Merge pull request #1202 from setup-nextflow

ci: Remove Nextflow caching
nf-core · Aug 31, 2023 · 159f0e3 · 159f0e3
2 parents d4fa068 + 83b2647
commit 159f0e3
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Showing 4 changed files with 10 additions and 30 deletions.
diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
@@ -66,7 +66,7 @@ jobs:
           done;
 
       - name: Set up Python
-        uses: actions/setup-python@v2
+        uses: actions/setup-python@v4
         with:
           python-version: "3.x"
 
@@ -80,15 +80,8 @@ jobs:
       - name: Install Python dependencies
         run: python -m pip install --upgrade pip pytest-workflow
 
-      - uses: actions/cache@v3
-        with:
-          path: /usr/local/bin/nextflow
-          key: ${{ runner.os }}
-          restore-keys: |
-            ${{ runner.os }}-nextflow-
-
       - name: Install Nextflow ${{ matrix.NXF_VER }}
-        uses: nf-core/setup-nextflow@v1.2.0
+        uses: nf-core/setup-nextflow@v1
         with:
           version: "${{ matrix.NXF_VER }}"
 
@@ -111,7 +104,7 @@ jobs:
         run: conda clean -a
 
       - name: Run pipeline with tests settings
-        uses: Wandalen/wretry.action@v1.0.11
+        uses: Wandalen/wretry.action@v1
         with:
           command: TMPDIR=~ PROFILE=${{ matrix.profile }} pytest --tag ${{ matrix.test }} --symlink --kwdof --git-aware --color=yes
           attempt_limit: 3

diff --git a/.github/workflows/pytest-workflow.yml b/.github/workflows/pytest-workflow.yml
@@ -102,7 +102,7 @@ jobs:
           done;
 
       - name: Set up Python
-        uses: actions/setup-python@v2
+        uses: actions/setup-python@v4
         with:
           python-version: "3.x"
 
@@ -116,15 +116,8 @@ jobs:
       - name: Install Python dependencies
         run: python -m pip install --upgrade pip pytest-workflow cryptography
 
-      - uses: actions/cache@v3
-        with:
-          path: /usr/local/bin/nextflow
-          key: ${{ runner.os }}
-          restore-keys: |
-            ${{ runner.os }}-nextflow-
-
       - name: Install Nextflow ${{ matrix.NXF_VER }}
-        uses: nf-core/setup-nextflow@v1.2.0
+        uses: nf-core/setup-nextflow@v1
         with:
           version: "${{ matrix.NXF_VER }}"
 
@@ -159,7 +152,7 @@ jobs:
         run: conda clean -a
 
       - name: Run pytest-workflow
-        uses: Wandalen/wretry.action@v1.0.11
+        uses: Wandalen/wretry.action@v1
         with:
           command: TMPDIR=~ PROFILE=${{ matrix.profile }} pytest --tag ${{ matrix.tags }} --symlink --kwdof --git-aware --color=yes
           attempt_limit: 3

diff --git a/.github/workflows/pytest-workflow_release.yml b/.github/workflows/pytest-workflow_release.yml
@@ -84,7 +84,7 @@ jobs:
           done;
 
       - name: Set up Python
-        uses: actions/setup-python@v2
+        uses: actions/setup-python@v4
         with:
           python-version: "3.x"
 
@@ -98,15 +98,8 @@ jobs:
       - name: Install Python dependencies
         run: python -m pip install --upgrade pip pytest-workflow
 
-      - uses: actions/cache@v3
-        with:
-          path: /usr/local/bin/nextflow
-          key: ${{ runner.os }}
-          restore-keys: |
-            ${{ runner.os }}-nextflow-
-
       - name: Install Nextflow ${{ matrix.NXF_VER }}
-        uses: nf-core/setup-nextflow@v1.2.0
+        uses: nf-core/setup-nextflow@v1
         with:
           version: "${{ matrix.NXF_VER }}"
 
@@ -129,7 +122,7 @@ jobs:
         run: conda clean -a
 
       - name: Run pytest-workflow
-        uses: Wandalen/wretry.action@v1.0.11
+        uses: Wandalen/wretry.action@v1
         with:
           command: TMPDIR=~ PROFILE=${{ matrix.profile }} pytest --tag ${{ matrix.tags }} --symlink --kwdof --git-aware --color=yes
           attempt_limit: 3

diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -52,6 +52,7 @@ Rapaselet is a delta formed by the Rapaätno river between the Bielloriehppe mas
 - [#1184](https://github.com/nf-core/sarek/pull/1184) - Fix issue with duplicated variants in VCF from Sentieon-based joint-germline variant-calling with VQSR. (Corresponding to [#966](https://github.com/nf-core/sarek/issues/966) for GATK.)
 - [#1192](https://github.com/nf-core/sarek/pull/1192) - Add `ASCATprofile.png` to ASCAT output docs
 - [#1197](https://github.com/nf-core/sarek/pull/1197) - Improve `tower.yml` file to display reports in `Tower` ([#1190](https://github.com/nf-core/sarek/issues/1190))
+- [#1202](https://github.com/nf-core/sarek/pull/1202) - Remove GitHub action step that caches Nextflow. Also bump other out of date actions.
 
 ### Dependencies