From b27d395b288564f8edbcb494721cfa267e2ec219 Mon Sep 17 00:00:00 2001
From: "dependabot[bot]" <49699333+dependabot[bot]@users.noreply.github.com>
Date: Mon, 28 Oct 2024 19:20:34 +0000
Subject: [PATCH] Bump actions/checkout from 4.1.7 to 4.2.2

Bumps [actions/checkout](https://github.com/actions/checkout) from 4.1.7 to 4.2.2.
- [Release notes](https://github.com/actions/checkout/releases)
- [Changelog](https://github.com/actions/checkout/blob/main/CHANGELOG.md)
- [Commits](https://github.com/actions/checkout/compare/v4.1.7...v4.2.2)

---
updated-dependencies:
- dependency-name: actions/checkout
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <support@github.com>
---
 .github/workflows/docker.yaml         |  2 +-
 .github/workflows/main_test.yaml      |  8 ++++----
 .github/workflows/modules.yaml        | 14 +++++++-------
 .github/workflows/release_please.yaml |  2 +-
 4 files changed, 13 insertions(+), 13 deletions(-)

diff --git a/.github/workflows/docker.yaml b/.github/workflows/docker.yaml
index 6a9bd54..8287406 100644
--- a/.github/workflows/docker.yaml
+++ b/.github/workflows/docker.yaml
@@ -28,7 +28,7 @@ jobs:
     env:
       IMAGE_NAME: ashleys-qc-pipeline
     steps:
-      - uses: actions/checkout@v4.1.7
+      - uses: actions/checkout@v4.2.2
 
       - name: Run read-yaml action
         id: yaml-data
diff --git a/.github/workflows/main_test.yaml b/.github/workflows/main_test.yaml
index e6ddbbd..9e6536e 100644
--- a/.github/workflows/main_test.yaml
+++ b/.github/workflows/main_test.yaml
@@ -10,7 +10,7 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - name: Checkout repository
-        uses: actions/checkout@v4.1.7
+        uses: actions/checkout@v4.2.2
 
       - name: Formatting using Super-Linter
         uses: github/super-linter@v4
@@ -24,7 +24,7 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - name: Checkout repository without submodules
-        uses: actions/checkout@v4.1.7
+        uses: actions/checkout@v4.2.2
 
       - name: List contents of .tests-mock
         run: |
@@ -58,7 +58,7 @@ jobs:
     #   - Linting
     steps:
       - name: Checkout repository with submodules
-        uses: actions/checkout@v4.1.7
+        uses: actions/checkout@v4.2.2
         with:
           submodules: recursive
 
@@ -124,7 +124,7 @@ jobs:
   #     - uses: koesterlab/setup-slurm-action@v1
 
   #     - name: Checkout repository with submodules and LFS
-  #       uses: actions/checkout@v4.1.7
+  #       uses: actions/checkout@v4.2.2
   #       with:
   #         submodules: recursive
   #         lfs: true
diff --git a/.github/workflows/modules.yaml b/.github/workflows/modules.yaml
index 2f7e95d..0b5240a 100644
--- a/.github/workflows/modules.yaml
+++ b/.github/workflows/modules.yaml
@@ -30,7 +30,7 @@ jobs:
       - Testing-basic
     steps:
       - name: Checkout repository with submodules
-        uses: actions/checkout@v4.1.7
+        uses: actions/checkout@v4.2.2
         with:
           submodules: recursive
 
@@ -71,7 +71,7 @@ jobs:
       - Testing-basic
     steps:
       - name: Checkout repository with submodules
-        uses: actions/checkout@v4.1.7
+        uses: actions/checkout@v4.2.2
         with:
           submodules: recursive
 
@@ -113,7 +113,7 @@ jobs:
     # - Testing-basic-with-slurm
     steps:
       - name: Checkout repository with submodules
-        uses: actions/checkout@v4.1.7
+        uses: actions/checkout@v4.2.2
         with:
           submodules: recursive
 
@@ -155,7 +155,7 @@ jobs:
     # - Testing-basic-with-slurm
     steps:
       - name: Checkout repository with submodules
-        uses: actions/checkout@v4.1.7
+        uses: actions/checkout@v4.2.2
         with:
           submodules: recursive
 
@@ -197,7 +197,7 @@ jobs:
     # - Testing-basic-with-slurm
     steps:
       - name: Checkout repository with submodules
-        uses: actions/checkout@v4.1.7
+        uses: actions/checkout@v4.2.2
         with:
           submodules: recursive
 
@@ -233,7 +233,7 @@ jobs:
     # - Testing-basic-with-slurm
     steps:
       - name: Checkout repository with submodules
-        uses: actions/checkout@v4.1.7
+        uses: actions/checkout@v4.2.2
         with:
           submodules: recursive
 
@@ -269,7 +269,7 @@ jobs:
   # Testing_publishdir:
   #   runs-on: ubuntu-latest
   #   steps:
-  #     - uses: actions/checkout@v4.1.7
+  #     - uses: actions/checkout@v4.2.2
   #     - name: Testing data
   #       uses: snakemake/snakemake-github-action@v1.24.0
   #       with:
diff --git a/.github/workflows/release_please.yaml b/.github/workflows/release_please.yaml
index 8bff10a..2030d2c 100644
--- a/.github/workflows/release_please.yaml
+++ b/.github/workflows/release_please.yaml
@@ -33,7 +33,7 @@ jobs:
     runs-on: "ubuntu-latest"
 
     steps:
-      - uses: actions/checkout@v4.1.7
+      - uses: actions/checkout@v4.2.2
 
       - name: Run read-yaml action
         id: yaml-data