add/update workflows: linter, website creation (devel/release) (#3)

* add/update workflows: linter, website creation (devel/release)

* fixed testthat

---------

Co-authored-by: Yuri05 <[email protected]>

.github/workflows/lint.yaml

@@ -0,0 +1,32 @@
+# 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, pull_request]
+
+name: lint
+
+jobs:
+  lint:
+    runs-on: windows-latest
+    env:
+      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v3
+
+      - name: Setup
+        uses: r-lib/actions/setup-r@v2
+        with:
+          use-public-rspm: true
+
+      - name: Install ospsuite ecosystem and cran packages
+        run: |
+          Rscript .github/workflows/install_dependencies.R
+
+      - name: Install lintr
+        run: Rscript -e "install.packages('lintr',repos='http://cran.rstudio.com/')"
+
+      - name: Lint
+        run: |
+          Rscript .github/workflows/run_lintr.R
+        

.github/workflows/run_lintr.R

@@ -0,0 +1,15 @@
+pkgload::load_all()
+
+lintr::lint_package(
+  linters=lintr::linters_with_defaults(
+    object_name_linter=lintr::object_name_linter(styles=c("camelCase","CamelCase","symbols")),
+    line_length_linter=NULL, 
+    object_length_linter=NULL, 
+    brace_linter=NULL, 
+    paren_body_linter=NULL, 
+    trailing_whitespace_linter=NULL, 
+    trailing_blank_lines_linter=NULL, 
+    spaces_left_parentheses_linter=NULL, 
+    infix_spaces_linter=NULL
+  )
+)

.github/workflows/update-dev-website.yml

@@ -0,0 +1,16 @@
+name: Update dev website
+on:
+  push: 
+    branches:
+      - develop    
+
+# The action needs permissions to update the branch
+permissions:
+  contents: write
+
+jobs:
+  update_dev_website:
+    uses: Open-Systems-Pharmacology/Workflows/.github/workflows/CreateGitHubPagesForR.yml@main
+    with:
+      pkgdown_mode: 'devel'
+#      extra_r_packages: 'github::Open-Systems-Pharmacology/OSPSuite.RUtils'

.github/workflows/update-release-website.yml

@@ -0,0 +1,17 @@
+name: Update release website
+# The action is triggered only when update is push on main branch
+on:
+  push: 
+    branches:
+      - main
+
+# The action needs permissions to update the branch
+permissions:
+  contents: write
+
+jobs:
+  update_release_website:
+    uses: Open-Systems-Pharmacology/Workflows/.github/workflows/CreateGitHubPagesForR.yml@main
+    with:
+      pkgdown_mode: 'release'
+#      extra_r_packages: 'github::Open-Systems-Pharmacology/OSPSuite.RUtils'

.gitignore

@@ -5,3 +5,4 @@
 inst/doc
 /doc/
 /Meta/
+/docs

DESCRIPTION

@@ -0,0 +1,29 @@
+Type: Package
+Package: ospsuite.globalsensitivity
+Title: TODO
+Version: 0.1.0
+Authors@R: c(
+    person("Open-Systems-Pharmacology Community", role = c("cph", "fnd")),
+    person("XXXXXXXXXXX", "XXXXXXXXXXXX", , "[email protected]", role = c("aut", "cre"))
+  )
+Maintainer: XXXXXXXXXXX XXXXXXXXXXX <[email protected]>
+Description: TODO
+License: GPL-2
+URL: https://github.com/Open-Systems-Pharmacology/OSPSuite.GlobalSensitivitys,
+    https://www.open-systems-pharmacology.org/OSPSuite.GlobalSensitivity/
+BugReports: 
+    https://github.com/Open-Systems-Pharmacology/OSPSuite.GlobalSensitivity/issues
+Depends: 
+    R (>= 4.1)
+Imports:
+Suggests: 
+    knitr,
+    rmarkdown,
+    testthat (>= 3.0.0)
+Config/testthat/edition: 3
+Encoding: UTF-8
+Language: en-US
+Roxygen: list(markdown = TRUE)
+RoxygenNote: 7.2.3
+Collate: 
+    'dummy.R'

R/dummy.R

@@ -0,0 +1,15 @@
+#' Dummy function
+#'
+#' @description
+#' Dummy function
+#'
+#' @return
+#' Returns zero.
+#'
+#' @examples
+#' XXXXXX_dummyFunction()
+#'
+#' @export
+XXXXXX_dummyFunction <- function() {
+  return(0)
+}

_pkgdown.yml

@@ -4,14 +4,14 @@ template:
   bootstrap: 5
 
 development:
-  mode: devel
+  mode: !expr Sys.getenv('PKGDOWN_MODE')
 
 articles:
   - title: XXXXXX
     navbar: XXXXXX
     desc: XXXXXX
     contents:
-    - vignette1_XXXXXXXXXXXXXXXXXXXXX
+#    - vignette1_XXXXXXXXXXXXXXXXXXXXX
 
 reference:
 - title: "XXXXXXXXXXXXXXXXXXX"

tests/testthat.R

@@ -1,4 +1,3 @@
 library(testthat)
-library(ospsuite.plots)
 
-test_check("ospsuite.plots", encoding = "utf-8")
+test_check("ospsuite.globalsensitivity", encoding = "utf-8")