CRAN Package Check Results for Package dbSpatial

Last updated on 2026-05-31 05:49:07 CEST.

Flavor	Version	Tinstall	Tcheck	Ttotal	Status	Flags
r-devel-linux-x86_64-debian-clang	0.1.1				OK
r-devel-linux-x86_64-debian-gcc	0.1.1	22.59	201.64	224.23	OK
r-devel-linux-x86_64-fedora-clang	0.1.1	66.00	536.64	602.64	ERROR
r-devel-linux-x86_64-fedora-gcc	0.1.1	61.00	521.68	582.68	OK
r-devel-windows-x86_64	0.1.1	36.00	283.00	319.00	OK
r-release-linux-x86_64	0.1.1	30.38	301.67	332.05	OK
r-release-macos-arm64	0.1.1	8.00	73.00	81.00	OK
r-release-macos-x86_64	0.1.1	24.00	385.00	409.00	OK
r-release-windows-x86_64	0.1.1	33.00	285.00	318.00	OK
r-oldrel-macos-arm64	0.1.1	7.00	80.00	87.00	OK
r-oldrel-macos-x86_64	0.1.1	23.00	413.00	436.00	OK
r-oldrel-windows-x86_64	0.1.1	48.00	365.00	413.00	OK

Check Details

Version: 0.1.1
Check: tests
Result: ERROR Running ‘testthat.R’ [30s/114s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(dbSpatial) > > test_check("dbSpatial") Saving _problems/test-extract-15.R Saving _problems/test-spatial-functions-15.R Saving _problems/test-spatial-functions-35.R Saving _problems/test-spatial-functions-70.R [gannet:4089740:0:4089740] Caught signal 11 (Segmentation fault: address not mapped to object at address 0x14) ==== backtrace (tid:4089740) ==== 0 /lib64/libucs.so.0(ucs_handle_error+0x2e4) [0x7fb539f9bdf4] 1 /lib64/libucs.so.0(+0x17aed) [0x7fb539f9daed] 2 /lib64/libucs.so.0(+0x17cbd) [0x7fb539f9dcbd] 3 /lib64/libc.so.6(+0x1a040) [0x7fb54f328040] 4 /tmp/Rtmpnjg4qm/working_dir/Rtmp9plcq6/file3e678c34316b0/R/duckdb/extensions/v1.5.2/linux_amd64/spatial.duckdb_extension(+0x1181e00) [0x7fb420f53e00] 5 /tmp/Rtmpnjg4qm/working_dir/Rtmp9plcq6/file3e678c34316b0/R/duckdb/extensions/v1.5.2/linux_amd64/spatial.duckdb_extension(+0x1152a28) [0x7fb420f24a28] 6 /tmp/Rtmpnjg4qm/working_dir/Rtmp9plcq6/file3e678c34316b0/R/duckdb/extensions/v1.5.2/linux_amd64/spatial.duckdb_extension(+0x75c104) [0x7fb42052e104] 7 /tmp/Rtmpnjg4qm/working_dir/Rtmp9plcq6/file3e678c34316b0/R/duckdb/extensions/v1.5.2/linux_amd64/spatial.duckdb_extension(+0x75a499) [0x7fb42052c499] 8 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb15ExtensionHelper29LoadExternalExtensionInternalERNS_16DatabaseInstanceERNS_10FileSystemERKNSt3__112basic_stringIcNS5_11char_traitsIcEENS5_9allocatorIcEEEERNS_19ExtensionActiveLoadE+0x18f) [0x7fb470e79e3f] 9 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb15ExtensionHelper21LoadExternalExtensionERNS_16DatabaseInstanceERNS_10FileSystemERKNSt3__112basic_stringIcNS5_11char_traitsIcEENS5_9allocatorIcEEEE+0x4a) [0x7fb470e79bea] 10 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZNK6duckdb12PhysicalLoad15GetDataInternalERNS_16ExecutionContextERNS_9DataChunkERNS_19OperatorSourceInputE+0x151) [0x7fb471c5e831] 11 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb16PipelineExecutor15FetchFromSourceERNS_9DataChunkE+0x9b) [0x7fb47248d8eb] 12 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb16PipelineExecutor7ExecuteEm+0x146) [0x7fb47248a4c6] 13 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb12PipelineTask11ExecuteTaskENS_17TaskExecutionModeE+0x112) [0x7fb47248a0f2] 14 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb12ExecutorTask7ExecuteENS_17TaskExecutionModeE+0xa0) [0x7fb472483d90] 15 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb8Executor11ExecuteTaskEb+0x1c0) [0x7fb4724890f0] 16 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb13ClientContext19ExecuteTaskInternalERNS_17ClientContextLockERNS_15BaseQueryResultEb+0x40) [0x7fb4722981f0] 17 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb18PendingQueryResult15ExecuteInternalERNS_17ClientContextLockE+0x7a) [0x7fb47229a97a] 18 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb13ClientContext7ExecuteERKNSt3__112basic_stringIcNS1_11char_traitsIcEENS1_9allocatorIcEEEERNS_10shared_ptrINS_21PreparedStatementDataELb1EEERKNS_22PendingQueryParametersE+0xa0) [0x7fb47229a6c0] 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) [0x7fb4722bd473] 20 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_ZN6duckdb17PreparedStatement7ExecuteERNS_6vectorINS_5ValueELb1ENSt3__19allocatorIS2_EEEEb+0x172) [0x7fb4722bd712] 21 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_Z12rapi_executeN5cpp1116external_pointerIN6duckdb10RStatementEXadL_ZNS_15default_deleterIS2_EEvPT_EEEENS1_11ConvertOptsE+0x115) [0x7fb470b07f75] 22 /data/gannet/ripley/R/test-clang/duckdb/libs/duckdb.so(_duckdb_rapi_execute+0x66) [0x7fb470b704a6] 23 /data/gannet/ripley/R/R-clang/bin/exec/R(+0x8f4d4) [0x55fd208884d4] 24 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xdadb8) [0x55fd208d3db8] 25 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xc913c) [0x55fd208c213c] 26 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x1a5) [0x55fd208c18f5] 27 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xc9394) [0x55fd208c2394] 28 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x26e) [0x55fd208c19be] 29 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xc9394) [0x55fd208c2394] 30 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xdcec0) [0x55fd208d5ec0] 31 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xcd579) [0x55fd208c6579] 32 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xc913c) [0x55fd208c213c] 33 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x1a5) [0x55fd208c18f5] 34 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xe0a59) [0x55fd208d9a59] 35 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xdff4b) [0x55fd208d8f4b] 36 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xc9817) [0x55fd208c2817] 37 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x5f8) [0x55fd208c1d48] 38 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xc9394) [0x55fd208c2394] 39 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xdcec0) [0x55fd208d5ec0] 40 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xcd579) [0x55fd208c6579] 41 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xc913c) [0x55fd208c213c] 42 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x1a5) [0x55fd208c18f5] 43 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xe0a59) [0x55fd208d9a59] 44 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xdff4b) [0x55fd208d8f4b] 45 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xc9817) [0x55fd208c2817] 46 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x5f8) [0x55fd208c1d48] 47 /data/gannet/ripley/R/test-clang/rlang/libs/rlang.so(+0x4983) [0x7fb54f985983] 48 /data/gannet/ripley/R/R-clang/bin/exec/R(+0x8d623) [0x55fd20886623] 49 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xcfb74) [0x55fd208c8b74] 50 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xc913c) [0x55fd208c213c] 51 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x1a5) [0x55fd208c18f5] 52 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xe0a59) [0x55fd208d9a59] 53 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xdff4b) [0x55fd208d8f4b] 54 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xc9817) [0x55fd208c2817] 55 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x5f8) [0x55fd208c1d48] 56 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xe5db8) [0x55fd208dedb8] 57 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x3d0) [0x55fd208c1b20] 58 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xe50ab) [0x55fd208de0ab] 59 /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x3d0) [0x55fd208c1b20] 60 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xe0a59) [0x55fd208d9a59] 61 /data/gannet/ripley/R/R-clang/bin/exec/R(+0xdff4b) [0x55fd208d8f4b] ================================= *** caught segfault *** address 0x4d2003e678c, 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$ref, duckdb_convert_opts_impl(res@connection@convert_opts, arrow = res@arrow)) 9: duckdb_execute(res) 10: duckdb_result(connection = conn, stmt_lst = stmt_lst, arrow = arrow) 11: .local(conn, statement, ...) 12: dbSendQuery(conn, statement, ...) 13: dbSendQuery(conn, statement, ...) 14: dbSendStatement(conn, statement, ...) 15: dbSendStatement(conn, statement, ...) 16: DBI::dbExecute(conn, query) 17: DBI::dbExecute(conn, query) 18: loadSpatial(conn = conn) 19: withCallingHandlers(expr, message = function(c) if (inherits(c, classes)) tryInvokeRestart("muffleMessage")) 20: suppressMessages(loadSpatial(conn = conn)) 21: dbSpatial(conn = con, name = "test_pts", value = df, x_colName = "x", y_colName = "y", overwrite = TRUE) 22: eval(code, test_env) 23: eval(code, test_env) 24: withCallingHandlers({ eval(code, test_env) new_expectations <- the$test_expectations > starting_expectations if (snapshot_skipped) { skip("On CRAN") } else if (!new_expectations && skip_on_empty) { skip_empty() }}, expectation = handle_expectation, packageNotFoundError = function(e) { if (on_cran()) { skip(paste0("{", e$package, "} is not installed.")) }}, snapshot_on_cran = function(cnd) { snapshot_skipped <<- TRUE invokeRestart("muffle_cran_snapshot")}, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error, interrupt = handle_interrupt) 25: doTryCatch(return(expr), name, parentenv, handler) 26: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 27: tryCatchList(expr, classes, parentenv, handlers) 28: tryCatch(withCallingHandlers({ eval(code, test_env) new_expectations <- the$test_expectations > starting_expectations if (snapshot_skipped) { skip("On CRAN") } else if (!new_expectations && skip_on_empty) { skip_empty() }}, expectation = handle_expectation, packageNotFoundError = function(e) { if (on_cran()) { skip(paste0("{", e$package, "} is not installed.")) }}, snapshot_on_cran = function(cnd) { snapshot_skipped <<- TRUE invokeRestart("muffle_cran_snapshot")}, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error, interrupt = handle_interrupt), error = handle_fatal) 29: doWithOneRestart(return(expr), restart) 30: withOneRestart(expr, restarts[[1L]]) 31: withRestarts(tryCatch(withCallingHandlers({ eval(code, test_env) new_expectations <- the$test_expectations > starting_expectations if (snapshot_skipped) { skip("On CRAN") } else if (!new_expectations && skip_on_empty) { skip_empty() }}, expectation = handle_expectation, packageNotFoundError = function(e) { if (on_cran()) { skip(paste0("{", e$package, "} is not installed.")) }}, snapshot_on_cran = function(cnd) { snapshot_skipped <<- TRUE invokeRestart("muffle_cran_snapshot")}, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error, interrupt = handle_interrupt), error = handle_fatal), end_test = function() { }) 32: test_code(code, parent.frame()) 33: test_that("st_join works with different predicates", { skip_if_not_installed("duckdb") con <- DBI::dbConnect(duckdb::duckdb()) on.exit(DBI::dbDisconnect(con, shutdown = TRUE)) df <- data.frame(id = 1:3, x = c(0, 10, 20), y = c(0, 10, 20)) pts <- dbSpatial(conn = con, name = "test_pts", value = df, x_colName = "x", y_colName = "y", overwrite = TRUE) res <- st_join(pts, pts, join = sf::st_intersects) expect_s4_class(res, "dbSpatial") expect_equal(nrow(dplyr::collect(res[])), 3)}) 34: eval(code, test_env) 35: eval(code, test_env) 36: withCallingHandlers({ eval(code, test_env) new_expectations <- the$test_expectations > starting_expectations if (snapshot_skipped) { skip("On CRAN") } else if (!new_expectations && skip_on_empty) { skip_empty() }}, expectation = handle_expectation, packageNotFoundError = function(e) { if (on_cran()) { skip(paste0("{", e$package, "} is not installed.")) }}, snapshot_on_cran = function(cnd) { snapshot_skipped <<- TRUE invokeRestart("muffle_cran_snapshot")}, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error, interrupt = handle_interrupt) 37: doTryCatch(return(expr), name, parentenv, handler) 38: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 39: tryCatchList(expr, classes, parentenv, handlers) 40: tryCatch(withCallingHandlers({ eval(code, test_env) new_expectations <- the$test_expectations > starting_expectations if (snapshot_skipped) { skip("On CRAN") } else if (!new_expectations && skip_on_empty) { skip_empty() }}, expectation = handle_expectation, packageNotFoundError = function(e) { if (on_cran()) { skip(paste0("{", e$package, "} is not installed.")) }}, snapshot_on_cran = function(cnd) { snapshot_skipped <<- TRUE invokeRestart("muffle_cran_snapshot")}, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error, interrupt = handle_interrupt), error = handle_fatal) 41: doWithOneRestart(return(expr), restart) 42: withOneRestart(expr, restarts[[1L]]) 43: withRestarts(tryCatch(withCallingHandlers({ eval(code, test_env) new_expectations <- the$test_expectations > starting_expectations if (snapshot_skipped) { skip("On CRAN") } else if (!new_expectations && skip_on_empty) { skip_empty() }}, expectation = handle_expectation, packageNotFoundError = function(e) { if (on_cran()) { skip(paste0("{", e$package, "} is not installed.")) }}, snapshot_on_cran = function(cnd) { snapshot_skipped <<- TRUE invokeRestart("muffle_cran_snapshot")}, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error, interrupt = handle_interrupt), error = handle_fatal), end_test = function() { }) 44: test_code(code = exprs, env = env, reporter = get_reporter() %||% StopReporter$new()) 45: source_file(path, env = env(env), desc = desc, shuffle = shuffle, error_call = error_call) 46: FUN(X[[i]], ...) 47: lapply(test_paths, test_one_file, env = env, desc = desc, shuffle = shuffle, error_call = error_call) 48: doTryCatch(return(expr), name, parentenv, handler) 49: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 50: tryCatchList(expr, classes, parentenv, handlers) 51: tryCatch(code, testthat_abort_reporter = function(cnd) { cat(conditionMessage(cnd), "\n") NULL}) 52: with_reporter(reporters$multi, lapply(test_paths, test_one_file, env = env, desc = desc, shuffle = shuffle, error_call = error_call)) 53: 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) 54: 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) 55: test_dir("testthat", package = package, reporter = reporter, ..., load_package = "installed") 56: test_check("dbSpatial") An irrecoverable exception occurred. R is aborting now ... Flavor: r-devel-linux-x86_64-fedora-clang

Version: 0.1.1
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: --- re-building ‘class_structure.Rmd’ using rmarkdown Quitting from class_structure.Rmd:32-52 [unnamed-chunk-2] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `duckdb_result()`: ! Invalid Error: Invalid Input Error: Initialization function "spatial_duckdb_cpp_init" from file "/tmp/Rtmpnjg4qm/working_dir/RtmpPNI4YT/file3e94af9ab1017/R/duckdb/extensions/v1.5.2/linux_amd64/spatial.duckdb_extension" threw an exception: "Missing DB manager" ℹ Context: rapi_execute ℹ Error type: INVALID --- Backtrace: ▆ 1. └─dbSpatial::dbSpatial(...) 2. ├─base::suppressMessages(loadSpatial(conn = conn)) 3. │ └─base::withCallingHandlers(...) 4. └─dbSpatial::loadSpatial(conn = conn) 5. ├─DBI::dbExecute(conn, query) 6. └─DBI::dbExecute(conn, query) 7. ├─DBI::dbSendStatement(conn, statement, ...) 8. └─DBI::dbSendStatement(conn, statement, ...) 9. ├─DBI::dbSendQuery(conn, statement, ...) 10. └─duckdb::dbSendQuery(conn, statement, ...) 11. └─duckdb (local) .local(conn, statement, ...) 12. └─duckdb:::duckdb_result(connection = conn, stmt_lst = stmt_lst, arrow = arrow) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'class_structure.Rmd' failed with diagnostics: Invalid Error: Invalid Input Error: Initialization function "spatial_duckdb_cpp_init" from file "/tmp/Rtmpnjg4qm/working_dir/RtmpPNI4YT/file3e94af9ab1017/R/duckdb/extensions/v1.5.2/linux_amd64/spatial.duckdb_extension" threw an exception: "Missing DB manager" ℹ Context: rapi_execute ℹ Error type: INVALID --- failed re-building ‘class_structure.Rmd’ --- re-building ‘getting_started.Rmd’ using rmarkdown Quitting from getting_started.Rmd:40-53 [unnamed-chunk-3] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `duckdb_result()`: ! Invalid Error: Invalid Input Error: Initialization function "spatial_duckdb_cpp_init" from file "/tmp/Rtmpnjg4qm/working_dir/RtmpUs16cZ/file3eaba42fa22518/R/duckdb/extensions/v1.5.2/linux_amd64/spatial.duckdb_extension" threw an exception: "Missing DB manager" ℹ Context: rapi_execute ℹ Error type: INVALID --- Backtrace: ▆ 1. └─dbSpatial::dbSpatial(...) 2. ├─base::suppressMessages(loadSpatial(conn = conn)) 3. │ └─base::withCallingHandlers(...) 4. └─dbSpatial::loadSpatial(conn = conn) 5. ├─DBI::dbExecute(conn, query) 6. └─DBI::dbExecute(conn, query) 7. ├─DBI::dbSendStatement(conn, statement, ...) 8. └─DBI::dbSendStatement(conn, statement, ...) 9. ├─DBI::dbSendQuery(conn, statement, ...) 10. └─duckdb::dbSendQuery(conn, statement, ...) 11. └─duckdb (local) .local(conn, statement, ...) 12. └─duckdb:::duckdb_result(connection = conn, stmt_lst = stmt_lst, arrow = arrow) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'getting_started.Rmd' failed with diagnostics: Invalid Error: Invalid Input Error: Initialization function "spatial_duckdb_cpp_init" from file "/tmp/Rtmpnjg4qm/working_dir/RtmpUs16cZ/file3eaba42fa22518/R/duckdb/extensions/v1.5.2/linux_amd64/spatial.duckdb_extension" threw an exception: "Missing DB manager" ℹ Context: rapi_execute ℹ Error type: INVALID --- failed re-building ‘getting_started.Rmd’ --- re-building ‘spatial_operations.Rmd’ using rmarkdown Quitting from spatial_operations.Rmd:24-35 [unnamed-chunk-2] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `duckdb_result()`: ! Invalid Error: Invalid Input Error: Initialization function "spatial_duckdb_cpp_init" from file "/tmp/Rtmpnjg4qm/working_dir/RtmppyRZOK/file3ec4b51086fba2/R/duckdb/extensions/v1.5.2/linux_amd64/spatial.duckdb_extension" threw an exception: "Missing DB manager" ℹ Context: rapi_execute ℹ Error type: INVALID --- Backtrace: ▆ 1. └─dbSpatial::dbSpatial(...) 2. ├─base::suppressMessages(loadSpatial(conn = conn)) 3. │ └─base::withCallingHandlers(...) 4. └─dbSpatial::loadSpatial(conn = conn) 5. ├─DBI::dbExecute(conn, query) 6. └─DBI::dbExecute(conn, query) 7. ├─DBI::dbSendStatement(conn, statement, ...) 8. └─DBI::dbSendStatement(conn, statement, ...) 9. ├─DBI::dbSendQuery(conn, statement, ...) 10. └─duckdb::dbSendQuery(conn, statement, ...) 11. └─duckdb (local) .local(conn, statement, ...) 12. └─duckdb:::duckdb_result(connection = conn, stmt_lst = stmt_lst, arrow = arrow) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'spatial_operations.Rmd' failed with diagnostics: Invalid Error: Invalid Input Error: Initialization function "spatial_duckdb_cpp_init" from file "/tmp/Rtmpnjg4qm/working_dir/RtmppyRZOK/file3ec4b51086fba2/R/duckdb/extensions/v1.5.2/linux_amd64/spatial.duckdb_extension" threw an exception: "Missing DB manager" ℹ Context: rapi_execute ℹ Error type: INVALID --- failed re-building ‘spatial_operations.Rmd’ SUMMARY: processing the following files failed: ‘class_structure.Rmd’ ‘getting_started.Rmd’ ‘spatial_operations.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-devel-linux-x86_64-fedora-clang