Last updated on 2025-11-01 01:50:59 CET.
| Package | ERROR | NOTE | OK |
|---|---|---|---|
| OmopSketch | 1 | 3 | 9 |
Current CRAN status: ERROR: 1, NOTE: 3, OK: 9
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]
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NULL
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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]
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NULL
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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
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.5.1
Check: installed package size
Result: NOTE
installed size is 18.1Mb
sub-directories of 1Mb or more:
doc 17.1Mb
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64