Last updated on 2025-09-14 07:51:10 CEST.
| Package | ERROR | OK |
|---|---|---|
| Characterization | 2 | 11 |
| OhdsiReportGenerator | 4 | 9 |
| OhdsiShinyAppBuilder | 13 |
Current CRAN status: ERROR: 2, OK: 11
Version: 2.2.0
Check: examples
Result: ERROR
Running examples in ‘Characterization-Ex.R’ failed
The error most likely occurred in:
> ### Name: insertResultsToDatabase
> ### Title: Upload the results into a result database
> ### Aliases: insertResultsToDatabase
>
> ### ** Examples
>
>
> # generate results into resultsFolder
> conDet <- exampleOmopConnectionDetails()
>
> tteSet <- createTimeToEventSettings(
+ targetIds = c(1,2),
+ outcomeIds = 3
+ )
>
> cSet <- createCharacterizationSettings(
+ timeToEventSettings = tteSet
+ )
>
> runCharacterizationAnalyses(
+ connectionDetails = conDet,
+ targetDatabaseSchema = 'main',
+ targetTable = 'cohort',
+ outcomeDatabaseSchema = 'main',
+ outcomeTable = 'cohort',
+ cdmDatabaseSchema = 'main',
+ characterizationSettings = cSet,
+ outputDirectory = file.path(tempdir(),'database')
+ )
Creating directory /Volumes/Temp/tmp/Rtmp2GVeuc/database
Creating directory /Volumes/Temp/tmp/Rtmp2GVeuc/database/execution
Creating new cluster
Connecting using SQLite driver
Uploading #cohort_settings
Inserting data took 0.0273 secs
Computing time to event results
Executing SQL took 0.0363 secs
Computing time-to-event for 2 T-O pairs took 0.27 secs
exporting to csv file
Writing 96 rows to csv
Error: vector memory limit of 16.0 Gb reached, see mem.maxVSize()
Execution halted
Flavor: r-oldrel-macos-arm64
Version: 2.2.0
Check: examples
Result: ERROR
Running examples in ‘Characterization-Ex.R’ failed
The error most likely occurred in:
> ### Name: insertResultsToDatabase
> ### Title: Upload the results into a result database
> ### Aliases: insertResultsToDatabase
>
> ### ** Examples
>
>
> # generate results into resultsFolder
> conDet <- exampleOmopConnectionDetails()
>
> tteSet <- createTimeToEventSettings(
+ targetIds = c(1,2),
+ outcomeIds = 3
+ )
>
> cSet <- createCharacterizationSettings(
+ timeToEventSettings = tteSet
+ )
>
> runCharacterizationAnalyses(
+ connectionDetails = conDet,
+ targetDatabaseSchema = 'main',
+ targetTable = 'cohort',
+ outcomeDatabaseSchema = 'main',
+ outcomeTable = 'cohort',
+ cdmDatabaseSchema = 'main',
+ characterizationSettings = cSet,
+ outputDirectory = file.path(tempdir(),'database')
+ )
Creating directory /Volumes/Temp/tmp/RtmpgNAI6R/database
Creating directory /Volumes/Temp/tmp/RtmpgNAI6R/database/execution
Creating new cluster
Connecting using SQLite driver
Uploading #cohort_settings
Inserting data took 0.0763 secs
Computing time to event results
Executing SQL took 0.0453 secs
Computing time-to-event for 2 T-O pairs took 0.55 secs
exporting to csv file
Writing 96 rows to csv
Error: vector memory limit of 16.0 Gb reached, see mem.maxVSize()
Execution halted
Flavor: r-oldrel-macos-x86_64
Current CRAN status: ERROR: 4, OK: 9
Version: 1.1.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [5s/4s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> test_check("OhdsiReportGenerator")
Loading required package: OhdsiReportGenerator
Connecting using SQLite driver
[ FAIL 3 | WARN 2 | SKIP 2 | PASS 417 ]
══ Skipped tests (2) ═══════════════════════════════════════════════════════════
• empty test (1): 'test-Helpers.R:89:1'
• skip prediction report due to odd linux error (1):
'test-PredictionReport.R:5:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-Backwards.R:9:5'): generatePresentationMultiple old works ──────
Error in `testthat::skip_on_cran("Quarto not found so skipping old generate presentation multiple")`: unused argument ("Quarto not found so skipping old generate presentation multiple")
── Error ('test-Generate.R:8:5'): generatePresentation ─────────────────────────
Error in `testthat::skip_on_cran("Quarto not found so skipping generate presentation")`: unused argument ("Quarto not found so skipping generate presentation")
── Error ('test-Generate.R:64:5'): generateFullReport ──────────────────────────
Error in `testthat::skip_on_cran("Quarto not found so skipping generate full report")`: unused argument ("Quarto not found so skipping generate full report")
[ FAIL 3 | WARN 2 | SKIP 2 | PASS 417 ]
Error: Test failures
Execution halted
Closing database connection
Flavors: r-release-macos-arm64, r-oldrel-macos-arm64
Version: 1.1.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [9s/8s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> test_check("OhdsiReportGenerator")
Loading required package: OhdsiReportGenerator
Connecting using SQLite driver
[ FAIL 3 | WARN 2 | SKIP 2 | PASS 417 ]
══ Skipped tests (2) ═══════════════════════════════════════════════════════════
• empty test (1): 'test-Helpers.R:89:1'
• skip prediction report due to odd linux error (1):
'test-PredictionReport.R:5:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-Backwards.R:9:5'): generatePresentationMultiple old works ──────
Error in `testthat::skip_on_cran("Quarto not found so skipping old generate presentation multiple")`: unused argument ("Quarto not found so skipping old generate presentation multiple")
── Error ('test-Generate.R:8:5'): generatePresentation ─────────────────────────
Error in `testthat::skip_on_cran("Quarto not found so skipping generate presentation")`: unused argument ("Quarto not found so skipping generate presentation")
── Error ('test-Generate.R:64:5'): generateFullReport ──────────────────────────
Error in `testthat::skip_on_cran("Quarto not found so skipping generate full report")`: unused argument ("Quarto not found so skipping generate full report")
[ FAIL 3 | WARN 2 | SKIP 2 | PASS 417 ]
Error: Test failures
Execution halted
Closing database connection
Flavor: r-release-macos-x86_64
Version: 1.1.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [10s/9s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> test_check("OhdsiReportGenerator")
Loading required package: OhdsiReportGenerator
Connecting using SQLite driver
[ FAIL 3 | WARN 2 | SKIP 2 | PASS 417 ]
══ Skipped tests (2) ═══════════════════════════════════════════════════════════
• empty test (1): 'test-Helpers.R:89:1'
• skip prediction report due to odd linux error (1):
'test-PredictionReport.R:5:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-Backwards.R:9:5'): generatePresentationMultiple old works ──────
Error in `testthat::skip_on_cran("Quarto not found so skipping old generate presentation multiple")`: unused argument ("Quarto not found so skipping old generate presentation multiple")
── Error ('test-Generate.R:8:5'): generatePresentation ─────────────────────────
Error in `testthat::skip_on_cran("Quarto not found so skipping generate presentation")`: unused argument ("Quarto not found so skipping generate presentation")
── Error ('test-Generate.R:64:5'): generateFullReport ──────────────────────────
Error in `testthat::skip_on_cran("Quarto not found so skipping generate full report")`: unused argument ("Quarto not found so skipping generate full report")
[ FAIL 3 | WARN 2 | SKIP 2 | PASS 417 ]
Error: Test failures
Execution halted
Closing database connection
Flavor: r-oldrel-macos-x86_64
Current CRAN status: OK: 13