Last updated on 2024-11-05 03:49:49 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.24.0 | 39.57 | 441.63 | 481.20 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.24.0 | 27.39 | 299.03 | 326.42 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 1.24.0 | 819.32 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 1.24.0 | 763.93 | ERROR | |||
| r-devel-windows-x86_64 | 1.24.0 | 47.00 | 362.00 | 409.00 | OK | --no-vignettes |
| r-patched-linux-x86_64 | 1.24.0 | 46.04 | 414.85 | 460.89 | NOTE | |
| r-release-linux-x86_64 | 1.24.0 | 36.99 | 417.77 | 454.76 | NOTE | |
| r-release-macos-arm64 | 1.24.0 | 229.00 | NOTE | |||
| r-release-macos-x86_64 | 1.24.0 | 396.00 | NOTE | |||
| r-release-windows-x86_64 | 1.24.0 | 44.00 | 356.00 | 400.00 | NOTE | --no-vignettes |
| r-oldrel-macos-arm64 | 1.24.0 | 223.00 | NOTE | |||
| r-oldrel-macos-x86_64 | 1.24.0 | 411.00 | NOTE | |||
| r-oldrel-windows-x86_64 | 1.24.0 | 57.00 | 422.00 | 479.00 | NOTE | --no-vignettes |
Version: 1.24.0
Check: tests
Result: ERROR
Running ‘tinytest.R’ [14s/17s]
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;36m74ms<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;34m0.3s<1b>[0m
test-determineSources.R....... 3 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.1s<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;34m1.2s<1b>[0m
test-formatDate.R............. 9 tests <1b>[0;31m1 fails<1b>[0m <1b>[0;36m8ms<1b>[0m
Loading required namespace: numDeriv
test-hhh4+derivatives.R....... 28 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m3.9s<1b>[0m
test-hhh4_ARasNE.R............ 4 tests <1b>[0;32mOK<1b>[0m <1b>[0;36m90ms<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;34m3.2s<1b>[0m
test-hhh4_offsets.R........... 10 tests <1b>[0;32mOK<1b>[0m <1b>[0;36m61ms<1b>[0m
test-hhh4_weights.R........... 4 tests <1b>[0;32mOK<1b>[0m <1b>[0;36m13ms<1b>[0m
test-nbOrder.R................ 2 tests <1b>[0;32mOK<1b>[0m <1b>[0;36m2ms<1b>[0m
test-plapply.R................ 1 tests <1b>[0;32mOK<1b>[0m <1b>[0;36m73ms<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;34m1.2s<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;34m0.3s<1b>[0m
test-toLatex.sts.R............ 12 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m1.1s<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;34m0.6s<1b>[0m
test-twinstim_score.R......... 6 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.6s<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-gcc
Version: 1.24.0
Check: tests
Result: ERROR
Running ‘tinytest.R’ [35s/53s]
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;34m0.2s<1b>[0m
test-bodaDelay.R.............. 29 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.3s<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;34m1.4s<1b>[0m
test-determineSources.R....... 3 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.4s<1b>[0m
test-earsC.R.................. 9 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.6s<1b>[0m
test-farringtonFlexible.R..... 55 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m4.5s<1b>[0m
test-formatDate.R............. 9 tests <1b>[0;31m1 fails<1b>[0m <1b>[0;36m23ms<1b>[0m
Loading required namespace: numDeriv
test-hhh4+derivatives.R....... 28 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m11.6s<1b>[0m
test-hhh4_ARasNE.R............ 4 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.3s<1b>[0m
test-hhh4_NA.R................ 13 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.7s<1b>[0m
test-hhh4_NegBinGrouped.R..... 8 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m10.8s<1b>[0m
test-hhh4_offsets.R........... 10 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.4s<1b>[0m
test-hhh4_weights.R........... 4 tests <1b>[0;32mOK<1b>[0m <1b>[0;36m58ms<1b>[0m
test-nbOrder.R................ 2 tests <1b>[0;32mOK<1b>[0m <1b>[0;36m10ms<1b>[0m
test-plapply.R................ 1 tests <1b>[0;32mOK<1b>[0m <1b>[0;36m90ms<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;34m4.4s<1b>[0m
Loading required namespace: sf
test-sts.R.................... 27 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m2.5s<1b>[0m
test-tiafs.R.................. 6 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m1.2s<1b>[0m
test-toLatex.sts.R............ 12 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m4.9s<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;34m2.2s<1b>[0m
test-twinstim_score.R......... 6 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m1.7s<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-fedora-clang
Version: 1.24.0
Check: tests
Result: ERROR
Running ‘tinytest.R’ [34s/41s]
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;34m0.3s<1b>[0m
test-bodaDelay.R.............. 29 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.4s<1b>[0m
test-calibration.R............ 9 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.3s<1b>[0m
test-createLambda.R........... 17 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m1.1s<1b>[0m
test-determineSources.R....... 3 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.3s<1b>[0m
test-earsC.R.................. 9 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.3s<1b>[0m
test-farringtonFlexible.R..... 55 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m2.7s<1b>[0m
test-formatDate.R............. 9 tests <1b>[0;31m1 fails<1b>[0m <1b>[0;36m19ms<1b>[0m
Loading required namespace: numDeriv
test-hhh4+derivatives.R....... 28 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m9.1s<1b>[0m
test-hhh4_ARasNE.R............ 4 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.3s<1b>[0m
test-hhh4_NA.R................ 13 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.6s<1b>[0m
test-hhh4_NegBinGrouped.R..... 8 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m7.8s<1b>[0m
test-hhh4_offsets.R........... 10 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.3s<1b>[0m
test-hhh4_weights.R........... 4 tests <1b>[0;32mOK<1b>[0m <1b>[0;36m49ms<1b>[0m
test-nbOrder.R................ 2 tests <1b>[0;32mOK<1b>[0m <1b>[0;36m7ms<1b>[0m
test-plapply.R................ 1 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.1s<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;34m3.0s<1b>[0m
Loading required namespace: sf
test-sts.R.................... 27 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m1.8s<1b>[0m
test-tiafs.R.................. 6 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.8s<1b>[0m
test-toLatex.sts.R............ 12 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m3.0s<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;34m1.5s<1b>[0m
test-twinstim_score.R......... 6 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m1.8s<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-fedora-gcc
Version: 1.24.0
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘INLA’
Flavors: r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64
Version: 1.24.0
Check: installed package size
Result: NOTE
installed size is 7.0Mb
sub-directories of 1Mb or more:
R 2.0Mb
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
Flavors: r-release-windows-x86_64, r-oldrel-windows-x86_64
Version: 1.24.0
Flags: --no-vignettes
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: 'INLA'
Flavor: r-oldrel-windows-x86_64