Last updated on 2024-05-01 03:53:33 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.3.1 | 12.96 | 332.92 | 345.88 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 1.3.1 | 9.70 | 231.71 | 241.41 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 1.3.1 | 420.08 | WARN | |||
| r-devel-linux-x86_64-fedora-gcc | 1.3.1 | 494.73 | ERROR | |||
| r-devel-windows-x86_64 | 1.3.1 | 11.00 | 256.00 | 267.00 | NOTE | |
| r-patched-linux-x86_64 | 1.3.1 | 7.95 | 309.99 | 317.94 | NOTE | |
| r-release-linux-x86_64 | 1.3.1 | 7.08 | 315.00 | 322.08 | NOTE | |
| r-release-macos-arm64 | 1.3.1 | 121.00 | NOTE | |||
| r-release-macos-x86_64 | 1.3.1 | 367.00 | NOTE | |||
| r-release-windows-x86_64 | 1.3.1 | 11.00 | 237.00 | 248.00 | NOTE | |
| r-oldrel-macos-arm64 | 1.3.1 | 143.00 | NOTE | |||
| r-oldrel-macos-x86_64 | 1.3.1 | 320.00 | NOTE | |||
| r-oldrel-windows-x86_64 | 1.3.1 | 14.00 | 302.00 | 316.00 | NOTE |
Version: 1.3.1
Check: package dependencies
Result: NOTE
Package which this enhances but not available for checking: ‘Capr’
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-windows-x86_64, r-oldrel-windows-x86_64
Version: 1.3.1
Check: S3 generic/method consistency
Result: WARN
insertTable:
function(cdm, name, table, overwrite, temporary)
insertTable.db_cdm:
function(cdm, name, table, overwrite)
See section ‘Generic functions and methods’ in the ‘Writing R
Extensions’ manual.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 1.3.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [289s/392s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> # 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/tests.html
> # * https://testthat.r-lib.org/reference/test_package.html#special-files
>
> library(testthat)
> library(CDMConnector)
>
> test_check("CDMConnector")
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Download completed!
Creating CDM database /tmp/RtmpgT7Avn/working_dir/RtmpbCCaGr/file13060b3956dd94/GiBleed_5.3.zip
==============>---------------- 45% | ETA: 5s
====================>---------- 67% | ETA: 4s
i Generating 5 cohorts
i Generating cohort (1/5) - gibleed_all)
v Generating cohort (1/5) - gibleed_all) [3.5s]
i Generating cohort (2/5) - gibleed_all_end_10)
v Generating cohort (2/5) - gibleed_all_end_10) [526ms]
i Generating cohort (3/5) - gibleed_default)
v Generating cohort (3/5) - gibleed_default) [446ms]
i Generating cohort (4/5) - gibleed_default_with_descendants)
v Generating cohort (4/5) - gibleed_default_with_descendants) [452ms]
i Generating cohort (5/5) - gibleed_end_10)
v Generating cohort (5/5) - gibleed_end_10) [360ms]
i Generating 3 cohorts
i Generating cohort (1/3) - gibleed_male)
v Generating cohort (1/3) - gibleed_male) [725ms]
i Generating cohort (2/3) - cerebral_venous_sinus_thrombosis_01)
v Generating cohort (2/3) - cerebral_venous_sinus_thrombosis_01) [315ms]
i Generating cohort (3/3) - deep_vein_thrombosis_01)
v Generating cohort (3/3) - deep_vein_thrombosis_01) [298ms]
i Generating 3 cohorts
i Generating 3 cohorts
i Generating cohort (1/3) - gibleed_male)
v Generating cohort (1/3) - gibleed_male) [696ms]
i Generating cohort (2/3) - cerebral_venous_sinus_thrombosis_01)
v Generating cohort (2/3) - cerebral_venous_sinus_thrombosis_01) [254ms]
i Generating cohort (3/3) - deep_vein_thrombosis_01)
v Generating cohort (3/3) - deep_vein_thrombosis_01) [292ms]
i Generating 3 cohorts
i Generating 2 cohorts
i Generating cohort (1/2) - cerebral_venous_sinus_thrombosis_01)
v Generating cohort (1/2) - cerebral_venous_sinus_thrombosis_01) [520ms]
i Generating cohort (2/2) - deep_vein_thrombosis_01)
v Generating cohort (2/2) - deep_vein_thrombosis_01) [593ms]
i Generating 2 cohorts
i Generating cohort (1/2) - cerebral_venous_sinus_thrombosis_01)
v Generating cohort (1/2) - cerebral_venous_sinus_thrombosis_01) [276ms]
i Generating cohort (2/2) - deep_vein_thrombosis_01)
v Generating cohort (2/2) - deep_vein_thrombosis_01) [312ms]
i Generating 2 cohorts
i Generating cohort (1/2) - cerebral_venous_sinus_thrombosis_01)
v Generating cohort (1/2) - cerebral_venous_sinus_thrombosis_01) [260ms]
i Generating cohort (2/2) - deep_vein_thrombosis_01)
v Generating cohort (2/2) - deep_vein_thrombosis_01) [202ms]
i Generating 2 cohorts
i Generating cohort (1/2) - cerebral_venous_sinus_thrombosis_01)
v Generating cohort (1/2) - cerebral_venous_sinus_thrombosis_01) [271ms]
i Generating cohort (2/2) - deep_vein_thrombosis_01)
v Generating cohort (2/2) - deep_vein_thrombosis_01) [286ms]
i Generating 3 cohorts
i Generating cohort (1/3) - another_gibleed_male)
v Generating cohort (1/3) - another_gibleed_male) [733ms]
i Generating cohort (2/3) - another_cerebral_venous_sinus_thrombosis_01)
v Generating cohort (2/3) - another_cerebral_venous_sinus_thrombosis_01) [237ms]
i Generating cohort (3/3) - another_deep_vein_thrombosis_01)
v Generating cohort (3/3) - another_deep_vein_thrombosis_01) [253ms]
i Generating 3 cohorts
i Generating cohort (1/3) - gibleed_male)
v Generating cohort (1/3) - gibleed_male) [681ms]
i Generating cohort (2/3) - cerebral_venous_sinus_thrombosis_01)
v Generating cohort (2/3) - cerebral_venous_sinus_thrombosis_01) [240ms]
i Generating cohort (3/3) - deep_vein_thrombosis_01)
v Generating cohort (3/3) - deep_vein_thrombosis_01) [344ms]
i Generating 3 cohorts
i Generating cohort (1/3) - gibleed_male)
v Generating cohort (1/3) - gibleed_male) [690ms]
i Generating cohort (2/3) - cerebral_venous_sinus_thrombosis_01)
v Generating cohort (2/3) - cerebral_venous_sinus_thrombosis_01) [315ms]
i Generating cohort (3/3) - deep_vein_thrombosis_01)
v Generating cohort (3/3) - deep_vein_thrombosis_01) [286ms]
[ FAIL 1 | WARN 0 | SKIP 17 | PASS 260 ]
══ Skipped tests (17) ══════════════════════════════════════════════════════════
• Capr cannot be loaded (1): 'test-db-generateCohortSet.R:77:3'
• On CRAN (9): 'test-db-generateCohortSet.R:128:3',
'test-db-generateConceptCohortSet.R:315:3',
'test-db-generateConceptCohortSet.R:332:3',
'test-db-generateConceptCohortSet.R:357:3',
'test-db-recordCohortAttrition.R:121:5',
'test-db-recordCohortAttrition.R:134:3', 'test-local_cdm.R:5:3',
'test-memory-issue.R:6:3',
'test-write_prefix_cohort_generation_snowflake.R:4:3'
• eunomia_is_available("empty_cdm") is not TRUE (1): 'test-Eunomia.R:42:3'
• failing test (1): 'test-db-dateadd.R:126:3'
• manual test (5): 'test-Eunomia.R:2:3', 'test-db-copy_cdm_to.R:62:3',
'test-db-generateCohortSet.R:108:3', 'test-db-generateCohortSet.R:243:3',
'test-db-write_schema_with_database.R:5:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-db-generateConceptCohortSet.R:308:5'): duckdb - generateConceptCohortSet ──
Error in `.make_numeric_version(x, strict, .standard_regexps()$valid_numeric_version)`: invalid non-character version specification 'x' (type: double)
Backtrace:
▆
1. └─CDMConnector (local) test_generate_concept_cohort_set(con, cdm_schema, write_schema) at test-db-generateConceptCohortSet.R:308:5
2. └─CDMConnector::generateConceptCohortSet(...) at test-db-generateConceptCohortSet.R:18:3
3. └─base::Ops.numeric_version(...)
4. └─base::as.numeric_version(e2)
5. └─base::numeric_version(x)
6. └─base::.make_numeric_version(x, strict, .standard_regexps()$valid_numeric_version)
[ FAIL 1 | WARN 0 | SKIP 17 | PASS 260 ]
Error: Test failures
In addition: Warning message:
Connection is garbage-collected, use dbDisconnect() to avoid this.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 1.3.1
Check: package dependencies
Result: NOTE
Packages which this enhances but not available for checking:
'CirceR', 'Capr'
Flavors: r-release-macos-arm64, r-release-macos-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64