merge with master

.Rbuildignore

@@ -4,6 +4,14 @@
 ^NEWS\.md$
 ^README\.md$
 ^.*\.tar.gz$
-^\.travis.yml$
 ^cpp\_version$
-^appveyor\.yml$
+^\.github$
+^revdep$
+^_pkgdown\.yml$
+^docs$
+^pkgdown$
+^ranger\.Rcheck$
+^ranger.*\.tar\.gz$
+^ranger.*\.tgz$
+revdep/*
+^\.vscode$

.github/.gitignore

@@ -0,0 +1 @@
+*.html

.github/FUNDING.yml

@@ -0,0 +1 @@
+github: mnwright

.github/dependabot.yml

@@ -0,0 +1,8 @@
+version: 2
+
+updates:
+  # Keep dependencies for GitHub Actions up-to-date
+  - package-ecosystem: "github-actions"
+    directory: "/"
+    schedule:
+      interval: "monthly"

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

@@ -0,0 +1,49 @@
+# Workflow derived from https://github.com/r-lib/actions/tree/v2/examples
+# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help
+on:
+  push:
+    branches: [main, master]
+  pull_request:
+    branches: [main, master]
+
+name: R-CMD-check
+
+jobs:
+  R-CMD-check:
+    runs-on: ${{ matrix.config.os }}
+
+    name: ${{ matrix.config.os }} (${{ matrix.config.r }})
+
+    strategy:
+      fail-fast: false
+      matrix:
+        config:
+          - {os: macOS-latest,   r: 'release'}
+          - {os: windows-latest, r: 'release'}
+          - {os: ubuntu-latest,   r: 'devel', http-user-agent: 'release'}
+          - {os: ubuntu-latest,   r: 'release'}
+          - {os: ubuntu-latest,   r: 'oldrel-1'}
+
+    env:
+      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+      R_KEEP_PKG_SOURCE: yes
+
+    steps:
+      - uses: actions/checkout@v4
+
+      - uses: r-lib/actions/setup-pandoc@v2
+
+      - uses: r-lib/actions/setup-r@v2
+        with:
+          r-version: ${{ matrix.config.r }}
+          http-user-agent: ${{ matrix.config.http-user-agent }}
+          use-public-rspm: true
+
+      - uses: r-lib/actions/setup-r-dependencies@v2
+        with:
+          extra-packages: any::rcmdcheck
+          needs: check
+
+      - uses: r-lib/actions/check-r-package@v2
+        with:
+          upload-snapshots: true

.github/workflows/cpp-build.yaml

@@ -0,0 +1,29 @@
+
+on:
+  push:
+    branches: [main, master]
+  pull_request:
+    branches: [main, master]
+
+name: CPP-build
+
+jobs:
+  linux:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - name: Build
+        run: |
+          sudo apt-get install cmake
+          mkdir build && pushd build
+          cmake ../cpp_version
+          make && ctest --output-on-failure
+  macos:
+    runs-on: macos-latest
+    steps:
+      - uses: actions/checkout@v4
+      - name: Build
+        run: |
+          mkdir build && pushd build
+          cmake ../cpp_version
+          make && ctest --output-on-failure

.github/workflows/pkgdown.yaml

@@ -0,0 +1,48 @@
+# Workflow derived from https://github.com/r-lib/actions/tree/v2/examples
+# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help
+on:
+  push:
+    branches: [main, master]
+  pull_request:
+    branches: [main, master]
+  release:
+    types: [published]
+  workflow_dispatch:
+
+name: pkgdown
+
+jobs:
+  pkgdown:
+    runs-on: ubuntu-latest
+    # Only restrict concurrency for non-PR jobs
+    concurrency:
+      group: pkgdown-${{ github.event_name != 'pull_request' || github.run_id }}
+    env:
+      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+    permissions:
+      contents: write
+    steps:
+      - uses: actions/checkout@v4
+
+      - uses: r-lib/actions/setup-pandoc@v2
+
+      - uses: r-lib/actions/setup-r@v2
+        with:
+          use-public-rspm: true
+
+      - uses: r-lib/actions/setup-r-dependencies@v2
+        with:
+          extra-packages: any::pkgdown, local::.
+          needs: website
+
+      - name: Build site
+        run: pkgdown::build_site_github_pages(new_process = FALSE, install = FALSE)
+        shell: Rscript {0}
+
+      - name: Deploy to GitHub pages 🚀
+        if: github.event_name != 'pull_request'
+        uses: JamesIves/[email protected]
+        with:
+          clean: false
+          branch: gh-pages
+          folder: docs

.gitignore

@@ -4,4 +4,9 @@
 ranger.Rcheck/
 *.Rproj
 .project
-.cproject
+.cproject
+docs
+ranger*.tar.gz
+ranger*.tgz
+revdep/*
+.vscode

DESCRIPTION

@@ -1,8 +1,8 @@
 Package: ranger
 Type: Package
 Title: A Fast Implementation of Random Forests
-Version: 0.12.4
-Date: 2020-06-15
+Version: 0.16.1
+Date: 2024-05-16
 Author: Marvin N. Wright [aut, cre], Stefan Wager [ctb], Philipp Probst [ctb]
 Maintainer: Marvin N. Wright <[email protected]>
 Description: A fast implementation of Random Forests, particularly suited for high
@@ -15,8 +15,11 @@ License: GPL-3
 Imports: Rcpp (>= 0.11.2), Matrix
 LinkingTo: Rcpp, RcppEigen
 Depends: R (>= 3.1)
-Suggests: survival, testthat
+Suggests: 
+    survival,
+    testthat
 Encoding: UTF-8
-RoxygenNote: 7.1.0
-URL: https://github.com/imbs-hl/ranger
+RoxygenNote: 7.3.1
+URL: https://imbs-hl.github.io/ranger/,
+    https://github.com/imbs-hl/ranger
 BugReports: https://github.com/imbs-hl/ranger/issues

NAMESPACE

@@ -1,18 +1,23 @@
 # Generated by roxygen2: do not edit by hand
 
+S3method(as.data.frame,ranger.prediction)
+S3method(deforest,ranger)
 S3method(importance,ranger)
 S3method(predict,ranger)
 S3method(predict,ranger.forest)
 S3method(predictions,ranger)
 S3method(predictions,ranger.prediction)
+S3method(print,deforest.ranger)
 S3method(print,ranger)
 S3method(print,ranger.forest)
 S3method(print,ranger.prediction)
 S3method(timepoints,ranger)
 S3method(timepoints,ranger.prediction)
 export(csrf)
+export(deforest)
 export(getTerminalNodeIDs)
 export(holdoutRF)
+export(hshrink)
 export(importance)
 export(importance_pvalues)
 export(predictions)

NEWS

@@ -1,17 +1,29 @@
 
-##### Version 0.12.4
-* Bug fixes
-
-##### Version 0.12.3
+##### Version 0.16.0
+* Add node.stats option to save node statistics of all nodes
+* Add time.interest option to restrict unique survival times (faster and saves memory)
+* Fix min bucket option in C++ version
+* Fix memory error for always.split.variables in certain settings
+* Fix quantile regression for factor variables in "order" mode
+
+##### Version 0.15.0
+* Switch to C++14 standard
+* Add min.bucket parameter to restrict terminal node size
+* Fix a bug with always.split.variables selecting the wrong variables
+
+##### Version 0.14.0
+* Faster permutation variable importance for high dimensional data (thanks to Roman Hornung)
+* Add deforest() function to remove trees from ensemble
+* Allow split.select.weights and always.split.variables together
+* Add as.data.frame() method for predictions
+* Fix weight calculation in case-specific RF (csrf())
+* Fix cross compiling for Windows
+
+##### Version 0.13.0
+* Faster quantile prediction
 * Add ... argument to ranger()
 * Bug fixes
 
-##### Version 0.12.2
-* Bug fixes
-
-##### Version 0.12.1
-* Bug fixes
-
 ##### Version 0.12.0
 * Faster computation (in some cases)
 * Add local variable importance