Merge pull request #51 from friendsofstrandseq/dependabot/github_acti…

…ons/actions/checkout-4.1.7

Bump actions/checkout from 3.2.0 to 4.1.7

.github/workflows/docker.yaml

@@ -13,7 +13,7 @@ jobs:
     env:
       IMAGE_NAME: ashleys-qc-pipeline
     steps:
-      - uses: actions/checkout@v3.2.0
+      - uses: actions/checkout@v4.1.7
 
       - name: Run read-yaml action
         id: yaml-data

.github/workflows/main_test.yaml

@@ -11,7 +11,7 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - name: Checkout repository
-        uses: actions/checkout@v4
+        uses: actions/checkout@v4.1.7
 
       - name: Formatting using Super-Linter
         uses: github/super-linter@v4
@@ -26,7 +26,7 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - name: Checkout repository with submodules
-        uses: actions/checkout@v4
+        uses: actions/checkout@v4.1.7
         with:
           submodules: 'recursive'  # Ensures all submodules are checked out
           lfs: true                # Ensures LFS objects for the main repo are pulled
@@ -75,7 +75,7 @@ jobs:
     #   - Linting
     steps:
       - name: Checkout repository with submodules and LFS
-        uses: actions/checkout@v4
+        uses: actions/checkout@v4.1.7
         with:
           submodules: recursive
           lfs: true
@@ -139,7 +139,7 @@ jobs:
   #     - uses: koesterlab/setup-slurm-action@v1
 
   #     - name: Checkout repository with submodules and LFS
-  #       uses: actions/checkout@v4
+  #       uses: actions/checkout@v4.1.7
   #       with:
   #         submodules: recursive
   #         lfs: true
@@ -182,7 +182,7 @@ jobs:
     - Testing-basic
     steps:
       - name: Checkout repository with submodules and LFS
-        uses: actions/checkout@v4
+        uses: actions/checkout@v4.1.7
         with:
           submodules: recursive
           lfs: true
@@ -221,7 +221,7 @@ jobs:
     - Testing-basic
     steps:
       - name: Checkout repository with submodules and LFS
-        uses: actions/checkout@v4
+        uses: actions/checkout@v4.1.7
         with:
           submodules: recursive
           lfs: true
@@ -261,7 +261,7 @@ jobs:
     # - Testing-basic-with-slurm
     steps:
       - name: Checkout repository with submodules and LFS
-        uses: actions/checkout@v4
+        uses: actions/checkout@v4.1.7
         with:
           submodules: recursive
           lfs: true
@@ -301,7 +301,7 @@ jobs:
     # - Testing-basic-with-slurm
     steps:
       - name: Checkout repository with submodules and LFS
-        uses: actions/checkout@v4
+        uses: actions/checkout@v4.1.7
         with:
           submodules: recursive
           lfs: true
@@ -341,7 +341,7 @@ jobs:
     # - Testing-basic-with-slurm
     steps:
       - name: Checkout repository with submodules and LFS
-        uses: actions/checkout@v4
+        uses: actions/checkout@v4.1.7
         with:
           submodules: recursive
           lfs: true
@@ -381,7 +381,7 @@ jobs:
     # - Testing-basic-with-slurm
     steps:
       - name: Checkout repository with submodules and LFS
-        uses: actions/checkout@v4
+        uses: actions/checkout@v4.1.7
         with:
           submodules: recursive
           lfs: true
@@ -416,7 +416,7 @@ jobs:
   # Testing_publishdir:
   #   runs-on: ubuntu-latest
   #   steps:
-  #     - uses: actions/checkout@v4
+  #     - uses: actions/checkout@v4.1.7
   #     - name: Testing data
   #       uses: snakemake/[email protected]
   #       with:

.github/workflows/release_please.yaml

@@ -17,7 +17,7 @@ jobs:
     runs-on: "ubuntu-latest"
 
     steps:
-      - uses: actions/checkout@v3.3.0
+      - uses: actions/checkout@v4.1.7
 
       - name: Run read-yaml action
         id: yaml-data