Last updated on 2025-12-20 09:49:39 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 2.2.4-1 | 31.01 | 363.49 | 394.50 | OK | |
| r-devel-linux-x86_64-debian-gcc | 2.2.4-1 | 16.62 | 196.83 | 213.45 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 2.2.4-1 | 53.00 | 493.64 | 546.64 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 2.2.4-1 | 50.00 | 490.26 | 540.26 | ERROR | |
| r-devel-windows-x86_64 | 2.2.4-1 | 29.00 | 266.00 | 295.00 | OK | --no-vignettes |
| r-patched-linux-x86_64 | 2.2.4-1 | 27.58 | 335.80 | 363.38 | OK | |
| r-release-linux-x86_64 | 2.2.4-1 | 30.43 | 331.00 | 361.43 | OK | |
| r-release-macos-arm64 | 2.2.4-1 | OK | ||||
| r-release-macos-x86_64 | 2.2.4-1 | 21.00 | 448.00 | 469.00 | OK | |
| r-release-windows-x86_64 | 2.2.4-1 | 30.00 | 240.00 | 270.00 | OK | --no-vignettes |
| r-oldrel-macos-arm64 | 2.2.4-1 | OK | ||||
| r-oldrel-macos-x86_64 | 2.2.4-1 | 19.00 | 407.00 | 426.00 | OK | |
| r-oldrel-windows-x86_64 | 2.2.4-1 | 40.00 | 310.00 | 350.00 | OK | --no-vignettes |
Version: 2.2.4-1
Check: examples
Result: ERROR
Running examples in ‘BIOMASS-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: check_plot_coord
> ### Title: Check coordinates of plot corners and trees
> ### Aliases: check_plot_coord
>
> ### ** Examples
>
> # One plot with repeated measurements of each corner
> data("NouraguesPlot201")
> check_plot201 <- check_plot_coord(
+ corner_data = NouraguesPlot201,
+ proj_coord = c("Xutm","Yutm"), rel_coord = c("Xfield","Yfield"),
+ trust_GPS_corners = TRUE, draw_plot = FALSE)
Error in `[.data.table`(corner_dat, , `:=`(c("x_proj_mean", "y_proj_mean", :
attempt access index 9/9 in VECTOR_ELT
Calls: check_plot_coord ... [.data.table -> check_corner_fct -> [ -> [.data.table
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 2.2.4-1
Check: tests
Result: ERROR
Running ‘testthat.R’ [16s/17s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(BIOMASS)
For more information on using BIOMASS, visit https://umr-amap.github.io/BIOMASS
Using temporary cache
It is recommended to use a permanent cache to avoid to re-download files on each session.
See function createCache() or BIOMASS.cache option.
>
> test_check("BIOMASS")
Saving _problems/test-AGBmonteCarlo-289.R
Saving _problems/test-check_coord_plot-85.R
Saving _problems/test-check_coord_plot-96.R
Saving _problems/test-dividePlot-7.R
Saving _problems/test-retrieveH-77.R
Saving _problems/test-small_function-242.R
Saving _problems/test-subplot_summary-7.R
[ FAIL 7 | WARN 0 | SKIP 17 | PASS 359 ]
══ Skipped tests (17) ══════════════════════════════════════════════════════════
• On CRAN (17): 'test-AGBmonteCarlo.R:153:3', 'test-check_coord_plot.R:106:3',
'test-check_coord_plot.R:124:3', 'test-computeAGB.R:43:3',
'test-correctTaxo.R:5:3', 'test-modelHD.R:120:3', 'test-retrieveH.R:36:3',
'test-small_function.R:22:3', 'test-small_function.R:38:3',
'test-small_function.R:102:3', 'test-small_function.R:112:3',
'test-small_function.R:124:3', 'test-small_function.R:140:5',
'test-small_function.R:140:5', 'test-small_function.R:140:5',
'test-small_function.R:140:5', 'test-small_function.R:162:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-AGBmonteCarlo.R:289:3'): With the plot value ───────────────────
Error in ``[.data.table`(data, , `:=`(H, predictHeight(D, model = model[[unique(plot)]], err)), by = plot)`: attempt access index 2/2 in VECTOR_ELT
Backtrace:
▆
1. └─BIOMASS::AGBmonteCarlo(...) at test-AGBmonteCarlo.R:289:3
2. └─base::apply(...)
3. └─BIOMASS (local) FUN(newX[, i], ...)
4. └─BIOMASS::predictHeight(x, model = HDmodel, err = TRUE, plot = plot)
5. ├─...[]
6. └─data.table:::`[.data.table`(...)
── Error ('test-check_coord_plot.R:85:3'): check_plot_coord in long lat ────────
Error in ``[.data.table`(coord, , `:=`(c("X", "Y"), proj4::project(.(long, lat), proj = unique(.BY))), by = codeUTM)`: attempt access index 3/3 in VECTOR_ELT
Backtrace:
▆
1. ├─BIOMASS::check_plot_coord(...) at test-check_coord_plot.R:85:3
2. │ ├─corner_dt[, latlong2UTM_fct(.SD), by = plot_ID, .SDcols = colnames(corner_dt)]
3. │ └─data.table:::`[.data.table`(...)
4. └─BIOMASS (local) latlong2UTM_fct(.SD)
5. └─BIOMASS::latlong2UTM(dat[, c("long", "lat")])
6. ├─...[]
7. └─data.table:::`[.data.table`(...)
── Error ('test-check_coord_plot.R:94:3'): check_plot_coord, trust_GPS_corners ──
Error in ``[.data.table`(corner_dat, , `:=`(c("x_proj_mean", "y_proj_mean", "row_number"), list(mean(x_proj), mean(y_proj), .I)), by = list(x_rel, y_rel))`: attempt access index 9/9 in VECTOR_ELT
Backtrace:
▆
1. ├─testthat::expect_warning(...) at test-check_coord_plot.R:94:3
2. │ └─testthat:::quasi_capture(...)
3. │ ├─testthat (local) .capture(...)
4. │ │ └─base::withCallingHandlers(...)
5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
6. ├─BIOMASS::check_plot_coord(...)
7. │ ├─corner_dt[, check_corner_fct(.SD), by = plot_ID, .SDcols = colnames(corner_dt)]
8. │ └─data.table:::`[.data.table`(...)
9. └─BIOMASS (local) check_corner_fct(.SD)
10. ├─...[]
11. └─data.table:::`[.data.table`(...)
── Error ('test-dividePlot.R:7:1'): (code run outside of `test_that()`) ────────
Error in ``[.data.table`(corner_dat, , `:=`(c("x_proj_mean", "y_proj_mean", "row_number"), list(mean(x_proj), mean(y_proj), .I)), by = list(x_rel, y_rel))`: attempt access index 9/9 in VECTOR_ELT
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test-dividePlot.R:7:1
2. │ └─base::withCallingHandlers(...)
3. ├─BIOMASS::check_plot_coord(...)
4. │ ├─corner_dt[, check_corner_fct(.SD), by = plot_ID, .SDcols = colnames(corner_dt)]
5. │ └─data.table:::`[.data.table`(...)
6. └─BIOMASS (local) check_corner_fct(.SD)
7. ├─...[]
8. └─data.table:::`[.data.table`(...)
── Error ('test-retrieveH.R:77:3'): With the plot ──────────────────────────────
Error in ``[.data.table`(data, , `:=`(H, predictHeight(D, model = model[[unique(plot)]], err)), by = plot)`: attempt access index 2/2 in VECTOR_ELT
Backtrace:
▆
1. └─BIOMASS::retrieveH(D, model, plot = NouraguesHD$plotId) at test-retrieveH.R:77:3
2. └─BIOMASS::predictHeight(D, model, plot = plot)
3. ├─...[]
4. └─data.table:::`[.data.table`(...)
── Error ('test-small_function.R:242:3'): lat long to UTM ──────────────────────
Error in ``[.data.table`(coord, , `:=`(c("X", "Y"), proj4::project(.(long, lat), proj = unique(.BY))), by = codeUTM)`: attempt access index 3/3 in VECTOR_ELT
Backtrace:
▆
1. └─BIOMASS::latlong2UTM(coord) at test-small_function.R:242:3
2. ├─...[]
3. └─data.table:::`[.data.table`(...)
── Error ('test-subplot_summary.R:7:1'): (code run outside of `test_that()`) ───
Error in ``[.data.table`(corner_dat, , `:=`(c("x_proj_mean", "y_proj_mean", "row_number"), list(mean(x_proj), mean(y_proj), .I)), by = list(x_rel, y_rel))`: attempt access index 9/9 in VECTOR_ELT
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test-subplot_summary.R:7:1
2. │ └─base::withCallingHandlers(...)
3. ├─BIOMASS::check_plot_coord(...)
4. │ ├─corner_dt[, check_corner_fct(.SD), by = plot_ID, .SDcols = colnames(corner_dt)]
5. │ └─data.table:::`[.data.table`(...)
6. └─BIOMASS (local) check_corner_fct(.SD)
7. ├─...[]
8. └─data.table:::`[.data.table`(...)
[ FAIL 7 | WARN 0 | SKIP 17 | PASS 359 ]
Deleting unused snapshots:
'subplot_summary/subplot-summary-multiple-metrics-204.svg',
'subplot_summary/subplot-summary-multiple-plot-201.svg',
'subplot_summary/subplot-summary-multiple-plot-204.svg',
'subplot_summary/subplot-summary-proj-coords.svg',
'subplot_summary/subplot-summary-quantile.svg', and
'subplot_summary/subplot-summary-rel-coords.svg'
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 2.2.4-1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘Vignette_BIOMASS.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘Vignette_BIOMASS.Rmd’
--- re-building ‘Vignette_spatialized_trees_and_forest_stand_metrics.Rmd’ using rmarkdown
Quitting from Vignette_spatialized_trees_and_forest_stand_metrics.Rmd:105-113 [check_plot_trust_GPS]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `[.data.table`:
! attempt access index 3/3 in VECTOR_ELT
---
Backtrace:
▆
1. ├─BIOMASS::check_plot_coord(...)
2. │ ├─corner_dt[, latlong2UTM_fct(.SD), by = plot_ID, .SDcols = colnames(corner_dt)]
3. │ └─data.table:::`[.data.table`(...)
4. └─BIOMASS (local) latlong2UTM_fct(.SD)
5. └─BIOMASS::latlong2UTM(dat[, c("long", "lat")])
6. ├─...[]
7. └─data.table:::`[.data.table`(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'Vignette_spatialized_trees_and_forest_stand_metrics.Rmd' failed with diagnostics:
attempt access index 3/3 in VECTOR_ELT
--- failed re-building ‘Vignette_spatialized_trees_and_forest_stand_metrics.Rmd’
SUMMARY: processing the following file failed:
‘Vignette_spatialized_trees_and_forest_stand_metrics.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 2.2.4-1
Check: examples
Result: ERROR
Running examples in ‘BIOMASS-Ex.R’ failed
The error most likely occurred in:
> ### Name: check_plot_coord
> ### Title: Check coordinates of plot corners and trees
> ### Aliases: check_plot_coord
>
> ### ** Examples
>
> # One plot with repeated measurements of each corner
> data("NouraguesPlot201")
> check_plot201 <- check_plot_coord(
+ corner_data = NouraguesPlot201,
+ proj_coord = c("Xutm","Yutm"), rel_coord = c("Xfield","Yfield"),
+ trust_GPS_corners = TRUE, draw_plot = FALSE)
Error in `[.data.table`(corner_dat, , `:=`(c("x_proj_mean", "y_proj_mean", :
attempt access index 9/9 in VECTOR_ELT
Calls: check_plot_coord ... [.data.table -> check_corner_fct -> [ -> [.data.table
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 2.2.4-1
Check: tests
Result: ERROR
Running ‘testthat.R’ [37s/42s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(BIOMASS)
For more information on using BIOMASS, visit https://umr-amap.github.io/BIOMASS
Using temporary cache
It is recommended to use a permanent cache to avoid to re-download files on each session.
See function createCache() or BIOMASS.cache option.
>
> test_check("BIOMASS")
Saving _problems/test-AGBmonteCarlo-289.R
Saving _problems/test-check_coord_plot-85.R
Saving _problems/test-check_coord_plot-96.R
Saving _problems/test-dividePlot-7.R
Saving _problems/test-retrieveH-77.R
Saving _problems/test-small_function-242.R
Saving _problems/test-subplot_summary-7.R
[ FAIL 7 | WARN 0 | SKIP 17 | PASS 359 ]
══ Skipped tests (17) ══════════════════════════════════════════════════════════
• On CRAN (17): 'test-AGBmonteCarlo.R:153:3', 'test-check_coord_plot.R:106:3',
'test-check_coord_plot.R:124:3', 'test-computeAGB.R:43:3',
'test-correctTaxo.R:5:3', 'test-modelHD.R:120:3', 'test-retrieveH.R:36:3',
'test-small_function.R:22:3', 'test-small_function.R:38:3',
'test-small_function.R:102:3', 'test-small_function.R:112:3',
'test-small_function.R:124:3', 'test-small_function.R:140:5',
'test-small_function.R:140:5', 'test-small_function.R:140:5',
'test-small_function.R:140:5', 'test-small_function.R:162:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-AGBmonteCarlo.R:289:3'): With the plot value ───────────────────
Error in ``[.data.table`(data, , `:=`(H, predictHeight(D, model = model[[unique(plot)]], err)), by = plot)`: attempt access index 2/2 in VECTOR_ELT
Backtrace:
▆
1. └─BIOMASS::AGBmonteCarlo(...) at test-AGBmonteCarlo.R:289:3
2. └─base::apply(...)
3. └─BIOMASS (local) FUN(newX[, i], ...)
4. └─BIOMASS::predictHeight(x, model = HDmodel, err = TRUE, plot = plot)
5. ├─...[]
6. └─data.table:::`[.data.table`(...)
── Error ('test-check_coord_plot.R:85:3'): check_plot_coord in long lat ────────
Error in ``[.data.table`(coord, , `:=`(c("X", "Y"), proj4::project(.(long, lat), proj = unique(.BY))), by = codeUTM)`: attempt access index 3/3 in VECTOR_ELT
Backtrace:
▆
1. ├─BIOMASS::check_plot_coord(...) at test-check_coord_plot.R:85:3
2. │ ├─corner_dt[, latlong2UTM_fct(.SD), by = plot_ID, .SDcols = colnames(corner_dt)]
3. │ └─data.table:::`[.data.table`(...)
4. └─BIOMASS (local) latlong2UTM_fct(.SD)
5. └─BIOMASS::latlong2UTM(dat[, c("long", "lat")])
6. ├─...[]
7. └─data.table:::`[.data.table`(...)
── Error ('test-check_coord_plot.R:94:3'): check_plot_coord, trust_GPS_corners ──
Error in ``[.data.table`(corner_dat, , `:=`(c("x_proj_mean", "y_proj_mean", "row_number"), list(mean(x_proj), mean(y_proj), .I)), by = list(x_rel, y_rel))`: attempt access index 9/9 in VECTOR_ELT
Backtrace:
▆
1. ├─testthat::expect_warning(...) at test-check_coord_plot.R:94:3
2. │ └─testthat:::quasi_capture(...)
3. │ ├─testthat (local) .capture(...)
4. │ │ └─base::withCallingHandlers(...)
5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
6. ├─BIOMASS::check_plot_coord(...)
7. │ ├─corner_dt[, check_corner_fct(.SD), by = plot_ID, .SDcols = colnames(corner_dt)]
8. │ └─data.table:::`[.data.table`(...)
9. └─BIOMASS (local) check_corner_fct(.SD)
10. ├─...[]
11. └─data.table:::`[.data.table`(...)
── Error ('test-dividePlot.R:7:1'): (code run outside of `test_that()`) ────────
Error in ``[.data.table`(corner_dat, , `:=`(c("x_proj_mean", "y_proj_mean", "row_number"), list(mean(x_proj), mean(y_proj), .I)), by = list(x_rel, y_rel))`: attempt access index 9/9 in VECTOR_ELT
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test-dividePlot.R:7:1
2. │ └─base::withCallingHandlers(...)
3. ├─BIOMASS::check_plot_coord(...)
4. │ ├─corner_dt[, check_corner_fct(.SD), by = plot_ID, .SDcols = colnames(corner_dt)]
5. │ └─data.table:::`[.data.table`(...)
6. └─BIOMASS (local) check_corner_fct(.SD)
7. ├─...[]
8. └─data.table:::`[.data.table`(...)
── Error ('test-retrieveH.R:77:3'): With the plot ──────────────────────────────
Error in ``[.data.table`(data, , `:=`(H, predictHeight(D, model = model[[unique(plot)]], err)), by = plot)`: attempt access index 2/2 in VECTOR_ELT
Backtrace:
▆
1. └─BIOMASS::retrieveH(D, model, plot = NouraguesHD$plotId) at test-retrieveH.R:77:3
2. └─BIOMASS::predictHeight(D, model, plot = plot)
3. ├─...[]
4. └─data.table:::`[.data.table`(...)
── Error ('test-small_function.R:242:3'): lat long to UTM ──────────────────────
Error in ``[.data.table`(coord, , `:=`(c("X", "Y"), proj4::project(.(long, lat), proj = unique(.BY))), by = codeUTM)`: attempt access index 3/3 in VECTOR_ELT
Backtrace:
▆
1. └─BIOMASS::latlong2UTM(coord) at test-small_function.R:242:3
2. ├─...[]
3. └─data.table:::`[.data.table`(...)
── Error ('test-subplot_summary.R:7:1'): (code run outside of `test_that()`) ───
Error in ``[.data.table`(corner_dat, , `:=`(c("x_proj_mean", "y_proj_mean", "row_number"), list(mean(x_proj), mean(y_proj), .I)), by = list(x_rel, y_rel))`: attempt access index 9/9 in VECTOR_ELT
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test-subplot_summary.R:7:1
2. │ └─base::withCallingHandlers(...)
3. ├─BIOMASS::check_plot_coord(...)
4. │ ├─corner_dt[, check_corner_fct(.SD), by = plot_ID, .SDcols = colnames(corner_dt)]
5. │ └─data.table:::`[.data.table`(...)
6. └─BIOMASS (local) check_corner_fct(.SD)
7. ├─...[]
8. └─data.table:::`[.data.table`(...)
[ FAIL 7 | WARN 0 | SKIP 17 | PASS 359 ]
Deleting unused snapshots:
'subplot_summary/subplot-summary-multiple-metrics-204.svg',
'subplot_summary/subplot-summary-multiple-plot-201.svg',
'subplot_summary/subplot-summary-multiple-plot-204.svg',
'subplot_summary/subplot-summary-proj-coords.svg',
'subplot_summary/subplot-summary-quantile.svg', and
'subplot_summary/subplot-summary-rel-coords.svg'
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 2.2.4-1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘Vignette_BIOMASS.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘Vignette_BIOMASS.Rmd’
--- re-building ‘Vignette_spatialized_trees_and_forest_stand_metrics.Rmd’ using rmarkdown
Quitting from Vignette_spatialized_trees_and_forest_stand_metrics.Rmd:105-113 [check_plot_trust_GPS]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `[.data.table`:
! attempt access index 3/3 in VECTOR_ELT
---
Backtrace:
▆
1. ├─BIOMASS::check_plot_coord(...)
2. │ ├─corner_dt[, latlong2UTM_fct(.SD), by = plot_ID, .SDcols = colnames(corner_dt)]
3. │ └─data.table:::`[.data.table`(...)
4. └─BIOMASS (local) latlong2UTM_fct(.SD)
5. └─BIOMASS::latlong2UTM(dat[, c("long", "lat")])
6. ├─...[]
7. └─data.table:::`[.data.table`(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'Vignette_spatialized_trees_and_forest_stand_metrics.Rmd' failed with diagnostics:
attempt access index 3/3 in VECTOR_ELT
--- failed re-building ‘Vignette_spatialized_trees_and_forest_stand_metrics.Rmd’
SUMMARY: processing the following file failed:
‘Vignette_spatialized_trees_and_forest_stand_metrics.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 2.2.4-1
Check: tests
Result: ERROR
Running ‘testthat.R’ [34s/40s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(BIOMASS)
For more information on using BIOMASS, visit https://umr-amap.github.io/BIOMASS
Using temporary cache
It is recommended to use a permanent cache to avoid to re-download files on each session.
See function createCache() or BIOMASS.cache option.
>
> test_check("BIOMASS")
Saving _problems/test-AGBmonteCarlo-289.R
Saving _problems/test-check_coord_plot-85.R
Saving _problems/test-check_coord_plot-96.R
Saving _problems/test-dividePlot-7.R
Saving _problems/test-retrieveH-77.R
Saving _problems/test-small_function-242.R
Saving _problems/test-subplot_summary-7.R
[ FAIL 7 | WARN 0 | SKIP 17 | PASS 359 ]
══ Skipped tests (17) ══════════════════════════════════════════════════════════
• On CRAN (17): 'test-AGBmonteCarlo.R:153:3', 'test-check_coord_plot.R:106:3',
'test-check_coord_plot.R:124:3', 'test-computeAGB.R:43:3',
'test-correctTaxo.R:5:3', 'test-modelHD.R:120:3', 'test-retrieveH.R:36:3',
'test-small_function.R:22:3', 'test-small_function.R:38:3',
'test-small_function.R:102:3', 'test-small_function.R:112:3',
'test-small_function.R:124:3', 'test-small_function.R:140:5',
'test-small_function.R:140:5', 'test-small_function.R:140:5',
'test-small_function.R:140:5', 'test-small_function.R:162:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-AGBmonteCarlo.R:289:3'): With the plot value ───────────────────
Error in ``[.data.table`(data, , `:=`(H, predictHeight(D, model = model[[unique(plot)]], err)), by = plot)`: attempt access index 2/2 in VECTOR_ELT
Backtrace:
▆
1. └─BIOMASS::AGBmonteCarlo(...) at test-AGBmonteCarlo.R:289:3
2. └─base::apply(...)
3. └─BIOMASS (local) FUN(newX[, i], ...)
4. └─BIOMASS::predictHeight(x, model = HDmodel, err = TRUE, plot = plot)
5. ├─...[]
6. └─data.table:::`[.data.table`(...)
── Error ('test-check_coord_plot.R:85:3'): check_plot_coord in long lat ────────
Error in ``[.data.table`(coord, , `:=`(c("X", "Y"), proj4::project(.(long, lat), proj = unique(.BY))), by = codeUTM)`: attempt access index 3/3 in VECTOR_ELT
Backtrace:
▆
1. ├─BIOMASS::check_plot_coord(...) at test-check_coord_plot.R:85:3
2. │ ├─corner_dt[, latlong2UTM_fct(.SD), by = plot_ID, .SDcols = colnames(corner_dt)]
3. │ └─data.table:::`[.data.table`(...)
4. └─BIOMASS (local) latlong2UTM_fct(.SD)
5. └─BIOMASS::latlong2UTM(dat[, c("long", "lat")])
6. ├─...[]
7. └─data.table:::`[.data.table`(...)
── Error ('test-check_coord_plot.R:94:3'): check_plot_coord, trust_GPS_corners ──
Error in ``[.data.table`(corner_dat, , `:=`(c("x_proj_mean", "y_proj_mean", "row_number"), list(mean(x_proj), mean(y_proj), .I)), by = list(x_rel, y_rel))`: attempt access index 9/9 in VECTOR_ELT
Backtrace:
▆
1. ├─testthat::expect_warning(...) at test-check_coord_plot.R:94:3
2. │ └─testthat:::quasi_capture(...)
3. │ ├─testthat (local) .capture(...)
4. │ │ └─base::withCallingHandlers(...)
5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
6. ├─BIOMASS::check_plot_coord(...)
7. │ ├─corner_dt[, check_corner_fct(.SD), by = plot_ID, .SDcols = colnames(corner_dt)]
8. │ └─data.table:::`[.data.table`(...)
9. └─BIOMASS (local) check_corner_fct(.SD)
10. ├─...[]
11. └─data.table:::`[.data.table`(...)
── Error ('test-dividePlot.R:7:1'): (code run outside of `test_that()`) ────────
Error in ``[.data.table`(corner_dat, , `:=`(c("x_proj_mean", "y_proj_mean", "row_number"), list(mean(x_proj), mean(y_proj), .I)), by = list(x_rel, y_rel))`: attempt access index 9/9 in VECTOR_ELT
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test-dividePlot.R:7:1
2. │ └─base::withCallingHandlers(...)
3. ├─BIOMASS::check_plot_coord(...)
4. │ ├─corner_dt[, check_corner_fct(.SD), by = plot_ID, .SDcols = colnames(corner_dt)]
5. │ └─data.table:::`[.data.table`(...)
6. └─BIOMASS (local) check_corner_fct(.SD)
7. ├─...[]
8. └─data.table:::`[.data.table`(...)
── Error ('test-retrieveH.R:77:3'): With the plot ──────────────────────────────
Error in ``[.data.table`(data, , `:=`(H, predictHeight(D, model = model[[unique(plot)]], err)), by = plot)`: attempt access index 2/2 in VECTOR_ELT
Backtrace:
▆
1. └─BIOMASS::retrieveH(D, model, plot = NouraguesHD$plotId) at test-retrieveH.R:77:3
2. └─BIOMASS::predictHeight(D, model, plot = plot)
3. ├─...[]
4. └─data.table:::`[.data.table`(...)
── Error ('test-small_function.R:242:3'): lat long to UTM ──────────────────────
Error in ``[.data.table`(coord, , `:=`(c("X", "Y"), proj4::project(.(long, lat), proj = unique(.BY))), by = codeUTM)`: attempt access index 3/3 in VECTOR_ELT
Backtrace:
▆
1. └─BIOMASS::latlong2UTM(coord) at test-small_function.R:242:3
2. ├─...[]
3. └─data.table:::`[.data.table`(...)
── Error ('test-subplot_summary.R:7:1'): (code run outside of `test_that()`) ───
Error in ``[.data.table`(corner_dat, , `:=`(c("x_proj_mean", "y_proj_mean", "row_number"), list(mean(x_proj), mean(y_proj), .I)), by = list(x_rel, y_rel))`: attempt access index 9/9 in VECTOR_ELT
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test-subplot_summary.R:7:1
2. │ └─base::withCallingHandlers(...)
3. ├─BIOMASS::check_plot_coord(...)
4. │ ├─corner_dt[, check_corner_fct(.SD), by = plot_ID, .SDcols = colnames(corner_dt)]
5. │ └─data.table:::`[.data.table`(...)
6. └─BIOMASS (local) check_corner_fct(.SD)
7. ├─...[]
8. └─data.table:::`[.data.table`(...)
[ FAIL 7 | WARN 0 | SKIP 17 | PASS 359 ]
Deleting unused snapshots:
'subplot_summary/subplot-summary-multiple-metrics-204.svg',
'subplot_summary/subplot-summary-multiple-plot-201.svg',
'subplot_summary/subplot-summary-multiple-plot-204.svg',
'subplot_summary/subplot-summary-proj-coords.svg',
'subplot_summary/subplot-summary-quantile.svg', and
'subplot_summary/subplot-summary-rel-coords.svg'
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc