Dockerize app for shinyproxy (#54)

.dockerignore

@@ -0,0 +1,12 @@
+.RData
+.Rhistory
+.git
+.gitignore
+.github
+manifest.json
+rsconnect/
+.Rproj.user
+docker-compose.yml
+docker-compose.example.yml
+.env
+.Renviron

.github/workflows/docker-build.yml

@@ -0,0 +1,52 @@
+name: Build and publish Docker image
+
+on:
+  push:
+    tags: [ 'v*.*.*' ]
+  workflow_dispatch:
+
+jobs:
+  docker:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v4
+
+      - name: Docker metadata
+        id: meta
+        uses: docker/metadata-action@v5
+        with:
+          images: |
+            evs-gis/mapdoapp
+            ghcr.io/evs-gis/mapdoapp
+          tags: |
+            type=schedule
+            type=ref,event=branch
+            type=ref,event=pr
+            type=semver,pattern={{version}}
+            type=semver,pattern={{major}}.{{minor}}
+            type=semver,pattern={{major}}
+            type=sha
+
+      - name: Setup Cosign
+        uses: sigstore/cosign-installer@v3.7.0
+        with:
+          cosign-release: 'v2.4.1'
+
+      - name: Setup Docker Buildx
+        uses: docker/setup-buildx-action@v3
+
+      - name: Login to GitHub Container Registry
+        uses: docker/login-action@v3
+        with:
+          registry: ghcr.io
+          username: ${{ github.actor }}
+          password: ${{ secrets.GITHUB_TOKEN }}
+
+      - name: Build and push
+        uses: docker/build-push-action@v6
+        with:
+          context: .
+          push: true
+          tags: ${{ steps.meta.outputs.tags }}
+          labels: ${{ steps.meta.outputs.labels }}

.gitignore

@@ -6,3 +6,4 @@
 .quarto
 restart.txt
 docs
+docker-compose.yml

DESCRIPTION

@@ -1,7 +1,10 @@
 Package: mapdoapp
 Title: Application MAPDO
-Version: 1.0.0
+Version: 2.0.1
 Authors@R: 
+    person("Samuel", "Dunesme", , "samuel.dunesme@ens-lyon.fr", role = c("cre", "aut"))
+    person("Lise", "Vaudor", , "lise.vaudor@ens-lyon.fr", role = c("cre", "aut"))
+    person("Leo", "Helling", , "jan.helling@ens-lyon.fr", role = c("cre", "aut"))
     person("Louis", "Manière", , "louis.maniere@ens-lyon.fr", role = c("cre", "aut"))
 Description: Application de description des caractéristiques
     morphologiques des réseaux hydrographiques.

Dockerfile

@@ -0,0 +1,53 @@
+FROM rocker/verse:4.4.1
+
+LABEL org.opencontainers.image.authors="Samuel Dunesme <samuel.dunesme@ens-lyon.fr>"
+LABEL org.opencontainers.image.url="https://github.com/evs-gis/mapdoapp"
+LABEL org.opencontainers.image.documentation="https://evs-gis.github.io/mapdowebsite/""
+LABEL org.opencontainers.image.version="2.0.1"
+LABEL org.opencontainers.image.description="Application de description des caractéristiques \
+morphologiques des réseaux hydrographiques."
+
+RUN apt-get update && apt-get install -y  gdal-bin libcurl4-openssl-dev libgdal-dev libgeos-dev libicu-dev libpng-dev libpq-dev libproj-dev libsqlite3-dev libssl-dev libudunits2-dev libxml2-dev make pandoc zlib1g-dev && rm -rf /var/lib/apt/lists/*
+RUN locale-gen fr_FR.UTF-8
+RUN mkdir -p /usr/local/lib/R/etc/ /usr/lib/R/etc/
+RUN echo "options(repos = c(CRAN = 'https://cran.rstudio.com/'), download.file.method = 'libcurl', Ncpus = 4)" | tee /usr/local/lib/R/etc/Rprofile.site | tee /usr/lib/R/etc/Rprofile.site
+RUN R -e 'install.packages("remotes")'
+RUN Rscript -e 'remotes::install_version("rlang",upgrade="never", version = "1.1.4")'
+RUN Rscript -e 'remotes::install_version("glue",upgrade="never", version = "1.7.0")'
+RUN Rscript -e 'remotes::install_version("magrittr",upgrade="never", version = "2.0.3")'
+RUN Rscript -e 'remotes::install_version("cachem",upgrade="never", version = "1.1.0")'
+RUN Rscript -e 'remotes::install_version("bslib",upgrade="never", version = "0.7.0")'
+RUN Rscript -e 'remotes::install_version("htmltools",upgrade="never", version = "0.5.8.1")'
+RUN Rscript -e 'remotes::install_version("jsonlite",upgrade="never", version = "1.8.8")'
+RUN Rscript -e 'remotes::install_version("tibble",upgrade="never", version = "3.2.1")'
+RUN Rscript -e 'remotes::install_version("stringr",upgrade="never", version = "1.5.1")'
+RUN Rscript -e 'remotes::install_version("purrr",upgrade="never", version = "1.0.2")'
+RUN Rscript -e 'remotes::install_version("dplyr",upgrade="never", version = "1.1.4")'
+RUN Rscript -e 'remotes::install_version("RColorBrewer",upgrade="never", version = "1.1-3")'
+RUN Rscript -e 'remotes::install_version("shiny",upgrade="never", version = "1.8.1.1")'
+RUN Rscript -e 'remotes::install_version("DBI",upgrade="never", version = "1.2.3")'
+RUN Rscript -e 'remotes::install_version("tidyr",upgrade="never", version = "1.3.1")'
+RUN Rscript -e 'remotes::install_version("httr",upgrade="never", version = "1.4.7")'
+RUN Rscript -e 'remotes::install_version("leaflet",upgrade="never", version = "2.2.2")'
+RUN Rscript -e 'remotes::install_version("config",upgrade="never", version = "0.3.2")'
+RUN Rscript -e 'remotes::install_version("shinyjs",upgrade="never", version = "2.1.0")'
+RUN Rscript -e 'remotes::install_version("testthat",upgrade="never", version = "3.2.1.1")'
+RUN Rscript -e 'remotes::install_version("spelling",upgrade="never", version = "2.2")'
+RUN Rscript -e 'remotes::install_version("waiter",upgrade="never", version = "0.2.5")'
+RUN Rscript -e 'remotes::install_version("sparkline",upgrade="never", version = "2.0")'
+RUN Rscript -e 'remotes::install_version("shinyWidgets",upgrade="never", version = "0.8.7")'
+RUN Rscript -e 'remotes::install_version("sf",upgrade="never", version = "1.0-17")'
+RUN Rscript -e 'remotes::install_version("RPostgres",upgrade="never", version = "1.4.7")'
+RUN Rscript -e 'remotes::install_version("reactable",upgrade="never", version = "0.4.4")'
+RUN Rscript -e 'remotes::install_version("plotly",upgrade="never", version = "4.10.4")'
+RUN Rscript -e 'remotes::install_version("leaflet.extras",upgrade="never", version = "2.0.1")'
+RUN Rscript -e 'remotes::install_version("golem",upgrade="never", version = "0.5.1")'
+RUN Rscript -e 'remotes::install_version("colourpicker",upgrade="never", version = "1.3.0")'
+RUN Rscript -e 'remotes::install_version("cicerone",upgrade="never", version = "1.0.4")'
+RUN Rscript -e 'remotes::install_version("bsicons",upgrade="never", version = "0.1.2")'
+RUN mkdir /app
+ADD . /app
+WORKDIR /app
+RUN R -e 'remotes::install_local(upgrade="never")'
+EXPOSE 3838
+CMD  ["R", "-f", "app.R"]

app.R

@@ -5,5 +5,5 @@
 Sys.setlocale("LC_ALL","fr_FR.UTF-8")
 
 pkgload::load_all(export_all = FALSE,helpers = FALSE,attach_testthat = FALSE)
-options( "golem.app.prod" = TRUE)
+options("shiny.port" = 3838, "shiny.host" = "0.0.0.0", "golem.app.prod" = TRUE)
 mapdoapp::run_app() # add parameters here (if any)

docker-compose.example.yml

@@ -0,0 +1,13 @@
+services:
+  app:
+    image: gcr.io/evs-gis/mapdoapp:latest
+    build: .
+    ports:
+      - "3838:3838"
+    environment:
+      - DBMAPDO_HOST=
+      - DBMAPDO_PORT=
+      - DBMAPDO_NAME=
+      - DBMAPDO_USER=
+      - DBMAPDO_PASS=
+      - GEOSERVER=