CRAN Package Check Results for Package IncidencePrevalence

Last updated on 2026-09-23 06:55:52 CEST.

Flavor	Version	Tinstall	Tcheck	Ttotal	Status	Flags
r-devel-linux-x86_64-debian-clang	1.2.1	6.80	755.46	762.26	OK
r-devel-linux-x86_64-debian-gcc	1.2.1	4.65	528.67	533.32	OK
r-devel-linux-x86_64-fedora-clang	1.2.1			77.51	ERROR
r-devel-linux-x86_64-fedora-gcc	1.2.1			497.04	OK
r-devel-windows-x86_64	1.2.1	9.00	565.00	574.00	OK
r-patched-linux-x86_64	1.2.1	8.10	722.47	730.57	OK
r-release-linux-x86_64	1.2.1	7.05	721.84	728.89	OK
r-release-macos-arm64	1.2.1	2.00	149.00	151.00	OK
r-release-macos-x86_64	1.2.1	5.00	838.00	843.00	OK
r-release-windows-x86_64	1.2.1	9.00	542.00	551.00	OK
r-oldrel-macos-arm64	1.2.1				OK
r-oldrel-macos-x86_64	1.2.1	5.00	400.00	405.00	OK
r-oldrel-windows-x86_64	1.2.1	12.00	799.00	811.00	OK

Check Details

Version: 1.2.1
Check: tests
Result: ERROR Running ‘testthat.R’ [19s/19s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(IncidencePrevalence) > > test_check("IncidencePrevalence") Starting 2 test processes. Saving _problems/test-estimatePrevalence-3.R Saving _problems/test-estimatePrevalence-1221.R Saving _problems/test-estimatePrevalence-1269.R Saving _problems/test-generateDenominatorCohortSet-2.R Saving _problems/test-generateDenominatorCohortSet-71.R Saving _problems/test-generateDenominatorCohortSet-2455.R Saving _problems/test-estimateIncidence-2.R Saving _problems/test-estimateIncidence-1022.R [ FAIL 8 | WARN 0 | SKIP 101 | PASS 0 ] ══ Skipped tests (101) ═════════════════════════════════════════════════════════ • On CRAN (101): 'test-dateUtilities.R:2:3', 'test-benchmarkIncidencePrevalence.R:2:3', 'test-benchmarkIncidencePrevalence.R:45:3', 'test-estimatePrevalence.R:41:3', 'test-estimatePrevalence.R:93:3', 'test-estimatePrevalence.R:150:3', 'test-estimatePrevalence.R:269:3', 'test-estimatePrevalence.R:413:3', 'test-estimatePrevalence.R:495:3', 'test-estimatePrevalence.R:646:3', 'test-estimatePrevalence.R:697:3', 'test-estimatePrevalence.R:742:3', 'test-estimatePrevalence.R:797:3', 'test-estimatePrevalence.R:845:3', 'test-estimatePrevalence.R:869:3', 'test-estimatePrevalence.R:894:3', 'test-estimatePrevalence.R:1035:3', 'test-estimatePrevalence.R:1082:3', 'test-estimatePrevalence.R:1115:3', 'test-estimatePrevalence.R:1194:3', 'test-estimatePrevalence.R:1246:3', 'test-estimatePrevalence.R:1416:3', 'test-estimatePrevalence.R:1458:3', 'test-estimatePrevalence.R:1504:3', 'test-estimatePrevalence.R:1556:3', 'test-estimatePrevalence.R:1672:3', 'test-generateDenominatorCohortSet.R:138:3', 'test-generateDenominatorCohortSet.R:185:3', 'test-generateDenominatorCohortSet.R:289:3', 'test-generateDenominatorCohortSet.R:326:3', 'test-generateDenominatorCohortSet.R:591:3', 'test-generateDenominatorCohortSet.R:641:3', 'test-generateDenominatorCohortSet.R:720:3', 'test-generateDenominatorCohortSet.R:812:3', 'test-generateDenominatorCohortSet.R:855:3', 'test-generateDenominatorCohortSet.R:907:3', 'test-generateDenominatorCohortSet.R:991:3', 'test-generateDenominatorCohortSet.R:1118:3', 'test-generateDenominatorCohortSet.R:1199:3', 'test-generateDenominatorCohortSet.R:1263:3', 'test-generateDenominatorCohortSet.R:1316:3', 'test-generateDenominatorCohortSet.R:1374:3', 'test-generateDenominatorCohortSet.R:1449:3', 'test-generateDenominatorCohortSet.R:1572:3', 'test-generateDenominatorCohortSet.R:1673:3', 'test-generateDenominatorCohortSet.R:1726:3', 'test-generateDenominatorCohortSet.R:1789:3', 'test-generateDenominatorCohortSet.R:2018:3', 'test-generateDenominatorCohortSet.R:2109:3', 'test-generateDenominatorCohortSet.R:2309:3', 'test-generateDenominatorCohortSet.R:2413:3', 'test-estimateIncidence.R:57:3', 'test-estimateIncidence.R:120:3', 'test-estimateIncidence.R:230:3', 'test-estimateIncidence.R:300:3', 'test-estimateIncidence.R:399:3', 'test-estimateIncidence.R:503:3', 'test-estimateIncidence.R:598:3', 'test-estimateIncidence.R:762:3', 'test-estimateIncidence.R:869:3', 'test-estimateIncidence.R:1063:3', 'test-estimateIncidence.R:1127:3', 'test-estimateIncidence.R:1184:3', 'test-estimateIncidence.R:1269:3', 'test-estimateIncidence.R:1413:3', 'test-estimateIncidence.R:1529:3', 'test-estimateIncidence.R:1608:3', 'test-estimateIncidence.R:1716:3', 'test-estimateIncidence.R:1820:3', 'test-estimateIncidence.R:1979:3', 'test-estimateIncidence.R:2035:3', 'test-estimateIncidence.R:2233:3', 'test-estimateIncidence.R:2432:3', 'test-estimateIncidence.R:2517:3', 'test-estimateIncidence.R:2943:3', 'test-estimateIncidence.R:2991:3', 'test-estimateIncidence.R:3046:3', 'test-estimateIncidence.R:3104:3', 'test-estimateIncidence.R:3127:3', 'test-estimateIncidence.R:3142:3', 'test-estimateIncidence.R:3182:3', 'test-estimateIncidence.R:3344:3', 'test-estimateIncidence.R:3423:3', 'test-estimateIncidence.R:3467:3', 'test-estimateIncidence.R:3513:3', 'test-estimateIncidence.R:3561:3', 'test-getStudyDays.R:2:3', 'test-getStudyDays.R:238:3', 'test-mockIncidencePrevalence.R:2:3', 'test-mockIncidencePrevalence.R:39:3', 'test-mockIncidencePrevalence.R:69:3', 'test-mockIncidencePrevalence.R:171:3', 'test-plotting.R:2:3', 'test-plotting.R:203:3', 'test-plotting.R:252:3', 'test-plotting.R:302:3', 'test-plotting.R:366:3', 'test-tables.R:2:3', 'test-tables.R:126:3', 'test-tidyResults.R:2:3', 'test-tidyResults.R:57:3' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-estimatePrevalence.R:2:3'): mock db: check output format ─────── <rlib_error_package_not_found/rlang_error/error/condition> Error in `mockIncidencePrevalence()`: The package "duckdb" is required. Backtrace: ▆ 1. ├─mockIncidencePrevalence() %>% ... at test-estimatePrevalence.R:2:3 2. ├─IncidencePrevalence::generateDenominatorCohortSet(., name = "denominator") 3. │ └─IncidencePrevalence:::fetchDenominatorCohortSet(...) 4. │ └─IncidencePrevalence:::checkInputGenerateDCS(...) 5. │ └─omopgenerics::validateCdmArgument(cdm) 6. │ └─omopgenerics::assertClass(...) 7. │ ├─omopgenerics:::checkEmpty(...) 8. │ ├─omopgenerics:::checkClass(...) 9. │ ├─omopgenerics:::checkLength(...) 10. │ ├─omopgenerics:::checkNull(createCheckObject(x), null) 11. │ └─omopgenerics:::createCheckObject(x) 12. └─IncidencePrevalence::mockIncidencePrevalence() 13. └─rlang::check_installed("duckdb") ── Error ('test-estimatePrevalence.R:1221:3'): mock db: if missing cohort attributes ── <rlib_error_package_not_found/rlang_error/error/condition> Error in `mockIncidencePrevalence()`: The package "duckdb" is required. Backtrace: ▆ 1. └─IncidencePrevalence::mockIncidencePrevalence() at test-estimatePrevalence.R:1221:3 2. └─rlang::check_installed("duckdb") ── Error ('test-estimatePrevalence.R:1266:3'): mock db: prevalence using strata vars ── <rlib_error_package_not_found/rlang_error/error/condition> Error in `mockIncidencePrevalence(sampleSize = 1000, outPre = 0.7)`: The package "duckdb" is required. Backtrace: ▆ 1. └─IncidencePrevalence::mockIncidencePrevalence(...) at test-estimatePrevalence.R:1266:3 2. └─rlang::check_installed("duckdb") ── Error ('test-generateDenominatorCohortSet.R:2:3'): mock db: check output format ── <rlib_error_package_not_found/rlang_error/error/condition> Error in `mockIncidencePrevalence()`: The package "duckdb" is required. Backtrace: ▆ 1. └─IncidencePrevalence::mockIncidencePrevalence() at test-generateDenominatorCohortSet.R:2:3 2. └─rlang::check_installed("duckdb") ── Error ('test-generateDenominatorCohortSet.R:68:3'): mock db: checks on working example ── <rlib_error_package_not_found/rlang_error/error/condition> Error in `mockIncidencePrevalence(personTable = personTable, observationPeriodTable = observationPeriodTable)`: The package "duckdb" is required. Backtrace: ▆ 1. └─IncidencePrevalence::mockIncidencePrevalence(...) at test-generateDenominatorCohortSet.R:68:3 2. └─rlang::check_installed("duckdb") ── Error ('test-generateDenominatorCohortSet.R:2455:3'): mock db: target cohort extra columns ── <rlib_error_package_not_found/rlang_error/error/condition> Error in `mockIncidencePrevalence()`: The package "duckdb" is required. Backtrace: ▆ 1. └─IncidencePrevalence::mockIncidencePrevalence() at test-generateDenominatorCohortSet.R:2455:3 2. └─rlang::check_installed("duckdb") ── Error ('test-estimateIncidence.R:2:3'): mock db: check output format ──────── <rlib_error_package_not_found/rlang_error/error/condition> Error in `mockIncidencePrevalence()`: The package "duckdb" is required. Backtrace: ▆ 1. └─IncidencePrevalence::mockIncidencePrevalence() at test-estimateIncidence.R:2:3 2. └─rlang::check_installed("duckdb") ── Error ('test-estimateIncidence.R:1020:3'): mock db: multiple denominator inputs ── <rlib_error_package_not_found/rlang_error/error/condition> Error in `mockIncidencePrevalence(sampleSize = 6000, maxOutcomeDays = 5, maxOutcomes = 6)`: The package "duckdb" is required. Backtrace: ▆ 1. └─IncidencePrevalence::mockIncidencePrevalence(...) at test-estimateIncidence.R:1020:3 2. └─rlang::check_installed("duckdb") [ FAIL 8 | WARN 0 | SKIP 101 | PASS 0 ] Error: ! Test failures. Execution halted Flavor: r-devel-linux-x86_64-fedora-clang

Version: 1.2.1
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: --- re-building ‘a01_Introduction_to_IncidencePrevalence.Rmd’ using rmarkdown Quitting from a01_Introduction_to_IncidencePrevalence.Rmd:42-47 [unnamed-chunk-3] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlib_error_package_not_found> Error in `mockIncidencePrevalence()`: ! The package "duckdb" is required. ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'a01_Introduction_to_IncidencePrevalence.Rmd' failed with diagnostics: The package "duckdb" is required. --- failed re-building ‘a01_Introduction_to_IncidencePrevalence.Rmd’ --- re-building ‘a02_Creating_denominator_populations.Rmd’ using rmarkdown Quitting from a02_Creating_denominator_populations.Rmd:82-84 [unnamed-chunk-7] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlib_error_package_not_found> Error in `mockIncidencePrevalence()`: ! The package "duckdb" is required. ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'a02_Creating_denominator_populations.Rmd' failed with diagnostics: The package "duckdb" is required. --- failed re-building ‘a02_Creating_denominator_populations.Rmd’ --- re-building ‘a03_Creating_target_denominator_populations.Rmd’ using rmarkdown Quitting from a03_Creating_target_denominator_populations.Rmd:33-85 [unnamed-chunk-2] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlib_error_package_not_found> Error in `mockIncidencePrevalence()`: ! The package "duckdb" is required. ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'a03_Creating_target_denominator_populations.Rmd' failed with diagnostics: The package "duckdb" is required. --- failed re-building ‘a03_Creating_target_denominator_populations.Rmd’ --- re-building ‘a04_Calculating_prevalence.Rmd’ using rmarkdown Quitting from a04_Calculating_prevalence.Rmd:47-71 [unnamed-chunk-5] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlib_error_package_not_found> Error in `mockIncidencePrevalence()`: ! The package "duckdb" is required. ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'a04_Calculating_prevalence.Rmd' failed with diagnostics: The package "duckdb" is required. --- failed re-building ‘a04_Calculating_prevalence.Rmd’ --- re-building ‘a05_Calculating_incidence.Rmd’ using rmarkdown Quitting from a05_Calculating_incidence.Rmd:76-100 [setup] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlib_error_package_not_found> Error in `mockIncidencePrevalence()`: ! The package "duckdb" is required. ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'a05_Calculating_incidence.Rmd' failed with diagnostics: The package "duckdb" is required. --- failed re-building ‘a05_Calculating_incidence.Rmd’ --- re-building ‘a06_Working_with_IncidencePrevalence_Results.Rmd’ using rmarkdown Quitting from a06_Working_with_IncidencePrevalence_Results.Rmd:30-70 [unnamed-chunk-2] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlib_error_package_not_found> Error in `mockIncidencePrevalence()`: ! The package "duckdb" is required. ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'a06_Working_with_IncidencePrevalence_Results.Rmd' failed with diagnostics: The package "duckdb" is required. --- failed re-building ‘a06_Working_with_IncidencePrevalence_Results.Rmd’ --- re-building ‘a07_benchmark.Rmd’ using rmarkdown [WARNING] Deprecated: --mathjax. Use --math-method=mathjax[:URL] instead. --- finished re-building ‘a07_benchmark.Rmd’ SUMMARY: processing the following files failed: ‘a01_Introduction_to_IncidencePrevalence.Rmd’ ‘a02_Creating_denominator_populations.Rmd’ ‘a03_Creating_target_denominator_populations.Rmd’ ‘a04_Calculating_prevalence.Rmd’ ‘a05_Calculating_incidence.Rmd’ ‘a06_Working_with_IncidencePrevalence_Results.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-devel-linux-x86_64-fedora-clang