Add docker builds for bioc and python only image (#8)

.github/workflows/publish-docker.yaml

@@ -6,15 +6,30 @@ on:
   workflow_dispatch:
 
 jobs:
-  publish_docker:
+  publish_docker_pythononly:
     runs-on: ubuntu-latest
     steps:
       - name: Checkout
         uses: actions/checkout@v3
       - name: Publish to Registry
         uses: elgohr/Publish-Docker-Github-Action@v5
         with:
-          name: ${{ github.repository }}/builder:${{ github.ref_name }}
+          name: ${{ github.repository }}/pythononly:${{ github.ref_name }}
           username: ${{ github.actor }}
           password: ${{ secrets.GITHUB_TOKEN }}
           registry: ghcr.io
+          dockerfile: Dockerfile.pythononly
+
+  publish_docker_bioc:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v3
+      - name: Publish to Registry
+        uses: elgohr/Publish-Docker-Github-Action@v5
+        with:
+          name: ${{ github.repository }}/bioc:${{ github.ref_name }}
+          username: ${{ github.actor }}
+          password: ${{ secrets.GITHUB_TOKEN }}
+          registry: ghcr.io
+          dockerfile: Dockerfile.bioc

Dockerfile.bioc

@@ -0,0 +1,17 @@
+FROM jupyter/r-notebook:r-4.3.1
+
+USER root
+
+RUN apt update -qq 
+RUN apt install python3-dev build-essential -y 
+
+# install bioc deps from @almahmoud
+RUN curl -O https://raw.githubusercontent.com/Bioconductor/bioconductor_docker/devel/bioc_scripts/install_bioc_sysdeps.sh
+RUN bash install_bioc_sysdeps.sh 3.18 
+
+# update conda
+RUN conda update -y -c conda-forge libsqlite
+
+# install bioc deps from @almahmoud
+RUN pip install -r <(curl -s https://raw.githubusercontent.com/BiocPy/BiocWorkshop2024/master/requirements.txt) 
+RUN curl -s https://raw.githubusercontent.com/BiocPy/BiocWorkshop2024/master/rpackages.R | Rscript -