Check results for 'IncidencePrevalence'

using R version 4.3.3 (2024-02-29)
using platform: aarch64-apple-darwin20 (64-bit)
R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0
running under: macOS Ventura 13.4
using session charset: UTF-8
checking for file ‘IncidencePrevalence/DESCRIPTION’ ... OK
this is package ‘IncidencePrevalence’ version ‘1.2.0’
package encoding: UTF-8
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checking whether package ‘IncidencePrevalence’ can be installed ... [3s/3s] OK See the install log for details.
checking installed package size ... OK
checking package directory ... OK
checking ‘build’ directory ... OK
checking DESCRIPTION meta-information ... OK
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checking installed files from ‘inst/doc’ ... OK
checking files in ‘vignettes’ ... OK
checking examples ... [1s/1s] OK
checking for unstated dependencies in ‘tests’ ... OK
checking tests ... [113s/73s] ERROR Running ‘testthat.R’ [113s/73s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(IncidencePrevalence) > > test_check("IncidencePrevalence") Starting 2 test processes [ FAIL 1 | WARN 0 | SKIP 97 | PASS 59 ] ══ Skipped tests (97) ══════════════════════════════════════════════════════════ • On CRAN (97): 'test-benchmarkIncidencePrevalence.R:2:3', 'test-benchmarkIncidencePrevalence.R:45:3', 'test-dateUtilities.R:2:3', 'test-estimatePrevalence.R:40:3', 'test-estimatePrevalence.R:92:3', 'test-estimatePrevalence.R:149:3', 'test-estimatePrevalence.R:268:3', 'test-estimatePrevalence.R:412:3', 'test-estimatePrevalence.R:494:3', 'test-estimatePrevalence.R:645:3', 'test-estimatePrevalence.R:696:3', 'test-estimatePrevalence.R:741:3', 'test-estimatePrevalence.R:796:3', 'test-estimatePrevalence.R:844:3', 'test-estimatePrevalence.R:868:3', 'test-estimatePrevalence.R:893:3', 'test-estimatePrevalence.R:1034:3', 'test-estimatePrevalence.R:1081:3', 'test-estimatePrevalence.R:1114:3', 'test-estimatePrevalence.R:1193:3', 'test-estimatePrevalence.R:1245:3', 'test-estimatePrevalence.R:1415:3', 'test-estimatePrevalence.R:1457:3', 'test-estimatePrevalence.R:1503:3', '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-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:216:3', 'test-plotting.R:265:3', 'test-plotting.R:315:3', 'test-plotting.R:379:3', 'test-tables.R:2:3', 'test-tables.R:126:3', 'test-tidyResults.R:2:3', 'test-tidyResults.R:57:3', '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' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-estimateIncidence.R:1049:3'): mock db: multiple denominator inputs ── <rlib_error_package_not_found/rlang_error/error/condition> Error in `tableIncidence(inc_1, type = "tibble")`: The package "visOmopResults" (>= 1.0.2) is required. Backtrace: ▆ 1. ├─testthat::expect_identical(...) at test-estimateIncidence.R:1049:3 2. │ └─testthat::quasi_label(enquo(object), label, arg = "object") 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. └─IncidencePrevalence::tableIncidence(inc_1, type = "tibble") 5. └─rlang::check_installed("visOmopResults", version = "1.0.2") [ FAIL 1 | WARN 0 | SKIP 97 | PASS 59 ] Error: Test failures Execution halted
checking for unstated dependencies in vignettes ... OK
checking package vignettes in ‘inst/doc’ ... OK
checking re-building of vignette outputs ... [132s/136s] ERROR Error(s) in re-building vignettes: --- re-building ‘a01_Introduction_to_IncidencePrevalence.Rmd’ using rmarkdown Quitting from a01_Introduction_to_IncidencePrevalence.Rmd:102-107 [unnamed-chunk-10] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ NULL ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'a01_Introduction_to_IncidencePrevalence.Rmd' failed with diagnostics: The package "visOmopResults" (>= 1.0.2) is required. --- failed re-building ‘a01_Introduction_to_IncidencePrevalence.Rmd’ --- re-building ‘a02_Creating_denominator_populations.Rmd’ using rmarkdown --- finished re-building ‘a02_Creating_denominator_populations.Rmd’ --- re-building ‘a03_Creating_target_denominator_populations.Rmd’ using rmarkdown --- finished re-building ‘a03_Creating_target_denominator_populations.Rmd’ --- re-building ‘a04_Calculating_prevalence.Rmd’ using rmarkdown Quitting from a04_Calculating_prevalence.Rmd:75-87 [unnamed-chunk-6] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ NULL ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'a04_Calculating_prevalence.Rmd' failed with diagnostics: The package "visOmopResults" (>= 1.0.2) is required. --- failed re-building ‘a04_Calculating_prevalence.Rmd’ --- re-building ‘a05_Calculating_incidence.Rmd’ using rmarkdown Quitting from a05_Calculating_incidence.Rmd:104-118 [unnamed-chunk-8] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ NULL ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'a05_Calculating_incidence.Rmd' failed with diagnostics: The package "visOmopResults" (>= 1.0.2) is required. --- failed re-building ‘a05_Calculating_incidence.Rmd’ --- re-building ‘a06_Working_with_IncidencePrevalence_Results.Rmd’ using rmarkdown --- finished re-building ‘a06_Working_with_IncidencePrevalence_Results.Rmd’ --- re-building ‘a07_benchmark.Rmd’ using rmarkdown --- finished re-building ‘a07_benchmark.Rmd’ SUMMARY: processing the following files failed: ‘a01_Introduction_to_IncidencePrevalence.Rmd’ ‘a04_Calculating_prevalence.Rmd’ ‘a05_Calculating_incidence.Rmd’ Error: Vignette re-building failed. Execution halted
checking PDF version of manual ... [5s/5s] OK
DONE Status: 2 ERRORs
using check arguments '--no-clean-on-error '