Last updated on 2025-05-22 05:51:10 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.1.4 | 4.64 | 541.70 | 546.34 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.1.4 | 3.55 | 412.08 | 415.63 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.1.5 | 613.29 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 0.1.5 | 839.52 | OK | |||
| r-devel-windows-x86_64 | 0.1.5 | 7.00 | 330.00 | 337.00 | OK | |
| r-patched-linux-x86_64 | 0.1.4 | 5.07 | 519.62 | 524.69 | ERROR | |
| r-release-linux-x86_64 | 0.1.4 | 4.71 | 532.34 | 537.05 | OK | |
| r-release-macos-arm64 | 0.1.5 | 390.00 | ERROR | |||
| r-release-macos-x86_64 | 0.1.5 | 260.00 | ERROR | |||
| r-release-windows-x86_64 | 0.1.4 | 6.00 | 297.00 | 303.00 | ERROR | |
| r-oldrel-macos-arm64 | 0.1.5 | 409.00 | ERROR | |||
| r-oldrel-macos-x86_64 | 0.1.5 | 262.00 | ERROR | |||
| r-oldrel-windows-x86_64 | 0.1.4 | 8.00 | 413.00 | 421.00 | OK |
Version: 0.1.4
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘a01_DatabaseDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
--- finished re-building ‘a01_DatabaseDiagnostics.Rmd’
--- re-building ‘a02_CodelistDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
Quitting from a02_CodelistDiagnostics.Rmd:78-83 [unnamed-chunk-6]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
NULL
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a02_CodelistDiagnostics.Rmd' failed with diagnostics:
Names must be unique.
✖ These names are duplicated:
* "codelist_type" at locations 4 and 5.
--- failed re-building ‘a02_CodelistDiagnostics.Rmd’
--- re-building ‘a03_CohortDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/PhenotypeR.Rcheck/vign_test/PhenotypeR/vignettes/a03_CohortDiagnostics_files/figure-html/unnamed-chunk-5-1.png
672x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 26097 bytes
Input file size = 26211 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20271
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20271
Output IDAT size = 20271 bytes (5826 bytes decrease)
Output file size = 20349 bytes (5862 bytes = 22.36% decrease)
--- finished re-building ‘a03_CohortDiagnostics.Rmd’
--- re-building ‘a04_MatchedDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
--- finished re-building ‘a04_MatchedDiagnostics.Rmd’
--- re-building ‘a05_PopulationDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
--- finished re-building ‘a05_PopulationDiagnostics.Rmd’
SUMMARY: processing the following file failed:
‘a02_CodelistDiagnostics.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.1.4
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘a01_DatabaseDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
--- finished re-building ‘a01_DatabaseDiagnostics.Rmd’
--- re-building ‘a02_CodelistDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
Quitting from a02_CodelistDiagnostics.Rmd:78-83 [unnamed-chunk-6]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
NULL
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a02_CodelistDiagnostics.Rmd' failed with diagnostics:
Names must be unique.
✖ These names are duplicated:
* "codelist_type" at locations 4 and 5.
--- failed re-building ‘a02_CodelistDiagnostics.Rmd’
--- re-building ‘a03_CohortDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/PhenotypeR.Rcheck/vign_test/PhenotypeR/vignettes/a03_CohortDiagnostics_files/figure-html/unnamed-chunk-5-1.png
672x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 26097 bytes
Input file size = 26211 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20271
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20271
Output IDAT size = 20271 bytes (5826 bytes decrease)
Output file size = 20349 bytes (5862 bytes = 22.36% decrease)
--- finished re-building ‘a03_CohortDiagnostics.Rmd’
--- re-building ‘a04_MatchedDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
--- finished re-building ‘a04_MatchedDiagnostics.Rmd’
--- re-building ‘a05_PopulationDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
--- finished re-building ‘a05_PopulationDiagnostics.Rmd’
SUMMARY: processing the following file failed:
‘a02_CodelistDiagnostics.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-patched-linux-x86_64
Version: 0.1.5
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘a01_PhenotypeDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
--- finished re-building ‘a01_PhenotypeDiagnostics.Rmd’
--- re-building ‘a02_ShinyDiagnostics.Rmd’ using rmarkdown
--- finished re-building ‘a02_ShinyDiagnostics.Rmd’
--- re-building ‘a03_DatabaseDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
Quitting from a03_DatabaseDiagnostics.Rmd:26-41 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `h()`:
! error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': cannot open the connection
---
Backtrace:
▆
1. ├─DBI::dbConnect(...)
2. ├─DBI::dbConnect(...)
3. │ └─duckdb (local) .local(drv, ...)
4. │ └─duckdb:::path_normalize(dbdir)
5. ├─CDMConnector::eunomiaDir("synpuf-1k", "5.3")
6. │ ├─DBI::dbConnect(duckdb::duckdb(datasetLocation))
7. │ └─duckdb::duckdb(datasetLocation)
8. │ └─duckdb:::path_normalize(dbdir)
9. │ └─base::writeLines(character(), out)
10. │ └─base::file(con, "w")
11. └─base::.handleSimpleError(...)
12. └─base (local) h(simpleError(msg, call))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a03_DatabaseDiagnostics.Rmd' failed with diagnostics:
error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': cannot open the connection
--- failed re-building ‘a03_DatabaseDiagnostics.Rmd’
--- re-building ‘a04_CodelistDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
Quitting from a04_CodelistDiagnostics.Rmd:29-55 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `h()`:
! error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': cannot open the connection
---
Backtrace:
▆
1. ├─DBI::dbConnect(...)
2. ├─DBI::dbConnect(...)
3. │ └─duckdb (local) .local(drv, ...)
4. │ └─duckdb:::path_normalize(dbdir)
5. ├─CDMConnector::eunomiaDir("synpuf-1k", "5.3")
6. │ ├─DBI::dbConnect(duckdb::duckdb(datasetLocation))
7. │ └─duckdb::duckdb(datasetLocation)
8. │ └─duckdb:::path_normalize(dbdir)
9. │ └─base::writeLines(character(), out)
10. │ └─base::file(con, "w")
11. └─base::.handleSimpleError(...)
12. └─base (local) h(simpleError(msg, call))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a04_CodelistDiagnostics.Rmd' failed with diagnostics:
error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': cannot open the connection
--- failed re-building ‘a04_CodelistDiagnostics.Rmd’
--- re-building ‘a05_CohortDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
Quitting from a05_CohortDiagnostics.Rmd:35-61 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `h()`:
! error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': cannot open the connection
---
Backtrace:
▆
1. ├─DBI::dbConnect(...)
2. ├─DBI::dbConnect(...)
3. │ └─duckdb (local) .local(drv, ...)
4. │ └─duckdb:::path_normalize(dbdir)
5. ├─CDMConnector::eunomiaDir("synpuf-1k", "5.3")
6. │ ├─DBI::dbConnect(duckdb::duckdb(datasetLocation))
7. │ └─duckdb::duckdb(datasetLocation)
8. │ └─duckdb:::path_normalize(dbdir)
9. │ └─base::writeLines(character(), out)
10. │ └─base::file(con, "w")
11. └─base::.handleSimpleError(...)
12. └─base (local) h(simpleError(msg, call))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a05_CohortDiagnostics.Rmd' failed with diagnostics:
error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': cannot open the connection
--- failed re-building ‘a05_CohortDiagnostics.Rmd’
--- re-building ‘a06_MatchedDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
--- finished re-building ‘a06_MatchedDiagnostics.Rmd’
--- re-building ‘a07_PopulationDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
Quitting from a07_PopulationDiagnostics.Rmd:26-48 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `h()`:
! error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': cannot open the connection
---
Backtrace:
▆
1. ├─DBI::dbConnect(...)
2. ├─DBI::dbConnect(...)
3. │ └─duckdb (local) .local(drv, ...)
4. │ └─duckdb:::path_normalize(dbdir)
5. ├─CDMConnector::eunomiaDir("synpuf-1k", "5.3")
6. │ ├─DBI::dbConnect(duckdb::duckdb(datasetLocation))
7. │ └─duckdb::duckdb(datasetLocation)
8. │ └─duckdb:::path_normalize(dbdir)
9. │ └─base::writeLines(character(), out)
10. │ └─base::file(con, "w")
11. └─base::.handleSimpleError(...)
12. └─base (local) h(simpleError(msg, call))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a07_PopulationDiagnostics.Rmd' failed with diagnostics:
error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': cannot open the connection
--- failed re-building ‘a07_PopulationDiagnostics.Rmd’
SUMMARY: processing the following files failed:
‘a03_DatabaseDiagnostics.Rmd’ ‘a04_CodelistDiagnostics.Rmd’
‘a05_CohortDiagnostics.Rmd’ ‘a07_PopulationDiagnostics.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavors: r-release-macos-arm64, r-oldrel-macos-arm64
Version: 0.1.5
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘a01_PhenotypeDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
======================================
downloaded 438.9 MB
Quitting from a01_PhenotypeDiagnostics.Rmd:10-20 [unnamed-chunk-1]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `utils::download.file()`:
! download from 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip' failed
---
Backtrace:
▆
1. └─CDMConnector::downloadEunomiaData(...)
2. ├─withr::with_options(...)
3. │ └─base::force(code)
4. └─utils::download.file(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a01_PhenotypeDiagnostics.Rmd' failed with diagnostics:
download from 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip' failed
--- failed re-building ‘a01_PhenotypeDiagnostics.Rmd’
--- re-building ‘a02_ShinyDiagnostics.Rmd’ using rmarkdown
--- finished re-building ‘a02_ShinyDiagnostics.Rmd’
--- re-building ‘a03_DatabaseDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
Quitting from a03_DatabaseDiagnostics.Rmd:26-41 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': rapi_startup: Failed to open database: {"exception_type":"IO","exception_message":"Could not write file \"/private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/RtmpgDIMbw/synpuf-1k_5.3_1.2.duckdb\": No space left on device","errno":"28"}
---
Backtrace:
▆
1. ├─DBI::dbConnect(...)
2. ├─DBI::dbConnect(...)
3. │ └─duckdb (local) .local(drv, ...)
4. │ └─duckdb:::path_normalize(dbdir)
5. ├─CDMConnector::eunomiaDir("synpuf-1k", "5.3")
6. │ ├─DBI::dbConnect(duckdb::duckdb(datasetLocation))
7. │ └─duckdb::duckdb(datasetLocation)
8. │ ├─methods::new(...)
9. │ │ ├─methods::initialize(value, ...)
10. │ │ └─methods::initialize(value, ...)
11. │ └─duckdb:::rethrow_rapi_startup(dbdir, read_only, config, environment_scan)
12. │ ├─rlang::try_fetch(...)
13. │ │ ├─base::tryCatch(...)
14. │ │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
15. │ │ │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
16. │ │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
17. │ │ └─base::withCallingHandlers(...)
18. │ └─duckdb:::rapi_startup(dbdir, readonly, configsexp, environment_scan)
19. ├─base::.handleSimpleError(...)
20. │ └─rlang (local) h(simpleError(msg, call))
21. │ └─handlers[[1L]](cnd)
22. │ └─duckdb:::rethrow_error_from_rapi(e, call)
23. │ └─rlang::abort(msg, call = call)
24. │ └─rlang:::signal_abort(cnd, .file)
25. │ └─base::signalCondition(cnd)
26. └─base (local) `<fn>`(`<rlng_rrr>`)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a03_DatabaseDiagnostics.Rmd' failed with diagnostics:
error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': rapi_startup: Failed to open database: {"exception_type":"IO","exception_message":"Could not write file \"/private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/RtmpgDIMbw/synpuf-1k_5.3_1.2.duckdb\": No space left on device","errno":"28"}
--- failed re-building ‘a03_DatabaseDiagnostics.Rmd’
--- re-building ‘a04_CodelistDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
Quitting from a04_CodelistDiagnostics.Rmd:29-55 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': rapi_startup: Failed to open database: {"exception_type":"IO","exception_message":"Could not write file \"/private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/RtmpLcJC8t/synpuf-1k_5.3_1.2.duckdb\": No space left on device","errno":"28"}
---
Backtrace:
▆
1. ├─DBI::dbConnect(...)
2. ├─DBI::dbConnect(...)
3. │ └─duckdb (local) .local(drv, ...)
4. │ └─duckdb:::path_normalize(dbdir)
5. ├─CDMConnector::eunomiaDir("synpuf-1k", "5.3")
6. │ ├─DBI::dbConnect(duckdb::duckdb(datasetLocation))
7. │ └─duckdb::duckdb(datasetLocation)
8. │ ├─methods::new(...)
9. │ │ ├─methods::initialize(value, ...)
10. │ │ └─methods::initialize(value, ...)
11. │ └─duckdb:::rethrow_rapi_startup(dbdir, read_only, config, environment_scan)
12. │ ├─rlang::try_fetch(...)
13. │ │ ├─base::tryCatch(...)
14. │ │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
15. │ │ │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
16. │ │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
17. │ │ └─base::withCallingHandlers(...)
18. │ └─duckdb:::rapi_startup(dbdir, readonly, configsexp, environment_scan)
19. ├─base::.handleSimpleError(...)
20. │ └─rlang (local) h(simpleError(msg, call))
21. │ └─handlers[[1L]](cnd)
22. │ └─duckdb:::rethrow_error_from_rapi(e, call)
23. │ └─rlang::abort(msg, call = call)
24. │ └─rlang:::signal_abort(cnd, .file)
25. │ └─base::signalCondition(cnd)
26. └─base (local) `<fn>`(`<rlng_rrr>`)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a04_CodelistDiagnostics.Rmd' failed with diagnostics:
error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': rapi_startup: Failed to open database: {"exception_type":"IO","exception_message":"Could not write file \"/private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/RtmpLcJC8t/synpuf-1k_5.3_1.2.duckdb\": No space left on device","errno":"28"}
--- failed re-building ‘a04_CodelistDiagnostics.Rmd’
--- re-building ‘a05_CohortDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
Quitting from a05_CohortDiagnostics.Rmd:35-61 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `h()`:
! error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': cannot open the connection
---
Backtrace:
▆
1. ├─DBI::dbConnect(...)
2. ├─DBI::dbConnect(...)
3. │ └─duckdb (local) .local(drv, ...)
4. │ └─duckdb:::path_normalize(dbdir)
5. ├─CDMConnector::eunomiaDir("synpuf-1k", "5.3")
6. │ ├─DBI::dbConnect(duckdb::duckdb(datasetLocation))
7. │ └─duckdb::duckdb(datasetLocation)
8. │ └─duckdb:::path_normalize(dbdir)
9. │ └─base::writeLines(character(), out)
10. │ └─base::file(con, "w")
11. └─base::.handleSimpleError(...)
12. └─base (local) h(simpleError(msg, call))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a05_CohortDiagnostics.Rmd' failed with diagnostics:
error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': cannot open the connection
--- failed re-building ‘a05_CohortDiagnostics.Rmd’
--- re-building ‘a06_MatchedDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
--- finished re-building ‘a06_MatchedDiagnostics.Rmd’
--- re-building ‘a07_PopulationDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
Quitting from a07_PopulationDiagnostics.Rmd:26-48 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': rapi_startup: Failed to open database: {"exception_type":"IO","exception_message":"Could not write file \"/private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/RtmpbK3GY3/synpuf-1k_5.3_1.2.duckdb\": No space left on device","errno":"28"}
---
Backtrace:
▆
1. ├─DBI::dbConnect(...)
2. ├─DBI::dbConnect(...)
3. │ └─duckdb (local) .local(drv, ...)
4. │ └─duckdb:::path_normalize(dbdir)
5. ├─CDMConnector::eunomiaDir("synpuf-1k", "5.3")
6. │ ├─DBI::dbConnect(duckdb::duckdb(datasetLocation))
7. │ └─duckdb::duckdb(datasetLocation)
8. │ ├─methods::new(...)
9. │ │ ├─methods::initialize(value, ...)
10. │ │ └─methods::initialize(value, ...)
11. │ └─duckdb:::rethrow_rapi_startup(dbdir, read_only, config, environment_scan)
12. │ ├─rlang::try_fetch(...)
13. │ │ ├─base::tryCatch(...)
14. │ │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
15. │ │ │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
16. │ │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
17. │ │ └─base::withCallingHandlers(...)
18. │ └─duckdb:::rapi_startup(dbdir, readonly, configsexp, environment_scan)
19. ├─base::.handleSimpleError(...)
20. │ └─rlang (local) h(simpleError(msg, call))
21. │ └─handlers[[1L]](cnd)
22. │ └─duckdb:::rethrow_error_from_rapi(e, call)
23. │ └─rlang::abort(msg, call = call)
24. │ └─rlang:::signal_abort(cnd, .file)
25. │ └─base::signalCondition(cnd)
26. └─base (local) `<fn>`(`<rlng_rrr>`)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a07_PopulationDiagnostics.Rmd' failed with diagnostics:
error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': rapi_startup: Failed to open database: {"exception_type":"IO","exception_message":"Could not write file \"/private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/RtmpbK3GY3/synpuf-1k_5.3_1.2.duckdb\": No space left on device","errno":"28"}
--- failed re-building ‘a07_PopulationDiagnostics.Rmd’
SUMMARY: processing the following files failed:
‘a01_PhenotypeDiagnostics.Rmd’ ‘a03_DatabaseDiagnostics.Rmd’
‘a04_CodelistDiagnostics.Rmd’ ‘a05_CohortDiagnostics.Rmd’
‘a07_PopulationDiagnostics.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-release-macos-x86_64
Version: 0.1.4
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building 'a01_DatabaseDiagnostics.Rmd' using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
--- finished re-building 'a01_DatabaseDiagnostics.Rmd'
--- re-building 'a02_CodelistDiagnostics.Rmd' using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
Quitting from a02_CodelistDiagnostics.Rmd:78-83 [unnamed-chunk-6]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
NULL
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a02_CodelistDiagnostics.Rmd' failed with diagnostics:
Names must be unique.
✖ These names are duplicated:
* "codelist_type" at locations 4 and 5.
--- failed re-building 'a02_CodelistDiagnostics.Rmd'
--- re-building 'a03_CohortDiagnostics.Rmd' using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
--- finished re-building 'a03_CohortDiagnostics.Rmd'
--- re-building 'a04_MatchedDiagnostics.Rmd' using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
--- finished re-building 'a04_MatchedDiagnostics.Rmd'
--- re-building 'a05_PopulationDiagnostics.Rmd' using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
--- finished re-building 'a05_PopulationDiagnostics.Rmd'
SUMMARY: processing the following file failed:
'a02_CodelistDiagnostics.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavor: r-release-windows-x86_64
Version: 0.1.5
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘a01_PhenotypeDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================
downloaded 391.6 MB
Quitting from a01_PhenotypeDiagnostics.Rmd:10-20 [unnamed-chunk-1]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `utils::download.file()`:
! download from 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip' failed
---
Backtrace:
▆
1. └─CDMConnector::downloadEunomiaData(...)
2. ├─withr::with_options(...)
3. │ └─base::force(code)
4. └─utils::download.file(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a01_PhenotypeDiagnostics.Rmd' failed with diagnostics:
download from 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip' failed
--- failed re-building ‘a01_PhenotypeDiagnostics.Rmd’
--- re-building ‘a02_ShinyDiagnostics.Rmd’ using rmarkdown
--- finished re-building ‘a02_ShinyDiagnostics.Rmd’
--- re-building ‘a03_DatabaseDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
Quitting from a03_DatabaseDiagnostics.Rmd:26-41 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': rapi_startup: Failed to open database: {"exception_type":"IO","exception_message":"Could not write file \"/private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/RtmpClPq6J/synpuf-1k_5.3_1.2.duckdb\": No space left on device","errno":"28"}
---
Backtrace:
▆
1. ├─DBI::dbConnect(...)
2. ├─DBI::dbConnect(...)
3. │ └─duckdb (local) .local(drv, ...)
4. │ └─duckdb:::path_normalize(dbdir)
5. ├─CDMConnector::eunomiaDir("synpuf-1k", "5.3")
6. │ ├─DBI::dbConnect(duckdb::duckdb(datasetLocation))
7. │ └─duckdb::duckdb(datasetLocation)
8. │ ├─methods::new(...)
9. │ │ ├─methods::initialize(value, ...)
10. │ │ └─methods::initialize(value, ...)
11. │ └─duckdb:::rethrow_rapi_startup(dbdir, read_only, config, environment_scan)
12. │ ├─rlang::try_fetch(...)
13. │ │ ├─base::tryCatch(...)
14. │ │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
15. │ │ │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
16. │ │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
17. │ │ └─base::withCallingHandlers(...)
18. │ └─duckdb:::rapi_startup(dbdir, readonly, configsexp, environment_scan)
19. ├─base::.handleSimpleError(...)
20. │ └─rlang (local) h(simpleError(msg, call))
21. │ └─handlers[[1L]](cnd)
22. │ └─duckdb:::rethrow_error_from_rapi(e, call)
23. │ └─rlang::abort(msg, call = call)
24. │ └─rlang:::signal_abort(cnd, .file)
25. │ └─base::signalCondition(cnd)
26. └─base (local) `<fn>`(`<rlng_rrr>`)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a03_DatabaseDiagnostics.Rmd' failed with diagnostics:
error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': rapi_startup: Failed to open database: {"exception_type":"IO","exception_message":"Could not write file \"/private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/RtmpClPq6J/synpuf-1k_5.3_1.2.duckdb\": No space left on device","errno":"28"}
--- failed re-building ‘a03_DatabaseDiagnostics.Rmd’
--- re-building ‘a04_CodelistDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
Quitting from a04_CodelistDiagnostics.Rmd:29-55 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': rapi_startup: Failed to open database: {"exception_type":"IO","exception_message":"Could not write file \"/private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/Rtmp2eIYBn/synpuf-1k_5.3_1.2.duckdb\": No space left on device","errno":"28"}
---
Backtrace:
▆
1. ├─DBI::dbConnect(...)
2. ├─DBI::dbConnect(...)
3. │ └─duckdb (local) .local(drv, ...)
4. │ └─duckdb:::path_normalize(dbdir)
5. ├─CDMConnector::eunomiaDir("synpuf-1k", "5.3")
6. │ ├─DBI::dbConnect(duckdb::duckdb(datasetLocation))
7. │ └─duckdb::duckdb(datasetLocation)
8. │ ├─methods::new(...)
9. │ │ ├─methods::initialize(value, ...)
10. │ │ └─methods::initialize(value, ...)
11. │ └─duckdb:::rethrow_rapi_startup(dbdir, read_only, config, environment_scan)
12. │ ├─rlang::try_fetch(...)
13. │ │ ├─base::tryCatch(...)
14. │ │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
15. │ │ │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
16. │ │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
17. │ │ └─base::withCallingHandlers(...)
18. │ └─duckdb:::rapi_startup(dbdir, readonly, configsexp, environment_scan)
19. ├─base::.handleSimpleError(...)
20. │ └─rlang (local) h(simpleError(msg, call))
21. │ └─handlers[[1L]](cnd)
22. │ └─duckdb:::rethrow_error_from_rapi(e, call)
23. │ └─rlang::abort(msg, call = call)
24. │ └─rlang:::signal_abort(cnd, .file)
25. │ └─base::signalCondition(cnd)
26. └─base (local) `<fn>`(`<rlng_rrr>`)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a04_CodelistDiagnostics.Rmd' failed with diagnostics:
error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': rapi_startup: Failed to open database: {"exception_type":"IO","exception_message":"Could not write file \"/private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/Rtmp2eIYBn/synpuf-1k_5.3_1.2.duckdb\": No space left on device","errno":"28"}
--- failed re-building ‘a04_CodelistDiagnostics.Rmd’
--- re-building ‘a05_CohortDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
Quitting from a05_CohortDiagnostics.Rmd:35-61 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': rapi_startup: Failed to open database: {"exception_type":"IO","exception_message":"Could not write file \"/private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/RtmpiCKIR0/synpuf-1k_5.3_1.2.duckdb\": No space left on device","errno":"28"}
---
Backtrace:
▆
1. ├─DBI::dbConnect(...)
2. ├─DBI::dbConnect(...)
3. │ └─duckdb (local) .local(drv, ...)
4. │ └─duckdb:::path_normalize(dbdir)
5. ├─CDMConnector::eunomiaDir("synpuf-1k", "5.3")
6. │ ├─DBI::dbConnect(duckdb::duckdb(datasetLocation))
7. │ └─duckdb::duckdb(datasetLocation)
8. │ ├─methods::new(...)
9. │ │ ├─methods::initialize(value, ...)
10. │ │ └─methods::initialize(value, ...)
11. │ └─duckdb:::rethrow_rapi_startup(dbdir, read_only, config, environment_scan)
12. │ ├─rlang::try_fetch(...)
13. │ │ ├─base::tryCatch(...)
14. │ │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
15. │ │ │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
16. │ │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
17. │ │ └─base::withCallingHandlers(...)
18. │ └─duckdb:::rapi_startup(dbdir, readonly, configsexp, environment_scan)
19. ├─base::.handleSimpleError(...)
20. │ └─rlang (local) h(simpleError(msg, call))
21. │ └─handlers[[1L]](cnd)
22. │ └─duckdb:::rethrow_error_from_rapi(e, call)
23. │ └─rlang::abort(msg, call = call)
24. │ └─rlang:::signal_abort(cnd, .file)
25. │ └─base::signalCondition(cnd)
26. └─base (local) `<fn>`(`<rlng_rrr>`)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a05_CohortDiagnostics.Rmd' failed with diagnostics:
error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': rapi_startup: Failed to open database: {"exception_type":"IO","exception_message":"Could not write file \"/private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/RtmpiCKIR0/synpuf-1k_5.3_1.2.duckdb\": No space left on device","errno":"28"}
--- failed re-building ‘a05_CohortDiagnostics.Rmd’
--- re-building ‘a06_MatchedDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
--- finished re-building ‘a06_MatchedDiagnostics.Rmd’
--- re-building ‘a07_PopulationDiagnostics.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/synpuf-1k_5.3.zip'
Content type 'application/zip' length 593048982 bytes (565.6 MB)
==================================================
downloaded 565.6 MB
Quitting from a07_PopulationDiagnostics.Rmd:26-48 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': rapi_startup: Failed to open database: {"exception_type":"IO","exception_message":"Could not write file \"/private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/RtmpNZ0DYf/synpuf-1k_5.3_1.2.duckdb\": No space left on device","errno":"28"}
---
Backtrace:
▆
1. ├─DBI::dbConnect(...)
2. ├─DBI::dbConnect(...)
3. │ └─duckdb (local) .local(drv, ...)
4. │ └─duckdb:::path_normalize(dbdir)
5. ├─CDMConnector::eunomiaDir("synpuf-1k", "5.3")
6. │ ├─DBI::dbConnect(duckdb::duckdb(datasetLocation))
7. │ └─duckdb::duckdb(datasetLocation)
8. │ ├─methods::new(...)
9. │ │ ├─methods::initialize(value, ...)
10. │ │ └─methods::initialize(value, ...)
11. │ └─duckdb:::rethrow_rapi_startup(dbdir, read_only, config, environment_scan)
12. │ ├─rlang::try_fetch(...)
13. │ │ ├─base::tryCatch(...)
14. │ │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
15. │ │ │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
16. │ │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
17. │ │ └─base::withCallingHandlers(...)
18. │ └─duckdb:::rapi_startup(dbdir, readonly, configsexp, environment_scan)
19. ├─base::.handleSimpleError(...)
20. │ └─rlang (local) h(simpleError(msg, call))
21. │ └─handlers[[1L]](cnd)
22. │ └─duckdb:::rethrow_error_from_rapi(e, call)
23. │ └─rlang::abort(msg, call = call)
24. │ └─rlang:::signal_abort(cnd, .file)
25. │ └─base::signalCondition(cnd)
26. └─base (local) `<fn>`(`<rlng_rrr>`)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a07_PopulationDiagnostics.Rmd' failed with diagnostics:
error in evaluating the argument 'drv' in selecting a method for function 'dbConnect': rapi_startup: Failed to open database: {"exception_type":"IO","exception_message":"Could not write file \"/private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/RtmpNZ0DYf/synpuf-1k_5.3_1.2.duckdb\": No space left on device","errno":"28"}
--- failed re-building ‘a07_PopulationDiagnostics.Rmd’
SUMMARY: processing the following files failed:
‘a01_PhenotypeDiagnostics.Rmd’ ‘a03_DatabaseDiagnostics.Rmd’
‘a04_CodelistDiagnostics.Rmd’ ‘a05_CohortDiagnostics.Rmd’
‘a07_PopulationDiagnostics.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-oldrel-macos-x86_64