuration), the "base" test in
> "tests/Examples" fails, apparently because it depends on MASS. I'm
> citing from "base-Ex.Rout.fail":
> | > ## The string "foo" and the symbol 'foo' can be used interchangably here:
> | > stopifnot( identical(isNamespaceLoaded( "foo" ), FALSE),
> | + identical(isNamespaceLoaded(quote(foo)), FALSE),
> | + identical(isNamespaceLoaded(quote(stats)), statL))
> | >
> | > hasM <- isNamespaceLoaded("MASS") # (to restore if needed)
> | > Mns <- asNamespace("MASS") # loads it if not already
> | Error in loadNamespace(name) : there is no package called 'MASS'
> | Calls: asNamespace ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous>
> | Execution halted
> I hope this helps!
> Best regards,
>  http://nixos.org/
> R-devel at r-project.org mailing list
Brian D. Ripley, ripley at stats.ox.ac.uk
Emeritus Professor of Applied Statistics, University of Oxford
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