* using log directory 'd:/Rcompile/CRANpkg/local/4.6/tidysdm.Rcheck'
* using R Under development (unstable) (2025-12-06 r89118 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.3.0
    GNU Fortran (GCC) 14.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'tidysdm/DESCRIPTION' ... OK
* this is package 'tidysdm' version '1.0.3'
* 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 hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'tidysdm' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... 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 ... [5s] OK
* checking whether the package can be loaded with stated dependencies ... [5s] OK
* checking whether the package can be unloaded cleanly ... [5s] OK
* checking whether the namespace can be loaded with stated dependencies ... [4s] OK
* checking whether the namespace can be unloaded cleanly ... [5s] OK
* checking loading without being on the library search path ... [5s] OK
* checking whether startup messages can be suppressed ... [5s] 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 ... [15s] OK
* checking Rd files ... [2s] OK
* checking Rd metadata ... 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... [6s] INFO
  Error loading dataset 'lacerta_ensemble':
   Error in xgb.get.handle(model) : 
    'xgb.Booster' object is corrupted or is from an incompatible XGBoost version.
  
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking R/sysdata.rda ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... [42s] OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... [65s] ERROR
  Running 'spelling.R' [0s]
  Running 'testthat.R' [64s]
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/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  > library(tidysdm)
  Loading required package: tidymodels
  ── Attaching packages ────────────────────────────────────── tidymodels 1.4.1 ──
  ✔ broom        1.0.11     ✔ recipes      1.3.1 
  ✔ dials        1.4.2      ✔ rsample      1.3.1 
  ✔ dplyr        1.1.4      ✔ tailor       0.1.0 
  ✔ ggplot2      4.0.1      ✔ tidyr        1.3.1 
  ✔ infer        1.0.9      ✔ tune         2.0.1 
  ✔ modeldata    1.5.1      ✔ workflows    1.3.0 
  ✔ parsnip      1.4.0      ✔ workflowsets 1.1.1 
  ✔ purrr        1.2.0      ✔ yardstick    1.3.2 
  ── Conflicts ───────────────────────────────────────── tidymodels_conflicts() ──
  ✖ purrr::discard() masks scales::discard()
  ✖ dplyr::filter()  masks stats::filter()
  ✖ dplyr::lag()     masks stats::lag()
  ✖ recipes::step()  masks stats::step()
  Loading required package: spatialsample
  > 
  > test_check("tidysdm")
  
  Attaching package: 'plotrix'
  
  The following object is masked from 'package:scales':
  
      rescale
  
  i Creating pre-processing data to finalize 1 unknown parameter: "mtry"
  Saving _problems/test_explain_tidysdm-121.R
  Saving _problems/test_overlap_niche-14.R
  Saving _problems/test_predict_raster-8.R
  i Creating pre-processing data to finalize 1 unknown parameter: "mtry"
  [ FAIL 3 | WARN 0 | SKIP 1 | PASS 314 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test_filter_collinear.R:2:1'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test_explain_tidysdm.R:121:3'): explain_tidysdm works with response provided directly ──
  Error in `xgb.get.handle(model)`: 'xgb.Booster' object is corrupted or is from an incompatible XGBoost version.
  Backtrace:
       ▆
    1. ├─testthat::expect_true(all.equal(test_explainer, test_explainer_y)) at test_explain_tidysdm.R:121:3
    2. │ └─testthat::quasi_label(enquo(object), label)
    3. │   └─rlang::eval_bare(expr, quo_get_env(quo))
    4. ├─base::all.equal(test_explainer, test_explainer_y)
    5. └─base::all.equal.default(test_explainer, test_explainer_y)
    6.   └─base::all.equal.list(target, current, ...)
    7.     ├─base::all.equal(...)
    8.     └─base::all.equal.default(...)
    9.       └─base::all.equal.list(target, current, ...)
   10.         ├─base::all.equal(...)
   11.         └─base::all.equal.list(...)
   12.           ├─base::all.equal(...)
   13.           └─base::all.equal.default(...)
   14.             └─base::all.equal.list(target, current, ...)
   15.               ├─base::all.equal(...)
   16.               └─base::all.equal.default(...)
   17.                 └─base::all.equal.list(target, current, ...)
   18.                   ├─base::all.equal(...)
   19.                   └─base::all.equal.default(...)
   20.                     └─base::all.equal.list(target, current, ...)
   21.                       ├─base::all.equal(...)
   22.                       └─base::all.equal.default(...)
   23.                         └─base::all.equal.list(target, current, ...)
   24.                           └─base::attr.all.equal(target, current, ...)
   25.                             ├─base::length(target)
   26.                             └─xgboost:::length.xgb.Booster(target)
   27.                               └─xgboost::xgb.get.num.boosted.rounds(x)
   28.                                 └─xgboost:::xgb.get.handle(model)
  ── Error ('test_overlap_niche.R:14:3'): niche_overlap quantifies difference between rasters ──
  Error in `xgb.get.handle(object)`: 'xgb.Booster' object is corrupted or is from an incompatible XGBoost version.
  Backtrace:
       ▆
    1. ├─tidysdm::predict_raster(lacerta_ensemble, climate_present) at test_overlap_niche.R:14:3
    2. ├─tidysdm:::predict_raster.default(lacerta_ensemble, climate_present)
    3. │ ├─stats::predict(object, rast_sub_values, ...)
    4. │ └─tidysdm:::predict.simple_ensemble(object, rast_sub_values, ...)
    5. │   └─base::lapply(...)
    6. │     ├─stats (local) FUN(X[[i]], ...)
    7. │     └─workflows:::predict.workflow(X[[i]], ...)
    8. │       ├─stats::predict(fit, new_data, type = type, opts = opts, ...)
    9. │       └─parsnip::predict.model_fit(...)
   10. │         ├─parsnip:::predict_classprob(...)
   11. │         └─parsnip::predict_classprob.model_fit(...)
   12. │           └─rlang::eval_tidy(pred_call)
   13. └─parsnip::xgb_predict(object = object$fit, new_data = new_data)
   14.   ├─stats::predict(object, new_data, ...)
   15.   └─xgboost:::predict.xgb.Booster(object, new_data, ...)
   16.     └─xgboost:::xgb.best_iteration(object)
   17.       └─xgboost::xgb.attr(bst, "best_iteration")
   18.         └─xgboost:::xgb.get.handle(object)
  ── Error ('test_predict_raster.R:8:3'): predict_raster works correctly in chunks ──
  Error in `xgb.get.handle(object)`: 'xgb.Booster' object is corrupted or is from an incompatible XGBoost version.
  Backtrace:
       ▆
    1. ├─tidysdm::predict_raster(lacerta_ensemble, climate_future) at test_predict_raster.R:8:3
    2. ├─tidysdm:::predict_raster.default(lacerta_ensemble, climate_future)
    3. │ ├─stats::predict(object, rast_sub_values, ...)
    4. │ └─tidysdm:::predict.simple_ensemble(object, rast_sub_values, ...)
    5. │   └─base::lapply(...)
    6. │     ├─stats (local) FUN(X[[i]], ...)
    7. │     └─workflows:::predict.workflow(X[[i]], ...)
    8. │       ├─stats::predict(fit, new_data, type = type, opts = opts, ...)
    9. │       └─parsnip::predict.model_fit(...)
   10. │         ├─parsnip:::predict_classprob(...)
   11. │         └─parsnip::predict_classprob.model_fit(...)
   12. │           └─rlang::eval_tidy(pred_call)
   13. └─parsnip::xgb_predict(object = object$fit, new_data = new_data)
   14.   ├─stats::predict(object, new_data, ...)
   15.   └─xgboost:::predict.xgb.Booster(object, new_data, ...)
   16.     └─xgboost:::xgb.best_iteration(object)
   17.       └─xgboost::xgb.attr(bst, "best_iteration")
   18.         └─xgboost:::xgb.get.handle(object)
  
  [ FAIL 3 | WARN 0 | SKIP 1 | PASS 314 ]
  Error:
  ! Test failures.
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [205s] ERROR
Error(s) in re-building vignettes:
--- re-building 'a0_tidysdm_overview.Rmd' using rmarkdown
--- finished re-building 'a0_tidysdm_overview.Rmd'

--- re-building 'a1_palaeodata_application.Rmd' using rmarkdown
--- finished re-building 'a1_palaeodata_application.Rmd'

--- re-building 'a2_tidymodels_additions.Rmd' using rmarkdown

Quitting from a2_tidymodels_additions.Rmd:65-69 [vip]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `xgb.get.handle()`:
! 'xgb.Booster' object is corrupted or is from an incompatible XGBoost version.
---
Backtrace:
     ▆
  1. ├─DALEX::model_parts(explainer = explainer_lacerta_ens)
  2. │ ├─ingredients::feature_importance(...)
  3. │ └─ingredients:::feature_importance.explainer(...)
  4. │   └─ingredients:::feature_importance.default(...)
  5. │     └─base::replicate(B, loss_after_permutation())
  6. │       └─base::sapply(...)
  7. │         └─base::lapply(X = X, FUN = FUN, ...)
  8. │           └─ingredients (local) FUN(X[[i]], ...)
  9. │             └─ingredients (local) loss_after_permutation()
 10. │               ├─DALEX (local) loss_function(observed, predict_function(x, sampled_data))
 11. │               │ └─base::tapply(observed, predicted, sum)
 12. │               └─tidysdm (local) predict_function(x, sampled_data)
 13. │                 ├─stats::predict(model, newdata)
 14. │                 └─tidysdm:::predict.simple_ensemble(model, newdata)
 15. │                   └─base::lapply(...)
 16. │                     ├─stats (local) FUN(X[[i]], ...)
 17. │                     └─workflows:::predict.workflow(X[[i]], ...)
 18. │                       ├─stats::predict(fit, new_data, type = type, opts = opts, ...)
 19. │                       └─parsnip::predict.model_fit(...)
 20. │                         ├─parsnip:::predict_classprob(...)
 21. │                         └─parsnip::predict_classprob.model_fit(...)
 22. │                           └─rlang::eval_tidy(pred_call)
 23. └─parsnip::xgb_predict(object = object$fit, new_data = new_data)
 24.   ├─stats::predict(object, new_data, ...)
 25.   └─xgboost:::predict.xgb.Booster(object, new_data, ...)
 26.     └─xgboost:::xgb.best_iteration(object)
 27.       └─xgboost::xgb.attr(bst, "best_iteration")
 28.         └─xgboost:::xgb.get.handle(object)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'a2_tidymodels_additions.Rmd' failed with diagnostics:
'xgb.Booster' object is corrupted or is from an incompatible XGBoost version.
--- failed re-building 'a2_tidymodels_additions.Rmd'

--- re-building 'a3_troubleshooting.Rmd' using rmarkdown
--- finished re-building 'a3_troubleshooting.Rmd'

SUMMARY: processing the following file failed:
  'a2_tidymodels_additions.Rmd'

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... [22s] OK
* checking HTML version of manual ... [18s] OK
* DONE
Status: 2 ERRORs