Dear maintainer,
Please see the problems shown on
<https://cran.r-project.org/web/checks/check_results_nat.html>.
Please correct before 2020-09-20 to safely retain your package on CRAN.
Best,
-k
checking tests ... [35s/39s] ERROR
Running 'test-all.R' [34s/38s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
> library(testthat)
> library(nat)
Loading required package: rgl
Registered S3 method overwritten by 'nat':
method from
as.mesh3d.ashape3d rgl
Some nat functions depend on a CMTK installation. See ?cmtk and README.md for details.
Attaching package: 'nat'
The following objects are masked from 'package:base':
intersect, setdiff, union
> library(httr)
>
> # suppress RGL in headless environments (some CRAN build machines fail otherwise)
> if(!interactive())
+ Sys.setenv(RGL_USE_NULL=TRUE)
>
> # Is internet accessible?
> internet.ok = identical(
+ try(
+ status_code(
+ HEAD("http://flybrain.mrc-lmb.cam.ac.uk/", timeout(2))
+ ),
+ silent = TRUE
+ ),
+ 200L
+ )
>
> if(Sys.getenv('NOT_CRAN') == "true" && internet.ok) {
+ # note that we want to run all tests requiring internet access
+ Sys.setenv(NAT_INTERNET_TESTS="TRUE")
+ # Run all test files
+ test_check("nat")
+ } else {
+ # We're on CRAN or flybrain is inacessible, so don't run anything involving
+ # remote files
+ Sys.setenv(NAT_INTERNET_TESTS="")
+ test_check("nat", filter="^[^.]+")
+ }
adding: testdata/neuron/testneuron_am3d.am (deflated 45%)
adding: testdata/neuron/testneuron_lineset.am (deflated 69%)
adding: DA1/EBH11R.swc (deflated 53%)
adding: DA1/EBH20R.swc (deflated 54%)
adding: DA1/EBI12L.swc (deflated 54%)
adding: DL3/EBH20L.swc (deflated 54%)
adding: DL3/EBI22R.swc (deflated 53%)
-- 1. Failure: c.neuronlist behaves (@test-neuronlist.R#26) -------------------
`c(Cell07PNs[1:5], NULL)` did not throw an error.
== testthat results ===========================================================
[ OK: 787 | SKIPPED: 5 | WARNINGS: 0 | FAILED: 1 ]
1. Failure: c.neuronlist behaves (@test-neuronlist.R#26)
Error: testthat unit tests failed
Execution halted
checking for unstated dependencies in vignettes ... OK
checking package vignettes in 'inst/doc' ... OK
checking re-building of vignette outputs ... [9s/11s] OK
checking PDF version of manual ... OK
checking for non-standard things in the check directory ... OK
DONE
related to https://bugs.r-project.org/bugzilla/show_bug.cgi?id=17900