updated Dockerfile from Roland

.github/workflows/docker-publish.yml

@@ -2,7 +2,9 @@ name: Docker
 
 on:
   push:
-    branches: [ "main" ]
+    branches: 
+      - "main"
+      - "**"  # This will match all branches
   workflow_dispatch:
 
 env:
@@ -22,21 +24,23 @@ jobs:
         uses: actions/checkout@v3
 
       - name: Log into registry ${{ env.REGISTRY }}
-        uses: docker/login-action@28218f9b04b4f3f62068d7b6ce6ca5b26e35336c
+        uses: docker/login-action@v2
         with:
           registry: ${{ env.REGISTRY }}
           username: ${{ github.actor }}
           password: ${{ secrets.GITHUB_TOKEN }}
 
       - name: Extract Docker metadata
         id: meta
-        uses: docker/metadata-action@98669ae865ea3cffbcbaa878cf57c20bbf1c6c38
+        uses: docker/metadata-action@v3
         with:
           images: ${{ env.REGISTRY }}/${{ env.IMAGE_NAME }}
+          tags: |
+            type=ref,event=branch
 
       - name: Build and push Docker image
         id: build-and-push
-        uses: docker/build-push-action@ac9327eae2b366085ac7f6a2d02df8aa8ead720a
+        uses: docker/build-push-action@v3
         with:
           context: .
           push: ${{ github.event_name != 'pull_request' }}

Dockerfile

@@ -43,7 +43,7 @@ RUN ./configure --prefix=/meme --with-url=http://meme-suite.org --enable-build-l
 RUN make
 RUN make install
 
-# rmats-turbo
+# rmats-turbo (check)
 RUN apt-get update
 RUN apt-get install -y subread bedtools samtools tabix
 WORKDIR /
@@ -53,3 +53,13 @@ RUN ./build_rmats
 
 # environment variables
 ENV PATH="$PATH:/rmats-turbo:/meme/bin:/usr/local/bin"
+
+# Install the splicekit package
+WORKDIR /usr/splicekit
+COPY . /usr/splicekit
+
+# Install the package from the current repository
+RUN pip install .
+
+# Run the application
+CMD ["splicekit"]