Last updated on 2025-12-06 00:48:35 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.1.0 | 6.56 | 890.68 | 897.24 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.1.0 | 4.82 | 398.75 | 403.57 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 1.1.0 | 48.00 | 1485.50 | 1533.50 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 1.1.0 | 43.00 | 1450.68 | 1493.68 | OK | |
| r-devel-windows-x86_64 | 1.1.0 | 9.00 | 547.00 | 556.00 | OK | |
| r-patched-linux-x86_64 | 1.1.0 | 6.16 | 861.30 | 867.46 | OK | |
| r-release-linux-x86_64 | 1.1.0 | 6.95 | 859.70 | 866.65 | OK | |
| r-release-macos-arm64 | 1.1.0 | 2.00 | 134.00 | 136.00 | OK | |
| r-release-macos-x86_64 | 1.1.0 | 7.00 | 630.00 | 637.00 | OK | |
| r-release-windows-x86_64 | 1.1.0 | 9.00 | 554.00 | 563.00 | OK | |
| r-oldrel-macos-arm64 | 1.1.0 | 2.00 | 139.00 | 141.00 | NOTE | |
| r-oldrel-macos-x86_64 | 1.1.0 | 12.00 | ERROR | |||
| r-oldrel-windows-x86_64 | 1.1.0 | 13.00 | 813.00 | 826.00 | NOTE |
Version: 1.1.0
Check: package dependencies
Result: WARN
Cannot process vignettes
Packages suggested but not available for checking:
'visOmopResults', 'covr', 'DiagrammeR', 'DiagrammeRsvg', 'DT',
'flextable', 'ggpubr', 'gt', 'Hmisc', 'knitr', 'odbc', 'plotly',
'reactable', 'rmarkdown', 'spelling'
VignetteBuilder package required for checking but not installed: ‘knitr’
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.1.0
Check: tests
Result: ERROR
Running ‘spelling.R’ [0s/0s]
Running ‘testthat.R’ [352s/224s]
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/tests.html
> # * https://testthat.r-lib.org/reference/test_package.html#special-files
>
> library(testthat)
> library(CohortCharacteristics)
>
> test_check("CohortCharacteristics")
Starting 2 test processes.
> test-plotCohortTiming.R: i The following estimates will be computed:
> test-plotCohortTiming.R: * days_between_cohort_entries: min, q25, median, q75, max, density
> test-plotCohortTiming.R: ! Table is collected to memory as not all requested estimates are supported on the database side
> test-plotCohortTiming.R: > Start summary of data, at 2025-12-05 11:33:54.795357
> test-plotCohortTiming.R: v Summary finished, at 2025-12-05 11:33:55.003373
> test-plotCohortTiming.R: `result_id` is not present in result.
Saving _problems/test-plotCohortTiming-237.R
Saving _problems/test-plotCohortAttrition-14.R
> test-plotLargeScaleCharacteristics.R: i Summarising large scale characteristics
> test-plotLargeScaleCharacteristics.R: - getting characteristics from table condition_occurrence (1 of 1)
> test-plotLargeScaleCharacteristics.R: - getting characteristics from table condition_occurrence (1 of 1) for time ...
> test-plotLargeScaleCharacteristics.R: - getting characteristics from table condition_occurrence (1 of 1) for time ...
> test-plotLargeScaleCharacteristics.R: - getting characteristics from table condition_occurrence (1 of 1) for time ...
> test-plotLargeScaleCharacteristics.R: - getting characteristics from table condition_occurrence (1 of 1) for time ...
> test-plotLargeScaleCharacteristics.R: - getting characteristics from table condition_occurrence (1 of 1) for time ...
> test-plotLargeScaleCharacteristics.R: - getting characteristics from table condition_occurrence (1 of 1) for time ...
> test-plotLargeScaleCharacteristics.R: - getting characteristics from table condition_occurrence (1 of 1) for time ...
> test-plotLargeScaleCharacteristics.R: Formatting result
> test-summariseCharacteristics.R: i adding demographics columns
> test-plotLargeScaleCharacteristics.R: v Summarising large scale characteristics
> test-summariseCharacteristics.R: i adding cohortIntersectFlag 1/2
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-365 to 0` -> `365_to_0`
> test-summariseCharacteristics.R: i adding cohortIntersectFlag 2/2
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-Inf to 0` -> `inf_to_0`
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort exposed
> test-summariseCharacteristics.R: i summarising cohort unexposed
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i adding cohortIntersectFlag 1/3
> test-summariseCharacteristics.R: i adding cohortIntersectFlag 2/3
> test-summariseCharacteristics.R: i adding cohortIntersectFlag 3/3
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-Inf to 0` -> `inf_to_0`
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort exposed
> test-summariseCharacteristics.R: i summarising cohort unexposed
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
Saving _problems/test-summariseCohortCodelist-9.R
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort exposed
> test-summariseCharacteristics.R: i summarising cohort unexposed
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort exposed
> test-summariseCharacteristics.R: i summarising cohort unexposed
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort exposed
> test-summariseCharacteristics.R: i summarising cohort unexposed
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i adding cohortIntersectFlag 1/1
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-365 to 0` -> `365_to_0`
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort exposed
> test-summariseCharacteristics.R: i summarising cohort unexposed
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort exposed
> test-summariseCharacteristics.R: i summarising cohort unexposed
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding cohortIntersectFlag 1/1
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-365 to 0` -> `365_to_0`
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort exposed
> test-summariseCharacteristics.R: i summarising cohort unexposed
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i adding cohortIntersectFlag 1/1
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort exposed
> test-summariseCharacteristics.R: i summarising cohort unexposed
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i adding cohortIntersectFlag 1/1
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort exposed
> test-summariseCharacteristics.R: i summarising cohort unexposed
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i adding cohortIntersectFlag 1/1
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort exposed
> test-summariseCharacteristics.R: i summarising cohort unexposed
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i adding cohortIntersectFlag 1/2
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-365 to 0` -> `365_to_0`
> test-summariseCohortOverlap.R: `result_id` is not present in result.
> test-summariseCohortOverlap.R: `result_id` is not present in result.
> test-summariseCharacteristics.R: i adding cohortIntersectFlag 2/2
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-Inf to 0` -> `inf_to_0`
> test-summariseCohortOverlap.R: `result_id` is not present in result.
> test-summariseCharacteristics.R: i summarising data
> test-summariseCohortOverlap.R: `result_id` is not present in result.
> test-summariseCharacteristics.R: i summarising cohort cohort_1
> test-summariseCohortOverlap.R: `result_id` is not present in result.
> test-summariseCharacteristics.R: i summarising cohort cohort_2
> test-summariseCharacteristics.R: i summarising cohort cohort_3
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i adding tableIntersectFlag 1/1
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-365 to 0` -> `365_to_0`
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort cohort_1
> test-summariseCharacteristics.R: i summarising cohort cohort_2
> test-summariseCohortTiming.R: i The following estimates will be computed:
> test-summariseCohortTiming.R: * days_between_cohort_entries: min, q25, median, q75, max, density
> test-summariseCohortTiming.R: ! Table is collected to memory as not all requested estimates are supported on the database side
> test-summariseCohortTiming.R: > Start summary of data, at 2025-12-05 11:35:34.062931
> test-summariseCohortTiming.R: v Summary finished, at 2025-12-05 11:35:34.452043
> test-summariseCharacteristics.R: i summarising cohort cohort_3
> test-summariseCohortTiming.R: i The following estimates will be computed:
> test-summariseCohortTiming.R: * days_between_cohort_entries: min, max
> test-summariseCohortTiming.R: > Start summary of data, at 2025-12-05 11:35:35.415186
> test-summariseCohortTiming.R: v Summary finished, at 2025-12-05 11:35:35.590508
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCohortTiming.R: i The following estimates will be computed:
> test-summariseCohortTiming.R: * days_between_cohort_entries: density
> test-summariseCohortTiming.R: ! Table is collected to memory as not all requested estimates are supported on the database side
> test-summariseCohortTiming.R: > Start summary of data, at 2025-12-05 11:35:36.532568
> test-summariseCohortTiming.R: v Summary finished, at 2025-12-05 11:35:36.927086
> test-summariseCohortTiming.R: i The following estimates will be computed:
> test-summariseCohortTiming.R: * days_between_cohort_entries: min, q25, median, q75, max, density
> test-summariseCohortTiming.R: ! Table is collected to memory as not all requested estimates are supported on the database side
> test-summariseCohortTiming.R: > Start summary of data, at 2025-12-05 11:35:40.277056
> test-summariseCohortTiming.R: v Summary finished, at 2025-12-05 11:35:41.444504
> test-summariseCohortTiming.R: i The following estimates will be computed:
> test-summariseCohortTiming.R: * days_between_cohort_entries: density
> test-summariseCohortTiming.R: ! Table is collected to memory as not all requested estimates are supported on the database side
> test-summariseCohortTiming.R: > Start summary of data, at 2025-12-05 11:35:43.020744
> test-summariseCohortTiming.R: v Summary finished, at 2025-12-05 11:35:44.21067
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i adding cohortIntersectFlag 1/2
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-365 to 0` -> `365_to_0`
> test-summariseCharacteristics.R: i adding cohortIntersectFlag 2/2
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-Inf to 0` -> `inf_to_0`
> test-summariseCohortTiming.R: i The following estimates will be computed:
> test-summariseCohortTiming.R: * days_between_cohort_entries: min, q25, median, q75, max
> test-summariseCohortTiming.R: ! Table is collected to memory as not all requested estimates are supported on the database side
> test-summariseCohortTiming.R: > Start summary of data, at 2025-12-05 11:35:52.506567
> test-summariseCohortTiming.R: v Summary finished, at 2025-12-05 11:35:53.391062
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort exposed
> test-utilities.R: `group` is not present in settings.
> test-utilities.R: `group` is not present in settings.
> test-utilities.R: `group` is not present in settings.
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i adding cohortIntersectFlag 1/2
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-365 to 0` -> `365_to_0`
> test-summariseCharacteristics.R: i adding cohortIntersectFlag 2/2
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-Inf to 0` -> `inf_to_0`
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort exposed
> test-summariseCharacteristics.R: i summarising cohort unexposed
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i adding tableIntersectCount 1/1
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-Inf to -1` -> `inf_to_1`
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort exposed
> test-summariseCharacteristics.R: i summarising cohort unexposed
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i adding tableIntersectFlag 1/1
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-Inf to -1` -> `inf_to_1`
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort exposed
> test-summariseCharacteristics.R: i summarising cohort unexposed
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i adding tableIntersectDate 1/1
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-Inf to -1` -> `inf_to_1`
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort exposed
> test-summariseCharacteristics.R: i summarising cohort unexposed
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i adding tableIntersectDays 1/1
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `1 to Inf` -> `1_to_inf`
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort exposed
> test-summariseCharacteristics.R: i summarising cohort unexposed
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i adding cohortIntersectCount 1/1
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-Inf to -1` -> `inf_to_1`
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort cohort_1
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i adding cohortIntersectFlag 1/1
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-Inf to -1` -> `inf_to_1`
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort cohort_1
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i adding cohortIntersectDate 1/1
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-Inf to -1` -> `inf_to_1`
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort cohort_1
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i adding cohortIntersectDays 1/1
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `1 to Inf` -> `1_to_inf`
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort cohort_1
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort cohort_1
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort cohort_1
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort cohort_1
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort cohort_1
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i adding cohortIntersectFlag 1/1
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-365 to -1` -> `365_to_1`
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort cohort_1
> test-summariseCharacteristics.R: i summarising cohort cohort_2
> test-summariseCharacteristics.R: v summariseCharacteristics finished!
> test-summariseCharacteristics.R: i adding demographics columns
> test-summariseCharacteristics.R: i adding cohortIntersectFlag 1/1
> test-summariseCharacteristics.R: window names casted to snake_case:
> test-summariseCharacteristics.R: * `-365 to -1` -> `365_to_1`
> test-summariseCharacteristics.R: i summarising data
> test-summariseCharacteristics.R: i summarising cohort cohort_1
Saving _problems/test-summariseCharacteristics-1662.R
Saving _problems/test-summariseCharacteristics-1668.R
[ FAIL 5 | WARN 9 | SKIP 24 | PASS 196 ]
══ Skipped tests (24) ══════════════════════════════════════════════════════════
• On CRAN (22): 'test-benchmarkCohortCharacteristics.R:2:3',
'test-plotCharacteristics.R:2:3', 'test-plotCharacteristics.R:176:3',
'test-plotCohortCount.R:2:3', 'test-plotCohortOverlap.R:2:3',
'test-plotCohortTiming.R:2:3', 'test-plotCohortTiming.R:100:3',
'test-plotLargeScaleCharacteristics.R:3:3',
'test-summariseCohortCount.R:2:3',
'test-summariseLargeScaleCharacteristics.R:2:3', 'test-table.R:2:3',
'test-tableCharacteristics.R:2:3', 'test-tableCharacteristics.R:124:3',
'test-tableCohortAttrition.R:2:3', 'test-tableCohortCount.R:2:3',
'test-tableCohortOverlap.R:2:3', 'test-tableCohortTiming.R:2:3',
'test-tableLargeScaleCharacteristics.R:2:3',
'test-tableLargeScaleCharacteristics.R:80:3',
'test-summariseCharacteristics.R:1180:3',
'test-summariseCharacteristics.R:1425:3',
'test-summariseCharacteristics.R:1552:3'
• empty test (2): 'test-plotLargeScaleCharacteristics.R:140:1',
'test-summariseCohortTiming.R:107:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-plotCohortTiming.R:237:3'): plotCohortTiming, density x axis ───
<rlib_error_package_not_found/rlang_error/error/condition>
Error in `plotInternal(result = result, resultType = "summarise_cohort_timing", plotType = plotType, facet = facet, colour = colour, uniqueCombinations = uniqueCombinations, oneVariable = TRUE, toYears = timeScale == "years", excludeGroup = "variable_level", style = style)`: The package "visOmopResults" is required.
Backtrace:
▆
1. ├─testthat::expect_warning(p <- plotCohortTiming(timing, plotType = "densityplot")) at test-plotCohortTiming.R:237:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─CohortCharacteristics::plotCohortTiming(timing, plotType = "densityplot")
8. └─CohortCharacteristics:::plotInternal(...)
9. └─rlang::check_installed("visOmopResults")
── Error ('test-plotCohortAttrition.R:14:3'): plot cohort attrition ────────────
<rlib_error_package_not_found/rlang_error/error/condition>
Error in `plotCohortAttrition(ca, cohortId = 2)`: The package "DiagrammeR" is required.
Backtrace:
▆
1. ├─testthat::expect_warning(x <- plotCohortAttrition(ca, cohortId = 2)) at test-plotCohortAttrition.R:14:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─CohortCharacteristics::plotCohortAttrition(ca, cohortId = 2)
8. └─rlang::check_installed("DiagrammeR")
── Error ('test-summariseCohortCodelist.R:9:3'): test summarise cohortCodelist attribute ──
<rlib_error_package_not_found/rlang_error/error/condition>
Error in `tableCohortCodelist(res)`: The package "reactable" is required.
Backtrace:
▆
1. ├─testthat::expect_warning(tableCohortCodelist(res)) at test-summariseCohortCodelist.R:9:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─CohortCharacteristics::tableCohortCodelist(res)
8. └─rlang::check_installed("reactable")
── Failure ('test-summariseCharacteristics.R:1653:3'): weights in summariseCharacteristics ──
Expected `... <- NULL` not to throw any errors.
Actually got a <purrr_error_indexed> with message:
i In index: 1.
Caused by error in `PatientProfiles::summariseResult()`:
! The package "Hmisc" is required.
── Error ('test-summariseCharacteristics.R:1665:3'): weights in summariseCharacteristics ──
Error in `eval(code, test_env)`: object 'resultW' not found
Backtrace:
▆
1. └─testthat::expect_identical(...) at test-summariseCharacteristics.R:1665:3
2. └─testthat::quasi_label(enquo(expected), expected.label)
3. └─rlang::eval_bare(expr, quo_get_env(quo))
[ FAIL 5 | WARN 9 | SKIP 24 | PASS 196 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.1.0
Check: package vignettes
Result: NOTE
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.1.0
Check: installed package size
Result: NOTE
installed size is 6.3Mb
sub-directories of 1Mb or more:
doc 4.3Mb
help 1.8Mb
Flavors: r-oldrel-macos-arm64, r-oldrel-windows-x86_64
Version: 1.1.0
Check: package dependencies
Result: ERROR
Package required and available but unsuitable version: ‘omopgenerics’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Flavor: r-oldrel-macos-x86_64