Last updated on 2026-04-30 09:52:54 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.1.0 | 1.87 | 43.40 | 45.27 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.1.0 | 1.67 | 32.15 | 33.82 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.1.0 | 54.54 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 0.1.0 | 67.45 | OK | |||
| r-devel-windows-x86_64 | 0.1.0 | 5.00 | 60.00 | 65.00 | OK | |
| r-patched-linux-x86_64 | 0.1.0 | 2.29 | 38.67 | 40.96 | OK | |
| r-release-linux-x86_64 | 0.1.0 | 2.15 | 38.66 | 40.81 | OK | |
| r-release-macos-arm64 | 0.1.0 | 1.00 | 13.00 | 14.00 | OK | |
| r-release-macos-x86_64 | 0.1.0 | 2.00 | 82.00 | 84.00 | OK | |
| r-release-windows-x86_64 | 0.1.0 | 4.00 | 63.00 | 67.00 | OK | |
| r-oldrel-macos-arm64 | 0.1.0 | 1.00 | 18.00 | 19.00 | OK | |
| r-oldrel-macos-x86_64 | 0.1.0 | 2.00 | 67.00 | 69.00 | OK | |
| r-oldrel-windows-x86_64 | 0.1.0 | 7.00 | 71.00 | 78.00 | OK |
Version: 0.1.0
Check: examples
Result: ERROR
Running examples in ‘duckh3-Ex.R’ failed
The error most likely occurred in:
> ### Name: ddbh3_get_child_pos
> ### Title: Get the position of an H3 cell within its parent
> ### Aliases: ddbh3_get_child_pos
>
> ### ** Examples
>
> ## Load needed packages
> library(duckh3)
> library(dplyr)
Attaching package: ‘dplyr’
The following objects are masked from ‘package:stats’:
filter, lag
The following objects are masked from ‘package:base’:
intersect, setdiff, setequal, union
>
> ## Setup the default connection with h3 and spatial extensions
> ## This is a mandatory step to use duckh3 functions
> ddbh3_default_conn(threads = 1)
[gannet:1478271:0:1478271] Caught signal 11 (Segmentation fault: Sent by the kernel at address (nil))
==== backtrace (tid:1478271) ====
0 /lib64/libucs.so.0(ucs_handle_error+0x2e4) [0x7f2e5a1b7df4]
1 /lib64/libucs.so.0(+0x17aed) [0x7f2e5a1b9aed]
2 /lib64/libucs.so.0(+0x17cbd) [0x7f2e5a1b9cbd]
3 /lib64/libc.so.6(+0x1a040) [0x7f2e6fa29040]
4 /data/gannet/ripley/.local/share/R/duckdb/extensions/v1.5.2/linux_amd64/spatial.duckdb_extension(+0x1181e00) [0x7f2d47981e00]
5 /data/gannet/ripley/.local/share/R/duckdb/extensions/v1.5.2/linux_amd64/spatial.duckdb_extension(+0x1152a28) [0x7f2d47952a28]
6 /data/gannet/ripley/.local/share/R/duckdb/extensions/v1.5.2/linux_amd64/spatial.duckdb_extension(+0x75c104) [0x7f2d46f5c104]
7 /data/gannet/ripley/.local/share/R/duckdb/extensions/v1.5.2/linux_amd64/spatial.duckdb_extension(+0x75a499) [0x7f2d46f5a499]
8 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb15ExtensionHelper29LoadExternalExtensionInternalERNS_16DatabaseInstanceERNS_10FileSystemERKNSt3__112basic_stringIcNS5_11char_traitsIcEENS5_9allocatorIcEEEERNS_19ExtensionActiveLoadE+0x18f) [0x7f2d92e79e3f]
9 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb15ExtensionHelper21LoadExternalExtensionERNS_16DatabaseInstanceERNS_10FileSystemERKNSt3__112basic_stringIcNS5_11char_traitsIcEENS5_9allocatorIcEEEE+0x4a) [0x7f2d92e79bea]
10 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZNK6duckdb12PhysicalLoad15GetDataInternalERNS_16ExecutionContextERNS_9DataChunkERNS_19OperatorSourceInputE+0x151) [0x7f2d93c5e831]
11 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb16PipelineExecutor15FetchFromSourceERNS_9DataChunkE+0x9b) [0x7f2d9448d8eb]
12 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb16PipelineExecutor7ExecuteEm+0x146) [0x7f2d9448a4c6]
13 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb12PipelineTask11ExecuteTaskENS_17TaskExecutionModeE+0x112) [0x7f2d9448a0f2]
14 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb12ExecutorTask7ExecuteENS_17TaskExecutionModeE+0xa0) [0x7f2d94483d90]
15 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb8Executor11ExecuteTaskEb+0x1c0) [0x7f2d944890f0]
16 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb13ClientContext19ExecuteTaskInternalERNS_17ClientContextLockERNS_15BaseQueryResultEb+0x40) [0x7f2d942981f0]
17 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb18PendingQueryResult15ExecuteInternalERNS_17ClientContextLockE+0x7a) [0x7f2d9429a97a]
18 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb13ClientContext7ExecuteERKNSt3__112basic_stringIcNS1_11char_traitsIcEENS1_9allocatorIcEEEERNS_10shared_ptrINS_21PreparedStatementDataELb1EEERKNS_22PendingQueryParametersE+0xa0) [0x7f2d9429a6c0]
19 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb17PreparedStatement7ExecuteERNSt3__113unordered_mapINS1_12basic_stringIcNS1_11char_traitsIcEENS1_9allocatorIcEEEENS_18BoundParameterDataENS_33CaseInsensitiveStringHashFunctionENS_29CaseInsensitiveStringEqualityENS6_INS1_4pairIKS8_S9_EEEEEEb+0x1c3) [0x7f2d942bd473]
20 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb17PreparedStatement7ExecuteERNS_6vectorINS_5ValueELb1ENSt3__19allocatorIS2_EEEEb+0x172) [0x7f2d942bd712]
21 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_Z12rapi_executeN5cpp1116external_pointerIN6duckdb10RStatementEXadL_ZNS_15default_deleterIS2_EEvPT_EEEENS1_11ConvertOptsE+0x115) [0x7f2d92b07f75]
22 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_duckdb_rapi_execute+0x66) [0x7f2d92b704a6]
23 /data/gannet/ripley/R/R-clang/bin/exec/R(+0x8f4c4) [0x56039a1834c4]
24 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xdad88) [0x56039a1ced88]
25 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xc913c) [0x56039a1bd13c]
26 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x1a5) [0x56039a1bc8e5]
27 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xc9394) [0x56039a1bd394]
28 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x26e) [0x56039a1bc9ae]
29 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xc9394) [0x56039a1bd394]
30 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xdce90) [0x56039a1d0e90]
31 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xcd569) [0x56039a1c1569]
32 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xc913c) [0x56039a1bd13c]
33 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x1a5) [0x56039a1bc8e5]
34 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xe09a9) [0x56039a1d49a9]
35 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xdfeac) [0x56039a1d3eac]
36 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x5f8) [0x56039a1bcd38]
37 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xc9394) [0x56039a1bd394]
38 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xdce90) [0x56039a1d0e90]
39 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xcd569) [0x56039a1c1569]
40 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xc913c) [0x56039a1bd13c]
41 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x1a5) [0x56039a1bc8e5]
42 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xe09a9) [0x56039a1d49a9]
43 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xdfeac) [0x56039a1d3eac]
44 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x5f8) [0x56039a1bcd38]
45 /data/gannet/ripley/R/test-clang/rlang/libs/rlang.so(+0x4983) [0x7f2e6d8bb983]
46 /data/gannet/ripley/R/R-clang/bin/exec/R(+0x8d613) [0x56039a181613]
47 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xcfb54) [0x56039a1c3b54]
48 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xc913c) [0x56039a1bd13c]
49 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x1a5) [0x56039a1bc8e5]
50 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xe09a9) [0x56039a1d49a9]
51 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xdfeac) [0x56039a1d3eac]
52 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x5f8) [0x56039a1bcd38]
53 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xe5ce8) [0x56039a1d9ce8]
54 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x3d0) [0x56039a1bcb10]
55 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xe4feb) [0x56039a1d8feb]
56 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x3d0) [0x56039a1bcb10]
57 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xe09a9) [0x56039a1d49a9]
58 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xdfeac) [0x56039a1d3eac]
59 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xcf3e3) [0x56039a1c33e3]
60 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xc913c) [0x56039a1bd13c]
61 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x1a5) [0x56039a1bc8e5]
=================================
*** caught segfault ***
address 0x4d200168e7f, cause 'unknown'
Traceback:
1: rapi_execute(stmt, convert_opts)
2: withCallingHandlers(expr, condition = function(cnd) { { .__handler_frame__. <- TRUE .__setup_frame__. <- frame if (inherits(cnd, "message")) { except <- c("warning", "error") } else if (inherits(cnd, "warning")) { except <- "error" } else { except <- "" } } while (!is_null(cnd)) { if (inherits(cnd, "error")) { out <- handlers[[1L]](cnd) if (!inherits(out, "rlang_zap")) throw(out) } inherit <- .subset2(.subset2(cnd, "rlang"), "inherit") if (is_false(inherit)) { return() } cnd <- .subset2(cnd, "parent") }})
3: doTryCatch(return(expr), name, parentenv, handler)
4: tryCatchOne(expr, names, parentenv, handlers[[1L]])
5: tryCatchList(expr, classes, parentenv, handlers)
6: tryCatch(withCallingHandlers(expr, condition = function(cnd) { { .__handler_frame__. <- TRUE .__setup_frame__. <- frame if (inherits(cnd, "message")) { except <- c("warning", "error") } else if (inherits(cnd, "warning")) { except <- "error" } else { except <- "" } } while (!is_null(cnd)) { if (inherits(cnd, "error")) { out <- handlers[[1L]](cnd) if (!inherits(out, "rlang_zap")) throw(out) } inherit <- .subset2(.subset2(cnd, "rlang"), "inherit") if (is_false(inherit)) { return() } cnd <- .subset2(cnd, "parent") }}), stackOverflowError = handlers[[1L]])
7: rlang::try_fetch(rapi_execute(stmt, convert_opts), error = function(e) { rethrow_error_from_rapi(e, call)})
8: rethrow_rapi_execute(res@stmt_lst$ref, duckdb_convert_opts_impl(res@connection@convert_opts, arrow = res@arrow))
9: duckdb_execute(res)
10: duckdb_result(connection = conn, stmt_lst = stmt_lst, arrow = arrow)
11: .local(conn, statement, ...)
12: dbSendQuery(conn, statement, ...)
13: dbSendQuery(conn, statement, ...)
14: dbSendStatement(conn, statement, ...)
15: dbSendStatement(conn, statement, ...)
16: DBI::dbExecute(conn, glue::glue("LOAD {extension};"))
17: DBI::dbExecute(conn, glue::glue("LOAD {extension};"))
18: withCallingHandlers(expr, message = function(c) if (inherits(c, classes)) tryInvokeRestart("muffleMessage"))
19: suppressMessages(DBI::dbExecute(conn, glue::glue("LOAD {extension};")))
20: ddbs_load(conn, quiet = TRUE)
21: duckspatial::ddbs_create_conn(dbdir = "memory", bigint = "integer64", ...)
22: ddbh3_default_conn(threads = 1)
An irrecoverable exception occurred. R is aborting now ...
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.1.0
Check: tests
Result: ERROR
Running ‘testthat.R’
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/testing-design.html#sec-tests-files-overview
> # * https://testthat.r-lib.org/articles/special-files.html
>
> library(testthat)
> library(duckh3)
>
> test_check("duckh3")
Error in `source_dir()`:
! Failed to evaluate './setup.R'.
Caused by error in `duckdb_result()`:
! Invalid Error: Invalid Input Error: Initialization function "spatial_duckdb_cpp_init" from file "/data/gannet/ripley/.local/share/R/duckdb/extensions/v1.5.2/linux_amd64/spatial.duckdb_extension" threw an exception: "Attempted to dereference shared_ptr that is NULL!"
ℹ Context: rapi_execute
ℹ Error type: INVALID
Backtrace:
▆
1. ├─testthat::test_check("duckh3")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(...)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ └─duckh3::ddbh3_default_conn() at ./setup.R:12:1
15. │ └─duckspatial::ddbs_create_conn(...)
16. │ └─duckspatial::ddbs_load(conn, quiet = TRUE)
17. │ ├─base::suppressMessages(DBI::dbExecute(conn, glue::glue("LOAD {extension};")))
18. │ │ └─base::withCallingHandlers(...)
19. │ ├─DBI::dbExecute(conn, glue::glue("LOAD {extension};"))
20. │ └─DBI::dbExecute(conn, glue::glue("LOAD {extension};"))
21. │ ├─DBI::dbSendStatement(conn, statement, ...)
22. │ └─DBI::dbSendStatement(conn, statement, ...)
23. │ ├─DBI::dbSendQuery(conn, statement, ...)
24. │ └─duckdb::dbSendQuery(conn, statement, ...)
25. │ └─duckdb (local) .local(conn, statement, ...)
26. │ └─duckdb:::duckdb_result(connection = conn, stmt_lst = stmt_lst, arrow = arrow)
27. │ └─duckdb:::duckdb_execute(res)
28. │ └─duckdb:::rethrow_rapi_execute(...)
29. │ ├─rlang::try_fetch(...)
30. │ │ ├─base::tryCatch(...)
31. │ │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
32. │ │ │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
33. │ │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
34. │ │ └─base::withCallingHandlers(...)
35. │ └─duckdb:::rapi_execute(stmt, convert_opts)
36. ├─duckdb (local) `<fn>`(...)
37. │ └─rlang::abort(error_parts, class = "duckdb_error", !!!fields)
38. │ └─rlang:::signal_abort(cnd, .file)
39. │ └─base::signalCondition(cnd)
40. └─rlang (local) `<fn>`(`<dckdb_rr>`)
41. └─handlers[[1L]](cnd)
42. └─duckdb:::rethrow_error_from_rapi(e, call)
43. └─rlang::abort(msg, call = call)
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang