Last updated on 2025-11-15 01:50:43 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.3.0 | 18.33 | 167.81 | 186.14 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.3.0 | 12.22 | 128.45 | 140.67 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 1.3.0 | 107.00 | 209.89 | 316.89 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 1.3.0 | 102.00 | 197.52 | 299.52 | ERROR | |
| r-devel-windows-x86_64 | 1.3.0 | 26.00 | 189.00 | 215.00 | OK | |
| r-patched-linux-x86_64 | 1.3.0 | 16.65 | 160.55 | 177.20 | OK | |
| r-release-linux-x86_64 | 1.3.0 | 16.15 | 159.81 | 175.96 | OK | |
| r-release-macos-arm64 | 1.3.0 | 9.00 | 72.00 | 81.00 | OK | |
| r-release-macos-x86_64 | 1.3.0 | 12.00 | 86.00 | 98.00 | OK | |
| r-release-windows-x86_64 | 1.3.0 | 23.00 | 184.00 | 207.00 | OK | |
| r-oldrel-macos-arm64 | 1.3.0 | 8.00 | 71.00 | 79.00 | OK | |
| r-oldrel-macos-x86_64 | 1.3.0 | 14.00 | 100.00 | 114.00 | OK | |
| r-oldrel-windows-x86_64 | 1.3.0 | 31.00 | 242.00 | 273.00 | OK |
Version: 1.3.0
Check: tests
Result: ERROR
Running ‘spelling.R’ [0s/0s]
Running ‘testthat.R’ [23s/50s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
> # * https://testthat.r-lib.org/articles/special-files.html
>
> library(testthat)
> library(serocalculator)
>
> test_check("serocalculator", stop_on_warning = TRUE)
Attaching package: 'magrittr'
The following objects are masked from 'package:testthat':
equals, is_less_than, not
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
Saving _problems/test-as_curve_params-33.R
Proceeding to use "`Age`"
Attaching package: 'tidyr'
The following object is masked from 'package:magrittr':
extract
i Data has been stratified.
i Here are the strata that will be analyzed:
# A tibble: 2 x 3
Stratum catchment n
<chr> <chr> <int>
1 Stratum 1 aku 53
2 Stratum 2 kgh 47
starting new stratum: Stratum 1
# A tibble: 1 x 3
Stratum catchment n
<chr> <chr> <int>
1 Stratum 1 aku 53
nrow(curve_params) = 200
Initial negative log-likelihood: 271.620368416703
about to call `nlm()`
iteration = 0
Step:
[1] 0
Parameter:
[1] -2.302585
Function Value
[1] 271.6204
Gradient:
[1] -12.19684
iteration = 1
Step:
[1] 0.3
Parameter:
[1] -2.002585
Function Value
[1] 269.4844
Gradient:
[1] -1.521341
iteration = 2
Step:
[1] 0.0427523
Parameter:
[1] -1.959833
Function Value
[1] 269.4571
Gradient:
[1] 0.2566987
iteration = 3
Step:
[1] -0.006172225
Parameter:
[1] -1.966005
Function Value
[1] 269.4563
Gradient:
[1] -0.003952892
iteration = 4
Parameter:
[1] -1.965911
Function Value
[1] 269.4563
Gradient:
[1] -9.975515e-06
Relative gradient close to zero.
Current iterate is probably solution.
Elapsed time:
user system elapsed
0.094 0.000 0.245
starting new stratum: Stratum 2
# A tibble: 1 x 3
Stratum catchment n
<chr> <chr> <int>
1 Stratum 2 kgh 47
nrow(curve_params) = 200
Initial negative log-likelihood: 261.759517614626
about to call `nlm()`
iteration = 0
Step:
[1] 0
Parameter:
[1] -2.302585
Function Value
[1] 261.7595
Gradient:
[1] -23.7431
iteration = 1
Step:
[1] 0.498822
Parameter:
[1] -1.803763
Function Value
[1] 253.5433
Gradient:
[1] -7.990928
iteration = 2
Step:
[1] 0.2530477
Parameter:
[1] -1.550715
Function Value
[1] 252.8398
Gradient:
[1] 2.718074
iteration = 3
Step:
[1] -0.06422655
Parameter:
[1] -1.614942
Function Value
[1] 252.7582
Gradient:
[1] -0.161689
iteration = 4
Step:
[1] 0.003606105
Parameter:
[1] -1.611336
Function Value
[1] 252.7579
Gradient:
[1] -0.002816973
iteration = 5
Parameter:
[1] -1.611272
Function Value
[1] 252.7579
Gradient:
[1] 3.069238e-06
Relative gradient close to zero.
Current iterate is probably solution.
Elapsed time:
user system elapsed
0.097 0.000 0.171
i Elapsed time for loop over strata:
user system elapsed
1.015 0.040 2.350
i Data has been stratified.
i Here are the strata that will be analyzed:
# A tibble: 2 x 3
Stratum catchment n
<chr> <chr> <int>
1 Stratum 1 aku 53
2 Stratum 2 kgh 47
Setting up parallel processing with `num_cores` = 2.
i Elapsed time for parallelized code:
user system elapsed
0.000 0.003 1.594
Attaching package: 'readr'
The following objects are masked from 'package:testthat':
edition_get, local_edition
[ FAIL 1 | WARN 0 | SKIP 15 | PASS 33 ]
══ Skipped tests (15) ══════════════════════════════════════════════════════════
• On CRAN (15): 'test-ab0.R:1:1', 'test-as_noise_params.R:13:1',
'test-autoplot.pop_data.R:19:1', 'test-autoplot.pop_data.R:28:1',
'test-autoplot.pop_data.R:37:1', 'test-class_attributes.R:9:1',
'test-df_to_array.R:1:1', 'test-est.incidence.R:1:1',
'test-est.incidence.by.R:35:1', 'test-f_dev.R:1:1',
'test-log_likelihood.R:1:1', 'test-plot_curve_params_one_ab.R:1:1',
'test-stratify_data.R:1:1', 'test-summary.pop_data.R:12:1',
'test-summary.pop_data.R:16:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-as_curve_params.R:33:3'): `as_curve_params()` produces expected results ──
Error in `test_data %>% ssdtools:::expect_snapshot_data(name = "curve-data")`: object 'expect_snapshot_data' not found
Backtrace:
▆
1. └─test_data %>% ssdtools:::expect_snapshot_data(name = "curve-data") at test-as_curve_params.R:33:3
[ FAIL 1 | WARN 0 | SKIP 15 | PASS 33 ]
Deleting unused snapshots: 'as_curve_params/curve-data.csv'
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.3.0
Check: tests
Result: ERROR
Running ‘spelling.R’
Running ‘testthat.R’ [40s/257s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
> # * https://testthat.r-lib.org/articles/special-files.html
>
> library(testthat)
> library(serocalculator)
>
> test_check("serocalculator", stop_on_warning = TRUE)
Attaching package: 'magrittr'
The following objects are masked from 'package:testthat':
equals, is_less_than, not
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
Saving _problems/test-as_curve_params-33.R
Proceeding to use "`Age`"
Attaching package: 'tidyr'
The following object is masked from 'package:magrittr':
extract
i Data has been stratified.
i Here are the strata that will be analyzed:
# A tibble: 2 x 3
Stratum catchment n
<chr> <chr> <int>
1 Stratum 1 aku 53
2 Stratum 2 kgh 47
starting new stratum: Stratum 1
# A tibble: 1 x 3
Stratum catchment n
<chr> <chr> <int>
1 Stratum 1 aku 53
nrow(curve_params) = 200
Initial negative log-likelihood: 271.620368416703
about to call `nlm()`
iteration = 0
Step:
[1] 0
Parameter:
[1] -2.302585
Function Value
[1] 271.6204
Gradient:
[1] -12.19684
iteration = 1
Step:
[1] 0.3
Parameter:
[1] -2.002585
Function Value
[1] 269.4844
Gradient:
[1] -1.521341
iteration = 2
Step:
[1] 0.0427523
Parameter:
[1] -1.959833
Function Value
[1] 269.4571
Gradient:
[1] 0.2566987
iteration = 3
Step:
[1] -0.006172225
Parameter:
[1] -1.966005
Function Value
[1] 269.4563
Gradient:
[1] -0.003952892
iteration = 4
Parameter:
[1] -1.965911
Function Value
[1] 269.4563
Gradient:
[1] -9.975515e-06
Relative gradient close to zero.
Current iterate is probably solution.
Elapsed time:
user system elapsed
0.198 0.000 0.674
starting new stratum: Stratum 2
# A tibble: 1 x 3
Stratum catchment n
<chr> <chr> <int>
1 Stratum 2 kgh 47
nrow(curve_params) = 200
Initial negative log-likelihood: 261.759517614626
about to call `nlm()`
iteration = 0
Step:
[1] 0
Parameter:
[1] -2.302585
Function Value
[1] 261.7595
Gradient:
[1] -23.7431
iteration = 1
Step:
[1] 0.498822
Parameter:
[1] -1.803763
Function Value
[1] 253.5433
Gradient:
[1] -7.990928
iteration = 2
Step:
[1] 0.2530477
Parameter:
[1] -1.550715
Function Value
[1] 252.8398
Gradient:
[1] 2.718074
iteration = 3
Step:
[1] -0.06422655
Parameter:
[1] -1.614942
Function Value
[1] 252.7582
Gradient:
[1] -0.161689
iteration = 4
Step:
[1] 0.003606105
Parameter:
[1] -1.611336
Function Value
[1] 252.7579
Gradient:
[1] -0.002816973
iteration = 5
Parameter:
[1] -1.611272
Function Value
[1] 252.7579
Gradient:
[1] 3.069238e-06
Relative gradient close to zero.
Current iterate is probably solution.
Elapsed time:
user system elapsed
0.220 0.001 0.836
i Elapsed time for loop over strata:
user system elapsed
1.499 0.001 5.720
i Data has been stratified.
i Here are the strata that will be analyzed:
# A tibble: 2 x 3
Stratum catchment n
<chr> <chr> <int>
1 Stratum 1 aku 53
2 Stratum 2 kgh 47
Setting up parallel processing with `num_cores` = 2.
i Elapsed time for parallelized code:
user system elapsed
0.003 0.003 2.425
Attaching package: 'readr'
The following objects are masked from 'package:testthat':
edition_get, local_edition
[ FAIL 1 | WARN 0 | SKIP 15 | PASS 33 ]
══ Skipped tests (15) ══════════════════════════════════════════════════════════
• On CRAN (15): 'test-ab0.R:1:1', 'test-as_noise_params.R:13:1',
'test-autoplot.pop_data.R:19:1', 'test-autoplot.pop_data.R:28:1',
'test-autoplot.pop_data.R:37:1', 'test-class_attributes.R:9:1',
'test-df_to_array.R:1:1', 'test-est.incidence.R:1:1',
'test-est.incidence.by.R:35:1', 'test-f_dev.R:1:1',
'test-log_likelihood.R:1:1', 'test-plot_curve_params_one_ab.R:1:1',
'test-stratify_data.R:1:1', 'test-summary.pop_data.R:12:1',
'test-summary.pop_data.R:16:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-as_curve_params.R:33:3'): `as_curve_params()` produces expected results ──
Error in `test_data %>% ssdtools:::expect_snapshot_data(name = "curve-data")`: object 'expect_snapshot_data' not found
Backtrace:
▆
1. └─test_data %>% ssdtools:::expect_snapshot_data(name = "curve-data") at test-as_curve_params.R:33:3
[ FAIL 1 | WARN 0 | SKIP 15 | PASS 33 ]
Deleting unused snapshots: 'as_curve_params/curve-data.csv'
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 1.3.0
Check: tests
Result: ERROR
Running ‘spelling.R’
Running ‘testthat.R’ [39s/188s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
> # * https://testthat.r-lib.org/articles/special-files.html
>
> library(testthat)
> library(serocalculator)
>
> test_check("serocalculator", stop_on_warning = TRUE)
Attaching package: 'magrittr'
The following objects are masked from 'package:testthat':
equals, is_less_than, not
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
Saving _problems/test-as_curve_params-33.R
Proceeding to use "`Age`"
Attaching package: 'tidyr'
The following object is masked from 'package:magrittr':
extract
i Data has been stratified.
i Here are the strata that will be analyzed:
# A tibble: 2 x 3
Stratum catchment n
<chr> <chr> <int>
1 Stratum 1 aku 53
2 Stratum 2 kgh 47
starting new stratum: Stratum 1
# A tibble: 1 x 3
Stratum catchment n
<chr> <chr> <int>
1 Stratum 1 aku 53
nrow(curve_params) = 200
Initial negative log-likelihood: 271.620368416703
about to call `nlm()`
iteration = 0
Step:
[1] 0
Parameter:
[1] -2.302585
Function Value
[1] 271.6204
Gradient:
[1] -12.19684
iteration = 1
Step:
[1] 0.3
Parameter:
[1] -2.002585
Function Value
[1] 269.4844
Gradient:
[1] -1.521341
iteration = 2
Step:
[1] 0.0427523
Parameter:
[1] -1.959833
Function Value
[1] 269.4571
Gradient:
[1] 0.2566987
iteration = 3
Step:
[1] -0.006172225
Parameter:
[1] -1.966005
Function Value
[1] 269.4563
Gradient:
[1] -0.003952892
iteration = 4
Parameter:
[1] -1.965911
Function Value
[1] 269.4563
Gradient:
[1] -9.975515e-06
Relative gradient close to zero.
Current iterate is probably solution.
Elapsed time:
user system elapsed
0.205 0.001 0.330
starting new stratum: Stratum 2
# A tibble: 1 x 3
Stratum catchment n
<chr> <chr> <int>
1 Stratum 2 kgh 47
nrow(curve_params) = 200
Initial negative log-likelihood: 261.759517614626
about to call `nlm()`
iteration = 0
Step:
[1] 0
Parameter:
[1] -2.302585
Function Value
[1] 261.7595
Gradient:
[1] -23.7431
iteration = 1
Step:
[1] 0.498822
Parameter:
[1] -1.803763
Function Value
[1] 253.5433
Gradient:
[1] -7.990928
iteration = 2
Step:
[1] 0.2530477
Parameter:
[1] -1.550715
Function Value
[1] 252.8398
Gradient:
[1] 2.718074
iteration = 3
Step:
[1] -0.06422655
Parameter:
[1] -1.614942
Function Value
[1] 252.7582
Gradient:
[1] -0.161689
iteration = 4
Step:
[1] 0.003606105
Parameter:
[1] -1.611336
Function Value
[1] 252.7579
Gradient:
[1] -0.002816973
iteration = 5
Parameter:
[1] -1.611272
Function Value
[1] 252.7579
Gradient:
[1] 3.069238e-06
Relative gradient close to zero.
Current iterate is probably solution.
Elapsed time:
user system elapsed
0.228 0.000 0.724
i Elapsed time for loop over strata:
user system elapsed
1.484 0.120 2.722
i Data has been stratified.
i Here are the strata that will be analyzed:
# A tibble: 2 x 3
Stratum catchment n
<chr> <chr> <int>
1 Stratum 1 aku 53
2 Stratum 2 kgh 47
Setting up parallel processing with `num_cores` = 2.
i Elapsed time for parallelized code:
user system elapsed
0.006 0.000 1.612
Attaching package: 'readr'
The following objects are masked from 'package:testthat':
edition_get, local_edition
[ FAIL 1 | WARN 0 | SKIP 15 | PASS 33 ]
══ Skipped tests (15) ══════════════════════════════════════════════════════════
• On CRAN (15): 'test-ab0.R:1:1', 'test-as_noise_params.R:13:1',
'test-autoplot.pop_data.R:19:1', 'test-autoplot.pop_data.R:28:1',
'test-autoplot.pop_data.R:37:1', 'test-class_attributes.R:9:1',
'test-df_to_array.R:1:1', 'test-est.incidence.R:1:1',
'test-est.incidence.by.R:35:1', 'test-f_dev.R:1:1',
'test-log_likelihood.R:1:1', 'test-plot_curve_params_one_ab.R:1:1',
'test-stratify_data.R:1:1', 'test-summary.pop_data.R:12:1',
'test-summary.pop_data.R:16:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-as_curve_params.R:33:3'): `as_curve_params()` produces expected results ──
Error in `test_data %>% ssdtools:::expect_snapshot_data(name = "curve-data")`: object 'expect_snapshot_data' not found
Backtrace:
▆
1. └─test_data %>% ssdtools:::expect_snapshot_data(name = "curve-data") at test-as_curve_params.R:33:3
[ FAIL 1 | WARN 0 | SKIP 15 | PASS 33 ]
Deleting unused snapshots: 'as_curve_params/curve-data.csv'
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc