R version 4.6.0 beta (2026-04-15 r89885 ucrt) -- "Because it was There"
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> # 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/testing-design.html#sec-tests-files-overview
> # * https://testthat.r-lib.org/articles/special-files.html
> 
> library(testthat)
> library(TestGenerator)
> 
> test_check("TestGenerator")
v All tables are valid
v All tables are valid
v All tables are valid. Non-standard table(s) in test data: pregnancy
x The following tables are invalid: pregnancy
v All tables are valid
v Unit Test Definition Created Successfully: 'test'
v All tables are valid. Non-standard table(s) in test data: pregnancy
v Unit Test Definition Created Successfully: 'pregnancy'
v All tables are valid
v Unit Test Definition Created Successfully: 'test'
trying URL 'https://cdmconnectordata.blob.core.windows.net/cdmconnector-example-data/empty_cdm_5.4.zip'
Content type 'application/zip' length 772029174 bytes (736.3 MB)
=========================================
downloaded 616.7 MB

Saving _problems/test-patients-94.R
v All tables are valid. Non-standard table(s) in test data: pregnancy
v Unit Test Definition Created Successfully: 'pregnancy'
Creating CDM database D:\temp\2026_04_16_14_15_17_29443\RtmpMzhS2g/empty_cdm_5.4.zip
Saving _problems/test-patients-104.R
v All tables are valid
v Unit Test Definition Created Successfully: 'test'
Creating CDM database D:\temp\2026_04_16_14_15_17_29443\RtmpMzhS2g/empty_cdm_5.4.zip
Saving _problems/test-patients-115.R
v All tables are valid
v Unit Test Definition Created Successfully: 'test'
Creating CDM database D:\temp\2026_04_16_14_15_17_29443\RtmpMzhS2g/empty_cdm_5.4.zip
Saving _problems/test-patients-125.R
v Unit Test Definition Created Successfully: 'mimic_sample'
Timeout was reached [physionet.org]:
Operation timed out after 100004 milliseconds with 6979584 out of 10786504 bytes received
Timeout was reached [physionet.org]:
Operation timed out after 100042 milliseconds with 9191406 out of 10786504 bytes received
Timeout was reached [physionet.org]:
Operation timed out after 100003 milliseconds with 8011722 out of 10786504 bytes received
v All tables are valid. Non-standard table(s) in test data: pregnancy
v Unit Test Definition Created Successfully: 'pregnancy'
Creating CDM database D:\temp\2026_04_16_14_15_17_29443\RtmpMzhS2g/empty_cdm_5.4.zip
Saving _problems/test-patients-228.R
v All tables are valid. Non-standard table(s) in test data: pregnancy
v Unit Test Definition Created Successfully: 'pregnancy'
[ FAIL 5 | WARN 10 | SKIP 4 | PASS 24 ]

══ Skipped tests (4) ═══════════════════════════════════════════════════════════
• empty test (3): 'test-patients.R:147:1', 'test-patients.R:171:1',
  'test-patients.R:202:1'
• manual test (1): 'test-utilsCdm.R:2:3'

══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-patients.R:94:3'): Patients to CDM xlsx function ───────────────
Error in `utils::download.file(url = url, destfile = file.path(pathToData, zipName), mode = "wb", method = "auto", quiet = FALSE, extra = list(progressfunction = function(downloaded, total) {     progress <- min(1, downloaded/total)     cli::cli_progress_update(id = pb, set = progress) }))`: download from 'https://cdmconnectordata.blob.core.windows.net/cdmconnector-example-data/empty_cdm_5.4.zip' failed
Backtrace:
    ▆
 1. └─TestGenerator::patientsCDM(pathJson = NULL, testName = "pregnancy") at test-patients.R:94:3
 2.   └─CDMConnector::downloadEunomiaData(...)
 3.     ├─withr::with_options(...)
 4.     │ └─base::force(code)
 5.     └─utils::download.file(...)
── Error ('test-patients.R:104:3'): Patients to CDM xlsx function pregnancy extra table ──
Error in `(function (cond)  .Internal(C_tryCatchHelper(addr, 1L, cond)))(structure(list(message = structure("Data file does not contain any .parquet files to load into the database!\nTry removing the file D:\\temp\\2026_04_16_14_15_17_29443\\RtmpMzhS2g/empty_cdm_5.4.zip.", class = c("glue", "character")), trace = structure(list(call = list(TestGenerator::patientsCDM(pathJson = NULL, testName = "pregnancy"), DBI::dbConnect(duckdb::duckdb(CDMConnector::eunomiaDir(datasetName = "empty_cdm", cdmVersion = cdmVersion))), duckdb::duckdb(CDMConnector::eunomiaDir(datasetName = "empty_cdm",      cdmVersion = cdmVersion)), path_normalize(dbdir), CDMConnector::eunomiaDir(datasetName = "empty_cdm", cdmVersion = cdmVersion), rlang::abort(glue::glue("Data file does not contain any .parquet files to load into the database!\nTry removing the file {archiveLocation}."))), parent = c(0L, 1L, 1L, 3L, 1L, 5L), visible = c(TRUE, TRUE, TRUE, TRUE, TRUE, FALSE), namespace = c("TestGenerator", "DBI", "duckdb", "duckdb", "CDMConnector", "rlang"), scope = c("::", "::", "::", ":::", "::", "::"), error_frame = c(FALSE,  FALSE, FALSE, FALSE, TRUE, FALSE)), row.names = c(NA, -6L), version = 2L, class = c("rlang_trace", "rlib_trace", "tbl", "data.frame")), parent = NULL, rlang = list(inherit = TRUE), call = CDMConnector::eunomiaDir(datasetName = "empty_cdm", cdmVersion = cdmVersion)), class = c("rlang_error", "error", "condition")))`: error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': Data file does not contain any .parquet files to load into the database!
Try removing the file D:\temp\2026_04_16_14_15_17_29443\RtmpMzhS2g/empty_cdm_5.4.zip.
Backtrace:
    ▆
 1. ├─TestGenerator::patientsCDM(pathJson = NULL, testName = "pregnancy") at test-patients.R:104:3
 2. │ ├─DBI::dbConnect(...)
 3. │ ├─duckdb::duckdb(...)
 4. │ │ └─duckdb:::path_normalize(dbdir)
 5. │ └─CDMConnector::eunomiaDir(datasetName = "empty_cdm", cdmVersion = cdmVersion)
 6. │   └─rlang::abort(glue::glue("Data file does not contain any .parquet files to load into the database!\nTry removing the file {archiveLocation}."))
 7. │     └─rlang:::signal_abort(cnd, .file)
 8. │       └─base::signalCondition(cnd)
 9. └─base (local) `<fn>`(`<rlng_rrr>`)
── Error ('test-patients.R:115:3'): Read patients empty tables xl ──────────────
Error in `(function (cond)  .Internal(C_tryCatchHelper(addr, 1L, cond)))(structure(list(message = structure("Data file does not contain any .parquet files to load into the database!\nTry removing the file D:\\temp\\2026_04_16_14_15_17_29443\\RtmpMzhS2g/empty_cdm_5.4.zip.", class = c("glue", "character")), trace = structure(list(call = list(TestGenerator::patientsCDM(pathJson = NULL, testName = "test"), DBI::dbConnect(duckdb::duckdb(CDMConnector::eunomiaDir(datasetName = "empty_cdm", cdmVersion = cdmVersion))), duckdb::duckdb(CDMConnector::eunomiaDir(datasetName = "empty_cdm",      cdmVersion = cdmVersion)), path_normalize(dbdir), CDMConnector::eunomiaDir(datasetName = "empty_cdm", cdmVersion = cdmVersion), rlang::abort(glue::glue("Data file does not contain any .parquet files to load into the database!\nTry removing the file {archiveLocation}."))), parent = c(0L, 1L, 1L, 3L, 1L, 5L), visible = c(TRUE, TRUE, TRUE, TRUE, TRUE, FALSE), namespace = c("TestGenerator", "DBI", "duckdb", "duckdb", "CDMConnector", "rlang"), scope = c("::", "::", "::", ":::", "::", "::"), error_frame = c(FALSE,  FALSE, FALSE, FALSE, TRUE, FALSE)), row.names = c(NA, -6L), version = 2L, class = c("rlang_trace", "rlib_trace", "tbl", "data.frame")), parent = NULL, rlang = list(inherit = TRUE), call = CDMConnector::eunomiaDir(datasetName = "empty_cdm", cdmVersion = cdmVersion)), class = c("rlang_error", "error", "condition")))`: error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': Data file does not contain any .parquet files to load into the database!
Try removing the file D:\temp\2026_04_16_14_15_17_29443\RtmpMzhS2g/empty_cdm_5.4.zip.
Backtrace:
    ▆
 1. ├─TestGenerator::patientsCDM(pathJson = NULL, testName = "test") at test-patients.R:115:3
 2. │ ├─DBI::dbConnect(...)
 3. │ ├─duckdb::duckdb(...)
 4. │ │ └─duckdb:::path_normalize(dbdir)
 5. │ └─CDMConnector::eunomiaDir(datasetName = "empty_cdm", cdmVersion = cdmVersion)
 6. │   └─rlang::abort(glue::glue("Data file does not contain any .parquet files to load into the database!\nTry removing the file {archiveLocation}."))
 7. │     └─rlang:::signal_abort(cnd, .file)
 8. │       └─base::signalCondition(cnd)
 9. └─base (local) `<fn>`(`<rlng_rrr>`)
── Error ('test-patients.R:125:3'): Read patients empty xl ─────────────────────
Error in `(function (cond)  .Internal(C_tryCatchHelper(addr, 1L, cond)))(structure(list(message = structure("Data file does not contain any .parquet files to load into the database!\nTry removing the file D:\\temp\\2026_04_16_14_15_17_29443\\RtmpMzhS2g/empty_cdm_5.4.zip.", class = c("glue", "character")), trace = structure(list(call = list(TestGenerator::patientsCDM(pathJson = NULL, testName = "test"), DBI::dbConnect(duckdb::duckdb(CDMConnector::eunomiaDir(datasetName = "empty_cdm", cdmVersion = cdmVersion))), duckdb::duckdb(CDMConnector::eunomiaDir(datasetName = "empty_cdm",      cdmVersion = cdmVersion)), path_normalize(dbdir), CDMConnector::eunomiaDir(datasetName = "empty_cdm", cdmVersion = cdmVersion), rlang::abort(glue::glue("Data file does not contain any .parquet files to load into the database!\nTry removing the file {archiveLocation}."))), parent = c(0L, 1L, 1L, 3L, 1L, 5L), visible = c(TRUE, TRUE, TRUE, TRUE, TRUE, FALSE), namespace = c("TestGenerator", "DBI", "duckdb", "duckdb", "CDMConnector", "rlang"), scope = c("::", "::", "::", ":::", "::", "::"), error_frame = c(FALSE,  FALSE, FALSE, FALSE, TRUE, FALSE)), row.names = c(NA, -6L), version = 2L, class = c("rlang_trace", "rlib_trace", "tbl", "data.frame")), parent = NULL, rlang = list(inherit = TRUE), call = CDMConnector::eunomiaDir(datasetName = "empty_cdm", cdmVersion = cdmVersion)), class = c("rlang_error", "error", "condition")))`: error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': Data file does not contain any .parquet files to load into the database!
Try removing the file D:\temp\2026_04_16_14_15_17_29443\RtmpMzhS2g/empty_cdm_5.4.zip.
Backtrace:
    ▆
 1. ├─TestGenerator::patientsCDM(pathJson = NULL, testName = "test") at test-patients.R:125:3
 2. │ ├─DBI::dbConnect(...)
 3. │ ├─duckdb::duckdb(...)
 4. │ │ └─duckdb:::path_normalize(dbdir)
 5. │ └─CDMConnector::eunomiaDir(datasetName = "empty_cdm", cdmVersion = cdmVersion)
 6. │   └─rlang::abort(glue::glue("Data file does not contain any .parquet files to load into the database!\nTry removing the file {archiveLocation}."))
 7. │     └─rlang:::signal_abort(cnd, .file)
 8. │       └─base::signalCondition(cnd)
 9. └─base (local) `<fn>`(`<rlng_rrr>`)
── Error ('test-patients.R:228:3'): Patients to CDM version 5.4 ────────────────
Error in `(function (cond)  .Internal(C_tryCatchHelper(addr, 1L, cond)))(structure(list(message = structure("Data file does not contain any .parquet files to load into the database!\nTry removing the file D:\\temp\\2026_04_16_14_15_17_29443\\RtmpMzhS2g/empty_cdm_5.4.zip.", class = c("glue", "character")), trace = structure(list(call = list(TestGenerator::patientsCDM(pathJson = NULL, testName = "pregnancy", cdmVersion = cdmVersion), DBI::dbConnect(duckdb::duckdb(CDMConnector::eunomiaDir(datasetName = "empty_cdm", cdmVersion = cdmVersion))),      duckdb::duckdb(CDMConnector::eunomiaDir(datasetName = "empty_cdm", cdmVersion = cdmVersion)), path_normalize(dbdir), CDMConnector::eunomiaDir(datasetName = "empty_cdm", cdmVersion = cdmVersion), rlang::abort(glue::glue("Data file does not contain any .parquet files to load into the database!\nTry removing the file {archiveLocation}."))), parent = c(0L, 1L, 1L, 3L, 1L, 5L), visible = c(TRUE, TRUE, TRUE, TRUE, TRUE, FALSE), namespace = c("TestGenerator", "DBI", "duckdb", "duckdb", "CDMConnector",  "rlang"), scope = c("::", "::", "::", ":::", "::", "::"), error_frame = c(FALSE, FALSE, FALSE, FALSE, TRUE, FALSE)), row.names = c(NA, -6L), version = 2L, class = c("rlang_trace", "rlib_trace", "tbl", "data.frame")), parent = NULL, rlang = list(inherit = TRUE), call = CDMConnector::eunomiaDir(datasetName = "empty_cdm", cdmVersion = cdmVersion)), class = c("rlang_error", "error", "condition")))`: error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': Data file does not contain any .parquet files to load into the database!
Try removing the file D:\temp\2026_04_16_14_15_17_29443\RtmpMzhS2g/empty_cdm_5.4.zip.
Backtrace:
    ▆
 1. ├─TestGenerator::patientsCDM(...) at test-patients.R:228:3
 2. │ ├─DBI::dbConnect(...)
 3. │ ├─duckdb::duckdb(...)
 4. │ │ └─duckdb:::path_normalize(dbdir)
 5. │ └─CDMConnector::eunomiaDir(datasetName = "empty_cdm", cdmVersion = cdmVersion)
 6. │   └─rlang::abort(glue::glue("Data file does not contain any .parquet files to load into the database!\nTry removing the file {archiveLocation}."))
 7. │     └─rlang:::signal_abort(cnd, .file)
 8. │       └─base::signalCondition(cnd)
 9. └─base (local) `<fn>`(`<rlng_rrr>`)

[ FAIL 5 | WARN 10 | SKIP 4 | PASS 24 ]
Error:
! Test failures.
Execution halted