Last updated on 2025-12-28 09:50:50 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.2.0 | 12.29 | 151.42 | 163.71 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.2.0 | 9.06 | 104.13 | 113.19 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.2.0 | 22.00 | 233.47 | 255.47 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 0.2.0 | 18.00 | 200.29 | 218.29 | OK | |
| r-devel-windows-x86_64 | 0.2.0 | 15.00 | 124.00 | 139.00 | ERROR | |
| r-patched-linux-x86_64 | 0.2.0 | 13.17 | 133.83 | 147.00 | OK | |
| r-release-linux-x86_64 | 0.2.0 | 11.73 | 132.85 | 144.58 | OK | |
| r-release-macos-arm64 | 0.2.0 | 3.00 | 33.00 | 36.00 | OK | |
| r-release-macos-x86_64 | 0.2.0 | 9.00 | 107.00 | 116.00 | OK | |
| r-release-windows-x86_64 | 0.2.0 | 15.00 | 140.00 | 155.00 | OK | |
| r-oldrel-macos-arm64 | 0.2.0 | 3.00 | 36.00 | 39.00 | OK | |
| r-oldrel-macos-x86_64 | 0.2.0 | 9.00 | 129.00 | 138.00 | OK | |
| r-oldrel-windows-x86_64 | 0.2.0 | 20.00 | 188.00 | 208.00 | OK |
Version: 0.2.0
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 using long-format SHAP values
> ### Aliases: shap.plot.summary
>
> ### ** Examples
>
> # Example: Basic workflow for SHAP summary plot
> # Note: For xgboost 3.x, use xgb.DMatrix + xgb.train, and convert factor labels to numeric
>
> data("iris")
> X1 = as.matrix(iris[,1:4])
> y1 = as.numeric(iris[[5]]) - 1 # Convert factor to numeric
> dtrain = xgboost::xgb.DMatrix(data = X1, label = y1)
> params = list(learning_rate = 1, min_split_loss = 0, reg_lambda = 0,
+ objective = 'reg:squarederror', nthread = 1)
> mod1 = xgboost::xgb.train(params = params, data = dtrain,
+ nrounds = 1, verbose = 0)
>
> # Get SHAP values and feature importance
> shap_values <- shap.values(xgb_model = mod1, X_train = X1)
> shap_values$mean_shap_score # Ranked features by mean|SHAP|
Petal.Length Petal.Width Sepal.Length Sepal.Width
0.6307042 0.2135736 0.0300757 0.0000000
> shap_values_iris <- shap_values$shap_score
>
> # Prepare long-format data for plotting
> shap_long_iris <- shap.prep(xgb_model = mod1, X_train = X1)
Error in `[.data.table`(fv_sub_long, , `:=`(stdfvalue, std1(rfvalue)), :
attempt access index 2/2 in VECTOR_ELT
Calls: shap.prep -> [ -> [.data.table
Execution halted
Flavor: r-devel-windows-x86_64
Version: 0.2.0
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`:
! attempt access index 2/2 in VECTOR_ELT
---
Backtrace:
▆
1. └─SHAPforxgboost::shap.prep(fit, X_train = X)
2. ├─fv_sub_long[, `:=`(stdfvalue, std1(rfvalue)), by = "variable"]
3. └─data.table:::`[.data.table`(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'basic_workflow.Rmd' failed with diagnostics:
attempt access index 2/2 in VECTOR_ELT
--- failed re-building 'basic_workflow.Rmd'
SUMMARY: processing the following file failed:
'basic_workflow.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-windows-x86_64