Last updated on 2026-10-13 20:54:35 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.3.5 | 39.84 | 479.88 | 519.72 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.3.5 | 27.47 | 301.23 | 328.70 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 1.3.5 | 34.00 | 292.75 | 326.75 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 1.3.5 | 31.00 | 293.23 | 324.23 | OK | |
| r-devel-windows-x86_64 | 1.3.5 | 43.00 | 415.00 | 458.00 | OK | |
| r-patched-linux-x86_64 | 1.3.5 | 45.51 | 432.98 | 478.49 | OK | |
| r-release-linux-x86_64 | 1.3.5 | 43.55 | 437.53 | 481.08 | OK | |
| r-release-macos-arm64 | 1.3.5 | 10.00 | 135.00 | 145.00 | OK | |
| r-release-macos-x86_64 | 1.3.5 | 31.00 | 503.00 | 534.00 | OK | |
| r-release-windows-x86_64 | 1.3.5 | 38.00 | 397.00 | 435.00 | OK | |
| r-oldrel-macos-arm64 | 1.3.5 | 11.00 | 162.00 | 173.00 | OK | |
| r-oldrel-macos-x86_64 | 1.3.5 | 31.00 | 431.00 | 462.00 | OK | |
| r-oldrel-windows-x86_64 | 1.3.5 | 63.00 | 531.00 | 594.00 | OK |
Version: 1.3.5
Check: tests
Result: ERROR
Running ‘testthat.R’ [78s/184s]
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("BeeBDC")
>
> testthat::test_check("BeeBDC")
Spherical geometry (s2) switched off
although coordinates are longitude/latitude, st_intersects assumes that they
are planar
although coordinates are longitude/latitude, st_intersects assumes that they
are planar
Spherical geometry (s2) switched on
Spherical geometry (s2) switched off
although coordinates are longitude/latitude, st_intersects assumes that they
are planar
although coordinates are longitude/latitude, st_intersects assumes that they
are planar
dist is assumed to be in decimal degrees (arc_degrees).
although coordinates are longitude/latitude, st_intersects assumes that they
are planar
although coordinates are longitude/latitude, st_intersects assumes that they
are planar
duckdb keeps downloaded extensions and secrets in a temporary directory:
i /home/hornik/tmp/scratch/RtmpDjMfiQ/duckdb
This is removed when the R session ends.
* Extensions are re-downloaded each session.
* Secrets are lost.
i Run duckdb(shared_home = TRUE) (or create ~/.duckdb) to keep them (suitable for most users).
i Run duckdb(shared_home = FALSE) to accept the temporary directory (and silence this message).
i See ?duckdb_storage for details and alternatives.
downloading dwc_gbif_part_0.parquet ...
Saving _problems/test-taxadbToBeeBDC-14.R
[ FAIL 1 | WARN 14 | SKIP 0 | PASS 248 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-taxadbToBeeBDC.R:7:2'): (code run outside of `test_that()`) ────
<duckdb_error/rlang_error/error/condition>
Error in `duckdb_result(connection = conn, stmt_lst = stmt_lst, arrow = arrow)`: HTTP Error: HTTP GET error reading 'https://data.source.coop/cboettig/taxadb/2026/dwc_gbif_part_0.parquet' in region '' (HTTP 520 Internal Server Error)
i Context: rapi_execute
i Error type: HTTP
Backtrace:
▆
1. ├─BeeBDC::taxadbToBeeBDC(...) at test-taxadbToBeeBDC.R:7:2
2. │ └─taxadb::td_create(...)
3. │ └─taxadb::td_download(...)
4. │ ├─DBI::dbExecute(...)
5. │ └─DBI::dbExecute(...)
6. │ ├─DBI::dbSendStatement(conn, statement, ...)
7. │ └─DBI::dbSendStatement(conn, statement, ...)
8. │ ├─DBI::dbSendQuery(conn, statement, ...)
9. │ └─duckdb::dbSendQuery(conn, statement, ...)
10. │ └─duckdb (local) .local(conn, statement, ...)
11. │ └─duckdb:::duckdb_result(connection = conn, stmt_lst = stmt_lst, arrow = arrow)
12. │ └─duckdb:::duckdb_execute(res)
13. │ └─duckdb:::rethrow_rapi_execute(...)
14. │ ├─rlang::try_fetch(...)
15. │ │ ├─base::tryCatch(...)
16. │ │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
17. │ │ │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
18. │ │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
19. │ │ └─base::withCallingHandlers(...)
20. │ └─duckdb:::rapi_execute(stmt, convert_opts)
21. ├─duckdb (local) `<fn>`(...)
22. │ └─rlang::abort(error_parts, class = "duckdb_error", !!!fields)
23. │ └─rlang:::signal_abort(cnd, .file)
24. │ └─base::signalCondition(cnd)
25. └─rlang (local) `<fn>`(`<dckdb_rr>`)
26. └─handlers[[1L]](cnd)
27. └─duckdb:::rethrow_error_from_rapi(e, call)
28. └─rlang::abort(msg, class = "duckdb_error", call = call, !!!fields)
[ FAIL 1 | WARN 14 | SKIP 0 | PASS 248 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.3.5
Check: tests
Result: ERROR
Running ‘testthat.R’ [47s/70s]
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("BeeBDC")
>
> testthat::test_check("BeeBDC")
Spherical geometry (s2) switched off
although coordinates are longitude/latitude, st_intersects assumes that they
are planar
although coordinates are longitude/latitude, st_intersects assumes that they
are planar
Spherical geometry (s2) switched on
Spherical geometry (s2) switched off
although coordinates are longitude/latitude, st_intersects assumes that they
are planar
although coordinates are longitude/latitude, st_intersects assumes that they
are planar
dist is assumed to be in decimal degrees (arc_degrees).
although coordinates are longitude/latitude, st_intersects assumes that they
are planar
although coordinates are longitude/latitude, st_intersects assumes that they
are planar
duckdb is storing downloaded extensions and secrets under ~/.duckdb:
i /data/localhost/ripley/.duckdb
This persists across sessions and is shared with the DuckDB CLI and other clients.
i Run duckdb(shared_home = FALSE) to use a temporary directory instead.
i See ?duckdb_storage for details and alternatives.
duckdb was built with libc++ (not libstdc++) on Linux, so DuckDB extensions are disabled:
* Loading a prebuilt (libstdc++) extension could crash R (https://github.com/duckdb/duckdb-r/issues/1107).
* INSTALL/LOAD of an extension will error, and automatic extension loading is off.
i Pass duckdb(allow_extensions = FALSE) to accept this and silence this message.
i Pass duckdb(allow_extensions = TRUE) to attempt loading anyway (may crash R).
i See ?duckdb for details.
Saving _problems/test-taxadbToBeeBDC-14.R
[ FAIL 1 | WARN 16 | SKIP 0 | PASS 248 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-taxadbToBeeBDC.R:7:2'): (code run outside of `test_that()`) ────
Error: Could not reach the taxadb data repository at cboettig/taxadb
Backtrace:
▆
1. └─BeeBDC::taxadbToBeeBDC(...) at test-taxadbToBeeBDC.R:7:2
2. └─taxadb::td_create(...)
3. └─taxadb::td_download(...)
[ FAIL 1 | WARN 16 | SKIP 0 | PASS 248 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang