Merging dev into main.

.Rbuildignore

@@ -0,0 +1,21 @@
+^renv$
+^renv\.lock$
+^.*\.Rproj$
+^\.Rproj\.user$
+^doc$
+^Meta$
+^_pkgdown\.yml$
+^docs$
+^pkgdown$
+^\.travis\.yml$
+^travis-tool\.sh\.cmd$
+^README\.Rmd$
+^README\.md$
+^codecov\.yml$
+^cran-comments\.md$
+^\.github$
+^\.github\/$
+^.github$
+.github
+^CRAN-RELEASE$
+^LICENSE\.md$

.Rprofile

@@ -0,0 +1 @@
+source("renv/activate.R")

.github/workflows/codecov.yml

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+name: Run tests and upload coverage report to Codecov
+
+on:
+  push:
+    branches: [dev, main]
+
+jobs:
+  coverage:
+    runs-on: ubuntu-latest
+
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v4
+
+      - name: Set up R
+        uses: r-lib/actions/setup-r@v2
+        with:
+            use-public-rspm: true
+
+      - name: Install R dependencies
+        run: |
+          Rscript -e "install.packages(c('covr', 'devtools', 'remotes'))"
+          Rscript -e "devtools::install_deps(dependencies = TRUE)"
+
+      - name: Run tests and upload coverage to Codecov
+        env:
+          CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
+        run: |
+          Rscript -e "covr::codecov(token = Sys.getenv('CODECOV_TOKEN'))"

.github/workflows/pkgdown.yml

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+name: Build and deploy pkgdown site to GitHub Pages
+
+on:
+  push:
+    branches: [main]
+
+jobs:
+  pkgdown:
+    runs-on: ubuntu-latest
+    env:
+      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+    permissions:
+      contents: write
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v4
+
+      - name: Set up Pandoc
+        uses: r-lib/actions/setup-pandoc@v2
+
+      - name: Set up R
+        uses: r-lib/actions/setup-r@v2
+        with:
+          use-public-rspm: true
+
+      - name: Install R dependencies
+        uses: r-lib/actions/setup-r-dependencies@v2
+        with:
+          extra-packages: any::pkgdown, local::.
+          needs: website
+
+      - name: Build pkgdown site
+        run: pkgdown::build_site_github_pages(new_process = FALSE, install = FALSE)
+        shell: Rscript {0}
+
+      - name: Deploy site to gh-pages branch
+        uses: JamesIves/github-pages-deploy-action@v4
+        with:
+          clean: false
+          branch: gh-pages
+          folder: docs

.gitignore

@@ -0,0 +1,5 @@
+.Rproj.user
+.Rhistory
+.RData
+.Ruserdata
+docs

DESCRIPTION

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+Package: EFSATools
+Type: Package
+Title: EFSA ensemble of data collections tools
+Version: 1.0.0
+Maintainer: Luca Belmonte <luca.belmonte@efsa.europa.eu>
+Authors@R:
+  c(person(given = "Lorenzo",
+           family = "Copelli",
+           role = "aut",
+           comment = c(ORCID = "0009-0002-4305-065X")),
+    person(given = "Luca",
+           family = "Belmonte",
+           role = c("aut", "cre"),
+           email = "luca.belmonte@efsa.europa.eu",
+           comment = c(ORCID = "0000-0002-7977-9170")))
+Description: The EFSATools package brings together all the functions developed 
+  for EFSA's ad hoc data collections, providing tools for dataset operations as 
+  well as utilities designed to preserve data history.
+License: file LICENSE
+URL: https://openefsa.github.io/EFSATools
+BugReports: https://github.com/openefsa/EFSATools/issues
+Depends:
+    R (>= 4.0.0)
+Imports:
+    checkmate (>= 2.3.1),
+    dplyr (>= 1.1.4),
+    glue (>= 1.7.0),
+    rlang (>= 1.1.4),
+    stringr (>= 1.5.1),
+    tidyr (>= 1.3.1)
+Suggests:
+    devtools (>= 2.4.5),
+    tibble (>= 3.3.0),
+    covr (>= 3.6.4),
+    knitr (>= 1.0),
+    rmarkdown (>= 2.0),
+    testthat (>= 3.0.0),
+    usethis (>= 2.2.3),
+    roxygen2 (>= 7.2.1)
+Encoding: UTF-8
+LazyData: true
+RoxygenNote: 7.3.3
+Config/testthat/edition: 3
+VignetteBuilder: knitr
+Config/Needs/website: pkgdown
+Repository: CRAN
+Roxygen: list(markdown = TRUE)

EFSATools.Rproj

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+Version: 1.0
+
+RestoreWorkspace: Default
+SaveWorkspace: Default
+AlwaysSaveHistory: Default
+
+EnableCodeIndexing: Yes
+UseSpacesForTab: Yes
+NumSpacesForTab: 2
+Encoding: UTF-8
+
+RnwWeave: Sweave
+LaTeX: pdfLaTeX
+
+BuildType: Package
+PackageUseDevtools: Yes
+PackageInstallArgs: --no-multiarch --with-keep.source
+PackageCheckArgs: --as-cran
+PackageRoxygenize: rd,collate,namespace