diff --git a/.github/workflows/ci-cd.yml b/.github/workflows/ci-cd.yml
index 12dd75a69..20cfce1b3 100644
--- a/.github/workflows/ci-cd.yml
+++ b/.github/workflows/ci-cd.yml
@@ -32,7 +32,7 @@ jobs:
       attestations: write
       id-token: write
     steps:
-      - uses: actions/checkout@v4
+      - uses: actions/checkout@v5
         with:
           fetch-depth: 0
       - uses: hynek/build-and-inspect-python-package@v2
@@ -58,13 +58,13 @@ jobs:
 
     steps:
       - name: Fetch repository
-        uses: actions/checkout@v4
+        uses: actions/checkout@v5
         with:
           fetch-depth: 0
       - name: Install the latest version of uv
         uses: astral-sh/setup-uv@v6
       - name: Set up Python ${{ matrix.python-version }} on ${{ matrix.os }}
-        uses: actions/setup-python@v5
+        uses: actions/setup-python@v6
         with:
           python-version: ${{ matrix.python-version }}
       - name: Install tox
@@ -97,13 +97,13 @@ jobs:
           echo "RELEASE_VERSION=v3.7.1" >> $GITHUB_ENV
           echo "NO_ET=TRUE" >> $GITHUB_ENV
       - name: Setup Singularity
-        uses: actions/checkout@v4
+        uses: actions/checkout@v5
         with:
           repository: hpcng/singularity
           ref: 'v3.7.1'
           path: 'singularity'
       - name: Setup GO
-        uses: actions/setup-go@v5
+        uses: actions/setup-go@v6
         with:
           go-version: '^1.13'
       - name: Install OS deps
@@ -122,13 +122,13 @@ jobs:
         run: |
           echo ${{ github.ref }}
           singularity --version
-      - uses: actions/checkout@v4
+      - uses: actions/checkout@v5
         with:
           fetch-depth: 0
       - name: Install the latest version of uv
         uses: astral-sh/setup-uv@v6
       - name: Set up Python ${{ matrix.python-version }}
-        uses: actions/setup-python@v5
+        uses: actions/setup-python@v6
         with:
           python-version: ${{ matrix.python-version }}
       - name: Install tox
@@ -158,7 +158,7 @@ jobs:
     steps:
     - name: Disable etelemetry
       run: echo "NO_ET=TRUE" >> $GITHUB_ENV
-    - uses: actions/checkout@v4
+    - uses: actions/checkout@v5
       with:
         fetch-depth: 0
     - name: Pull docker image
@@ -204,11 +204,11 @@ jobs:
   #   steps:
   #   - name: Disable etelemetry
   #     run: echo "NO_ET=TRUE" >> $GITHUB_ENV
-  #   - uses: actions/checkout@v4
+  #   - uses: actions/checkout@v5
   #   - name: Fetch tags
   #     run: git fetch --prune --unshallow
   #   - name: Set up Python ${{ matrix.python-version }}
-  #     uses: actions/setup-python@v5
+  #     uses: actions/setup-python@v6
   #     with:
   #       python-version: ${{ matrix.python-version }}
   #   - name: Install SGE
@@ -307,7 +307,7 @@ jobs:
         ps aux | grep xfce4-notifyd
         dbus-monitor --session &
         sleep 3
-    - uses: actions/checkout@v4
+    - uses: actions/checkout@v5
       with:
         fetch-depth: 0
     - name: Install Minconda
@@ -323,7 +323,7 @@ jobs:
         conda install -c conda-forge -c MRtrix3 mrtrix3 libstdcxx-ng
         mrconvert --version
     - name: Set up Python
-      uses: actions/setup-python@v5
+      uses: actions/setup-python@v6
       with:
         python-version: '3.x'
     - name: Install package
@@ -346,7 +346,7 @@ jobs:
       id-token: write
     steps:
     - name: Download dist
-      uses: actions/download-artifact@v4
+      uses: actions/download-artifact@v5
       with:
         name: Packages
         path: dist
@@ -359,7 +359,7 @@ jobs:
     if: github.event_name == 'release'
     steps:
     - name: Download docs
-      uses: actions/download-artifact@v4
+      uses: actions/download-artifact@v5
       with:
         name: docs
         path: docs-build
diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml
index d4fe6e63a..37d93a657 100644
--- a/.github/workflows/release.yml
+++ b/.github/workflows/release.yml
@@ -15,7 +15,7 @@ jobs:
     runs-on: ubuntu-latest
     if: "!contains(github.event.head_commit.message, 'ci skip') && !contains(github.event.head_commit.message, 'skip ci')"
     steps:
-      - uses: actions/checkout@v4
+      - uses: actions/checkout@v5
 
       - name: Prepare repository
         # Fetch full git history and tags
@@ -27,7 +27,7 @@ jobs:
         run: git config --local --unset http.https://github.com/.extraheader
 
       - name: Set up Python
-        uses: actions/setup-python@v5
+        uses: actions/setup-python@v6
         with:
           python-version: 3