Last updated on 2025-12-12 21:50:10 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.1.3 | 12.67 | 121.04 | 133.71 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 0.1.3 | 8.43 | 85.40 | 93.83 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.1.3 | 22.00 | 193.69 | 215.69 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 0.1.3 | 21.00 | 201.39 | 222.39 | ERROR | |
| r-devel-windows-x86_64 | 0.1.3 | 16.00 | 117.00 | 133.00 | ERROR | |
| r-patched-linux-x86_64 | 0.1.3 | 11.28 | 111.60 | 122.88 | ERROR | |
| r-release-linux-x86_64 | 0.1.3 | 11.47 | 109.63 | 121.10 | ERROR | |
| r-release-macos-arm64 | 0.1.3 | OK | ||||
| r-release-macos-x86_64 | 0.1.3 | 7.00 | 106.00 | 113.00 | OK | |
| r-release-windows-x86_64 | 0.1.3 | 15.00 | 133.00 | 148.00 | OK | |
| r-oldrel-macos-arm64 | 0.1.3 | OK | ||||
| r-oldrel-macos-x86_64 | 0.1.3 | 8.00 | 81.00 | 89.00 | OK | |
| r-oldrel-windows-x86_64 | 0.1.3 | 20.00 | 153.00 | 173.00 | ERROR |
Version: 0.1.3
Check: examples
Result: ERROR
Running examples in ‘SHAPforxgboost-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: shap.plot.summary
> ### Title: SHAP summary plot core function using the long format SHAP
> ### values
> ### Aliases: shap.plot.summary
>
> ### ** Examples
>
> data("iris")
> X1 = as.matrix(iris[,-5])
> mod1 = xgboost::xgboost(
+ data = X1, label = iris$Species, gamma = 0, eta = 1,
+ lambda = 0, nrounds = 1, verbose = FALSE, nthread = 1)
Warning in throw_err_or_depr_msg("Passed unrecognized parameters: ", paste(head(names_unrecognized), :
Passed unrecognized parameters: verbose. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'data' has been renamed to 'x'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'label' has been renamed to 'y'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'gamma' has been renamed to 'min_split_loss'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'eta' has been renamed to 'learning_rate'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'lambda' has been renamed to 'reg_lambda'. This warning will become an error in a future version.
>
> # shap.values(model, X_dataset) returns the SHAP
> # data matrix and ranked features by mean|SHAP|
> shap_values <- shap.values(xgb_model = mod1, X_train = X1)
Warning in `[.data.table`(shap_contrib, , `:=`(BIAS, NULL)) :
Tried to assign NULL to column 'BIAS', but this column does not exist to remove
> shap_values$mean_shap_score
setosa versicolor virginica
0.3360065 0.3326459 0.3313476
> shap_values_iris <- shap_values$shap_score
>
> # shap.prep() returns the long-format SHAP data from either model or
> shap_long_iris <- shap.prep(xgb_model = mod1, X_train = X1)
Warning in `[.data.table`(shap_contrib, , `:=`(BIAS, NULL)) :
Tried to assign NULL to column 'BIAS', but this column does not exist to remove
Error in `[.data.table`(setDT(shap$shap_score), , names(shap$mean_shap_score)[1:top_n], :
column not found: [NA]
Calls: shap.prep ... [ -> [.data.table -> stopf -> raise_condition -> signal
Execution halted
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
shap.plot.dependence 4.93 0.084 5.428
Flavor: r-devel-linux-x86_64-debian-clang
Version: 0.1.3
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘basic_workflow.Rmd’ using rmarkdown
Quitting from basic_workflow.Rmd:62-87 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `[.data.table`:
! column not found: [(Intercept)]
---
Backtrace:
▆
1. └─SHAPforxgboost::shap.prep(fit, X_train = X)
2. ├─...[]
3. └─data.table:::`[.data.table`(...)
4. └─data.table:::stopf(...)
5. └─data.table:::raise_condition(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'basic_workflow.Rmd' failed with diagnostics:
column not found: [(Intercept)]
--- failed re-building ‘basic_workflow.Rmd’
SUMMARY: processing the following file failed:
‘basic_workflow.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-release-linux-x86_64
Version: 0.1.3
Check: examples
Result: ERROR
Running examples in ‘SHAPforxgboost-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: shap.plot.summary
> ### Title: SHAP summary plot core function using the long format SHAP
> ### values
> ### Aliases: shap.plot.summary
>
> ### ** Examples
>
> data("iris")
> X1 = as.matrix(iris[,-5])
> mod1 = xgboost::xgboost(
+ data = X1, label = iris$Species, gamma = 0, eta = 1,
+ lambda = 0, nrounds = 1, verbose = FALSE, nthread = 1)
Warning in throw_err_or_depr_msg("Passed unrecognized parameters: ", paste(head(names_unrecognized), :
Passed unrecognized parameters: verbose. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'data' has been renamed to 'x'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'label' has been renamed to 'y'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'gamma' has been renamed to 'min_split_loss'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'eta' has been renamed to 'learning_rate'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'lambda' has been renamed to 'reg_lambda'. This warning will become an error in a future version.
>
> # shap.values(model, X_dataset) returns the SHAP
> # data matrix and ranked features by mean|SHAP|
> shap_values <- shap.values(xgb_model = mod1, X_train = X1)
Warning in `[.data.table`(shap_contrib, , `:=`(BIAS, NULL)) :
Tried to assign NULL to column 'BIAS', but this column does not exist to remove
> shap_values$mean_shap_score
setosa versicolor virginica
0.3360065 0.3326459 0.3313476
> shap_values_iris <- shap_values$shap_score
>
> # shap.prep() returns the long-format SHAP data from either model or
> shap_long_iris <- shap.prep(xgb_model = mod1, X_train = X1)
Warning in `[.data.table`(shap_contrib, , `:=`(BIAS, NULL)) :
Tried to assign NULL to column 'BIAS', but this column does not exist to remove
Error in `[.data.table`(setDT(shap$shap_score), , names(shap$mean_shap_score)[1:top_n], :
column not found: [NA]
Calls: shap.prep ... [ -> [.data.table -> stopf -> raise_condition -> signal
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.1.3
Check: examples
Result: ERROR
Running examples in ‘SHAPforxgboost-Ex.R’ failed
The error most likely occurred in:
> ### Name: shap.plot.summary
> ### Title: SHAP summary plot core function using the long format SHAP
> ### values
> ### Aliases: shap.plot.summary
>
> ### ** Examples
>
> data("iris")
> X1 = as.matrix(iris[,-5])
> mod1 = xgboost::xgboost(
+ data = X1, label = iris$Species, gamma = 0, eta = 1,
+ lambda = 0, nrounds = 1, verbose = FALSE, nthread = 1)
Warning in throw_err_or_depr_msg("Passed unrecognized parameters: ", paste(head(names_unrecognized), :
Passed unrecognized parameters: verbose. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'data' has been renamed to 'x'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'label' has been renamed to 'y'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'gamma' has been renamed to 'min_split_loss'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'eta' has been renamed to 'learning_rate'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'lambda' has been renamed to 'reg_lambda'. This warning will become an error in a future version.
>
> # shap.values(model, X_dataset) returns the SHAP
> # data matrix and ranked features by mean|SHAP|
> shap_values <- shap.values(xgb_model = mod1, X_train = X1)
Warning in `[.data.table`(shap_contrib, , `:=`(BIAS, NULL)) :
Tried to assign NULL to column 'BIAS', but this column does not exist to remove
> shap_values$mean_shap_score
setosa versicolor virginica
0.3360065 0.3326459 0.3313476
> shap_values_iris <- shap_values$shap_score
>
> # shap.prep() returns the long-format SHAP data from either model or
> shap_long_iris <- shap.prep(xgb_model = mod1, X_train = X1)
Warning in `[.data.table`(shap_contrib, , `:=`(BIAS, NULL)) :
Tried to assign NULL to column 'BIAS', but this column does not exist to remove
Error in `[.data.table`(setDT(shap$shap_score), , names(shap$mean_shap_score)[1:top_n], :
column not found: [NA]
Calls: shap.prep ... [ -> [.data.table -> stopf -> raise_condition -> signal
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-oldrel-windows-x86_64
Version: 0.1.3
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘basic_workflow.Rmd’ using rmarkdown
Quitting from basic_workflow.Rmd:62-87 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `[.data.table`:
! column not found: [(Intercept)]
---
Backtrace:
▆
1. └─SHAPforxgboost::shap.prep(fit, X_train = X)
2. ├─...[]
3. └─data.table:::`[.data.table`(...)
4. └─data.table:::stopf(...)
5. └─data.table:::raise_condition(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'basic_workflow.Rmd' failed with diagnostics:
column not found: [(Intercept)]
--- failed re-building ‘basic_workflow.Rmd’
SUMMARY: processing the following file failed:
‘basic_workflow.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-oldrel-windows-x86_64
Version: 0.1.3
Check: examples
Result: ERROR
Running examples in ‘SHAPforxgboost-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: shap.plot.summary
> ### Title: SHAP summary plot core function using the long format SHAP
> ### values
> ### Aliases: shap.plot.summary
>
> ### ** Examples
>
> data("iris")
> X1 = as.matrix(iris[,-5])
> mod1 = xgboost::xgboost(
+ data = X1, label = iris$Species, gamma = 0, eta = 1,
+ lambda = 0, nrounds = 1, verbose = FALSE, nthread = 1)
Warning in throw_err_or_depr_msg("Passed unrecognized parameters: ", paste(head(names_unrecognized), :
Passed unrecognized parameters: verbose. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'data' has been renamed to 'x'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'label' has been renamed to 'y'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'gamma' has been renamed to 'min_split_loss'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'eta' has been renamed to 'learning_rate'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'lambda' has been renamed to 'reg_lambda'. This warning will become an error in a future version.
>
> # shap.values(model, X_dataset) returns the SHAP
> # data matrix and ranked features by mean|SHAP|
> shap_values <- shap.values(xgb_model = mod1, X_train = X1)
Warning in `[.data.table`(shap_contrib, , `:=`(BIAS, NULL)) :
Tried to assign NULL to column 'BIAS', but this column does not exist to remove
> shap_values$mean_shap_score
setosa versicolor virginica
0.3360065 0.3326459 0.3313476
> shap_values_iris <- shap_values$shap_score
>
> # shap.prep() returns the long-format SHAP data from either model or
> shap_long_iris <- shap.prep(xgb_model = mod1, X_train = X1)
Warning in `[.data.table`(shap_contrib, , `:=`(BIAS, NULL)) :
Tried to assign NULL to column 'BIAS', but this column does not exist to remove
Error in `[.data.table`(setDT(shap$shap_score), , names(shap$mean_shap_score)[1:top_n], :
column not found: [NA]
Calls: shap.prep ... [ -> [.data.table -> stopf -> raise_condition -> signal
Execution halted
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
shap.plot.dependence 4.45 0.12 6.165
Flavor: r-patched-linux-x86_64
Version: 0.1.3
Check: examples
Result: ERROR
Running examples in ‘SHAPforxgboost-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: shap.plot.summary
> ### Title: SHAP summary plot core function using the long format SHAP
> ### values
> ### Aliases: shap.plot.summary
>
> ### ** Examples
>
> data("iris")
> X1 = as.matrix(iris[,-5])
> mod1 = xgboost::xgboost(
+ data = X1, label = iris$Species, gamma = 0, eta = 1,
+ lambda = 0, nrounds = 1, verbose = FALSE, nthread = 1)
Warning in throw_err_or_depr_msg("Passed unrecognized parameters: ", paste(head(names_unrecognized), :
Passed unrecognized parameters: verbose. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'data' has been renamed to 'x'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'label' has been renamed to 'y'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'gamma' has been renamed to 'min_split_loss'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'eta' has been renamed to 'learning_rate'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :
Parameter 'lambda' has been renamed to 'reg_lambda'. This warning will become an error in a future version.
>
> # shap.values(model, X_dataset) returns the SHAP
> # data matrix and ranked features by mean|SHAP|
> shap_values <- shap.values(xgb_model = mod1, X_train = X1)
Warning in `[.data.table`(shap_contrib, , `:=`(BIAS, NULL)) :
Tried to assign NULL to column 'BIAS', but this column does not exist to remove
> shap_values$mean_shap_score
setosa versicolor virginica
0.3360065 0.3326459 0.3313476
> shap_values_iris <- shap_values$shap_score
>
> # shap.prep() returns the long-format SHAP data from either model or
> shap_long_iris <- shap.prep(xgb_model = mod1, X_train = X1)
Warning in `[.data.table`(shap_contrib, , `:=`(BIAS, NULL)) :
Tried to assign NULL to column 'BIAS', but this column does not exist to remove
Error in `[.data.table`(setDT(shap$shap_score), , names(shap$mean_shap_score)[1:top_n], :
column not found: [NA]
Calls: shap.prep ... [ -> [.data.table -> stopf -> raise_condition -> signal
Execution halted
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
shap.plot.dependence 4.291 0.138 6.366
Flavor: r-release-linux-x86_64
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
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