Release candidate 0.1.3

.github/workflows/R-CMD-check.yaml

@@ -49,7 +49,7 @@ jobs:
 
       - uses: r-lib/actions/setup-r-dependencies@v2
         with:
-          extra-packages: any::rcmdcheck
+          extra-packages: any::rcmdcheck, any::yaml
           needs: check
 
       - name: Install reticulate

DESCRIPTION

@@ -1,6 +1,6 @@
 Package: bundle
 Title: Serialize Model Objects with a Consistent Interface
-Version: 0.1.2.9000
+Version: 0.1.3
 Authors@R: c(
     person("Julia", "Silge", , "julia.silge@posit.co", role = c("aut", "cre"),
            comment = c(ORCID = "0000-0002-3671-836X")),
@@ -30,7 +30,7 @@ Imports:
     withr
 Suggests:
     bonsai,
-    butcher (>= 0.3.6.9000),
+    butcher (>= 0.4.0),
     callr,
     caret,
     covr,
@@ -58,8 +58,6 @@ Suggests:
     xgboost (>= 1.6.0.1)
 VignetteBuilder: 
     knitr
-Remotes: 
-    tidymodels/butcher
 Config/Needs/website: tidyverse/tidytemplate
 Config/testthat/edition: 3
 Config/usethis/last-upkeep: 2025-12-08

NEWS.md

@@ -1,6 +1,6 @@
-# bundle (development version)
+# bundle 0.1.3
 
-* Make to work with new versions of xgboost models (#75).
+* Updated to support new versions of xgboost models (#75).
 
 # bundle 0.1.2
 

README.Rmd

@@ -24,8 +24,7 @@ knitr::opts_chunk$set(
 <!-- badges: start -->
 [![R-CMD-check](https://github.com/rstudio/bundle/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/rstudio/bundle/actions/workflows/R-CMD-check.yaml)
 [![CRAN status](https://www.r-pkg.org/badges/version/bundle)](https://CRAN.R-project.org/package=bundle)
-[![Lifecycle: experimental](https://img.shields.io/badge/lifecycle-experimental-orange.svg)](https://lifecycle.r-lib.org/articles/stages.html#experimental)
-[![Codecov test coverage](https://codecov.io/gh/rstudio/bundle/branch/main/graph/badge.svg)](https://app.codecov.io/gh/rstudio/bundle?branch=main)
+[![Lifecycle: stable](https://img.shields.io/badge/lifecycle-stable-brightgreen.svg)](https://lifecycle.r-lib.org/articles/stages.html#stable)
 [![Codecov test coverage](https://codecov.io/gh/rstudio/bundle/graph/badge.svg)](https://app.codecov.io/gh/rstudio/bundle)
 <!-- badges: end -->
 
@@ -78,10 +77,10 @@ Fit the boosted tree model:
 ```{r}
 # fit an boosted tree with xgboost via parsnip
 mod <-
-    boost_tree(trees = 5, mtry = 3) |>
-    set_mode("regression") |>
-    set_engine("xgboost") |>
-    fit(mpg ~ ., data = mtcars[1:25,])
+  boost_tree(trees = 5, mtry = 3) |>
+  set_mode("regression") |>
+  set_engine("xgboost") |>
+  fit(mpg ~ ., data = mtcars[1:25, ])
 
 mod
 ```
@@ -120,7 +119,7 @@ r(
     unbundled_mod <-
       unbundle(bundled_mod)
 
-    predict(unbundled_mod, new_data = mtcars[26:32,])
+    predict(unbundled_mod, new_data = mtcars[26:32, ])
   },
   args = list(
     bundled_mod = bundled_mod

README.md

@@ -9,11 +9,9 @@
 [![CRAN
 status](https://www.r-pkg.org/badges/version/bundle)](https://CRAN.R-project.org/package=bundle)
 [![Lifecycle:
-experimental](https://img.shields.io/badge/lifecycle-experimental-orange.svg)](https://lifecycle.r-lib.org/articles/stages.html#experimental)
+stable](https://img.shields.io/badge/lifecycle-stable-brightgreen.svg)](https://lifecycle.r-lib.org/articles/stages.html#stable)
 [![Codecov test
 coverage](https://codecov.io/gh/rstudio/bundle/branch/main/graph/badge.svg)](https://app.codecov.io/gh/rstudio/bundle?branch=main)
-[![Codecov test
-coverage](https://codecov.io/gh/rstudio/bundle/graph/badge.svg)](https://app.codecov.io/gh/rstudio/bundle)
 <!-- badges: end -->
 
 Typically, models in R exist in memory and can be saved as `.rds` files.
@@ -89,10 +87,10 @@ Fit the boosted tree model:
 ``` r
 # fit an boosted tree with xgboost via parsnip
 mod <-
-    boost_tree(trees = 5, mtry = 3) |>
-    set_mode("regression") |>
-    set_engine("xgboost") |>
-    fit(mpg ~ ., data = mtcars[1:25,])
+  boost_tree(trees = 5, mtry = 3) |>
+  set_mode("regression") |>
+  set_engine("xgboost") |>
+  fit(mpg ~ ., data = mtcars[1:25, ])
 
 mod
 #> parsnip model object
@@ -110,11 +108,11 @@ mod
 #> evaluation_log:
 #>   iter training_rmse
 #>  <int>         <num>
-#>      1      4.618358
-#>      2      3.627921
-#>      3      2.891176
-#>      4      2.300624
-#>      5      1.852596
+#>      1      4.655552
+#>      2      3.648086
+#>      3      2.877980
+#>      4      2.302021
+#>      5      1.850090
 ```
 
 Note that simply saving and loading the model results in changes to the
@@ -126,8 +124,8 @@ saveRDS(mod, temp_file)
 mod2 <- readRDS(temp_file)
 
 compare(mod, mod2, ignore_formula_env = TRUE)
-#> `old$fit$ptr` is <pointer: 0x10b535700>
-#> `new$fit$ptr` is <pointer: 0x10b56be40>
+#> `old$fit$ptr` is <pointer: 0x11a0cf990>
+#> `new$fit$ptr` is <pointer: 0x10bed38a0>
 ```
 
 Saving and reloading `mod2` didn’t preserve XGBoost’s reference to its
@@ -158,7 +156,7 @@ r(
     unbundled_mod <-
       unbundle(bundled_mod)
 
-    predict(unbundled_mod, new_data = mtcars[26:32,])
+    predict(unbundled_mod, new_data = mtcars[26:32, ])
   },
   args = list(
     bundled_mod = bundled_mod
@@ -167,13 +165,13 @@ r(
 #> # A tibble: 7 × 1
 #>   .pred
 #>   <dbl>
-#> 1  28.7
-#> 2  25.0
-#> 3  23.7
-#> 4  18.0
-#> 5  20.3
-#> 6  14.9
-#> 7  22.2
+#> 1  28.6
+#> 2  25.8
+#> 3  25.8
+#> 4  16.7
+#> 5  20.2
+#> 6  15.3
+#> 7  21.2
 ```
 
 For a more in-depth demonstration of the package, see the [main

cran-comments.md

@@ -1,6 +1,12 @@
 ## revdepcheck results
 
-We checked 1 reverse dependency, comparing R CMD check results across CRAN and dev versions of this package.
+We checked 3 reverse dependencies, comparing R CMD check results across CRAN and dev versions of this package.
 
  * We saw 0 new problems
- * We failed to check 0 packages
+ * We failed to check 1 packages
+
+Issues with CRAN packages are summarised below.
+
+### Failed to check
+
+* ldmppr (NA)

revdep/README.md

@@ -1,23 +1,30 @@
 # Platform
 
-|field    |value                          |
-|:--------|:------------------------------|
-|version  |R version 4.4.0 (2024-04-24)   |
-|os       |macOS 15.0.1                   |
-|system   |aarch64, darwin20              |
-|ui       |X11                            |
-|language |(EN)                           |
-|collate  |en_US.UTF-8                    |
-|ctype    |en_US.UTF-8                    |
-|tz       |America/Denver                 |
-|date     |2024-11-11                     |
-|pandoc   |3.5 @ /opt/homebrew/bin/pandoc |
+|field    |value                                      |
+|:--------|:------------------------------------------|
+|version  |R version 4.5.2 (2025-10-31)               |
+|os       |macOS Tahoe 26.1                           |
+|system   |aarch64, darwin20                          |
+|ui       |X11                                        |
+|language |(EN)                                       |
+|collate  |en_US.UTF-8                                |
+|ctype    |en_US.UTF-8                                |
+|tz       |America/Denver                             |
+|date     |2025-12-09                                 |
+|pandoc   |3.8.3 @ /opt/homebrew/bin/ (via rmarkdown) |
+|quarto   |1.9.3 @ /usr/local/bin/quarto              |
 
 # Dependencies
 
 |package |old   |new        |Δ  |
 |:-------|:-----|:----------|:--|
-|bundle  |0.1.1 |0.1.1.9000 |*  |
+|bundle  |0.1.2 |0.1.2.9000 |*  |
 
 # Revdeps
 
+## Failed to check (1)
+
+|package |version |error |warning |note |
+|:-------|:-------|:-----|:-------|:----|
+|ldmppr  |1.0.4   |1     |        |     |
+

revdep/cran.md

@@ -1,7 +1,12 @@
 ## revdepcheck results
 
-We checked 1 reverse dependencies, comparing R CMD check results across CRAN and dev versions of this package.
+We checked 3 reverse dependencies, comparing R CMD check results across CRAN and dev versions of this package.
 
  * We saw 0 new problems
- * We failed to check 0 packages
+ * We failed to check 1 packages
 
+Issues with CRAN packages are summarised below.
+
+### Failed to check
+
+* ldmppr (NA)

revdep/failures.md

@@ -1 +1,72 @@
-*Wow, no problems at all. :)*
+# ldmppr
+
+<details>
+
+* Version: 1.0.4
+* GitHub: https://github.com/lanedrew/ldmppr
+* Source code: https://github.com/cran/ldmppr
+* Date/Publication: 2025-02-24 21:00:02 UTC
+* Number of recursive dependencies: 128
+
+Run `revdepcheck::revdep_details(, "ldmppr")` for more info
+
+</details>
+
+## In both
+
+*   checking whether package ‘ldmppr’ can be installed ... ERROR
+    ```
+    Installation failed.
+    See ‘/Users/juliasilge/Work/posit/bundle/revdep/checks.noindex/ldmppr/new/ldmppr.Rcheck/00install.out’ for details.
+    ```
+
+## Installation
+
+### Devel
+
+```
+* installing *source* package ‘ldmppr’ ...
+** this is package ‘ldmppr’ version ‘1.0.4’
+** package ‘ldmppr’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+using C++ compiler: ‘Apple clang version 17.0.0 (clang-1700.4.4.1)’
+using C++17
+using SDK: ‘MacOSX26.1.sdk’
+clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Users/juliasilge/Work/posit/bundle/revdep/library.noindex/ldmppr/Rcpp/include' -I'/Users/juliasilge/Work/posit/bundle/revdep/library.noindex/ldmppr/RcppArmadillo/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.o
+clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Users/juliasilge/Work/posit/bundle/revdep/library.noindex/ldmppr/Rcpp/include' -I'/Users/juliasilge/Work/posit/bundle/revdep/library.noindex/ldmppr/RcppArmadillo/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c self_correcting_model.cpp -o self_correcting_model.o
+clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o ldmppr.so RcppExports.o self_correcting_model.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/14.2.0 -L/opt/gfortran/lib -lemutls_w -lheapt_w -lgfortran -lquadmath -F/Library/Frameworks/R.framework/.. -framework R
+ld: warning: search path '/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/14.2.0' not found
+ld: warning: search path '/opt/gfortran/lib' not found
+ld: library 'emutls_w' not found
+clang++: error: linker command failed with exit code 1 (use -v to see invocation)
+make: *** [ldmppr.so] Error 1
+ERROR: compilation failed for package ‘ldmppr’
+* removing ‘/Users/juliasilge/Work/posit/bundle/revdep/checks.noindex/ldmppr/new/ldmppr.Rcheck/ldmppr’
+
+
+```
+### CRAN
+
+```
+* installing *source* package ‘ldmppr’ ...
+** this is package ‘ldmppr’ version ‘1.0.4’
+** package ‘ldmppr’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+using C++ compiler: ‘Apple clang version 17.0.0 (clang-1700.4.4.1)’
+using C++17
+using SDK: ‘MacOSX26.1.sdk’
+clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Users/juliasilge/Work/posit/bundle/revdep/library.noindex/ldmppr/Rcpp/include' -I'/Users/juliasilge/Work/posit/bundle/revdep/library.noindex/ldmppr/RcppArmadillo/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.o
+clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Users/juliasilge/Work/posit/bundle/revdep/library.noindex/ldmppr/Rcpp/include' -I'/Users/juliasilge/Work/posit/bundle/revdep/library.noindex/ldmppr/RcppArmadillo/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c self_correcting_model.cpp -o self_correcting_model.o
+clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o ldmppr.so RcppExports.o self_correcting_model.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/14.2.0 -L/opt/gfortran/lib -lemutls_w -lheapt_w -lgfortran -lquadmath -F/Library/Frameworks/R.framework/.. -framework R
+ld: warning: search path '/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/14.2.0' not found
+ld: warning: search path '/opt/gfortran/lib' not found
+ld: library 'emutls_w' not found
+clang++: error: linker command failed with exit code 1 (use -v to see invocation)
+make: *** [ldmppr.so] Error 1
+ERROR: compilation failed for package ‘ldmppr’
+* removing ‘/Users/juliasilge/Work/posit/bundle/revdep/checks.noindex/ldmppr/old/ldmppr.Rcheck/ldmppr’
+
+
+```