Last updated on 2025-11-22 05:48:43 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.0 | 8.18 | 1059.93 | 1068.11 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.0.0 | 5.44 | 718.67 | 724.11 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.0.0 | 58.00 | 1774.79 | 1832.79 | OK | |
| r-devel-windows-x86_64 | 0.5.1 | 11.00 | 259.00 | 270.00 | ERROR | |
| r-patched-linux-x86_64 | 0.5.1 | 7.98 | 241.80 | 249.78 | ERROR | |
| r-release-linux-x86_64 | 0.5.1 | 6.05 | 240.55 | 246.60 | ERROR | |
| r-release-macos-arm64 | 1.0.0 | 2.00 | 209.00 | 211.00 | OK | |
| r-release-macos-x86_64 | 1.0.0 | 9.00 | 879.00 | 888.00 | OK | |
| r-release-windows-x86_64 | 0.5.1 | 9.00 | 244.00 | 253.00 | ERROR | |
| r-oldrel-macos-arm64 | 1.0.0 | 2.00 | 210.00 | 212.00 | NOTE | |
| r-oldrel-macos-x86_64 | 1.0.0 | 16.00 | ERROR | |||
| r-oldrel-windows-x86_64 | 0.5.1 | 13.00 | 354.00 | 367.00 | ERROR |
Version: 0.5.1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building 'database_characteristics.Rmd' using rmarkdown
Quitting from database_characteristics.Rmd:32-39 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
NULL
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'database_characteristics.Rmd' failed with diagnostics:
✖ `datasetName` a choice between: GiBleed, empty_cdm, synpuf-1k_5.3,
synpuf-1k_5.4, synthea-allergies-10k, synthea-anemia-10k,
synthea-breast_cancer-10k, synthea-contraceptives-10k, synthea-covid19-10k,
synthea-covid19-200k, synthea-dermatitis-10k, synthea-heart-10k,
synthea-hiv-10k, synthea-lung_cancer-10k, synthea-medications-10k,
synthea-metabolic_syndrome-10k, synthea-opioid_addiction-10k,
synthea-rheumatoid_arthritis-10k, …, synthea-veterans-10k, and
synthea-weight_loss-10k.
! `datasetName` must be a choice between: GiBleed, empty_cdm, synpuf-1k_5.3,
synpuf-1k_5.4, synthea-allergies-10k, synthea-anemia-10k,
synthea-breast_cancer-10k, synthea-contraceptives-10k, synthea-covid19-10k,
synthea-covid19-200k, synthea-dermatitis-10k, synthea-heart-10k,
synthea-hiv-10k, synthea-lung_cancer-10k, synthea-medications-10k,
synthea-metabolic_syndrome-10k, synthea-opioid_addiction-10k,
synthea-rheumatoid_arthritis-10k, …, synthea-veterans-10k, and
synthea-weight_loss-10k; with length = 1; it can not contain NA; it can not
be NULL.
--- failed re-building 'database_characteristics.Rmd'
--- re-building 'missing_data.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
--- finished re-building 'missing_data.Rmd'
--- re-building 'summarise_clinical_tables_records.Rmd' using rmarkdown
Quitting from summarise_clinical_tables_records.Rmd:35-41 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
NULL
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'summarise_clinical_tables_records.Rmd' failed with diagnostics:
✖ `datasetName` a choice between: GiBleed, empty_cdm, synpuf-1k_5.3,
synpuf-1k_5.4, synthea-allergies-10k, synthea-anemia-10k,
synthea-breast_cancer-10k, synthea-contraceptives-10k, synthea-covid19-10k,
synthea-covid19-200k, synthea-dermatitis-10k, synthea-heart-10k,
synthea-hiv-10k, synthea-lung_cancer-10k, synthea-medications-10k,
synthea-metabolic_syndrome-10k, synthea-opioid_addiction-10k,
synthea-rheumatoid_arthritis-10k, …, synthea-veterans-10k, and
synthea-weight_loss-10k.
! `datasetName` must be a choice between: GiBleed, empty_cdm, synpuf-1k_5.3,
synpuf-1k_5.4, synthea-allergies-10k, synthea-anemia-10k,
synthea-breast_cancer-10k, synthea-contraceptives-10k, synthea-covid19-10k,
synthea-covid19-200k, synthea-dermatitis-10k, synthea-heart-10k,
synthea-hiv-10k, synthea-lung_cancer-10k, synthea-medications-10k,
synthea-metabolic_syndrome-10k, synthea-opioid_addiction-10k,
synthea-rheumatoid_arthritis-10k, …, synthea-veterans-10k, and
synthea-weight_loss-10k; with length = 1; it can not contain NA; it can not
be NULL.
--- failed re-building 'summarise_clinical_tables_records.Rmd'
--- re-building 'summarise_concept_id_counts.Rmd' using rmarkdown
Quitting from summarise_concept_id_counts.Rmd:32-41 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
NULL
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'summarise_concept_id_counts.Rmd' failed with diagnostics:
✖ `datasetName` a choice between: GiBleed, empty_cdm, synpuf-1k_5.3,
synpuf-1k_5.4, synthea-allergies-10k, synthea-anemia-10k,
synthea-breast_cancer-10k, synthea-contraceptives-10k, synthea-covid19-10k,
synthea-covid19-200k, synthea-dermatitis-10k, synthea-heart-10k,
synthea-hiv-10k, synthea-lung_cancer-10k, synthea-medications-10k,
synthea-metabolic_syndrome-10k, synthea-opioid_addiction-10k,
synthea-rheumatoid_arthritis-10k, …, synthea-veterans-10k, and
synthea-weight_loss-10k.
! `datasetName` must be a choice between: GiBleed, empty_cdm, synpuf-1k_5.3,
synpuf-1k_5.4, synthea-allergies-10k, synthea-anemia-10k,
synthea-breast_cancer-10k, synthea-contraceptives-10k, synthea-covid19-10k,
synthea-covid19-200k, synthea-dermatitis-10k, synthea-heart-10k,
synthea-hiv-10k, synthea-lung_cancer-10k, synthea-medications-10k,
synthea-metabolic_syndrome-10k, synthea-opioid_addiction-10k,
synthea-rheumatoid_arthritis-10k, …, synthea-veterans-10k, and
synthea-weight_loss-10k; with length = 1; it can not contain NA; it can not
be NULL.
--- failed re-building 'summarise_concept_id_counts.Rmd'
--- re-building 'summarise_observation_period.Rmd' using rmarkdown
Quitting from summarise_observation_period.Rmd:34-40 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
NULL
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'summarise_observation_period.Rmd' failed with diagnostics:
✖ `datasetName` a choice between: GiBleed, empty_cdm, synpuf-1k_5.3,
synpuf-1k_5.4, synthea-allergies-10k, synthea-anemia-10k,
synthea-breast_cancer-10k, synthea-contraceptives-10k, synthea-covid19-10k,
synthea-covid19-200k, synthea-dermatitis-10k, synthea-heart-10k,
synthea-hiv-10k, synthea-lung_cancer-10k, synthea-medications-10k,
synthea-metabolic_syndrome-10k, synthea-opioid_addiction-10k,
synthea-rheumatoid_arthritis-10k, …, synthea-veterans-10k, and
synthea-weight_loss-10k.
! `datasetName` must be a choice between: GiBleed, empty_cdm, synpuf-1k_5.3,
synpuf-1k_5.4, synthea-allergies-10k, synthea-anemia-10k,
synthea-breast_cancer-10k, synthea-contraceptives-10k, synthea-covid19-10k,
synthea-covid19-200k, synthea-dermatitis-10k, synthea-heart-10k,
synthea-hiv-10k, synthea-lung_cancer-10k, synthea-medications-10k,
synthea-metabolic_syndrome-10k, synthea-opioid_addiction-10k,
synthea-rheumatoid_arthritis-10k, …, synthea-veterans-10k, and
synthea-weight_loss-10k; with length = 1; it can not contain NA; it can not
be NULL.
--- failed re-building 'summarise_observation_period.Rmd'
SUMMARY: processing the following files failed:
'database_characteristics.Rmd'
'summarise_clinical_tables_records.Rmd'
'summarise_concept_id_counts.Rmd' 'summarise_observation_period.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-windows-x86_64, r-release-windows-x86_64, r-oldrel-windows-x86_64
Version: 0.5.1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘database_characteristics.Rmd’ using rmarkdown
Quitting from database_characteristics.Rmd:32-39 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
NULL
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'database_characteristics.Rmd' failed with diagnostics:
✖ `datasetName` a choice between: GiBleed, empty_cdm, synpuf-1k_5.3,
synpuf-1k_5.4, synthea-allergies-10k, synthea-anemia-10k,
synthea-breast_cancer-10k, synthea-contraceptives-10k, synthea-covid19-10k,
synthea-covid19-200k, synthea-dermatitis-10k, synthea-heart-10k,
synthea-hiv-10k, synthea-lung_cancer-10k, synthea-medications-10k,
synthea-metabolic_syndrome-10k, synthea-opioid_addiction-10k,
synthea-rheumatoid_arthritis-10k, …, synthea-veterans-10k, and
synthea-weight_loss-10k.
! `datasetName` must be a choice between: GiBleed, empty_cdm, synpuf-1k_5.3,
synpuf-1k_5.4, synthea-allergies-10k, synthea-anemia-10k,
synthea-breast_cancer-10k, synthea-contraceptives-10k, synthea-covid19-10k,
synthea-covid19-200k, synthea-dermatitis-10k, synthea-heart-10k,
synthea-hiv-10k, synthea-lung_cancer-10k, synthea-medications-10k,
synthea-metabolic_syndrome-10k, synthea-opioid_addiction-10k,
synthea-rheumatoid_arthritis-10k, …, synthea-veterans-10k, and
synthea-weight_loss-10k; with length = 1; it can not contain NA; it can not
be NULL.
--- failed re-building ‘database_characteristics.Rmd’
--- re-building ‘missing_data.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
--- finished re-building ‘missing_data.Rmd’
--- re-building ‘summarise_clinical_tables_records.Rmd’ using rmarkdown
Quitting from summarise_clinical_tables_records.Rmd:35-41 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
NULL
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'summarise_clinical_tables_records.Rmd' failed with diagnostics:
✖ `datasetName` a choice between: GiBleed, empty_cdm, synpuf-1k_5.3,
synpuf-1k_5.4, synthea-allergies-10k, synthea-anemia-10k,
synthea-breast_cancer-10k, synthea-contraceptives-10k, synthea-covid19-10k,
synthea-covid19-200k, synthea-dermatitis-10k, synthea-heart-10k,
synthea-hiv-10k, synthea-lung_cancer-10k, synthea-medications-10k,
synthea-metabolic_syndrome-10k, synthea-opioid_addiction-10k,
synthea-rheumatoid_arthritis-10k, …, synthea-veterans-10k, and
synthea-weight_loss-10k.
! `datasetName` must be a choice between: GiBleed, empty_cdm, synpuf-1k_5.3,
synpuf-1k_5.4, synthea-allergies-10k, synthea-anemia-10k,
synthea-breast_cancer-10k, synthea-contraceptives-10k, synthea-covid19-10k,
synthea-covid19-200k, synthea-dermatitis-10k, synthea-heart-10k,
synthea-hiv-10k, synthea-lung_cancer-10k, synthea-medications-10k,
synthea-metabolic_syndrome-10k, synthea-opioid_addiction-10k,
synthea-rheumatoid_arthritis-10k, …, synthea-veterans-10k, and
synthea-weight_loss-10k; with length = 1; it can not contain NA; it can not
be NULL.
--- failed re-building ‘summarise_clinical_tables_records.Rmd’
--- re-building ‘summarise_concept_id_counts.Rmd’ using rmarkdown
Quitting from summarise_concept_id_counts.Rmd:32-41 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
NULL
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'summarise_concept_id_counts.Rmd' failed with diagnostics:
✖ `datasetName` a choice between: GiBleed, empty_cdm, synpuf-1k_5.3,
synpuf-1k_5.4, synthea-allergies-10k, synthea-anemia-10k,
synthea-breast_cancer-10k, synthea-contraceptives-10k, synthea-covid19-10k,
synthea-covid19-200k, synthea-dermatitis-10k, synthea-heart-10k,
synthea-hiv-10k, synthea-lung_cancer-10k, synthea-medications-10k,
synthea-metabolic_syndrome-10k, synthea-opioid_addiction-10k,
synthea-rheumatoid_arthritis-10k, …, synthea-veterans-10k, and
synthea-weight_loss-10k.
! `datasetName` must be a choice between: GiBleed, empty_cdm, synpuf-1k_5.3,
synpuf-1k_5.4, synthea-allergies-10k, synthea-anemia-10k,
synthea-breast_cancer-10k, synthea-contraceptives-10k, synthea-covid19-10k,
synthea-covid19-200k, synthea-dermatitis-10k, synthea-heart-10k,
synthea-hiv-10k, synthea-lung_cancer-10k, synthea-medications-10k,
synthea-metabolic_syndrome-10k, synthea-opioid_addiction-10k,
synthea-rheumatoid_arthritis-10k, …, synthea-veterans-10k, and
synthea-weight_loss-10k; with length = 1; it can not contain NA; it can not
be NULL.
--- failed re-building ‘summarise_concept_id_counts.Rmd’
--- re-building ‘summarise_observation_period.Rmd’ using rmarkdown
Quitting from summarise_observation_period.Rmd:34-40 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
NULL
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'summarise_observation_period.Rmd' failed with diagnostics:
✖ `datasetName` a choice between: GiBleed, empty_cdm, synpuf-1k_5.3,
synpuf-1k_5.4, synthea-allergies-10k, synthea-anemia-10k,
synthea-breast_cancer-10k, synthea-contraceptives-10k, synthea-covid19-10k,
synthea-covid19-200k, synthea-dermatitis-10k, synthea-heart-10k,
synthea-hiv-10k, synthea-lung_cancer-10k, synthea-medications-10k,
synthea-metabolic_syndrome-10k, synthea-opioid_addiction-10k,
synthea-rheumatoid_arthritis-10k, …, synthea-veterans-10k, and
synthea-weight_loss-10k.
! `datasetName` must be a choice between: GiBleed, empty_cdm, synpuf-1k_5.3,
synpuf-1k_5.4, synthea-allergies-10k, synthea-anemia-10k,
synthea-breast_cancer-10k, synthea-contraceptives-10k, synthea-covid19-10k,
synthea-covid19-200k, synthea-dermatitis-10k, synthea-heart-10k,
synthea-hiv-10k, synthea-lung_cancer-10k, synthea-medications-10k,
synthea-metabolic_syndrome-10k, synthea-opioid_addiction-10k,
synthea-rheumatoid_arthritis-10k, …, synthea-veterans-10k, and
synthea-weight_loss-10k; with length = 1; it can not contain NA; it can not
be NULL.
--- failed re-building ‘summarise_observation_period.Rmd’
SUMMARY: processing the following files failed:
‘database_characteristics.Rmd’
‘summarise_clinical_tables_records.Rmd’
‘summarise_concept_id_counts.Rmd’ ‘summarise_observation_period.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavors: r-patched-linux-x86_64, r-release-linux-x86_64
Version: 1.0.0
Check: installed package size
Result: NOTE
installed size is 31.7Mb
sub-directories of 1Mb or more:
doc 29.4Mb
help 2.0Mb
Flavor: r-oldrel-macos-arm64
Version: 1.0.0
Check: package dependencies
Result: ERROR
Packages required and available but unsuitable versions:
'omopgenerics', 'PatientProfiles'
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Flavor: r-oldrel-macos-x86_64
Version: 0.5.1
Check: installed package size
Result: NOTE
installed size is 18.1Mb
sub-directories of 1Mb or more:
doc 17.1Mb
Flavor: r-oldrel-windows-x86_64