CRAN Package Check Results for Package BeeBDC

Last updated on 2026-10-12 23:49:52 CEST.

Flavor	Version	Tinstall	Tcheck	Ttotal	Status	Flags
r-devel-linux-x86_64-debian-clang	1.3.5	41.43	474.42	515.85	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	525.00	588.00	OK

Check Details

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