Last updated on 2025-02-10 11:49:42 CET.
| Package | ERROR | OK |
|---|---|---|
| Achilles | 13 | |
| Eunomia | 1 | 12 |
Current CRAN status: OK: 13
Current CRAN status: ERROR: 1, OK: 12
Version: 2.0.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [75s/268s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(Eunomia)
> test_check("Eunomia")
trying URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/GiBleed/GiBleed_5.3.zip'
trying URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/GiBleed/GiBleed_5.3.zip'
trying URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/GiBleed/GiBleed_5.3.zip'
trying URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/Synthea27Nj/Synthea27Nj_5.4.zip'
adding: tmp/Rtmp2qzMJU/file328e8f4c5d37c6somefile.txt (stored 0%)
trying URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/GiBleed/GiBleed_5.3.zip'
trying URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/GiBleed/GiBleed_5.3.zip'
trying URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/GiBleed/GiBleed_5.3.zip'
trying URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/GiBleed/GiBleed_5.3.zip'
Content type 'application/zip' length 6861852 bytes (6.5 MB)
==================================================
downloaded 6.5 MB
trying URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/GiBleed/GiBleed_5.3.zip'
Content type 'application/zip' length 6861852 bytes (6.5 MB)
==================================================
downloaded 6.5 MB
trying URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/GiBleed/GiBleed_5.3.zip'
Content type 'application/zip' length 6861852 bytes (6.5 MB)
==================================================
downloaded 6.5 MB
trying URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/GiBleed/GiBleed_5.3.zip'
Content type 'application/zip' length 6861852 bytes (6.5 MB)
==================================================
downloaded 6.5 MB
Cohorts created in table main.cohort
trying URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/GiBleed/GiBleed_5.3.zip'
Content type 'application/zip' length 6861852 bytes (6.5 MB)
==================================================
downloaded 6.5 MB
Cohorts created in table main.cohort
[ FAIL 7 | WARN 7 | SKIP 0 | PASS 56 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-DBI.R:2:3'): dbConnect works with sqlite ───────────────────────
Error in `utils::download.file(url = paste(baseUrl, datasetName, zipName,
sep = "/"), destfile = file.path(pathToData, zipName))`: cannot open URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/GiBleed/GiBleed_5.3.zip'
Backtrace:
▆
1. ├─DBI::dbConnect(...) at test-DBI.R:2:3
2. ├─DBI::dbConnect(...)
3. │ └─RSQLite (local) .local(drv, ...)
4. │ └─base::stopifnot(length(dbname) == 1, !is.na(dbname))
5. └─Eunomia::getDatabaseFile(...)
6. └─Eunomia::downloadEunomiaData(...)
7. └─utils::download.file(...)
── Error ('test-DBI.R:13:3'): dbConnect works with duckdb ──────────────────────
Error in `utils::download.file(url = paste(baseUrl, datasetName, zipName,
sep = "/"), destfile = file.path(pathToData, zipName))`: cannot open URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/GiBleed/GiBleed_5.3.zip'
Backtrace:
▆
1. ├─DBI::dbConnect(...) at test-DBI.R:13:3
2. ├─DBI::dbConnect(...)
3. │ └─duckdb (local) .local(drv, ...)
4. │ └─duckdb:::path_normalize(dbdir)
5. └─Eunomia::getDatabaseFile(...)
6. └─Eunomia::downloadEunomiaData(...)
7. └─utils::download.file(...)
── Error ('test-EunomiaData.R:9:3'): Overwrite test for downloadEunomiaData ────
Error in `utils::download.file(url = paste(baseUrl, datasetName, zipName,
sep = "/"), destfile = file.path(pathToData, zipName))`: cannot open URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/GiBleed/GiBleed_5.3.zip'
Backtrace:
▆
1. └─Eunomia::downloadEunomiaData(datasetName = "GiBleed", overwrite = T) at test-EunomiaData.R:9:3
2. └─utils::download.file(...)
── Error ('test-EunomiaData.R:14:3'): Eunomia works with 5.4 ───────────────────
Error in `utils::download.file(url = paste(baseUrl, datasetName, zipName,
sep = "/"), destfile = file.path(pathToData, zipName))`: cannot open URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/Synthea27Nj/Synthea27Nj_5.4.zip'
Backtrace:
▆
1. └─Eunomia::getDatabaseFile(...) at test-EunomiaData.R:14:3
2. └─Eunomia::downloadEunomiaData(...)
3. └─utils::download.file(...)
── Failure ('test-basic.R:9:3'): Dataset not downloaded and not loaded into SQLite ──
`getDatabaseFile(datasetName = "GiBleed")` threw an error.
Message: cannot open URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/GiBleed/GiBleed_5.3.zip'
Class: simpleError/error/condition
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-basic.R:9:3
2. │ └─testthat:::quasi_capture(...)
3. │ ├─testthat (local) .capture(...)
4. │ │ └─base::withCallingHandlers(...)
5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
6. └─Eunomia::getDatabaseFile(datasetName = "GiBleed")
7. └─Eunomia::downloadEunomiaData(...)
8. └─utils::download.file(...)
── Error ('test-basic.R:13:3'): Dataset downloaded but not loaded into SQLite ──
Error in `utils::download.file(url = paste(baseUrl, datasetName, zipName,
sep = "/"), destfile = file.path(pathToData, zipName))`: cannot open URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/GiBleed/GiBleed_5.3.zip'
Backtrace:
▆
1. └─Eunomia::downloadEunomiaData(datasetName = "GiBleed") at test-basic.R:13:3
2. └─utils::download.file(...)
── Error ('test-basic.R:21:3'): Get connection details ─────────────────────────
Error in `utils::download.file(url = paste(baseUrl, datasetName, zipName,
sep = "/"), destfile = file.path(pathToData, zipName))`: cannot open URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/GiBleed/GiBleed_5.3.zip'
Backtrace:
▆
1. └─Eunomia::getEunomiaConnectionDetails() at test-basic.R:21:3
2. └─Eunomia::getDatabaseFile(...)
3. └─Eunomia::downloadEunomiaData(...)
4. └─utils::download.file(...)
[ FAIL 7 | WARN 7 | SKIP 0 | PASS 56 ]
Error: Test failures
In addition: Warning message:
call dbDisconnect() when finished working with a connection
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc