Last updated on 2026-08-18 22:50:07 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.3.3 | 14.70 | 141.46 | 156.16 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 1.3.3 | 11.46 | 101.16 | 112.62 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 1.3.3 | 12.00 | 98.78 | 110.78 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 1.3.3 | 11.00 | 100.00 | 111.00 | OK | |
| r-devel-windows-x86_64 | 1.3.3 | 19.00 | 150.00 | 169.00 | OK | |
| r-patched-linux-x86_64 | 1.3.3 | 16.14 | 131.36 | 147.50 | ERROR | |
| r-release-linux-x86_64 | 1.3.3 | 12.66 | 132.88 | 145.54 | ERROR | |
| r-release-macos-arm64 | 1.3.3 | 4.00 | 195.00 | 199.00 | OK | |
| r-release-macos-x86_64 | 1.3.3 | 10.00 | 314.00 | 324.00 | OK | |
| r-release-windows-x86_64 | 1.3.3 | 17.00 | 0.00 | 17.00 | ERROR | |
| r-oldrel-macos-arm64 | 1.3.3 | OK | ||||
| r-oldrel-macos-x86_64 | 1.3.3 | 9.00 | 281.00 | 290.00 | OK | |
| r-oldrel-windows-x86_64 | 1.3.3 | 22.00 | 182.00 | 204.00 | ERROR |
Version: 1.3.3
Check: tests
Result: ERROR
Running ‘testthat.R’ [11s/22s]
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(GIFT)
>
> test_check("GIFT")
You are asking for the latest stable version of GIFT which is 3.2.
You are asking for the latest stable version of GIFT which is 3.2.
Saving _problems/test-GIFT_env-44.R
You are asking for the beta-version of GIFT which is subject to
updates and edits. Consider using 'latest' for the latest stable
version.
You are asking for the beta-version of GIFT which is subject to
updates and edits. Consider using 'latest' for the latest stable
version.
You are asking for the beta-version of GIFT which is subject to
updates and edits. Consider using 'latest' for the latest stable
version.
You are asking for the beta-version of GIFT which is subject to
updates and edits. Consider using 'latest' for the latest stable
version.
You are asking for the latest stable version of GIFT which is 3.2.
You are asking for the latest stable version of GIFT which is 3.2.
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 111 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-GIFT_env.R:40:3'): invalid inputs ──────────────────────────────
<dplyr_error_join_incompatible_type/dplyr_error_join/dplyr_error/rlang_error/error/condition>
Error in `dplyr::left_join(tmp, refs, by = c(citavi_ID = "citavi_seq_no"))`: Can't join `x$citavi_ID` with `y$citavi_seq_no` due to incompatible types.
i `x$citavi_ID` is a <character>.
i `y$citavi_seq_no` is a <integer>.
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_env.R:40:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. ├─GIFT::GIFT_env(miscellaneous = "XX")
8. │ ├─base::suppressMessages(GIFT_env_meta_misc(api = api, GIFT_version = GIFT_version))
9. │ │ └─base::withCallingHandlers(...)
10. │ └─GIFT::GIFT_env_meta_misc(api = api, GIFT_version = GIFT_version)
11. │ ├─dplyr::left_join(tmp, refs, by = c(citavi_ID = "citavi_seq_no"))
12. │ └─dplyr:::left_join.data.frame(tmp, refs, by = c(citavi_ID = "citavi_seq_no"))
13. │ └─dplyr:::join_mutate(...)
14. │ └─dplyr:::join_cast_common(x_key, y_key, vars, error_call = error_call)
15. │ └─dplyr:::join_ptype_common(x, y, vars, error_call = error_call)
16. │ ├─rlang::try_fetch(...)
17. │ │ └─base::withCallingHandlers(...)
18. │ └─vctrs::vec_ptype2(x, y, x_arg = "", y_arg = "", call = error_call)
19. ├─vctrs (local) `<fn>`() at vctrs/R/type2.R:50:3
20. │ └─vctrs::vec_default_ptype2(...)
21. │ ├─base::withRestarts(...) at vctrs/R/type2.R:178:3
22. │ │ └─base (local) withOneRestart(expr, restarts[[1L]])
23. │ │ └─base (local) doWithOneRestart(return(expr), restart)
24. │ └─vctrs::stop_incompatible_type(...) at vctrs/R/type2.R:178:3
25. │ └─vctrs:::stop_incompatible(...) at vctrs/R/conditions.R:146:3
26. │ └─vctrs:::stop_vctrs(...) at vctrs/R/conditions.R:95:3
27. │ └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) at vctrs/R/conditions.R:65:3
28. │ └─rlang:::signal_abort(cnd, .file)
29. │ └─base::signalCondition(cnd)
30. └─rlang (local) `<fn>`(`<vctrs__2>`)
31. └─handlers[[1L]](cnd)
32. └─dplyr:::rethrow_error_join_incompatible_type(cnd, vars, error_call)
33. └─dplyr:::stop_join(...)
34. └─dplyr:::stop_dplyr(...)
35. └─rlang::abort(...)
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 111 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 1.3.3
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘GIFT.Rmd’ using rmarkdown
Quitting from GIFT.Rmd:865-868 [env_meta]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/dplyr_error_join_incompatible_type>
Error in `dplyr::left_join()`:
! Can't join `x$citavi_ID` with `y$citavi_seq_no` due to incompatible
types.
ℹ `x$citavi_ID` is a <character>.
ℹ `y$citavi_seq_no` is a <integer>.
---
Backtrace:
▆
1. └─GIFT::GIFT_env_meta_misc()
2. ├─dplyr::left_join(tmp, refs, by = c(citavi_ID = "citavi_seq_no"))
3. └─dplyr:::left_join.data.frame(tmp, refs, by = c(citavi_ID = "citavi_seq_no"))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'GIFT.Rmd' failed with diagnostics:
Can't join `x$citavi_ID` with `y$citavi_seq_no` due to incompatible
types.
ℹ `x$citavi_ID` is a <character>.
ℹ `y$citavi_seq_no` is a <integer>.
--- failed re-building ‘GIFT.Rmd’
SUMMARY: processing the following file failed:
‘GIFT.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-patched-linux-x86_64, r-release-linux-x86_64
Version: 1.3.3
Check: tests
Result: ERROR
Running ‘testthat.R’ [7s/10s]
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(GIFT)
>
> test_check("GIFT")
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_checklists-24.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_checklists_conditional-34.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_checklists_raw-19.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_coverage-22.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_env-31.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_env_meta_misc-25.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_env_meta_raster-25.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_lists-8.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_lists-27.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_no_overlap-19.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_overlap-18.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_phylogeny-19.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_references-28.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_regions-29.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_richness-21.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_shapes-29.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_spatial-26.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_species-25.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_species_distribution-25.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_species_lookup-17.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_taxgroup-25.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_taxonomy-30.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_traits-23.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_traits_meta-24.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_traits_raw-22.R
Either the API is wrongly specified or the server is down.
Saving _problems/test-GIFT_traits_tax-23.R
Saving _problems/test-GIFT_versions-5.R
[ FAIL 27 | WARN 1 | SKIP 0 | PASS 12 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-GIFT_checklists.R:20:3'): invalid inputs ───────────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 16 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_checklists.R:20:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_checklists(taxon_name = NA)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_checklists_conditional.R:30:3'): invalid inputs ───────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 18 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_checklists_conditional.R:30:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_checklists_conditional(taxon_name = NA)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_checklists_raw.R:15:3'): invalid inputs ───────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 16 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_checklists_raw.R:15:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_checklists_raw(ref_ID = NULL, list_ID = NULL)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_coverage.R:19:3'): invalid inputs ─────────────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 18 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_coverage.R:19:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_coverage(what = NA)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_env.R:25:3'): invalid inputs ──────────────────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 17 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_env.R:25:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_env(sumstat = NA)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_env_meta_misc.R:20:3'): invalid inputs ────────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 17 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_env_meta_misc.R:20:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_env_meta_misc(GIFT_version = NA)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_env_meta_raster.R:20:3'): invalid inputs ──────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 20 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_env_meta_raster.R:20:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_env_meta_raster(GIFT_version = NA)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_lists.R:5:3'): data frame output format ───────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 18 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_message(...) at test-GIFT_lists.R:5:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_lists(GIFT_version = "beta")
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_lists.R:22:3'): invalid inputs ────────────────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 18 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_lists.R:22:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_lists(GIFT_version = NA)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_no_overlap.R:16:3'): invalid inputs ───────────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 16 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_no_overlap.R:16:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_no_overlap(entity_IDs = NULL)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_overlap.R:14:1'): invalid inputs ──────────────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 17 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_overlap.R:14:1
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_overlap(resource = NA)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_phylogeny.R:15:3'): invalid inputs ────────────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 17 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_phylogeny.R:15:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_phylogeny(clade = NA, GIFT_version = "beta")
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_references.R:23:3'): invalid inputs ───────────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 20 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_references.R:23:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_references(GIFT_version = NA)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_regions.R:24:3'): invalid inputs ──────────────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 18 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_regions.R:24:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_regions(GIFT_version = NA)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_richness.R:17:3'): invalid inputs ─────────────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 18 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_richness.R:17:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_richness(taxon_name = NA)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_shapes.R:24:3'): invalid inputs ───────────────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 19 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_shapes.R:24:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_shapes(entity_ID = c(677, 200), GIFT_version = NA)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_spatial.R:23:3'): data frame output format ────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 17 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_spatial.R:23:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_spatial(shp = NULL, coordinates = NULL)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_species.R:20:3'): invalid inputs ──────────────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 18 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_species.R:20:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_species(GIFT_version = NA)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_species_distribution.R:20:3'): invalid inputs ─────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 18 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_species_distribution.R:20:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_species_distribution(GIFT_version = NA)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_species_lookup.R:14:3'): invalid inputs ───────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 18 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_species_lookup.R:14:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_species_lookup(genus = 1)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_taxgroup.R:20:3'): invalid inputs ─────────────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 17 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_taxgroup.R:20:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_taxgroup(work_ID = c(1:5), GIFT_version = NA)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_taxonomy.R:25:3'): invalid inputs ─────────────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 17 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_taxonomy.R:25:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_taxonomy(GIFT_version = 1)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_traits.R:21:3'): invalid inputs ───────────────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 18 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_traits.R:21:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_traits(bias_deriv = NA)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_traits_meta.R:19:1'): invalid inputs ──────────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 18 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_traits_meta.R:19:1
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_traits_meta(GIFT_version = NA)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_traits_raw.R:19:3'): invalid inputs ───────────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 18 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_traits_raw.R:19:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_traits_raw(bias_deriv = NA)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_traits_tax.R:20:3'): invalid inputs ───────────────────────
<httr2_failure/httr2_error/rlang_error/error/condition>
Error in `httr2::req_perform(resp)`: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 18 ms: Could not connect to server
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_traits_tax.R:20:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─GIFT::GIFT_traits_tax(trait_IDs = NA)
8. └─GIFT:::check_api(api)
9. ├─httr2::resp_status_desc(httr2::req_perform(resp))
10. │ └─httr2:::check_response(resp)
11. │ └─httr2:::is_response(resp)
12. └─httr2::req_perform(resp)
13. └─httr2:::handle_resp(req, resp, error_call = error_call)
14. └─rlang::cnd_signal(resp)
── Error ('test-GIFT_versions.R:5:3'): data frame output format ────────────────
Error in `open.connection(con, "rb")`: cannot open the connection to 'https://gift.uni-goettingen.de/api/index.php?query=versions'
Backtrace:
▆
1. └─GIFT::GIFT_versions() at test-GIFT_versions.R:5:3
2. └─jsonlite::read_json(...)
3. └─jsonlite::parse_json(...)
4. └─jsonlite:::parse_and_simplify(...)
5. └─jsonlite:::parseJSON(txt, bigint_as_char)
6. └─jsonlite:::parse_con(txt, bigint_as_char)
7. ├─base::open(con, "rb")
8. └─base::open.connection(con, "rb")
[ FAIL 27 | WARN 1 | SKIP 0 | PASS 12 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.3.3
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘GIFT.Rmd’ using rmarkdown
Quitting from GIFT.Rmd:510-516 [anemone_lookup]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/httr2_failure>
Error in `httr2::req_perform()`:
! Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 18 ms: Could not connect to server
---
Backtrace:
▆
1. └─GIFT::GIFT_species_lookup(genus = "Anemonoides", epithet = "nemorosa")
2. └─GIFT:::check_api(api)
3. ├─httr2::resp_status_desc(httr2::req_perform(resp))
4. │ └─httr2:::check_response(resp)
5. │ └─httr2:::is_response(resp)
6. └─httr2::req_perform(resp)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'GIFT.Rmd' failed with diagnostics:
Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Could not connect to server [gift.uni-goettingen.de]:
Failed to connect to gift.uni-goettingen.de:443 after 18 ms: Could not connect to server
--- failed re-building ‘GIFT.Rmd’
SUMMARY: processing the following file failed:
‘GIFT.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.3.3
Check: tests
Result: ERROR
Running ‘testthat.R’ [10s/22s]
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(GIFT)
>
> test_check("GIFT")
You are asking for the latest stable version of GIFT which is 3.2.
You are asking for the latest stable version of GIFT which is 3.2.
Saving _problems/test-GIFT_env-44.R
You are asking for the beta-version of GIFT which is subject to
updates and edits. Consider using 'latest' for the latest stable
version.
You are asking for the beta-version of GIFT which is subject to
updates and edits. Consider using 'latest' for the latest stable
version.
You are asking for the beta-version of GIFT which is subject to
updates and edits. Consider using 'latest' for the latest stable
version.
You are asking for the beta-version of GIFT which is subject to
updates and edits. Consider using 'latest' for the latest stable
version.
You are asking for the latest stable version of GIFT which is 3.2.
You are asking for the latest stable version of GIFT which is 3.2.
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 111 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-GIFT_env.R:40:3'): invalid inputs ──────────────────────────────
<dplyr_error_join_incompatible_type/dplyr_error_join/dplyr_error/rlang_error/error/condition>
Error in `dplyr::left_join(tmp, refs, by = c(citavi_ID = "citavi_seq_no"))`: Can't join `x$citavi_ID` with `y$citavi_seq_no` due to incompatible types.
i `x$citavi_ID` is a <character>.
i `y$citavi_seq_no` is a <integer>.
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_env.R:40:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. ├─GIFT::GIFT_env(miscellaneous = "XX")
8. │ ├─base::suppressMessages(GIFT_env_meta_misc(api = api, GIFT_version = GIFT_version))
9. │ │ └─base::withCallingHandlers(...)
10. │ └─GIFT::GIFT_env_meta_misc(api = api, GIFT_version = GIFT_version)
11. │ ├─dplyr::left_join(tmp, refs, by = c(citavi_ID = "citavi_seq_no"))
12. │ └─dplyr:::left_join.data.frame(tmp, refs, by = c(citavi_ID = "citavi_seq_no"))
13. │ └─dplyr:::join_mutate(...)
14. │ └─dplyr:::join_cast_common(x_key, y_key, vars, error_call = error_call)
15. │ └─dplyr:::join_ptype_common(x, y, vars, error_call = error_call)
16. │ ├─rlang::try_fetch(...)
17. │ │ └─base::withCallingHandlers(...)
18. │ └─vctrs::vec_ptype2(x, y, x_arg = "", y_arg = "", call = error_call)
19. ├─vctrs (local) `<fn>`() at vctrs/R/type2.R:50:3
20. │ └─vctrs::vec_default_ptype2(...)
21. │ ├─base::withRestarts(...) at vctrs/R/type2.R:178:3
22. │ │ └─base (local) withOneRestart(expr, restarts[[1L]])
23. │ │ └─base (local) doWithOneRestart(return(expr), restart)
24. │ └─vctrs::stop_incompatible_type(...) at vctrs/R/type2.R:178:3
25. │ └─vctrs:::stop_incompatible(...) at vctrs/R/conditions.R:146:3
26. │ └─vctrs:::stop_vctrs(...) at vctrs/R/conditions.R:95:3
27. │ └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) at vctrs/R/conditions.R:65:3
28. │ └─rlang:::signal_abort(cnd, .file)
29. │ └─base::signalCondition(cnd)
30. └─rlang (local) `<fn>`(`<vctrs__2>`)
31. └─handlers[[1L]](cnd)
32. └─dplyr:::rethrow_error_join_incompatible_type(cnd, vars, error_call)
33. └─dplyr:::stop_join(...)
34. └─dplyr:::stop_dplyr(...)
35. └─rlang::abort(...)
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 111 ]
Error:
! Test failures.
Execution halted
Flavors: r-patched-linux-x86_64, r-release-linux-x86_64
Version: 1.3.3
Check: tests
Result: ERROR
Running 'testthat.R' [12s]
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(GIFT)
>
> test_check("GIFT")
You are asking for the latest stable version of GIFT which is 3.2.
You are asking for the latest stable version of GIFT which is 3.2.
Saving _problems/test-GIFT_env-44.R
You are asking for the beta-version of GIFT which is subject to
updates and edits. Consider using 'latest' for the latest stable
version.
You are asking for the beta-version of GIFT which is subject to
updates and edits. Consider using 'latest' for the latest stable
version.
You are asking for the beta-version of GIFT which is subject to
updates and edits. Consider using 'latest' for the latest stable
version.
You are asking for the beta-version of GIFT which is subject to
updates and edits. Consider using 'latest' for the latest stable
version.
You are asking for the latest stable version of GIFT which is 3.2.
You are asking for the latest stable version of GIFT which is 3.2.
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 111 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-GIFT_env.R:40:3'): invalid inputs ──────────────────────────────
<dplyr_error_join_incompatible_type/dplyr_error_join/dplyr_error/rlang_error/error/condition>
Error in `dplyr::left_join(tmp, refs, by = c(citavi_ID = "citavi_seq_no"))`: Can't join `x$citavi_ID` with `y$citavi_seq_no` due to incompatible types.
i `x$citavi_ID` is a <character>.
i `y$citavi_seq_no` is a <integer>.
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_env.R:40:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. ├─GIFT::GIFT_env(miscellaneous = "XX")
8. │ ├─base::suppressMessages(GIFT_env_meta_misc(api = api, GIFT_version = GIFT_version))
9. │ │ └─base::withCallingHandlers(...)
10. │ └─GIFT::GIFT_env_meta_misc(api = api, GIFT_version = GIFT_version)
11. │ ├─dplyr::left_join(tmp, refs, by = c(citavi_ID = "citavi_seq_no"))
12. │ └─dplyr:::left_join.data.frame(tmp, refs, by = c(citavi_ID = "citavi_seq_no"))
13. │ └─dplyr:::join_mutate(...)
14. │ └─dplyr:::join_cast_common(x_key, y_key, vars, error_call = error_call)
15. │ └─dplyr:::join_ptype_common(x, y, vars, error_call = error_call)
16. │ ├─rlang::try_fetch(...)
17. │ │ └─base::withCallingHandlers(...)
18. │ └─vctrs::vec_ptype2(x, y, x_arg = "", y_arg = "", call = error_call)
19. ├─vctrs (local) `<fn>`() at vctrs/R/type2.R:50:3
20. │ └─vctrs::vec_default_ptype2(...)
21. │ ├─base::withRestarts(...) at vctrs/R/type2.R:178:3
22. │ │ └─base (local) withOneRestart(expr, restarts[[1L]])
23. │ │ └─base (local) doWithOneRestart(return(expr), restart)
24. │ └─vctrs::stop_incompatible_type(...) at vctrs/R/type2.R:178:3
25. │ └─vctrs:::stop_incompatible(...) at vctrs/R/conditions.R:146:3
26. │ └─vctrs:::stop_vctrs(...) at vctrs/R/conditions.R:95:3
27. │ └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) at vctrs/R/conditions.R:65:3
28. │ └─rlang:::signal_abort(cnd, .file)
29. │ └─base::signalCondition(cnd)
30. └─rlang (local) `<fn>`(`<vctrs__2>`)
31. └─handlers[[1L]](cnd)
32. └─dplyr:::rethrow_error_join_incompatible_type(cnd, vars, error_call)
33. └─dplyr:::stop_join(...)
34. └─dplyr:::stop_dplyr(...)
35. └─rlang::abort(...)
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 111 ]
Error:
! Test failures.
Execution halted
Flavor: r-release-windows-x86_64
Version: 1.3.3
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building 'GIFT.Rmd' using rmarkdown
Quitting from GIFT.Rmd:865-868 [env_meta]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/dplyr_error_join_incompatible_type>
Error in `dplyr::left_join()`:
! Can't join `x$citavi_ID` with `y$citavi_seq_no` due to incompatible
types.
ℹ `x$citavi_ID` is a <character>.
ℹ `y$citavi_seq_no` is a <integer>.
---
Backtrace:
▆
1. └─GIFT::GIFT_env_meta_misc()
2. ├─dplyr::left_join(tmp, refs, by = c(citavi_ID = "citavi_seq_no"))
3. └─dplyr:::left_join.data.frame(tmp, refs, by = c(citavi_ID = "citavi_seq_no"))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'GIFT.Rmd' failed with diagnostics:
Can't join `x$citavi_ID` with `y$citavi_seq_no` due to incompatible
types.
ℹ `x$citavi_ID` is a <character>.
ℹ `y$citavi_seq_no` is a <integer>.
--- failed re-building 'GIFT.Rmd'
SUMMARY: processing the following file failed:
'GIFT.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavors: r-release-windows-x86_64, r-oldrel-windows-x86_64
Version: 1.3.3
Check: tests
Result: ERROR
Running 'testthat.R' [16s]
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(GIFT)
>
> test_check("GIFT")
You are asking for the latest stable version of GIFT which is 3.2.
You are asking for the latest stable version of GIFT which is 3.2.
Saving _problems/test-GIFT_env-44.R
You are asking for the beta-version of GIFT which is subject to
updates and edits. Consider using 'latest' for the latest stable
version.
You are asking for the beta-version of GIFT which is subject to
updates and edits. Consider using 'latest' for the latest stable
version.
You are asking for the beta-version of GIFT which is subject to
updates and edits. Consider using 'latest' for the latest stable
version.
You are asking for the beta-version of GIFT which is subject to
updates and edits. Consider using 'latest' for the latest stable
version.
You are asking for the latest stable version of GIFT which is 3.2.
You are asking for the latest stable version of GIFT which is 3.2.
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 111 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-GIFT_env.R:40:3'): invalid inputs ──────────────────────────────
<dplyr_error_join_incompatible_type/dplyr_error_join/dplyr_error/rlang_error/error/condition>
Error in `dplyr::left_join(tmp, refs, by = c(citavi_ID = "citavi_seq_no"))`: Can't join `x$citavi_ID` with `y$citavi_seq_no` due to incompatible types.
i `x$citavi_ID` is a <character>.
i `y$citavi_seq_no` is a <integer>.
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-GIFT_env.R:40:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. ├─GIFT::GIFT_env(miscellaneous = "XX")
8. │ ├─base::suppressMessages(GIFT_env_meta_misc(api = api, GIFT_version = GIFT_version))
9. │ │ └─base::withCallingHandlers(...)
10. │ └─GIFT::GIFT_env_meta_misc(api = api, GIFT_version = GIFT_version)
11. │ ├─dplyr::left_join(tmp, refs, by = c(citavi_ID = "citavi_seq_no"))
12. │ └─dplyr:::left_join.data.frame(tmp, refs, by = c(citavi_ID = "citavi_seq_no"))
13. │ └─dplyr:::join_mutate(...)
14. │ └─dplyr:::join_cast_common(x_key, y_key, vars, error_call = error_call)
15. │ └─dplyr:::join_ptype_common(x, y, vars, error_call = error_call)
16. │ ├─rlang::try_fetch(...)
17. │ │ └─base::withCallingHandlers(...)
18. │ └─vctrs::vec_ptype2(x, y, x_arg = "", y_arg = "", call = error_call)
19. ├─vctrs (local) `<fn>`() at vctrs/R/type2.R:50:3
20. │ └─vctrs::vec_default_ptype2(...)
21. │ ├─base::withRestarts(...) at vctrs/R/type2.R:178:3
22. │ │ └─base (local) withOneRestart(expr, restarts[[1L]])
23. │ │ └─base (local) doWithOneRestart(return(expr), restart)
24. │ └─vctrs::stop_incompatible_type(...) at vctrs/R/type2.R:178:3
25. │ └─vctrs:::stop_incompatible(...) at vctrs/R/conditions.R:146:3
26. │ └─vctrs:::stop_vctrs(...) at vctrs/R/conditions.R:95:3
27. │ └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) at vctrs/R/conditions.R:65:3
28. │ └─rlang:::signal_abort(cnd, .file)
29. │ └─base::signalCondition(cnd)
30. └─rlang (local) `<fn>`(`<vctrs__2>`)
31. └─handlers[[1L]](cnd)
32. └─dplyr:::rethrow_error_join_incompatible_type(cnd, vars, error_call)
33. └─dplyr:::stop_join(...)
34. └─dplyr:::stop_dplyr(...)
35. └─rlang::abort(...)
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 111 ]
Error:
! Test failures.
Execution halted
Flavor: r-oldrel-windows-x86_64