Last updated on 2026-03-05 13:49:58 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 3.1.2 | 10.20 | 474.03 | 484.23 | OK | |
| r-devel-linux-x86_64-debian-gcc | 3.1.2 | 7.32 | 86.03 | 93.35 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 3.1.2 | 385.27 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 3.1.2 | 380.86 | OK | |||
| r-devel-macos-arm64 | 3.1.2 | 2.00 | 104.00 | 106.00 | OK | |
| r-devel-windows-x86_64 | 3.1.2 | 11.00 | 412.00 | 423.00 | OK | |
| r-patched-linux-x86_64 | 3.1.2 | 9.80 | 458.31 | 468.11 | OK | |
| r-release-linux-x86_64 | 3.1.2 | 9.25 | 451.62 | 460.87 | OK | |
| r-release-macos-arm64 | 3.1.2 | 2.00 | 103.00 | 105.00 | OK | |
| r-release-macos-x86_64 | 3.1.2 | 7.00 | 645.00 | 652.00 | OK | |
| r-release-windows-x86_64 | 3.1.2 | 11.00 | 426.00 | 437.00 | OK | |
| r-oldrel-macos-arm64 | 3.1.2 | 2.00 | 103.00 | 105.00 | NOTE | |
| r-oldrel-macos-x86_64 | 3.1.2 | 8.00 | 552.00 | 560.00 | NOTE | |
| r-oldrel-windows-x86_64 | 3.1.2 | 16.00 | 612.00 | 628.00 | NOTE |
Version: 3.1.2
Check: tests
Result: ERROR
Running ‘testthat.R’ [17s/16s]
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(TreatmentPatterns)
>
> test_check("TreatmentPatterns")
Starting 2 test processes.
Saving _problems/test-CRAN-25.R
> test-computePathways.R:
> test-computePathways.R: Attaching package: 'dplyr'
> test-computePathways.R:
> test-computePathways.R: The following objects are masked from 'package:stats':
> test-computePathways.R:
> test-computePathways.R: filter, lag
> test-computePathways.R:
> test-computePathways.R: The following objects are masked from 'package:base':
> test-computePathways.R:
> test-computePathways.R: intersect, setdiff, setequal, union
> test-computePathways.R:
> test-export.R:
> test-export.R: Attaching package: 'dplyr'
> test-export.R:
> test-export.R: The following objects are masked from 'package:stats':
> test-export.R:
> test-export.R: filter, lag
> test-export.R:
> test-export.R: The following objects are masked from 'package:base':
> test-export.R:
> test-export.R: intersect, setdiff, setequal, union
> test-export.R:
[ FAIL 1 | WARN 0 | SKIP 105 | PASS 1 ]
══ Skipped tests (105) ═════════════════════════════════════════════════════════
• Eunomia [2.0.0] bug (1): 'test-multipleCohortTables.R:67:3'
• On CRAN (104): 'test-TreatmentPatternsResults.R:2:3',
'test-TreatmentPatternsResults.R:24:3',
'test-TreatmentPatternsResults.R:52:3',
'test-TreatmentPatternsResults.R:80:3',
'test-TreatmentPatternsResults.R:85:3',
'test-TreatmentPatternsResults.R:97:3',
'test-TreatmentPatternsResults.R:111:3',
'test-TreatmentPatternsResults.R:125:3',
'test-TreatmentPatternsResults.R:147:3',
'test-TreatmentPatternsResults.R:165:3', 'test-createSankeyDiagram.R:13:3',
'test-createSankeyDiagram.R:18:3', 'test-createSankeyDiagram.R:37:3',
'test-createSankeyDiagram.R:84:3', 'test-createSankeyDiagram.R:124:3',
'test-createSankeyDiagram.R:151:3', 'test-createSunburstPlot.R:17:3',
'test-createSunburstPlot.R:26:3', 'test-createSunburstPlot.R:39:3',
'test-executeTreatmentPatterns.R:5:3',
'test-executeTreatmentPatterns.R:26:3', 'test-computePathways.R:30:3',
'test-computePathways.R:74:3', 'test-computePathways.R:129:3',
'test-computePathways.R:144:3', 'test-computePathways.R:182:3',
'test-computePathways.R:197:3', 'test-computePathways.R:229:3',
'test-computePathways.R:246:3', 'test-computePathways.R:351:3',
'test-computePathways.R:508:3', 'test-computePathways.R:557:3',
'test-computePathways.R:606:3', 'test-computePathways.R:623:3',
'test-computePathways.R:642:3', 'test-exportPatientLevel.R:2:3',
'test-getResultsDataModelSpecifications.R:2:3', 'test-ggSunburst.R:2:3',
'test-ggSunburst.R:26:3', 'test-ggSunburst.R:44:3',
'test-multipleCohortTables.R:6:3', 'test-multipleCohortTables.R:116:3',
'test-export.R:8:3', 'test-export.R:15:3', 'test-export.R:309:3',
'test-export.R:373:3', 'test-export.R:419:3', 'test-export.R:458:3',
'test-export.R:499:3', 'test-export.R:571:3', 'test-export.R:642:3',
'test-export.R:667:3', 'test-pathwaysMultipleTargetsLogical.R:18:3',
'test-pathwaysMultipleTargetsLogical.R:224:3',
'test-pathwaysMultipleTargetsLogical.R:315:3',
'test-plotEventDuration.R:2:3', 'test-plotEventDuration.R:14:3',
'test-plotEventDuration.R:41:3', 'test-plotEventDuration.R:69:3',
'test-pathwaysLogical.R:6:3', 'test-pathwaysLogical.R:46:3',
'test-pathwaysLogical.R:88:3', 'test-pathwaysLogical.R:130:3',
'test-pathwaysLogical.R:172:3', 'test-pathwaysLogical.R:214:3',
'test-pathwaysLogical.R:256:3', 'test-pathwaysLogical.R:299:3',
'test-pathwaysLogical.R:341:3', 'test-pathwaysLogical.R:383:3',
'test-pathwaysLogical.R:425:3', 'test-pathwaysLogical.R:467:3',
'test-pathwaysLogical.R:509:3', 'test-pathwaysLogical.R:551:3',
'test-pathwaysLogical.R:593:3', 'test-pathwaysLogical.R:636:3',
'test-pathwaysLogical.R:679:3', 'test-pathwaysLogical.R:720:3',
'test-pathwaysLogical.R:762:3', 'test-pathwaysLogical.R:804:3',
'test-pathwaysLogical.R:847:3', 'test-pathwaysLogical.R:887:3',
'test-pathwaysLogical.R:927:3', 'test-pathwaysLogical.R:967:3',
'test-pathwaysLogical.R:1008:3', 'test-pathwaysLogical.R:1050:3',
'test-pathwaysLogical.R:1091:3', 'test-pathwaysLogical.R:1135:3',
'test-pathwaysLogical.R:1177:3', 'test-pathwaysLogical.R:1219:3',
'test-pathwaysLogical.R:1261:3', 'test-pathwaysLogical.R:1305:3',
'test-pathwaysLogical.R:1350:3', 'test-pathwaysLogical.R:1395:3',
'test-pathwaysLogical.R:1440:3', 'test-pathwaysLogical.R:1485:3',
'test-pathwaysLogical.R:1528:3', 'test-pathwaysLogical.R:1574:3',
'test-pathwaysLogical.R:1620:3', 'test-pathwaysLogical.R:1666:3',
'test-pathwaysLogical.R:1710:3', 'test-pathwaysLogical.R:1754:3',
'test-pathwaysLogical.R:1801:3', 'test-pathwaysLogical.R:1857:3',
'test-pathwaysLogical.R:1912:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-CRAN.R:21:3'): CRAN Tests ──────────────────────────────────────
Error in `validateComputePathways()`: No 'target' cohort specified in `cohorts`.
Backtrace:
▆
1. └─TreatmentPatterns::computePathways(...) at test-CRAN.R:21:3
2. └─TreatmentPatterns:::validateComputePathways()
[ FAIL 1 | WARN 0 | SKIP 105 | PASS 1 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 3.1.2
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘a000_bestPractices.Rmd’ using rmarkdown
--- finished re-building ‘a000_bestPractices.Rmd’
--- re-building ‘a001_DefiningCohorts.Rmd’ using rmarkdown
--- finished re-building ‘a001_DefiningCohorts.Rmd’
--- re-building ‘a010_Computing_Pathways.Rmd’ using rmarkdown
trying URL 'https://cdmconnectordata.blob.core.windows.net/cdmconnector-example-data/GiBleed_5.3.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from a010_Computing_Pathways.Rmd:83-103 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlib_error_package_not_found>
Error in `generateCohortSet()`:
! The package "CirceR" is required.
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a010_Computing_Pathways.Rmd' failed with diagnostics:
The package "CirceR" is required.
--- failed re-building ‘a010_Computing_Pathways.Rmd’
--- re-building ‘a020_Exporting.Rmd’ using rmarkdown
--- finished re-building ‘a020_Exporting.Rmd’
--- re-building ‘a030_Evaluating_Output.Rmd’ using rmarkdown
trying URL 'https://cdmconnectordata.blob.core.windows.net/cdmconnector-example-data/GiBleed_5.3.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from a030_Evaluating_Output.Rmd:31-88 [setup_treatment_patterns]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlib_error_package_not_found>
Error in `CDMConnector::generateCohortSet()`:
! The package "CirceR" is required.
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a030_Evaluating_Output.Rmd' failed with diagnostics:
The package "CirceR" is required.
--- failed re-building ‘a030_Evaluating_Output.Rmd’
--- re-building ‘a998_Strategus.Rmd’ using rmarkdown
--- finished re-building ‘a998_Strategus.Rmd’
--- re-building ‘a999_Publications-Presentations.Rmd’ using rmarkdown
--- finished re-building ‘a999_Publications-Presentations.Rmd’
SUMMARY: processing the following files failed:
‘a010_Computing_Pathways.Rmd’ ‘a030_Evaluating_Output.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 3.1.2
Check: installed package size
Result: NOTE
installed size is 7.6Mb
sub-directories of 1Mb or more:
doc 5.6Mb
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64