From 3037b0f2fae62d61dec6aed179b8b29a4e25db61 Mon Sep 17 00:00:00 2001 From: "dependabot[bot]" <49699333+dependabot[bot]@users.noreply.github.com> Date: Wed, 1 Jul 2026 11:15:27 +0000 Subject: [PATCH] chore(deps): bump the github-actions group with 4 updates Bumps the github-actions group with 4 updates: [actions/checkout](https://github.com/actions/checkout), [snakemake/snakemake-github-action](https://github.com/snakemake/snakemake-github-action), [actions/upload-artifact](https://github.com/actions/upload-artifact) and [actions/download-artifact](https://github.com/actions/download-artifact). Updates `actions/checkout` from 6 to 7 - [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/v6...v7) Updates `snakemake/snakemake-github-action` from 2.1.1 to 2.1.2 - [Release notes](https://github.com/snakemake/snakemake-github-action/releases) - [Changelog](https://github.com/snakemake/snakemake-github-action/blob/master/CHANGELOG.md) - [Commits](https://github.com/snakemake/snakemake-github-action/compare/v2.1.1...v2.1.2) Updates `actions/upload-artifact` from 4 to 7 - [Release notes](https://github.com/actions/upload-artifact/releases) - [Commits](https://github.com/actions/upload-artifact/compare/v4...v7) Updates `actions/download-artifact` from 4 to 8 - [Release notes](https://github.com/actions/download-artifact/releases) - [Commits](https://github.com/actions/download-artifact/compare/v4...v8) --- updated-dependencies: - dependency-name: actions/checkout dependency-version: '7' dependency-type: direct:production update-type: version-update:semver-major dependency-group: github-actions - dependency-name: snakemake/snakemake-github-action dependency-version: 2.1.2 dependency-type: direct:production update-type: version-update:semver-patch dependency-group: github-actions - dependency-name: actions/upload-artifact dependency-version: '7' dependency-type: direct:production update-type: version-update:semver-major dependency-group: github-actions - dependency-name: actions/download-artifact dependency-version: '8' dependency-type: direct:production update-type: version-update:semver-major dependency-group: github-actions ... Signed-off-by: dependabot[bot] --- .github/workflows/main.yml | 22 +++++++++++----------- 1 file changed, 11 insertions(+), 11 deletions(-) diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml index 6489f19..7c83a03 100644 --- a/.github/workflows/main.yml +++ b/.github/workflows/main.yml @@ -18,7 +18,7 @@ jobs: outputs: samples: ${{ steps.set-matrix.outputs.samples }} steps: - - uses: actions/checkout@v6 + - uses: actions/checkout@v7 with: ref: ${{ github.event.pull_request.head.sha }} @@ -59,12 +59,12 @@ jobs: docker-images: false - name: Check out repository code - uses: actions/checkout@v6 + uses: actions/checkout@v7 with: ref: ${{ github.event.pull_request.head.sha }} - name: Download reference genome - uses: snakemake/snakemake-github-action@v2.1.1 + uses: snakemake/snakemake-github-action@v2.1.2 with: directory: "." snakefile: "workflow/Snakefile" @@ -74,7 +74,7 @@ jobs: pip install snakemake-storage-plugin-http - name: Download truthsets - uses: snakemake/snakemake-github-action@v2.1.1 + uses: snakemake/snakemake-github-action@v2.1.2 with: directory: "." snakefile: "workflow/Snakefile" @@ -84,7 +84,7 @@ jobs: pip install snakemake-storage-plugin-http - name: Fix modification dates - uses: snakemake/snakemake-github-action@v2.1.1 + uses: snakemake/snakemake-github-action@v2.1.2 with: directory: "." snakefile: "workflow/Snakefile" @@ -95,7 +95,7 @@ jobs: pip install snakemake-storage-plugin-http - name: Run analysis - uses: snakemake/snakemake-github-action@v2.1.1 + uses: snakemake/snakemake-github-action@v2.1.2 env: GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} with: @@ -113,7 +113,7 @@ jobs: pip install snakemake-logger-plugin-github-status - name: Upload results - uses: actions/upload-artifact@v4 + uses: actions/upload-artifact@v7 with: name: ${{ matrix.sample }} # Upload the workflow outputs (keeps the on-disk paths Snakemake expects). @@ -130,12 +130,12 @@ jobs: env: SNAKEMAKE_STORAGE_ZENODO_ACCESS_TOKEN: ${{ secrets.SNAKEMAKE_STORAGE_ZENODO_ACCESS_TOKEN }} steps: - - uses: actions/checkout@v6 + - uses: actions/checkout@v7 with: ref: ${{ github.event.pull_request.head.sha }} - name: Download all results - uses: actions/download-artifact@v4 + uses: actions/download-artifact@v8 with: # Merge all benchmark artifacts back into the workspace so Snakemake sees `results/`. path: results/ @@ -144,7 +144,7 @@ jobs: - run: tree -L 6 - name: Create report - uses: snakemake/snakemake-github-action@v2.1.1 + uses: snakemake/snakemake-github-action@v2.1.2 with: directory: "." snakefile: "workflow/Snakefile" @@ -154,7 +154,7 @@ jobs: pip install snakemake-storage-plugin-http - name: Upload final report - uses: actions/upload-artifact@v4 + uses: actions/upload-artifact@v7 with: name: report path: report.zip