Last updated on 2025-12-13 02:52:20 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 3.1.1 | 11.89 | 458.33 | 470.22 | OK | |
| r-devel-linux-x86_64-debian-gcc | 3.1.1 | 8.39 | 103.74 | 112.13 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 3.1.1 | 24.00 | 724.32 | 748.32 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 3.1.1 | 21.00 | 720.21 | 741.21 | OK | |
| r-devel-windows-x86_64 | 3.1.1 | 14.00 | 384.00 | 398.00 | OK | |
| r-patched-linux-x86_64 | 3.1.1 | 11.94 | 431.36 | 443.30 | OK | |
| r-release-linux-x86_64 | 3.1.1 | 11.24 | 431.10 | 442.34 | OK | |
| r-release-macos-arm64 | 3.1.1 | OK | ||||
| r-release-macos-x86_64 | 3.1.1 | 8.00 | 393.00 | 401.00 | OK | |
| r-release-windows-x86_64 | 3.1.1 | 14.00 | 399.00 | 413.00 | OK | |
| r-oldrel-macos-arm64 | 3.1.1 | NOTE | ||||
| r-oldrel-macos-x86_64 | 3.1.1 | 8.00 | 366.00 | 374.00 | NOTE | |
| r-oldrel-windows-x86_64 | 3.1.1 | 20.00 | 532.00 | 552.00 | NOTE |
Version: 3.1.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [19s/17s]
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.
> test-CDMInterface.R:
> test-CDMInterface.R: Attaching package: 'dplyr'
> test-CDMInterface.R:
> test-CDMInterface.R: The following objects are masked from 'package:stats':
> test-CDMInterface.R:
> test-CDMInterface.R: filter, lag
> test-CDMInterface.R:
> test-CDMInterface.R: The following objects are masked from 'package:base':
> test-CDMInterface.R:
> test-CDMInterface.R: intersect, setdiff, setequal, union
> test-CDMInterface.R:
> test-CDMInterfaceCDMC.R:
> test-CDMInterfaceCDMC.R: Attaching package: 'dplyr'
> test-CDMInterfaceCDMC.R:
> test-CDMInterfaceCDMC.R: The following objects are masked from 'package:stats':
> test-CDMInterfaceCDMC.R:
> test-CDMInterfaceCDMC.R: filter, lag
> test-CDMInterfaceCDMC.R:
> test-CDMInterfaceCDMC.R: The following objects are masked from 'package:base':
> test-CDMInterfaceCDMC.R:
> test-CDMInterfaceCDMC.R: intersect, setdiff, setequal, union
> test-CDMInterfaceCDMC.R:
Saving _problems/test-CRAN-27.R
[ FAIL 1 | WARN 0 | SKIP 123 | PASS 0 ]
══ Skipped tests (123) ═════════════════════════════════════════════════════════
• Eunomia [2.0.0] bug (8): 'test-CDMInterfaceDBC.R:6:3',
'test-CDMInterfaceDBC.R:25:3', 'test-CDMInterfaceDBC.R:55:3',
'test-CDMInterfaceDBC.R:83:3', 'test-CDMInterfaceDBC.R:121:3',
'test-computePathways.R:8:3', 'test-computePathways.R:55:3',
'test-multipleCohortTables.R:69:3'
• On CRAN (115): 'test-CDMInterface.R:6:3', 'test-CDMInterfaceCDMC.R:41:3',
'test-CDMInterfaceCDMC.R:49:3', 'test-CDMInterfaceCDMC.R:57:3',
'test-CDMInterfaceCDMC.R:75:3', 'test-TreatmentPatternsResults.R:2:3',
'test-TreatmentPatternsResults.R:25:3',
'test-TreatmentPatternsResults.R:53:3',
'test-TreatmentPatternsResults.R:81:3',
'test-TreatmentPatternsResults.R:86:3',
'test-TreatmentPatternsResults.R:96:3',
'test-TreatmentPatternsResults.R:108:3',
'test-TreatmentPatternsResults.R:120:3',
'test-TreatmentPatternsResults.R:142:3',
'test-TreatmentPatternsResults.R:160:3', 'test-createSankeyDiagram.R:13:3',
'test-createSankeyDiagram.R:18:3', 'test-createSankeyDiagram.R:35:3',
'test-createSankeyDiagram.R:80:3', 'test-createSankeyDiagram.R:118:3',
'test-createSankeyDiagram.R:143:3', 'test-createSunburstPlot.R:13:3',
'test-createSunburstPlot.R:19:3', 'test-createSunburstPlot.R:29:3',
'test-executeTreatmentPatterns.R:5:3',
'test-executeTreatmentPatterns.R:10:3',
'test-executeTreatmentPatterns.R:28:3', 'test-computePathways.R:32:3',
'test-computePathways.R:80:3', 'test-computePathways.R:136:3',
'test-computePathways.R:152:3', 'test-computePathways.R:191:3',
'test-computePathways.R:207:3', 'test-computePathways.R:240:3',
'test-computePathways.R:258:3', 'test-computePathways.R:365:3',
'test-computePathways.R:513:3', 'test-computePathways.R:564:3',
'test-computePathways.R:615:3', 'test-computePathways.R:636:3',
'test-computePathways.R:659:3', 'test-computePathways.R:678:3',
'test-exportPatientLevel.R:2:3',
'test-getResultsDataModelSpecifications.R:2:3', 'test-ggSunburst.R:2:3',
'test-ggSunburst.R:24:3', 'test-ggSunburst.R:40:3',
'test-multipleCohortTables.R:6:3', 'test-export.R:8:3', 'test-export.R:15:3',
'test-export.R:31:3', 'test-export.R:101:3', 'test-export.R:154:3',
'test-export.R:198:3', 'test-export.R:242:3', 'test-export.R:319:3',
'test-export.R:386:3', 'test-export.R:435:3', 'test-export.R:477:3',
'test-export.R:521:3', 'test-export.R:596:3', 'test-export.R:670:3',
'test-export.R:698:3', 'test-pathwaysMultipleTargetsLogical.R:18:3',
'test-pathwaysMultipleTargetsLogical.R:220:3',
'test-pathwaysMultipleTargetsLogical.R:311:3',
'test-plotEventDuration.R:2:3', 'test-plotEventDuration.R:12:3',
'test-plotEventDuration.R:37:3', 'test-plotEventDuration.R:63:3',
'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:23:3'): CRAN Tests ──────────────────────────────────────
Error in `validateComputePathways()`: No 'target' cohort specified in `cohorts`.
Backtrace:
▆
1. └─TreatmentPatterns::computePathways(...) at test-CRAN.R:23:3
2. └─TreatmentPatterns:::validateComputePathways()
[ FAIL 1 | WARN 0 | SKIP 123 | PASS 0 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 3.1.1
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]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
NULL
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
NULL
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a030_Evaluating_Output.Rmd' failed with diagnostics:
The package "CirceR" is required.
--- failed re-building ‘a030_Evaluating_Output.Rmd’
--- re-building ‘a999_Strategus.Rmd’ using rmarkdown
--- finished re-building ‘a999_Strategus.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: 3.1.1
Check: installed package size
Result: NOTE
installed size is 7.0Mb
sub-directories of 1Mb or more:
doc 5.0Mb
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64