Last updated on 2024-11-08 00:50:06 CET.
| Package | ERROR | NOTE | OK |
|---|---|---|---|
| hhh4contacts | 13 | ||
| polyCub | 3 | 10 | |
| surveillance | 1 | 8 | 4 |
Current CRAN status: OK: 13
Current CRAN status: NOTE: 3, OK: 10
Version: 0.9.1
Check: Rd cross-references
Result: NOTE
Found the following Rd file(s) with Rd \link{} targets missing package
anchors:
coerce-sp-methods.Rd: SpatialPolygons-class, Polygons-class,
Polygon-class
plot_polyregion.Rd: SpatialPolygons-class, Polygons-class,
Polygon-class
plotpolyf.Rd: SpatialPolygons-class, Polygons-class, Polygon-class
polyCub.Rd: SpatialPolygons-class, Polygons-class, Polygon-class
polyCub.SV.Rd: SpatialPolygons-class, Polygons-class, Polygon-class
polyCub.iso.Rd: SpatialPolygons-class, Polygons-class, Polygon-class
polyCub.midpoint.Rd: SpatialPolygons-class
xylist.Rd: Polygons-class, Polygon-class, SpatialPolygons-class
Please provide package anchors for all Rd \link{} targets not in the
package itself and the base packages.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-windows-x86_64
Current CRAN status: ERROR: 1, NOTE: 8, OK: 4
Version: 1.24.0
Check: tests
Result: ERROR
Running ‘tinytest.R’ [22s/25s]
Running the tests in ‘tests/tinytest.R’ failed.
Complete output:
> ### "lazy" transition from "testthat" to "tinytest"
> ### Copyright (C) 2020-2022 Sebastian Meyer
>
> if (!requireNamespace("tinytest", quietly = TRUE)
+ || packageVersion("tinytest") < "1.2.4") {
+ message("this test suite requires package 'tinytest' (>= 1.2.4)")
+ q("no")
+ }
>
> ## provide simple replacement for test_that() expectation bundles
> test_that <- function (desc, code) {
+ eval(substitute(code), new.env(parent = parent.frame()))
+ invisible()
+ }
>
> ## show warnings as they appear
> options(warn = 1)
>
> ## we use verbose = 1 to print_status() only after each test file,
> ## not after each expression (verbose = 2)
> tinytest::test_package("surveillance", testdir = "testthat", verbose = 1)
Loading required package: sp
Loading required package: xtable
This is surveillance 1.24.0; see 'package?surveillance' or
https://surveillance.R-Forge.R-project.org/ for an overview.
test-algo.glrnb.R............. 1 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.1s<1b>[0m
test-bodaDelay.R.............. 29 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.2s<1b>[0m
test-calibration.R............ 9 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.2s<1b>[0m
test-createLambda.R........... 17 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.5s<1b>[0m
test-determineSources.R....... 3 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.2s<1b>[0m
test-earsC.R.................. 9 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.2s<1b>[0m
test-farringtonFlexible.R..... 55 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m1.9s<1b>[0m
test-formatDate.R............. 9 tests <1b>[0;31m1 fails<1b>[0m <1b>[0;36m15ms<1b>[0m
Loading required namespace: numDeriv
test-hhh4+derivatives.R....... 28 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m5.3s<1b>[0m
test-hhh4_ARasNE.R............ 4 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.1s<1b>[0m
test-hhh4_NA.R................ 13 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.2s<1b>[0m
test-hhh4_NegBinGrouped.R..... 8 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m4.3s<1b>[0m
test-hhh4_offsets.R........... 10 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.1s<1b>[0m
test-hhh4_weights.R........... 4 tests <1b>[0;32mOK<1b>[0m <1b>[0;36m20ms<1b>[0m
test-nbOrder.R................ 2 tests <1b>[0;32mOK<1b>[0m <1b>[0;36m3ms<1b>[0m
test-plapply.R................ 1 tests <1b>[0;32mOK<1b>[0m <1b>[0;36m57ms<1b>[0m
'F' vs. cubature using method = "midpoint" ... TRUE
'Fcircle' vs. cubature using method = "midpoint" ... TRUE
'deriv' vs. numerical derivative ... TRUE
'Deriv' vs. cubature using method = "midpoint" ... TRUE
'F' vs. cubature using method = "SV" ... TRUE
'Fcircle' vs. cubature using method = "SV" ... TRUE
'deriv' vs. numerical derivative ... TRUE
'Deriv' vs. cubature using method = "SV" ... TRUE
'F' vs. cubature using method = "SV" ... TRUE
'Fcircle' vs. cubature using method = "SV" ... TRUE
'deriv' vs. numerical derivative ... TRUE
'Deriv' vs. cubature using method = "SV" ... TRUE
'F' vs. cubature using method = "SV" ... TRUE
'Fcircle' vs. cubature using method = "SV" ... TRUE
'deriv' vs. numerical derivative ... TRUE
'Deriv' vs. cubature using method = "SV" ...
siaf parameter 1: TRUE
siaf parameter 2: TRUE
'F' vs. cubature using method = "SV" ... TRUE
'Fcircle' vs. cubature using method = "SV" ... TRUE
'deriv' vs. numerical derivative ... TRUE
'Deriv' vs. cubature using method = "SV" ... TRUE
'F' vs. cubature using method = "midpoint" ... TRUE
'Fcircle' vs. cubature using method = "midpoint" ... TRUE
'deriv' vs. numerical derivative ... TRUE
'Deriv' vs. cubature using method = "midpoint" ...
siaf parameter 1: TRUE
siaf parameter 2: TRUE
'F' vs. cubature using method = "SV" ... TRUE
'deriv' vs. numerical derivative ... TRUE
'Deriv' vs. cubature using method = "SV" ...
siaf parameter 1: TRUE
siaf parameter 2: TRUE
Loading required namespace: memoise
'F' vs. cubature using method = "midpoint" ... TRUE
'Fcircle' vs. cubature using method = "midpoint" ... TRUE
'deriv' vs. numerical derivative ... TRUE
'Deriv' vs. cubature using method = "midpoint" ...
siaf parameter 1: TRUE
siaf parameter 2: TRUE
siaf parameter 3: TRUE
test-siafs.R.................. 72 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m2.4s<1b>[0m
Loading required namespace: sf
test-sts.R.................... 27 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m1.2s<1b>[0m
test-tiafs.R.................. 6 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.5s<1b>[0m
test-toLatex.sts.R............ 12 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m2.5s<1b>[0m
Loading objects:
districtsD
stateD
marked point pattern of 2 types
no epidemic component in model
no numerical likelihood optimization, all parameters fixed:
h.(Intercept) h.I(start/365)
-19.86017 0.00000
Warning in twinstim(endemic = ~offset(log(popdensity)) + I(start/365), data = imdepi0, :
non-finite log-likelihood
Done.
marked point pattern of 2 types
no epidemic component in model
no numerical likelihood optimization, all parameters fixed:
h.(Intercept)
-14.8703
Done.
test-twinstim_misc.R.......... 0 tests <1b>[0;34m1.0s<1b>[0m
test-twinstim_score.R......... 6 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m1.0s<1b>[0m
----- FAILED[attr]: test-formatDate.R<53--55>
call| expect_identical(dates[at2ndChange(x, xm1)], as.Date(c("2007-01-01",
call| --> "2009-01-05", "2011-01-03")))
diff| TRUE
Error: 1 out of 325 tests failed
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 1.24.0
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘INLA’
Flavor: r-patched-linux-x86_64
Version: 1.24.1
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘INLA’
Flavors: r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64
Version: 1.24.1
Check: installed package size
Result: NOTE
installed size is 7.0Mb
sub-directories of 1Mb or more:
R 2.1Mb
doc 2.3Mb
Flavors: r-release-macos-arm64, r-release-macos-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64
Version: 1.24.0
Flags: --no-vignettes
Check: installed package size
Result: NOTE
installed size is 6.5Mb
sub-directories of 1Mb or more:
R 1.7Mb
doc 2.3Mb
Flavor: r-release-windows-x86_64
Version: 1.24.1
Flags: --no-vignettes
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: 'INLA'
Flavor: r-oldrel-windows-x86_64
Version: 1.24.1
Flags: --no-vignettes
Check: installed package size
Result: NOTE
installed size is 6.5Mb
sub-directories of 1Mb or more:
R 1.7Mb
doc 2.3Mb
Flavor: r-oldrel-windows-x86_64