v0.6.0

openpharma · Sep 28, 2024 · 9e962dd · 9e962dd
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diff --git a/.github/workflows/rhub.yaml 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
@@ -1,6 +1,6 @@
 Package: simaerep
 Title: Find Clinical Trial Sites Under-Reporting Adverse Events
-Version: 0.5.0.900
+Version: 0.6.0
 Authors@R: c(
     person(given = "Bjoern",
            family = "Koneswarakantha",

diff --git a/_pkgdown.yml b/_pkgdown.yml
@@ -94,9 +94,6 @@ reference:
   - is_simaerep
   - is_orivisit
   - max_rank
-- title: Deprecated
-  contents:
-  - eval_sites_deprecated
 - title: Additional Plot Functions
   desc: These functions are intended for creating plots for the documentation.
   contents:

diff --git a/docs/LICENSE-text.html b/docs/LICENSE-text.html
diff --git a/docs/LICENSE.html b/docs/LICENSE.html
diff --git a/docs/apple-touch-icon-120x120.png b/docs/apple-touch-icon-120x120.png
diff --git a/docs/apple-touch-icon-60x60.png b/docs/apple-touch-icon-60x60.png
diff --git a/docs/apple-touch-icon-76x76.png b/docs/apple-touch-icon-76x76.png
diff --git a/docs/apple-touch-icon.png b/docs/apple-touch-icon.png
diff --git a/docs/authors.html b/docs/authors.html
diff --git a/docs/favicon-16x16.png b/docs/favicon-16x16.png
diff --git a/docs/favicon-32x32.png b/docs/favicon-32x32.png
diff --git a/docs/favicon.ico b/docs/favicon.ico
diff --git a/docs/index.html b/docs/index.html
diff --git a/docs/pkgdown.yml b/docs/pkgdown.yml
@@ -13,7 +13,7 @@ articles:
   usability_limits: usability_limits.html
   visit_med75: visit_med75.html
   visits_or_days: visits_or_days.html
-last_built: 2024-09-24T15:41Z
+last_built: 2024-09-28T04:56Z
 urls:
   reference: https://openpharma.github.io/simaerep/reference
   article: https://openpharma.github.io/simaerep/articles
diff --git a/docs/reference/eval_sites.html b/docs/reference/eval_sites.html
diff --git a/docs/reference/figures/README-unnamed-chunk-2-1.png b/docs/reference/figures/README-unnamed-chunk-2-1.png