Last updated on 2026-08-02 12:51:45 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.2.1 | 13.75 | 185.00 | 198.75 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.2.1 | 10.12 | 134.00 | 144.12 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 1.2.1 | 26.00 | 256.92 | 282.92 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 1.2.1 | 10.00 | 136.09 | 146.09 | OK | |
| r-devel-windows-x86_64 | 1.2.1 | 20.00 | 184.00 | 204.00 | OK | |
| r-patched-linux-x86_64 | 1.2.1 | 17.90 | 178.73 | 196.63 | OK | |
| r-release-linux-x86_64 | 1.2.1 | 14.52 | 181.90 | 196.42 | OK | |
| r-release-macos-arm64 | 1.2.1 | 3.00 | 38.00 | 41.00 | OK | |
| r-release-macos-x86_64 | 1.2.1 | 10.00 | 140.00 | 150.00 | OK | |
| r-release-windows-x86_64 | 1.2.1 | 16.00 | 204.00 | 220.00 | OK | |
| r-oldrel-macos-arm64 | 1.2.1 | 3.00 | 40.00 | 43.00 | OK | |
| r-oldrel-macos-x86_64 | 1.2.1 | 9.00 | 118.00 | 127.00 | OK | |
| r-oldrel-windows-x86_64 | 1.2.1 | 25.00 | 250.00 | 275.00 | OK |
Version: 1.2.1
Check: for new files in some other directories
Result: NOTE
Found the following files/directories:
‘~/tmp/scratch/Rtmp0JxYwZ’ ‘~/tmp/scratch/Rtmp0P8u7T’
‘~/tmp/scratch/Rtmp0j25f4’ ‘~/tmp/scratch/Rtmp0uc3tj’
‘~/tmp/scratch/Rtmp0v3hCk’ ‘~/tmp/scratch/Rtmp104WV8’
‘~/tmp/scratch/Rtmp18SDI7’ ‘~/tmp/scratch/Rtmp1HmdLc’
‘~/tmp/scratch/Rtmp1dxc0A’ ‘~/tmp/scratch/Rtmp20cQs0’
‘~/tmp/scratch/Rtmp2oKdzF’ ‘~/tmp/scratch/Rtmp3KsnrE’
‘~/tmp/scratch/Rtmp493M30’ ‘~/tmp/scratch/Rtmp4Ty4LX’
‘~/tmp/scratch/Rtmp4zUQLN’ ‘~/tmp/scratch/Rtmp52hidq’
‘~/tmp/scratch/Rtmp57hXtr’ ‘~/tmp/scratch/Rtmp5ZYUZU’
‘~/tmp/scratch/Rtmp5h7NAs’ ‘~/tmp/scratch/Rtmp7vG8VD’
‘~/tmp/scratch/Rtmp8H2JOL’ ‘~/tmp/scratch/Rtmp8HVMGm’
‘~/tmp/scratch/Rtmp8Rsstk’ ‘~/tmp/scratch/Rtmp8fk6dd’
‘~/tmp/scratch/Rtmp8i3Gjr’ ‘~/tmp/scratch/Rtmp8qGwSx’
‘~/tmp/scratch/RtmpA7AxKZ’ ‘~/tmp/scratch/RtmpAQ9eis’
‘~/tmp/scratch/RtmpAW3HSW’ ‘~/tmp/scratch/RtmpB4TgFE’
‘~/tmp/scratch/RtmpBH2lSl’ ‘~/tmp/scratch/RtmpBeeFwc’
‘~/tmp/scratch/RtmpBi7VBf’ ‘~/tmp/scratch/RtmpCkfAlV’
‘~/tmp/scratch/RtmpDAD4u4’ ‘~/tmp/scratch/RtmpDKkkpM’
‘~/tmp/scratch/RtmpDKuocs’ ‘~/tmp/scratch/RtmpDOq2FZ’
‘~/tmp/scratch/RtmpDgnSqc’ ‘~/tmp/scratch/RtmpDmKc4D’
‘~/tmp/scratch/RtmpDxinZc’ ‘~/tmp/scratch/RtmpE8H4Do’
‘~/tmp/scratch/RtmpELJdUW’ ‘~/tmp/scratch/RtmpEW0vtp’
‘~/tmp/scratch/RtmpEgKAdB’ ‘~/tmp/scratch/RtmpFB1eN9’
‘~/tmp/scratch/RtmpFtlsWV’ ‘~/tmp/scratch/RtmpGBoaYq’
‘~/tmp/scratch/RtmpGmAOn7’ ‘~/tmp/scratch/RtmpIAD07X’
‘~/tmp/scratch/RtmpJATAk2’ ‘~/tmp/scratch/RtmpJE0MHr’
‘~/tmp/scratch/RtmpJO9xgv’ ‘~/tmp/scratch/RtmpJVM5OX’
‘~/tmp/scratch/RtmpJsNzOp’ ‘~/tmp/scratch/RtmpKhm4s9’
‘~/tmp/scratch/RtmpKqZo4a’ ‘~/tmp/scratch/RtmpL8d8iQ’
‘~/tmp/scratch/RtmpLCn5fy’ ‘~/tmp/scratch/RtmpLnyR5J’
‘~/tmp/scratch/RtmpMGhFxt’ ‘~/tmp/scratch/RtmpMQ3O9e’
‘~/tmp/scratch/RtmpMgQRqT’ ‘~/tmp/scratch/RtmpMpQ9f7’
‘~/tmp/scratch/RtmpN3J6uT’ ‘~/tmp/scratch/RtmpNirbtz’
‘~/tmp/scratch/RtmpNtKjoj’ ‘~/tmp/scratch/RtmpO8OisY’
‘~/tmp/scratch/RtmpOFid5h’ ‘~/tmp/scratch/RtmpOKHxTc’
‘~/tmp/scratch/RtmpOPVBnm’ ‘~/tmp/scratch/RtmpOnNOh2’
‘~/tmp/scratch/RtmpPZgNQS’ ‘~/tmp/scratch/RtmpQNxEz4’
‘~/tmp/scratch/RtmpQsR0LA’ ‘~/tmp/scratch/RtmpQxoiZL’
‘~/tmp/scratch/RtmpRYMDhB’ ‘~/tmp/scratch/RtmpRiERJ7’
‘~/tmp/scratch/RtmpTz7KGb’ ‘~/tmp/scratch/RtmpUUbzqR’
‘~/tmp/scratch/RtmpVAhjM9’ ‘~/tmp/scratch/RtmpVNaFg9’
‘~/tmp/scratch/RtmpVQO1KG’ ‘~/tmp/scratch/RtmpVT1IlX’
‘~/tmp/scratch/RtmpWGuopV’ ‘~/tmp/scratch/RtmpWLPMgL’
‘~/tmp/scratch/RtmpWyEG0x’ ‘~/tmp/scratch/RtmpXLHqyv’
‘~/tmp/scratch/RtmpXPAhWD’ ‘~/tmp/scratch/RtmpY9WsxK’
‘~/tmp/scratch/RtmpZEOCNW’ ‘~/tmp/scratch/RtmpZUFIzD’
‘~/tmp/scratch/RtmpZirmsB’ ‘~/tmp/scratch/RtmpZxRLcm’
‘~/tmp/scratch/RtmpaBpjy3’ ‘~/tmp/scratch/RtmpaacY03’
‘~/tmp/scratch/RtmpaoOoF2’ ‘~/tmp/scratch/Rtmpc1IU95’
‘~/tmp/scratch/Rtmpc5iVEp’ ‘~/tmp/scratch/RtmpcAvaLf’
‘~/tmp/scratch/RtmpcgaPEs’ ‘~/tmp/scratch/RtmpdEDVE1’
‘~/tmp/scratch/RtmpdNW0gl’ ‘~/tmp/scratch/RtmpdR0q5L’
‘~/tmp/scratch/RtmpdhEPHY’ ‘~/tmp/scratch/RtmpdtU9Ue’
‘~/tmp/scratch/Rtmpe2V20J’ ‘~/tmp/scratch/Rtmpe2i3Xr’
‘~/tmp/scratch/Rtmpe3zZqa’ ‘~/tmp/scratch/RtmpfGOZ5y’
‘~/tmp/scratch/RtmpfLByLP’ ‘~/tmp/scratch/RtmpfbGhFm’
‘~/tmp/scratch/RtmpfgkmUA’ ‘~/tmp/scratch/RtmpfxVNdj’
‘~/tmp/scratch/Rtmph1wUDo’ ‘~/tmp/scratch/RtmphbVnLs’
‘~/tmp/scratch/Rtmpj4uP2a’ ‘~/tmp/scratch/Rtmpjar3bS’
‘~/tmp/scratch/RtmpjtGAAd’ ‘~/tmp/scratch/Rtmpl6lZJR’
‘~/tmp/scratch/RtmpmN7FIx’ ‘~/tmp/scratch/RtmpmT1Q5e’
‘~/tmp/scratch/Rtmpn5uvN0’ ‘~/tmp/scratch/RtmpnIi50X’
‘~/tmp/scratch/Rtmpnt6ulC’ ‘~/tmp/scratch/RtmpoHMjcY’
‘~/tmp/scratch/RtmpoVLcmE’ ‘~/tmp/scratch/Rtmpox8bmN’
‘~/tmp/scratch/RtmppOTots’ ‘~/tmp/scratch/RtmppYUMYJ’
‘~/tmp/scratch/RtmppkrJjE’ ‘~/tmp/scratch/RtmpqSENpb’
‘~/tmp/scratch/RtmpqfkFWI’ ‘~/tmp/scratch/RtmpqyvbrS’
‘~/tmp/scratch/RtmpsY5KVN’ ‘~/tmp/scratch/RtmptBKBnA’
‘~/tmp/scratch/RtmptD7f8c’ ‘~/tmp/scratch/RtmptLp9QG’
‘~/tmp/scratch/RtmptUtDj9’ ‘~/tmp/scratch/Rtmptcqp6M’
‘~/tmp/scratch/RtmpuBHxKK’ ‘~/tmp/scratch/RtmpuCzKIC’
‘~/tmp/scratch/RtmpuQWpfW’ ‘~/tmp/scratch/RtmpumMY9Q’
‘~/tmp/scratch/Rtmpv78UFX’ ‘~/tmp/scratch/RtmpvCr4TC’
‘~/tmp/scratch/RtmpvT3fX3’ ‘~/tmp/scratch/RtmpvatntH’
‘~/tmp/scratch/RtmpvuEghQ’ ‘~/tmp/scratch/RtmpwE42HU’
‘~/tmp/scratch/Rtmpwd2B2q’ ‘~/tmp/scratch/RtmpwtDolM’
‘~/tmp/scratch/RtmpwwYNWD’ ‘~/tmp/scratch/RtmpxKJkPN’
‘~/tmp/scratch/RtmpxfUhvH’ ‘~/tmp/scratch/RtmpzgNA6c’
‘~/tmp/scratch/xvfb-run.0IrYoE’ ‘~/tmp/scratch/xvfb-run.0xaj7p’
‘~/tmp/scratch/xvfb-run.1A7FUz’ ‘~/tmp/scratch/xvfb-run.2GzfWR’
‘~/tmp/scratch/xvfb-run.2qu5D6’ ‘~/tmp/scratch/xvfb-run.3RlEAW’
‘~/tmp/scratch/xvfb-run.3uCVqk’ ‘~/tmp/scratch/xvfb-run.4VshFx’
‘~/tmp/scratch/xvfb-run.5nd4M7’ ‘~/tmp/scratch/xvfb-run.6CHgTt’
‘~/tmp/scratch/xvfb-run.8UzcTQ’ ‘~/tmp/scratch/xvfb-run.8XtcbF’
‘~/tmp/scratch/xvfb-run.9MIskq’ ‘~/tmp/scratch/xvfb-run.9P5Ykd’
‘~/tmp/scratch/xvfb-run.9u1L3Y’ ‘~/tmp/scratch/xvfb-run.AvVMA2’
‘~/tmp/scratch/xvfb-run.FRYeEt’ ‘~/tmp/scratch/xvfb-run.GPykI7’
‘~/tmp/scratch/xvfb-run.HXW4Sr’ ‘~/tmp/scratch/xvfb-run.JFqtr4’
‘~/tmp/scratch/xvfb-run.LAjPR8’ ‘~/tmp/scratch/xvfb-run.M1Ra6e’
‘~/tmp/scratch/xvfb-run.MAKchN’ ‘~/tmp/scratch/xvfb-run.MVsSJm’
‘~/tmp/scratch/xvfb-run.N5lHR3’ ‘~/tmp/scratch/xvfb-run.NX9WyU’
‘~/tmp/scratch/xvfb-run.NgQc6C’ ‘~/tmp/scratch/xvfb-run.Ou0flK’
‘~/tmp/scratch/xvfb-run.PqoNoJ’ ‘~/tmp/scratch/xvfb-run.PsFIEK’
‘~/tmp/scratch/xvfb-run.RZVYSu’ ‘~/tmp/scratch/xvfb-run.T9paQ7’
‘~/tmp/scratch/xvfb-run.WBj66t’ ‘~/tmp/scratch/xvfb-run.Wyfzad’
‘~/tmp/scratch/xvfb-run.XAooGI’ ‘~/tmp/scratch/xvfb-run.ZYopID’
‘~/tmp/scratch/xvfb-run.ZxdEKY’ ‘~/tmp/scratch/xvfb-run.a4D5JQ’
‘~/tmp/scratch/xvfb-run.aSZizE’ ‘~/tmp/scratch/xvfb-run.dXKmyY’
‘~/tmp/scratch/xvfb-run.dtZgIY’ ‘~/tmp/scratch/xvfb-run.dyXSHD’
‘~/tmp/scratch/xvfb-run.eMUAG8’ ‘~/tmp/scratch/xvfb-run.f5fsqw’
‘~/tmp/scratch/xvfb-run.fMeyIZ’ ‘~/tmp/scratch/xvfb-run.gTAGhl’
‘~/tmp/scratch/xvfb-run.hYdr6Z’ ‘~/tmp/scratch/xvfb-run.hr78NH’
‘~/tmp/scratch/xvfb-run.htp5Vt’ ‘~/tmp/scratch/xvfb-run.k3GPwo’
‘~/tmp/scratch/xvfb-run.kwqpQ1’ ‘~/tmp/scratch/xvfb-run.lIP8cN’
‘~/tmp/scratch/xvfb-run.lM7lVa’ ‘~/tmp/scratch/xvfb-run.luoBTb’
‘~/tmp/scratch/xvfb-run.nC7iVO’ ‘~/tmp/scratch/xvfb-run.nRxtgk’
‘~/tmp/scratch/xvfb-run.opz7te’ ‘~/tmp/scratch/xvfb-run.pDkY2f’
‘~/tmp/scratch/xvfb-run.pujoAi’ ‘~/tmp/scratch/xvfb-run.r4u3X0’
‘~/tmp/scratch/xvfb-run.sELwkM’ ‘~/tmp/scratch/xvfb-run.sV2pf0’
‘~/tmp/scratch/xvfb-run.tkcHoV’ ‘~/tmp/scratch/xvfb-run.uIfuO0’
‘~/tmp/scratch/xvfb-run.x3j425’ ‘~/tmp/scratch/xvfb-run.x4jbOe’
‘~/tmp/scratch/xvfb-run.xjmBTW’ ‘~/tmp/scratch/xvfb-run.z280k7’
‘~/tmp/scratch/xvfb-run.zESKMv’
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.2.1
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(duckspatial)
duckspatial 1.2.1 attached
* Compatible with DuckDB >= v1.5.4.2
Default output has changed on v1.0.0:
duckspatial now returns lazy `duckspatial_df` (dbplyr) objects
instead of `sf` objects.
To restore the previous behaviour:
ddbs_options(mode = 'sf')
> library(duckdb)
Loading required package: DBI
>
> test_check("duckspatial")
Reading layer `countries' from data source
`/data/gannet/ripley/R/packages/tests-clang/duckspatial.Rcheck/duckspatial/spatial/countries.geojson'
using driver `GeoJSON'
Simple feature collection with 257 features and 6 fields
Geometry type: POLYGON
Dimension: XY
Bounding box: xmin: -178.9125 ymin: -89.9 xmax: 180 ymax: 83.65187
Geodetic CRS: WGS 84
Reading layer `argentina' from data source
`/data/gannet/ripley/R/packages/tests-clang/duckspatial.Rcheck/duckspatial/spatial/argentina.geojson'
using driver `GeoJSON'
Simple feature collection with 1 feature and 6 fields
Geometry type: POLYGON
Dimension: XY
Bounding box: xmin: -73.52455 ymin: -52.39755 xmax: -53.62409 ymax: -21.81793
Geodetic CRS: WGS 84
duckdb keeps downloaded extensions and secrets in a temporary directory:
ℹ /tmp/RtmpzqWVyB/working_dir/RtmprxmteP/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.
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.
Error in `source_dir()`:
! Failed to evaluate './setup.R'.
Caused by error in `ddbs_install()`:
! Failed to install the spatial extension.
✖ core: DuckDB extension loading (INSTALL / LOAD) is disabled for this driver.
ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable it (this
may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
✖ community: DuckDB extension loading (INSTALL / LOAD) is disabled for this
driver. ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable
it (this may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
ℹ It might not be available for this version of DuckDB, or the install location
may not be writable.
ℹ Check that the extension name is correct:
<https://duckdb.org/docs/extensions/overview>
Backtrace:
▆
1. └─testthat::test_check("duckspatial")
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. ├─duckspatial::as_duckspatial_df(argentina_sf) at ./setup.R:15:1
15. └─duckspatial:::as_duckspatial_df.sf(argentina_sf)
16. └─duckspatial:::ddbs_default_conn()
17. └─duckspatial::ddbs_create_conn(dbdir = "memory", ...)
18. └─duckspatial::ddbs_install(conn, upgrade = upgrade, quiet = TRUE)
19. └─cli::cli_abort(...)
20. └─rlang::abort(...)
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 1.2.1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘aw_interpolation.qmd’ using html
<1b>[31m
processing file: aw_interpolation.qmd
<1b>[39m<1b>[31mError in `ddbs_install()`:
! Failed to install the spatial extension.
✖ core: DuckDB extension loading (INSTALL / LOAD) is disabled for this driver.
ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable it (this
may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
✖ community: DuckDB extension loading (INSTALL / LOAD) is disabled for this
driver. ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable
it (this may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
ℹ It might not be available for this version of DuckDB, or the install location
may not be writable.
ℹ Check that the extension name is correct:
<https://duckdb.org/docs/extensions/overview>
Backtrace:
▆
1. └─duckspatial::ddbs_interpolate_aw(...)
2. └─duckspatial:::resolve_spatial_connections(...)
3. └─duckspatial:::ddbs_default_conn()
4. └─duckspatial::ddbs_create_conn(dbdir = "memory", ...)
5. └─duckspatial::ddbs_install(conn, upgrade = upgrade, quiet = TRUE)
6. └─cli::cli_abort(...)
7. └─rlang::abort(...)
<1b>[39m<1b>[31m
Quitting from aw_interpolation.qmd:78-89 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `ddbs_install()`:
! Failed to install the spatial extension.
✖ core: DuckDB extension loading (INSTALL / LOAD) is disabled for this driver.
ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable it (this
may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
✖ community: DuckDB extension loading (INSTALL / LOAD) is disabled for this
driver. ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable
it (this may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
ℹ It might not be available for this version of DuckDB, or the install location
may not be writable.
ℹ Check that the extension name is correct:
<https://duckdb.org/docs/extensions/overview>
---
Backtrace:
▆
1. └─duckspatial::ddbs_interpolate_aw(...)
2. └─duckspatial:::resolve_spatial_connections(...)
3. └─duckspatial:::ddbs_default_conn()
4. └─duckspatial::ddbs_create_conn(dbdir = "memory", ...)
5. └─duckspatial::ddbs_install(conn, upgrade = upgrade, quiet = TRUE)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<1b>[39m<1b>[31mExecution halted
<1b>[39m<1b>[33mWARN: Error encountered when rendering files<1b>[39m
Error: processing vignette 'aw_interpolation.qmd' failed with diagnostics:
! Error running quarto CLI from R.
Caused by error in `quarto_render()`:
✖ Error returned by quarto CLI.
-----------------------------
processing file: aw_interpolation.qmd
<1b>[31mError in `ddbs_install()`:<1b>[39m
! Failed to install the spatial extension.
✖ core: DuckDB extension loading (INSTALL / LOAD) is disabled for this
driver.
ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable it (this
may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
✖ community: DuckDB extension loading (INSTALL / LOAD) is disabled for this
driver. ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable
it (this may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
ℹ It might not be available for this version of DuckDB, or the install
location
may not be writable.
ℹ Check that the extension name is correct:
<https://duckdb.org/docs/extensions/overview>
Backtrace:
▆
1. └─duckspatial::ddbs_interpolate_aw(...)
2. └─duckspatial:::resolve_spatial_connections(...)
3. └─duckspatial:::ddbs_default_conn()
4. └─duckspatial::ddbs_create_conn(dbdir = "memory", ...)
5. └─duckspatial::ddbs_install(conn, upgrade = upgrade, quiet = TRUE)
6. └─cli::cli_abort(...)
7. └─rlang::abort(...)
Quitting from aw_interpolation.qmd:78-89 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `ddbs_install()`:
! Failed to install the spatial extension.
✖ core: DuckDB extension loading (INSTALL / LOAD) is disabled for this
driver.
ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable it (this
may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
✖ community: DuckDB extension loading (INSTALL / LOAD) is disabled for this
driver. ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable
it (this may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
ℹ It might not be available for this version of DuckDB, or the install
location
may not be writable.
ℹ Check that the extension name is correct:
<https://duckdb.org/docs/extensions/overview>
---
Backtrace:
▆
1. └─duckspatial::ddbs_interpolate_aw(...)
2. └─duckspatial:::resolve_spatial_connections(...)
3. └─duckspatial:::ddbs_default_conn()
4. └─duckspatial::ddbs_create_conn(dbdir = "memory", ...)
5. └─duckspatial::ddbs_install(conn, upgrade = upgrade, quiet = TRUE)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<1b>[31mExecution halted<1b>[39m
<1b>[33mWARN: Error encountered when rendering files<1b>[39m
Caused by error in `processx::run()`:
! System command 'quarto' failed
--- failed re-building ‘aw_interpolation.qmd’
--- re-building ‘benchmark.qmd’ using html
<1b>[31m
processing file: benchmark.qmd
<1b>[39m<1b>[31moutput file: benchmark.knit.md
<1b>[39m<1b>[1mpandoc <1b>[22m
to: html
output-file: benchmark.html
standalone: true
embed-resources: true
wrap: none
default-image-extension: png
css:
- >-
/data/gannet/ripley/R/test-clang/quarto/rmarkdown/template/quarto_vignette/resources/vignette.css
variables: {}
<1b>[1mmetadata<1b>[22m
document-css: false
lang: en
engines:
- path: /data/gannet/ripley/Sources/quarto-1.9.36/share/extension-subtrees/julia-engine/_extensions/julia-engine/julia-engine.js
minimal: true
theme: none
title: Benchmark
date: '`r Sys.Date()`'
code-annotations: hover
urlcolor: blue
vignette: |
%\VignetteIndexEntry{Benchmark} %\VignetteEngine{quarto::html} %\VignetteEncoding{UTF-8}
knitr:
opts_chunk:
collapse: true
comment: '#>'
out.width: 100%
Output created: benchmark.html
--- finished re-building ‘benchmark.qmd’
--- re-building ‘duckspatial.qmd’ using html
<1b>[31m
processing file: duckspatial.qmd
<1b>[39m<1b>[31mError in `ddbs_install()`:
! Failed to install the spatial extension.
✖ core: DuckDB extension loading (INSTALL / LOAD) is disabled for this driver.
ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable it (this
may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
✖ community: DuckDB extension loading (INSTALL / LOAD) is disabled for this
driver. ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable
it (this may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
ℹ It might not be available for this version of DuckDB, or the install location
may not be writable.
ℹ Check that the extension name is correct:
<https://duckdb.org/docs/extensions/overview>
Backtrace:
▆
1. └─duckspatial::ddbs_open_dataset(...)
2. └─duckspatial:::ddbs_default_conn()
3. └─duckspatial::ddbs_create_conn(dbdir = "memory", ...)
4. └─duckspatial::ddbs_install(conn, upgrade = upgrade, quiet = TRUE)
5. └─cli::cli_abort(...)
6. └─rlang::abort(...)
<1b>[39m<1b>[31m
Quitting from duckspatial.qmd:78-87 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `ddbs_install()`:
! Failed to install the spatial extension.
✖ core: DuckDB extension loading (INSTALL / LOAD) is disabled for this driver.
ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable it (this
may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
✖ community: DuckDB extension loading (INSTALL / LOAD) is disabled for this
driver. ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable
it (this may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
ℹ It might not be available for this version of DuckDB, or the install location
may not be writable.
ℹ Check that the extension name is correct:
<https://duckdb.org/docs/extensions/overview>
---
Backtrace:
▆
1. └─duckspatial::ddbs_open_dataset(...)
2. └─duckspatial:::ddbs_default_conn()
3. └─duckspatial::ddbs_create_conn(dbdir = "memory", ...)
4. └─duckspatial::ddbs_install(conn, upgrade = upgrade, quiet = TRUE)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<1b>[39m<1b>[31mExecution halted
<1b>[39m<1b>[33mWARN: Error encountered when rendering files<1b>[39m
Error: processing vignette 'duckspatial.qmd' failed with diagnostics:
! Error running quarto CLI from R.
Caused by error in `quarto_render()`:
✖ Error returned by quarto CLI.
-----------------------------
processing file: duckspatial.qmd
<1b>[31mError in `ddbs_install()`:<1b>[39m
! Failed to install the spatial extension.
✖ core: DuckDB extension loading (INSTALL / LOAD) is disabled for this
driver.
ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable it (this
may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
✖ community: DuckDB extension loading (INSTALL / LOAD) is disabled for this
driver. ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable
it (this may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
ℹ It might not be available for this version of DuckDB, or the install
location
may not be writable.
ℹ Check that the extension name is correct:
<https://duckdb.org/docs/extensions/overview>
Backtrace:
▆
1. └─duckspatial::ddbs_open_dataset(...)
2. └─duckspatial:::ddbs_default_conn()
3. └─duckspatial::ddbs_create_conn(dbdir = "memory", ...)
4. └─duckspatial::ddbs_install(conn, upgrade = upgrade, quiet = TRUE)
5. └─cli::cli_abort(...)
6. └─rlang::abort(...)
Quitting from duckspatial.qmd:78-87 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `ddbs_install()`:
! Failed to install the spatial extension.
✖ core: DuckDB extension loading (INSTALL / LOAD) is disabled for this
driver.
ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable it (this
may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
✖ community: DuckDB extension loading (INSTALL / LOAD) is disabled for this
driver. ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable
it (this may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
ℹ It might not be available for this version of DuckDB, or the install
location
may not be writable.
ℹ Check that the extension name is correct:
<https://duckdb.org/docs/extensions/overview>
---
Backtrace:
▆
1. └─duckspatial::ddbs_open_dataset(...)
2. └─duckspatial:::ddbs_default_conn()
3. └─duckspatial::ddbs_create_conn(dbdir = "memory", ...)
4. └─duckspatial::ddbs_install(conn, upgrade = upgrade, quiet = TRUE)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<1b>[31mExecution halted<1b>[39m
<1b>[33mWARN: Error encountered when rendering files<1b>[39m
Caused by error in `processx::run()`:
! System command 'quarto' failed
--- failed re-building ‘duckspatial.qmd’
--- re-building ‘spatial_joins.qmd’ using html
<1b>[31m
processing file: spatial_joins.qmd
<1b>[39m<1b>[31mError in `ddbs_install()`:
! Failed to install the spatial extension.
✖ core: DuckDB extension loading (INSTALL / LOAD) is dis<1b>[39m<1b>[31mabled for this driver.
ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable it (this
may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
✖ community: DuckDB extension loading (INSTALL / LOAD) is disabled for this
driver. ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable
it (this may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
ℹ It might not be available for this version of DuckDB, or the install location
may not be writable.
ℹ Check that the extension name is correct:
<https://duckdb.org/docs/extensions/overview>
Backtrace:
▆
1. └─duckspatial::ddbs_join(x = points_sf, y = countries_sf, join = "within")
2. └─duckspatial:::resolve_spatial_connections(...)
3. └─duckspatial:::ddbs_default_conn()
4. └─duckspatial::ddbs_create_conn(dbdir = "memory", ...)
5. └─duckspatial::ddbs_install(conn, upgrade = upgrade, quiet = TRUE)
6. └─cli::cli_abort(...)
7. └─rlang::abort(...)
<1b>[39m<1b>[31m
Quitting from spatial_joins.qmd:77-87 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~<1b>[39m<1b>[31m~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `ddbs_install()`:
! Failed to install the spatial extension.
✖ core: DuckDB extension loading (INSTALL / LOAD) is disabled for this driver.
ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable it (this
may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
✖ community: DuckDB extension loading (INSTALL / LOAD) is disabled for this
driver. ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable
it (this may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
ℹ It might not be available for this version of DuckDB, or the install location
may not be writable.
ℹ Check that the extension name is correct:
<https://duckdb.org/docs/extensions/overview>
---
Backtrace:
▆
1. └─duckspatial::ddbs_join(x = points_sf, y = countries_sf, join = "within")
2. └─duckspatial:::resolve_spatial_connections(...)
3. └─duckspatial:::ddbs_default_conn()
4. └─duckspatial::ddbs_create_conn(dbdir = "memory", ...)
5. └─duckspatial::ddbs_install(conn, upgrade = upgrade, quiet = TRUE)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Execution halted
<1b>[39m<1b>[33mWARN: Error encountered when rendering files<1b>[39m
Error: processing vignette 'spatial_joins.qmd' failed with diagnostics:
! Error running quarto CLI from R.
Caused by error in `quarto_render()`:
✖ Error returned by quarto CLI.
-----------------------------
processing file: spatial_joins.qmd
<1b>[31mError in `ddbs_install()`:<1b>[39m
! Failed to install the spatial extension.
✖ core: DuckDB extension loading (INSTALL / LOAD) is dis<1b>[31mabled for this<1b>[39m
<1b>[31mdriver.<1b>[39m
ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable it (this
may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
✖ community: DuckDB extension loading (INSTALL / LOAD) is disabled for this
driver. ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable
it (this may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
ℹ It might not be available for this version of DuckDB, or the install
location
may not be writable.
ℹ Check that the extension name is correct:
<https://duckdb.org/docs/extensions/overview>
Backtrace:
▆
1. └─duckspatial::ddbs_join(x = points_sf, y = countries_sf, join = "within")
2. └─duckspatial:::resolve_spatial_connections(...)
3. └─duckspatial:::ddbs_default_conn()
4. └─duckspatial::ddbs_create_conn(dbdir = "memory", ...)
5. └─duckspatial::ddbs_install(conn, upgrade = upgrade, quiet = TRUE)
6. └─cli::cli_abort(...)
7. └─rlang::abort(...)
Quitting from spatial_joins.qmd:77-87 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~<1b>[31m~~~~~~~~~~~~~~~<1b>[39m
<error/rlang_error>
Error in `ddbs_install()`:
! Failed to install the spatial extension.
✖ core: DuckDB extension loading (INSTALL / LOAD) is disabled for this
driver.
ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable it (this
may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
✖ community: DuckDB extension loading (INSTALL / LOAD) is disabled for this
driver. ℹ Recreate the driver with duckdb(allow_extensions = TRUE) to enable
it (this may crash R on a Linux build not compiled with libstdc++; see
https://github.com/duckdb/duckdb-r/issues/1107). ℹ See ?duckdb for details. ℹ
Context: load_extension
ℹ It might not be available for this version of DuckDB, or the install
location
may not be writable.
ℹ Check that the extension name is correct:
<https://duckdb.org/docs/extensions/overview>
---
Backtrace:
▆
1. └─duckspatial::ddbs_join(x = points_sf, y = countries_sf, join = "within")
2. └─duckspatial:::resolve_spatial_connections(...)
3. └─duckspatial:::ddbs_default_conn()
4. └─duckspatial::ddbs_create_conn(dbdir = "memory", ...)
5. └─duckspatial::ddbs_install(conn, upgrade = upgrade, quiet = TRUE)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Execution halted
<1b>[33mWARN: Error encountered when rendering files<1b>[39m
Caused by error in `processx::run()`:
! System command 'quarto' failed
--- failed re-building ‘spatial_joins.qmd’
SUMMARY: processing the following files failed:
‘aw_interpolation.qmd’ ‘duckspatial.qmd’ ‘spatial_joins.qmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang