• using R Under development (unstable) (2026-07-03 r90206)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     clang version 22.1.8 (https://github.com/llvm/llvm-project ca7933e47d3a3451d81e72ac174dcb5aa28b59d1)     flang version 22.1.8 (https://github.com/llvm/llvm-project ca7933e47d3a3451d81e72ac174dcb5aa28b59d1)
• running under: Fedora Linux 42 (Workstation Edition)
• using session charset: UTF-8 * current time: 2026-07-04 11:50:55 UTC
• using option ‘--no-stop-on-test-error’
• checking for file ‘duckh3/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘duckh3’ version ‘0.1.0’
• package encoding: UTF-8
• checking package namespace information ... OK
• checking package dependencies ... OK
• checking if this is a source package ... OK
• checking if there is a namespace ... OK
• checking for executable files ... OK
• checking for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking whether package ‘duckh3’ can be installed ... OK See the install log for details.
• checking installed package size ... OK
• checking package directory ... OK
• checking DESCRIPTION meta-information ... OK
• checking top-level files ... OK
• checking for left-over files ... OK
• checking index information ... OK
• checking package subdirectories ... OK
• checking code files for non-ASCII characters ... OK
• checking R files for syntax errors ... OK
• checking whether the package can be loaded ... OK
• checking whether the package can be loaded with stated dependencies ... OK
• checking whether the package can be unloaded cleanly ... OK
• checking whether the namespace can be loaded with stated dependencies ... OK
• checking whether the namespace can be unloaded cleanly ... OK
• checking loading without being on the library search path ... OK
• checking use of S3 registration ... OK
• checking dependencies in R code ... OK
• checking S3 generic/method consistency ... OK
• checking replacement functions ... OK
• checking foreign function calls ... OK
• checking R code for possible problems ... OK
• checking Rd files ... OK
• checking Rd metadata ... OK
• checking Rd line widths ... OK
• checking Rd cross-references ... OK
• checking for missing documentation entries ... OK
• checking for code/documentation mismatches ... OK
• checking Rd \usage sections ... OK
• checking Rd contents ... OK
• checking for unstated dependencies in examples ... OK
• checking examples ... [8s/18s] 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:2585196:0:2585716] Caught signal 11 (Segmentation fault: address not mapped to object at address 0x7865646e51) ==== backtrace (tid:2585716) ====  0 /lib64/libucs.so.0(ucs_handle_error+0x2e4) [0x7f2f03fe4df4]  1 /lib64/libucs.so.0(+0x17aed) [0x7f2f03fe6aed]  2 /lib64/libucs.so.0(+0x17cbd) [0x7f2f03fe6cbd]  3 /lib64/libc.so.6(+0x1a040) [0x7f2f19928040]  4 /data/gannet/ripley/R/test-clang/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension(+0x1198730) [0x7f2de4b98730]  5 /data/gannet/ripley/R/test-clang/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension(+0x1168728) [0x7f2de4b68728]  6 /data/gannet/ripley/R/test-clang/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension(+0x773544) [0x7f2de4173544]  7 /data/gannet/ripley/R/test-clang/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension(+0x7718d9) [0x7f2de41718d9]  8 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb15ExtensionHelper29LoadExternalExtensionInternalERNS_16DatabaseInstanceERNS_10FileSystemERKNSt3__112basic_stringIcNS5_11char_traitsIcEENS5_9allocatorIcEEEERNS_19ExtensionActiveLoadE+0x18f) [0x7f2e3cc7f85f]  9 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb15ExtensionHelper21LoadExternalExtensionERNS_16DatabaseInstanceERNS_10FileSystemERKNSt3__112basic_stringIcNS5_11char_traitsIcEENS5_9allocatorIcEEEE+0x4a) [0x7f2e3cc7f60a] 10 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZNK6duckdb12PhysicalLoad15GetDataInternalERNS_16ExecutionContextERNS_9DataChunkERNS_19OperatorSourceInputE+0x151) [0x7f2e3da6d401] 11 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb16PipelineExecutor15FetchFromSourceERNS_9DataChunkE+0x98) [0x7f2e3e2a10c8] 12 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb16PipelineExecutor7ExecuteEm+0x146) [0x7f2e3e29dca6] 13 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb12PipelineTask11ExecuteTaskENS_17TaskExecutionModeE+0x154) [0x7f2e3e29d914] 14 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb12ExecutorTask7ExecuteENS_17TaskExecutionModeE+0xa0) [0x7f2e3e297570] 15 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb13TaskScheduler14ExecuteForeverEPNSt3__16atomicIbEE+0x39a) [0x7f2e3e2a432a] 16 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(+0x1aafe9c) [0x7f2e3e2afe9c] 17 /lib64/libc.so.6(+0x71f14) [0x7f2f1997ff14] 18 /lib64/libc.so.6(+0xf532c) [0x7f2f19a0332c] =================================  *** caught segfault *** address 0x4d20027726c, 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: doTryCatch(return(expr), name, parentenv, handler) 21: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 22: tryCatchList(expr, classes, parentenv, handlers) 23: tryCatch({ suppressMessages(DBI::dbExecute(conn, glue::glue("LOAD {extension};")))}, error = function(e) { cli::cli_abort(c("Failed to load the {extension} extension.", x = conditionMessage(e), i = "The binary may be corrupt or incompatible with this platform/DuckDB version.", i = "Try reinstalling with {.code ddbs_install(extension = '{extension}', upgrade = TRUE)}"))}) 24: ddbs_load(conn, quiet = TRUE) 25: duckspatial::ddbs_create_conn(dbdir = "memory", bigint = "integer64", ...) 26: ddbh3_default_conn(threads = 1) An irrecoverable exception occurred. R is aborting now ...
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [6s/14s] ERROR   Running ‘testthat.R’ [6s/14s] 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")   [gannet:2587264:0:2588153] Caught signal 11 (Segmentation fault: address not mapped to object at address 0x449)   ==== backtrace (tid:2588153) ====    0 /lib64/libucs.so.0(ucs_handle_error+0x2e4) [0x7efc5bf9bdf4]    1 /lib64/libucs.so.0(+0x17aed) [0x7efc5bf9daed]    2 /lib64/libucs.so.0(+0x17cbd) [0x7efc5bf9dcbd]    3 /lib64/libc.so.6(+0x1a040) [0x7efc74a29040]    4 /data/gannet/ripley/R/test-clang/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension(+0x1196b50) [0x7efb2cb96b50]    5 /data/gannet/ripley/R/test-clang/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension(+0x1168728) [0x7efb2cb68728]    6 /data/gannet/ripley/R/test-clang/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension(+0x773544) [0x7efb2c173544]    7 /data/gannet/ripley/R/test-clang/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension(+0x7718d9) [0x7efb2c1718d9]    8 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb15ExtensionHelper29LoadExternalExtensionInternalERNS_16DatabaseInstanceERNS_10FileSystemERKNSt3__112basic_stringIcNS5_11char_traitsIcEENS5_9allocatorIcEEEERNS_19ExtensionActiveLoadE+0x18f) [0x7efc6027f85f]    9 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb15ExtensionHelper21LoadExternalExtensionERNS_16DatabaseInstanceERNS_10FileSystemERKNSt3__112basic_stringIcNS5_11char_traitsIcEENS5_9allocatorIcEEEE+0x4a) [0x7efc6027f60a]   10 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZNK6duckdb12PhysicalLoad15GetDataInternalERNS_16ExecutionContextERNS_9DataChunkERNS_19OperatorSourceInputE+0x151) [0x7efc6106d401]   11 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb16PipelineExecutor15FetchFromSourceERNS_9DataChunkE+0x98) [0x7efc618a10c8]   12 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb16PipelineExecutor7ExecuteEm+0x146) [0x7efc6189dca6]   13 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb12PipelineTask11ExecuteTaskENS_17TaskExecutionModeE+0x154) [0x7efc6189d914]   14 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb12ExecutorTask7ExecuteENS_17TaskExecutionModeE+0xa0) [0x7efc61897570]   15 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb13TaskScheduler14ExecuteForeverEPNSt3__16atomicIbEE+0x39a) [0x7efc618a432a]   16 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(+0x1aafe9c) [0x7efc618afe9c]   17 /lib64/libc.so.6(+0x71f14) [0x7efc74a80f14]   18 /lib64/libc.so.6(+0xf532c) [0x7efc74b0432c]   =================================       *** caught segfault ***   address 0x4d200277a80, 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: doTryCatch(return(expr), name, parentenv, handler)   21: tryCatchOne(expr, names, parentenv, handlers[[1L]])   22: tryCatchList(expr, classes, parentenv, handlers)   23: tryCatch({ suppressMessages(DBI::dbExecute(conn, glue::glue("LOAD {extension};")))}, error = function(e) { cli::cli_abort(c("Failed to load the {extension} extension.", x = conditionMessage(e), i = "The binary may be corrupt or incompatible with this platform/DuckDB version.", i = "Try reinstalling with {.code ddbs_install(extension = '{extension}', upgrade = TRUE)}"))})   24: ddbs_load(conn, quiet = TRUE)   25: duckspatial::ddbs_create_conn(dbdir = "memory", bigint = "integer64", ...)   26: ddbh3_default_conn()   27: eval(exprs, env)   28: eval(exprs, env)   29: withCallingHandlers(invisible(eval(exprs, env)), error = function(err) { cli::cli_abort("Failed to evaluate {.path {path}}.", parent = err, call = error_call)})   30: source_file(path, env = env, chdir = chdir, wrap = wrap, shuffle = shuffle, error_call = error_call)   31: FUN(X[[i]], ...)   32: lapply(files, function(path) { source_file(path, env = env, chdir = chdir, wrap = wrap, shuffle = shuffle, error_call = error_call)})   33: source_dir(path, "^setup.*\\.[rR]$", env = env, wrap = FALSE)   34: source_test_setup(".", env)   35: test_files_setup_state(test_dir, test_package, load_helpers, env)   36: test_files_serial(test_dir = test_dir, test_package = test_package, test_paths = test_paths, load_helpers = load_helpers, reporter = reporter, env = env, stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning, desc = desc, load_package = load_package, shuffle = shuffle, error_call = error_call)   37: test_files(test_dir = path, test_paths = test_paths, test_package = package, reporter = reporter, load_helpers = load_helpers, env = env, stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning, load_package = load_package, parallel = parallel, shuffle = shuffle)   38: test_dir("testthat", package = package, reporter = reporter, ..., load_package = "installed")   39: test_check("duckh3")   An irrecoverable exception occurred. R is aborting now ...
• checking PDF version of manual ... OK
• checking HTML version of manual ... OK
• checking for non-standard things in the check directory ... OK
• checking for detritus in the temp directory ... OK
• DONE

Status: 2 ERRORs