• using R version 4.6.0 (2026-04-24)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc-16 (Debian 16.1.0-1) 16.1.0     GNU Fortran (Debian 16.1.0-1) 16.1.0
• running under: Debian GNU/Linux forky/sid
• using session charset: UTF-8 * current time: 2026-06-20 10:27:59 UTC
• checking for file ‘dbSpatial/DESCRIPTION’ ... OK
• this is package ‘dbSpatial’ version ‘0.1.1’
• 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 ‘dbSpatial’ can be installed ... OK See the install log for details.
• checking package directory ... OK
• checking for future file timestamps ... OK
• checking ‘build’ 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 ... [10s/13s] OK
• checking whether the package can be loaded with stated dependencies ... [10s/11s] OK
• checking whether the package can be unloaded cleanly ... [10s/12s] OK
• checking whether the namespace can be loaded with stated dependencies ... [10s/13s] OK
• checking whether the namespace can be unloaded cleanly ... [10s/12s] OK
• checking loading without being on the library search path ... [10s/13s] 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 ... [45s/68s] OK
• checking Rd files ... [0s/1s] 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 installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [10s/12s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [21s/28s] ERROR   Running ‘testthat.R’ [21s/28s] 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   Saving _problems/test-spatial-functions-95.R   Saving _problems/test-spatial-functions-117.R   [ FAIL 6 | WARN 0 | SKIP 0 | PASS 0 ]      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Error ('test-extract.R:8:3'): $ extracts column values ──────────────────────   Error in `dbSendQuery(conn, statement, ...)`: Invalid Error: IO Error: Cannot open file "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension.tmp-4ddbd7df-2f55-4c44-b210-6c8fde7f95bd.duckdb_extension": Read-only file system   i Context: rapi_prepare   i Error type: INVALID   Backtrace:        ▆     1. ├─dbSpatial::dbSpatial(...) at test-extract.R:8:3     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:::rethrow_rapi_prepare(conn@conn_ref, statement, env)    13. │ ├─rlang::try_fetch(...)    14. │ │ ├─base::tryCatch(...)    15. │ │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)    16. │ │ │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])    17. │ │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)    18. │ │ └─base::withCallingHandlers(...)    19. │ └─duckdb:::rapi_prepare(conn, query, env)    20. ├─duckdb (local) `<fn>`(...)    21. │ └─rlang::abort(error_parts, class = "duckdb_error", !!!fields)    22. │ └─rlang:::signal_abort(cnd, .file)    23. │ └─base::signalCondition(cnd)    24. └─rlang (local) `<fn>`(`<dckdb_rr>`)    25. └─handlers[[1L]](cnd)    26. └─duckdb:::rethrow_error_from_rapi(e, call)    27. └─rlang::abort(msg, call = call)   ── Error ('test-spatial-functions.R:8:3'): dbSpatial constructor works ─────────   Error in `dbSendQuery(conn, statement, ...)`: Invalid Error: IO Error: Cannot open file "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension.tmp-eb41a2f5-3bf7-4964-b43d-be5867f8f05f.duckdb_extension": Read-only file system   i Context: rapi_prepare   i Error type: INVALID   Backtrace:        ▆     1. ├─dbSpatial::dbSpatial(...) at test-spatial-functions.R:8:3     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:::rethrow_rapi_prepare(conn@conn_ref, statement, env)    13. │ ├─rlang::try_fetch(...)    14. │ │ ├─base::tryCatch(...)    15. │ │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)    16. │ │ │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])    17. │ │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)    18. │ │ └─base::withCallingHandlers(...)    19. │ └─duckdb:::rapi_prepare(conn, query, env)    20. ├─duckdb (local) `<fn>`(...)    21. │ └─rlang::abort(error_parts, class = "duckdb_error", !!!fields)    22. │ └─rlang:::signal_abort(cnd, .file)    23. │ └─base::signalCondition(cnd)    24. └─rlang (local) `<fn>`(`<dckdb_rr>`)    25. └─handlers[[1L]](cnd)    26. └─duckdb:::rethrow_error_from_rapi(e, call)    27. └─rlang::abort(msg, call = call)   ── Error ('test-spatial-functions.R:28:3'): basic spatial functions work ───────   Error in `dbSendQuery(conn, statement, ...)`: Invalid Error: IO Error: Cannot open file "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension.tmp-d7dc0fe2-498f-44fe-a9c7-c16e5df981e6.duckdb_extension": Read-only file system   i Context: rapi_prepare   i Error type: INVALID   Backtrace:        ▆     1. ├─dbSpatial::dbSpatial(...) at test-spatial-functions.R:28:3     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:::rethrow_rapi_prepare(conn@conn_ref, statement, env)    13. │ ├─rlang::try_fetch(...)    14. │ │ ├─base::tryCatch(...)    15. │ │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)    16. │ │ │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])    17. │ │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)    18. │ │ └─base::withCallingHandlers(...)    19. │ └─duckdb:::rapi_prepare(conn, query, env)    20. ├─duckdb (local) `<fn>`(...)    21. │ └─rlang::abort(error_parts, class = "duckdb_error", !!!fields)    22. │ └─rlang:::signal_abort(cnd, .file)    23. │ └─base::signalCondition(cnd)    24. └─rlang (local) `<fn>`(`<dckdb_rr>`)    25. └─handlers[[1L]](cnd)    26. └─duckdb:::rethrow_error_from_rapi(e, call)    27. └─rlang::abort(msg, call = call)   ── Error ('test-spatial-functions.R:63:3'): st_geometrytype returns expected types lazily ──   Error in `dbSendQuery(conn, statement, ...)`: Invalid Error: IO Error: Cannot open file "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension.tmp-30cf2667-df98-43ab-ab6a-af7fd13ab0fd.duckdb_extension": Read-only file system   i Context: rapi_prepare   i Error type: INVALID   Backtrace:        ▆     1. ├─dbSpatial::dbSpatial(...) at test-spatial-functions.R:63:3     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:::rethrow_rapi_prepare(conn@conn_ref, statement, env)    13. │ ├─rlang::try_fetch(...)    14. │ │ ├─base::tryCatch(...)    15. │ │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)    16. │ │ │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])    17. │ │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)    18. │ │ └─base::withCallingHandlers(...)    19. │ └─duckdb:::rapi_prepare(conn, query, env)    20. ├─duckdb (local) `<fn>`(...)    21. │ └─rlang::abort(error_parts, class = "duckdb_error", !!!fields)    22. │ └─rlang:::signal_abort(cnd, .file)    23. │ └─base::signalCondition(cnd)    24. └─rlang (local) `<fn>`(`<dckdb_rr>`)    25. └─handlers[[1L]](cnd)    26. └─duckdb:::rethrow_error_from_rapi(e, call)    27. └─rlang::abort(msg, call = call)   ── Error ('test-spatial-functions.R:88:3'): st_join works with different predicates ──   Error in `dbSendQuery(conn, statement, ...)`: Invalid Error: IO Error: Cannot open file "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension.tmp-ff102ed8-85b5-4508-b443-003471705ae0.duckdb_extension": Read-only file system   i Context: rapi_prepare   i Error type: INVALID   Backtrace:        ▆     1. ├─dbSpatial::dbSpatial(...) at test-spatial-functions.R:88:3     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:::rethrow_rapi_prepare(conn@conn_ref, statement, env)    13. │ ├─rlang::try_fetch(...)    14. │ │ ├─base::tryCatch(...)    15. │ │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)    16. │ │ │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])    17. │ │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)    18. │ │ └─base::withCallingHandlers(...)    19. │ └─duckdb:::rapi_prepare(conn, query, env)    20. ├─duckdb (local) `<fn>`(...)    21. │ └─rlang::abort(error_parts, class = "duckdb_error", !!!fields)    22. │ └─rlang:::signal_abort(cnd, .file)    23. │ └─base::signalCondition(cnd)    24. └─rlang (local) `<fn>`(`<dckdb_rr>`)    25. └─handlers[[1L]](cnd)    26. └─duckdb:::rethrow_error_from_rapi(e, call)    27. └─rlang::abort(msg, call = call)   ── Error ('test-spatial-functions.R:110:3'): unsupported args warn ─────────────   Error in `dbSendQuery(conn, statement, ...)`: Invalid Error: IO Error: Cannot open file "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension.tmp-c8e0823a-0a1d-4a66-9209-21657a2adce5.duckdb_extension": Read-only file system   i Context: rapi_prepare   i Error type: INVALID   Backtrace:        ▆     1. ├─dbSpatial::dbSpatial(...) at test-spatial-functions.R:110:3     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:::rethrow_rapi_prepare(conn@conn_ref, statement, env)    13. │ ├─rlang::try_fetch(...)    14. │ │ ├─base::tryCatch(...)    15. │ │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)    16. │ │ │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])    17. │ │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)    18. │ │ └─base::withCallingHandlers(...)    19. │ └─duckdb:::rapi_prepare(conn, query, env)    20. ├─duckdb (local) `<fn>`(...)    21. │ └─rlang::abort(error_parts, class = "duckdb_error", !!!fields)    22. │ └─rlang:::signal_abort(cnd, .file)    23. │ └─base::signalCondition(cnd)    24. └─rlang (local) `<fn>`(`<dckdb_rr>`)    25. └─handlers[[1L]](cnd)    26. └─duckdb:::rethrow_error_from_rapi(e, call)    27. └─rlang::abort(msg, call = call)      [ FAIL 6 | WARN 0 | SKIP 0 | PASS 0 ]   Error:   ! Test failures.   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [39s/55s] 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 `dbSendQuery()`: ! Invalid Error: IO Error: Cannot open file "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension.tmp-76444a1f-7798-4ea1-bac0-641fcfba4702.duckdb_extension": Read-only file system ℹ Context: rapi_prepare 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, ...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'class_structure.Rmd' failed with diagnostics: Invalid Error: IO Error: Cannot open file "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension.tmp-76444a1f-7798-4ea1-bac0-641fcfba4702.duckdb_extension": Read-only file system ℹ Context: rapi_prepare 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 `dbSendQuery()`: ! Invalid Error: IO Error: Cannot open file "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension.tmp-04b6719a-81ae-44a0-9008-6171f314a6c2.duckdb_extension": Read-only file system ℹ Context: rapi_prepare 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, ...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'getting_started.Rmd' failed with diagnostics: Invalid Error: IO Error: Cannot open file "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension.tmp-04b6719a-81ae-44a0-9008-6171f314a6c2.duckdb_extension": Read-only file system ℹ Context: rapi_prepare 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 `dbSendQuery()`: ! Invalid Error: IO Error: Cannot open file "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension.tmp-78cf914f-6aa8-4a29-8f42-908c533c6dad.duckdb_extension": Read-only file system ℹ Context: rapi_prepare 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, ...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'spatial_operations.Rmd' failed with diagnostics: Invalid Error: IO Error: Cannot open file "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/duckdb/extensions/v1.5.4/linux_amd64/spatial.duckdb_extension.tmp-78cf914f-6aa8-4a29-8f42-908c533c6dad.duckdb_extension": Read-only file system ℹ Context: rapi_prepare 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
• checking PDF version of manual ... [7s/10s] OK
• checking HTML version of manual ... [2s/3s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 2 ERRORs