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victorlin merged 2 commits into from
Jun 23, 2026
Merged

build(deps): bump actions/checkout from 6 to 7 #172

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4cf3677
build(deps): bump actions/checkout from 6 to 7
dependabot[bot] Jun 22, 2026
408c5fe
Update template files
victorlin Jun 23, 2026
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4 changes: 2 additions & 2 deletions .github/workflows/ci.yaml
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Original file line number Diff line number Diff line change
Expand Up @@ -19,7 +19,7 @@ jobs:
- windows-latest
runs-on: ${{ matrix.os }}
steps:
- uses: actions/checkout@v6
- uses: actions/checkout@v7
- uses: ./actions/setup-nextstrain-cli
- run: nextstrain version --verbose

Expand Down Expand Up @@ -96,7 +96,7 @@ jobs:
lint:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v6
- uses: actions/checkout@v7
- run: make check
- run: ./devel/check-readme
- uses: ./actions/shellcheck
2 changes: 1 addition & 1 deletion .github/workflows/docs-ci.yaml
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Original file line number Diff line number Diff line change
Expand Up @@ -73,7 +73,7 @@ jobs:
~~
exit 1

- uses: actions/checkout@v6
- uses: actions/checkout@v7
with:
repository: ${{ inputs.repo }}

Expand Down
14 changes: 7 additions & 7 deletions .github/workflows/pathogen-repo-build.yaml
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Original file line number Diff line number Diff line change
Expand Up @@ -250,14 +250,14 @@ jobs:
runs-on: ubuntu-latest
steps:
- name: Checkout build repository
uses: actions/checkout@v6
uses: actions/checkout@v7
with:
repository: ${{ inputs.repo }}
- # Need to run this after the build repo is cloned so that cloning the
# build repo does not overwrite the .git dir and remove the extra support files
# that we need from nextstrain/.github repo
name: Checkout ${{ needs.workflow-context.outputs.repository }} (sha ${{ needs.workflow-context.outputs.sha }})
uses: actions/checkout@v6
uses: actions/checkout@v7
with:
repository: ${{ needs.workflow-context.outputs.repository }}
ref: ${{ needs.workflow-context.outputs.sha }}
Expand Down Expand Up @@ -379,7 +379,7 @@ jobs:
# build repo does not overwrite the .git dir and remove the extra support files
# that we need from nextstrain/.github repo
name: Checkout ${{ needs.workflow-context.outputs.repository }} (sha ${{ needs.workflow-context.outputs.sha }})
uses: actions/checkout@v6
uses: actions/checkout@v7
with:
repository: ${{ needs.workflow-context.outputs.repository }}
ref: ${{ needs.workflow-context.outputs.sha }}
Expand Down Expand Up @@ -469,7 +469,7 @@ jobs:
# build repo does not overwrite the .git dir and remove the extra support files
# that we need from nextstrain/.github repo
name: Checkout ${{ needs.workflow-context.outputs.repository }} (sha ${{ needs.workflow-context.outputs.sha }})
uses: actions/checkout@v6
uses: actions/checkout@v7
with:
repository: ${{ needs.workflow-context.outputs.repository }}
ref: ${{ needs.workflow-context.outputs.sha }}
Expand Down Expand Up @@ -560,7 +560,7 @@ jobs:
# build repo does not overwrite the .git dir and remove the extra support files
# that we need from nextstrain/.github repo
name: Checkout ${{ needs.workflow-context.outputs.repository }} (sha ${{ needs.workflow-context.outputs.sha }})
uses: actions/checkout@v6
uses: actions/checkout@v7
with:
repository: ${{ needs.workflow-context.outputs.repository }}
ref: ${{ needs.workflow-context.outputs.sha }}
Expand Down Expand Up @@ -651,7 +651,7 @@ jobs:
# build repo does not overwrite the .git dir and remove the extra support files
# that we need from nextstrain/.github repo
name: Checkout ${{ needs.workflow-context.outputs.repository }} (sha ${{ needs.workflow-context.outputs.sha }})
uses: actions/checkout@v6
uses: actions/checkout@v7
with:
repository: ${{ needs.workflow-context.outputs.repository }}
ref: ${{ needs.workflow-context.outputs.sha }}
Expand Down Expand Up @@ -752,7 +752,7 @@ jobs:
# build repo does not overwrite the .git dir and remove the extra support files
# that we need from nextstrain/.github repo
name: Checkout ${{ needs.workflow-context.outputs.repository }} (sha ${{ needs.workflow-context.outputs.sha }})
uses: actions/checkout@v6
uses: actions/checkout@v7
with:
repository: ${{ needs.workflow-context.outputs.repository }}
ref: ${{ needs.workflow-context.outputs.sha }}
Expand Down
4 changes: 2 additions & 2 deletions .github/workflows/pathogen-repo-build.yaml.in
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Original file line number Diff line number Diff line change
Expand Up @@ -211,7 +211,7 @@ jobs:
runs-on: ubuntu-latest
steps:
- name: Checkout build repository
uses: actions/checkout@v6
uses: actions/checkout@v7
with:
repository: ${{ inputs.repo }}

Expand All @@ -220,7 +220,7 @@ jobs:
# that we need from nextstrain/.github repo
- &checkout-workflow-support
name: Checkout ${{ needs.workflow-context.outputs.repository }} (sha ${{ needs.workflow-context.outputs.sha }})
uses: actions/checkout@v6
uses: actions/checkout@v7
with:
repository: ${{ needs.workflow-context.outputs.repository }}
ref: ${{ needs.workflow-context.outputs.sha }}
Expand Down
4 changes: 2 additions & 2 deletions .github/workflows/pathogen-repo-ci.yaml
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Original file line number Diff line number Diff line change
Expand Up @@ -256,15 +256,15 @@ jobs:
' | tee -a "$GITHUB_ENV"

- name: Checkout ${{ inputs.repo }}
uses: actions/checkout@v6
uses: actions/checkout@v7
with:
repository: ${{ inputs.repo }}
ref: ${{ inputs.ref }}
# Need to run this after the build repo is cloned so that cloning the
# build repo does not overwrite the .git dir and remove the extra support files
# that we need from nextstrain/.github repo
- name: Checkout ${{ needs.workflow-context.outputs.repository }} (sha ${{ needs.workflow-context.outputs.sha }})
uses: actions/checkout@v6
uses: actions/checkout@v7
with:
repository: ${{ needs.workflow-context.outputs.repository }}
ref: ${{ needs.workflow-context.outputs.sha }}
Expand Down
4 changes: 2 additions & 2 deletions .github/workflows/pathogen-repo-ci.yaml.in
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Original file line number Diff line number Diff line change
Expand Up @@ -231,7 +231,7 @@ jobs:
| tee -a "$GITHUB_ENV"

- name: Checkout ${{ inputs.repo }}
uses: actions/checkout@v6
uses: actions/checkout@v7
with:
repository: ${{ inputs.repo }}
ref: ${{ inputs.ref }}
Expand All @@ -240,7 +240,7 @@ jobs:
# build repo does not overwrite the .git dir and remove the extra support files
# that we need from nextstrain/.github repo
- name: Checkout ${{ needs.workflow-context.outputs.repository }} (sha ${{ needs.workflow-context.outputs.sha }})
uses: actions/checkout@v6
uses: actions/checkout@v7
with:
repository: ${{ needs.workflow-context.outputs.repository }}
ref: ${{ needs.workflow-context.outputs.sha }}
Expand Down
2 changes: 1 addition & 1 deletion .github/workflows/sync-rtd-redirects.yaml
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Original file line number Diff line number Diff line change
Expand Up @@ -31,7 +31,7 @@ jobs:
sync:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v6
- uses: actions/checkout@v7
- uses: actions/setup-python@v6

- name: Upgrade Python toolchain
Expand Down
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