adds rstudio container

sib-swiss · Dec 12, 2024 · 3137217 · 3137217
1 parent aa0d2f8
commit 3137217
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Showing 6 changed files with 39 additions and 10 deletions.
diff --git a/.github/workflows/docker-image.yml b/.github/workflows/docker-image.yml
@@ -7,7 +7,7 @@ on:
       - 'v*.*'
 
 jobs:
-  docker:
+  docker-vscode:
     runs-on: ubuntu-latest
     steps:
       -
@@ -24,13 +24,6 @@ jobs:
           # generate Docker tags based on the following events/attributes
           tags: |
             type=semver,pattern={{major}}.{{minor}}
-
-      # -
-      #   name: Set up QEMU
-      #   uses: docker/setup-qemu-action@v1
-      # -
-      #   name: Set up Docker Buildx
-      #   uses: docker/setup-buildx-action@v1
       -
         name: Login to DockerHub
         uses: docker/login-action@v3
@@ -43,7 +36,38 @@ jobs:
         uses: docker/build-push-action@v5
         with:
           push: true
-          context: ./Docker
+          context: ./Docker/vscode
+          tags: ${{ steps.meta.outputs.tags }}
+          labels: ${{ steps.meta.outputs.labels }}
+  docker-rstudio:
+    runs-on: ubuntu-latest
+    steps:
+      -
+        name: Checkout
+        uses: actions/checkout@v4
+      -
+        name: Docker meta
+        id: meta
+        uses: docker/metadata-action@v5
+        with:
+          # list of Docker images to use as base name for tags
+          images: |
+            geertvangeest/cancer-variants-rstudio
+          # generate Docker tags based on the following events/attributes
+          tags: |
+            type=semver,pattern={{major}}.{{minor}}
+      -
+        name: Login to DockerHub
+        uses: docker/login-action@v3
+        with:
+          username: ${{ secrets.DOCKERHUB_USERNAME }}
+          password: ${{ secrets.DOCKERHUB_TOKEN }}
+      -
+        name: Build and push
+        id: docker_build
+        uses: docker/build-push-action@v5
+        with:
+          push: true
+          context: ./Docker/rstudio
           tags: ${{ steps.meta.outputs.tags }}
           labels: ${{ steps.meta.outputs.labels }}
-
diff --git a/Docker/rstudio/Dockerfile b/Docker/rstudio/Dockerfile
@@ -0,0 +1,5 @@
+FROM rocker/rstudio:4.4.2
+
+RUN apt-get update && apt-get install -y libz-dev
+
+RUN install2.r BiocManager tidyverse ggplot2
diff --git a/Docker/Dockerfile → Docker/vscode/Dockerfile b/Docker/Dockerfile → Docker/vscode/Dockerfile
diff --git a/Docker/environment.yml → Docker/vscode/environment.yml b/Docker/environment.yml → Docker/vscode/environment.yml
diff --git a/Docker/keybindings.json → Docker/vscode/keybindings.json b/Docker/keybindings.json → Docker/vscode/keybindings.json
diff --git a/Docker/settings.json → Docker/vscode/settings.json b/Docker/settings.json → Docker/vscode/settings.json