Big update

Rendrick27 · May 11, 2024 · 6b9be6e · 6b9be6e
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commit 6b9be6e
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diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml
@@ -3,14 +3,34 @@ name: CI/CD
 on: push
 
 jobs:
-  ASCN:
+  Dockerfile:
     runs-on: ubuntu-latest
     steps:
     - uses: actions/checkout@v2
-    - name: Install Bio 
-      run: pip install Bio
-    - name: Download 
-      run: python3 ASCN_Download.py nuccore test.txt
+
+    - name: Log in to Docker Hub
+      uses: docker/login-action@v1
+      with:
+        username: ${{ secrets.DOCKERHUB_USERNAME }}
+        password: ${{ secrets.DOCKERHUB_TOKEN }}
+
+    - name: Build and push Docker image
+      uses: docker/build-push-action@v2
+      with:
+        context: .
+        file: ./Dockerfile
+        push: true
+        tags: rendrick27/snakemake:latest
+
+  Snakemake:
+    needs: Dockerfile
+    runs-on: ubuntu-latest
+    container:
+      image: rendrick27/phylo_flow:latest
+    steps:
+    - uses: actions/checkout@v2
+    - name: Run Snakemake
+      run: snakemake --use-conda all --cores 1
 
   PEP8:
     runs-on: ubuntu-latest
@@ -21,4 +41,4 @@ jobs:
     - name: Install flake8
       run: pip install flake8
     - name: Run flake8
-      run: flake8 .
+      run: flake8 .
diff --git a/.snakemake/log/2024-04-24T121911.788172.snakemake.log b/.snakemake/log/2024-04-24T121911.788172.snakemake.log
diff --git a/.snakemake/log/2024-04-24T122022.710613.snakemake.log b/.snakemake/log/2024-04-24T122022.710613.snakemake.log
diff --git a/.snakemake/log/2024-04-24T122042.601136.snakemake.log b/.snakemake/log/2024-04-24T122042.601136.snakemake.log
diff --git a/.snakemake/log/2024-04-24T122108.327711.snakemake.log b/.snakemake/log/2024-04-24T122108.327711.snakemake.log
diff --git a/.snakemake/log/2024-04-24T122610.459511.snakemake.log b/.snakemake/log/2024-04-24T122610.459511.snakemake.log
diff --git a/.snakemake/log/2024-04-24T122632.070978.snakemake.log b/.snakemake/log/2024-04-24T122632.070978.snakemake.log
diff --git a/.snakemake/log/2024-04-24T122659.186295.snakemake.log b/.snakemake/log/2024-04-24T122659.186295.snakemake.log
diff --git a/.snakemake/metadata/ZmFzdGEvMThTX3JSTkEuZmFzdGE= b/.snakemake/metadata/ZmFzdGEvMThTX3JSTkEuZmFzdGE=
diff --git a/.snakemake/metadata/ZmFzdGEvMThTX3JSTkFfYWxpZ24uZmFzdGE= b/.snakemake/metadata/ZmFzdGEvMThTX3JSTkFfYWxpZ24uZmFzdGE=
diff --git a/.snakemake/metadata/ZmFzdGEvMjhTX3JSTkEuZmFzdGE= b/.snakemake/metadata/ZmFzdGEvMjhTX3JSTkEuZmFzdGE=
diff --git a/.snakemake/metadata/ZmFzdGEvMjhTX3JSTkFfYWxpZ24uZmFzdGE= b/.snakemake/metadata/ZmFzdGEvMjhTX3JSTkFfYWxpZ24uZmFzdGE=
diff --git a/.snakemake/metadata/ZmFzdGEvQ09JLmZhc3Rh b/.snakemake/metadata/ZmFzdGEvQ09JLmZhc3Rh
diff --git a/.snakemake/metadata/ZmFzdGEvQ09JX2FsaWduLmZhc3Rh b/.snakemake/metadata/ZmFzdGEvQ09JX2FsaWduLmZhc3Rh
diff --git a/.snakemake/metadata/ZmFzdGEvSVRT4oCTMi5mYXN0YQ== b/.snakemake/metadata/ZmFzdGEvSVRT4oCTMi5mYXN0YQ==
diff --git a/.snakemake/metadata/ZmFzdGEvSVRT4oCTMl9hbGlnbi5mYXN0YQ== b/.snakemake/metadata/ZmFzdGEvSVRT4oCTMl9hbGlnbi5mYXN0YQ==