From ca7f595af048b8b805031cffc067444946a8c264 Mon Sep 17 00:00:00 2001
From: jaredhuling <jaredhuling@gmail.com>
Date: Thu, 25 Jul 2024 12:54:31 -0500
Subject: [PATCH] roxygen, cxx version remove, rhub workflow add

---
 .github/workflows/rhub.yaml | 95 +++++++++++++++++++++++++++++++++++++
 DESCRIPTION                 |  2 +-
 src/Makevars                |  1 -
 src/Makevars.win            |  3 +-
 4 files changed, 97 insertions(+), 4 deletions(-)
 create mode 100644 .github/workflows/rhub.yaml

diff --git a/.github/workflows/rhub.yaml b/.github/workflows/rhub.yaml
new file mode 100644
index 0000000..74ec7b0
--- /dev/null
+++ b/.github/workflows/rhub.yaml
@@ -0,0 +1,95 @@
+# R-hub's generic GitHub Actions workflow file. It's canonical location is at
+# https://github.com/r-hub/actions/blob/v1/workflows/rhub.yaml
+# You can update this file to a newer version using the rhub2 package:
+#
+# rhub::rhub_setup()
+#
+# It is unlikely that you need to modify this file manually.
+
+name: R-hub
+run-name: "${{ github.event.inputs.id }}: ${{ github.event.inputs.name || format('Manually run by {0}', github.triggering_actor) }}"
+
+on:
+  workflow_dispatch:
+    inputs:
+      config:
+        description: 'A comma separated list of R-hub platforms to use.'
+        type: string
+        default: 'linux,windows,macos'
+      name:
+        description: 'Run name. You can leave this empty now.'
+        type: string
+      id:
+        description: 'Unique ID. You can leave this empty now.'
+        type: string
+
+jobs:
+
+  setup:
+    runs-on: ubuntu-latest
+    outputs:
+      containers: ${{ steps.rhub-setup.outputs.containers }}
+      platforms: ${{ steps.rhub-setup.outputs.platforms }}
+
+    steps:
+    # NO NEED TO CHECKOUT HERE
+    - uses: r-hub/actions/setup@v1
+      with:
+        config: ${{ github.event.inputs.config }}
+      id: rhub-setup
+
+  linux-containers:
+    needs: setup
+    if: ${{ needs.setup.outputs.containers != '[]' }}
+    runs-on: ubuntu-latest
+    name: ${{ matrix.config.label }}
+    strategy:
+      fail-fast: false
+      matrix:
+        config: ${{ fromJson(needs.setup.outputs.containers) }}
+    container:
+      image: ${{ matrix.config.container }}
+
+    steps:
+      - uses: r-hub/actions/checkout@v1
+      - uses: r-hub/actions/platform-info@v1
+        with:
+          token: ${{ secrets.RHUB_TOKEN }}
+          job-config: ${{ matrix.config.job-config }}
+      - uses: r-hub/actions/setup-deps@v1
+        with:
+          token: ${{ secrets.RHUB_TOKEN }}
+          job-config: ${{ matrix.config.job-config }}
+      - uses: r-hub/actions/run-check@v1
+        with:
+          token: ${{ secrets.RHUB_TOKEN }}
+          job-config: ${{ matrix.config.job-config }}
+
+  other-platforms:
+    needs: setup
+    if: ${{ needs.setup.outputs.platforms != '[]' }}
+    runs-on: ${{ matrix.config.os }}
+    name: ${{ matrix.config.label }}
+    strategy:
+      fail-fast: false
+      matrix:
+        config: ${{ fromJson(needs.setup.outputs.platforms) }}
+
+    steps:
+      - uses: r-hub/actions/checkout@v1
+      - uses: r-hub/actions/setup-r@v1
+        with:
+          job-config: ${{ matrix.config.job-config }}
+          token: ${{ secrets.RHUB_TOKEN }}
+      - uses: r-hub/actions/platform-info@v1
+        with:
+          token: ${{ secrets.RHUB_TOKEN }}
+          job-config: ${{ matrix.config.job-config }}
+      - uses: r-hub/actions/setup-deps@v1
+        with:
+          job-config: ${{ matrix.config.job-config }}
+          token: ${{ secrets.RHUB_TOKEN }}
+      - uses: r-hub/actions/run-check@v1
+        with:
+          job-config: ${{ matrix.config.job-config }}
+          token: ${{ secrets.RHUB_TOKEN }}
diff --git a/DESCRIPTION b/DESCRIPTION
index 38bb208..5a85461 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -40,7 +40,7 @@ LinkingTo: Rcpp,
     RSpectra (>= 0.16-2),
     bigmemory,
     RcppArmadillo
-RoxygenNote: 7.2.0
+RoxygenNote: 7.3.1
 Suggests:
     knitr,
     rmarkdown
diff --git a/src/Makevars b/src/Makevars
index 59559d2..e1d7428 100644
--- a/src/Makevars
+++ b/src/Makevars
@@ -12,7 +12,6 @@ PKG_CXXFLAGS = $(SHLIB_OPENMP_CXXFLAGS)
 PKG_LIBS =  $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS) $(SHLIB_OPENMP_CXXFLAGS)
 #PKG_CFLAGS = $(SHLIB_OPENMP_CFLAGS)
 
-CXX_STD = CXX11
 
 ## For macosx:
 #CC=/usr/local/opt/llvm/bin/clang
diff --git a/src/Makevars.win b/src/Makevars.win
index cf34e95..c49f2f4 100644
--- a/src/Makevars.win
+++ b/src/Makevars.win
@@ -13,5 +13,4 @@ PKG_LIBS = $(SHLIB_OPENMP_CXXFLAGS) $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS)
 
 
 PKG_CPPFLAGS = -I. -DNDEBUG
- 
-CXX_STD = CXX11
+