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Merged
WardDeb merged 1 commit into from
Sep 6, 2026
Merged

chore(deps): bump the dependencies group across 1 directory with 5 updates #1453

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2 changes: 1 addition & 1 deletion .github/workflows/test_docs.yml
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Expand Up @@ -9,7 +9,7 @@ jobs:
name: Build Sphinx documentation
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@9c091bb21b7c1c1d1991bb908d89e4e9dddfe3e0 # v7.0.0
- uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
with:
persist-credentials: false
- uses: prefix-dev/setup-pixi@d3f436a425481402e6a95a1d1fc10331c708cd9e # v0.10.2
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2 changes: 1 addition & 1 deletion .github/workflows/test_planemo.yml
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Expand Up @@ -40,7 +40,7 @@ jobs:
- plotPCA
- plotProfiler
steps:
- uses: actions/checkout@9c091bb21b7c1c1d1991bb908d89e4e9dddfe3e0 # v7.0.0
- uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
with:
persist-credentials: false
- uses: conda-incubator/setup-miniconda@8ee1f361103df19b6f8c8655fd3967a8ecb162d5 # v4.0.1
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8 changes: 4 additions & 4 deletions .github/workflows/test_pytest.yml
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Expand Up @@ -9,10 +9,10 @@ jobs:
name: Check deeptools/galaxy/Rust versions stay in sync
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@9c091bb21b7c1c1d1991bb908d89e4e9dddfe3e0 # v7.0.0
- uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
with:
persist-credentials: false
- uses: actions/setup-python@ece7cb06caefa5fff74198d8649806c4678c61a1 # v6.3.0
- uses: actions/setup-python@5fda3b95a4ea91299a34e894583c3862153e4b97 # v7.0.0
with:
python-version: "3.x"
- name: Check version sync
Expand All @@ -24,7 +24,7 @@ jobs:
matrix:
pixi-env: [py312, py313, py314]
steps:
- uses: actions/checkout@9c091bb21b7c1c1d1991bb908d89e4e9dddfe3e0 # v7.0.0
- uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
with:
persist-credentials: false
- uses: prefix-dev/setup-pixi@d3f436a425481402e6a95a1d1fc10331c708cd9e # v0.10.2
Expand All @@ -45,7 +45,7 @@ jobs:
matrix:
pixi-env: [py312, py313, py314]
steps:
- uses: actions/checkout@9c091bb21b7c1c1d1991bb908d89e4e9dddfe3e0 # v7.0.0
- uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
with:
persist-credentials: false
- uses: prefix-dev/setup-pixi@d3f436a425481402e6a95a1d1fc10331c708cd9e # v0.10.2
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2 changes: 1 addition & 1 deletion .github/workflows/test_rust.yml
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Expand Up @@ -14,7 +14,7 @@ jobs:
name: run cargo test
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@9c091bb21b7c1c1d1991bb908d89e4e9dddfe3e0 # v7.0.0
- uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
with:
persist-credentials: false
- run: rustup update stable && rustup default stable
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26 changes: 13 additions & 13 deletions .github/workflows/wheels-preview.yml
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Expand Up @@ -20,10 +20,10 @@ jobs:
- runner: ubuntu-22.04
target: aarch64
steps:
- uses: actions/checkout@9c091bb21b7c1c1d1991bb908d89e4e9dddfe3e0 # v7.0.0
- uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
with:
persist-credentials: false
- uses: actions/setup-python@a26af69be951a213d495a4c3e4e4022e16d87065 # v5.6.0
- uses: actions/setup-python@5fda3b95a4ea91299a34e894583c3862153e4b97 # v7.0.0
with:
python-version: 3.x
- name: Set preview version
Expand Down Expand Up @@ -62,7 +62,7 @@ jobs:
gcc-aarch64-linux-gnu g++-aarch64-linux-gnu libc6-dev-arm64-cross crossbuild-essential-arm64
fi
- name: Upload wheels
uses: actions/upload-artifact@ea165f8d65b6e75b540449e92b4886f43607fa02 # v4.6.2
uses: actions/upload-artifact@043fb46d1a93c77aae656e7c1c64a875d1fc6a0a # v7.0.1
with:
name: wheels-linux-${{ matrix.platform.target }}
path: dist
Expand All @@ -77,10 +77,10 @@ jobs:
- runner: ubuntu-22.04
target: aarch64
steps:
- uses: actions/checkout@9c091bb21b7c1c1d1991bb908d89e4e9dddfe3e0 # v7.0.0
- uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
with:
persist-credentials: false
- uses: actions/setup-python@a26af69be951a213d495a4c3e4e4022e16d87065 # v5.6.0
- uses: actions/setup-python@5fda3b95a4ea91299a34e894583c3862153e4b97 # v7.0.0
with:
python-version: 3.x
- name: Set preview version
Expand Down Expand Up @@ -110,7 +110,7 @@ jobs:
apt-get install -y gcc-aarch64-linux-gnu g++-aarch64-linux-gnu
fi
- name: Upload wheels
uses: actions/upload-artifact@ea165f8d65b6e75b540449e92b4886f43607fa02 # v4.6.2
uses: actions/upload-artifact@043fb46d1a93c77aae656e7c1c64a875d1fc6a0a # v7.0.1
with:
name: wheels-musllinux-${{ matrix.platform.target }}
path: dist
Expand All @@ -125,10 +125,10 @@ jobs:
- runner: macos-latest
target: aarch64
steps:
- uses: actions/checkout@9c091bb21b7c1c1d1991bb908d89e4e9dddfe3e0 # v7.0.0
- uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
with:
persist-credentials: false
- uses: actions/setup-python@a26af69be951a213d495a4c3e4e4022e16d87065 # v5.6.0
- uses: actions/setup-python@5fda3b95a4ea91299a34e894583c3862153e4b97 # v7.0.0
with:
python-version: 3.x
- name: Set preview version
Expand All @@ -151,18 +151,18 @@ jobs:
target: ${{ matrix.platform.target }}
args: --release --out dist --find-interpreter
- name: Upload wheels
uses: actions/upload-artifact@ea165f8d65b6e75b540449e92b4886f43607fa02 # v4.6.2
uses: actions/upload-artifact@043fb46d1a93c77aae656e7c1c64a875d1fc6a0a # v7.0.1
with:
name: wheels-macos-${{ matrix.platform.target }}
path: dist

sdist:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@9c091bb21b7c1c1d1991bb908d89e4e9dddfe3e0 # v7.0.0
- uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
with:
persist-credentials: false
- uses: actions/setup-python@a26af69be951a213d495a4c3e4e4022e16d87065 # v5.6.0
- uses: actions/setup-python@5fda3b95a4ea91299a34e894583c3862153e4b97 # v7.0.0
with:
python-version: 3.x
- name: Set preview version
Expand All @@ -185,7 +185,7 @@ jobs:
command: sdist
args: --out dist
- name: Upload sdist
uses: actions/upload-artifact@ea165f8d65b6e75b540449e92b4886f43607fa02 # v4.6.2
uses: actions/upload-artifact@043fb46d1a93c77aae656e7c1c64a875d1fc6a0a # v7.0.1
with:
name: wheels-sdist
path: dist
Expand All @@ -195,7 +195,7 @@ jobs:
runs-on: ubuntu-latest
needs: [linux, musllinux, macos, sdist]
steps:
- uses: actions/download-artifact@d3f86a106a0bac45b974a628896c90dbdf5c8093 # v4.3.0
- uses: actions/download-artifact@3e5f45b2cfb9172054b4087a40e8e0b5a5461e7c # v8.0.1
with:
pattern: wheels-*
path: dist
Expand Down
26 changes: 13 additions & 13 deletions .github/workflows/wheels.yml
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Expand Up @@ -19,10 +19,10 @@ jobs:
- runner: ubuntu-22.04
target: aarch64
steps:
- uses: actions/checkout@9c091bb21b7c1c1d1991bb908d89e4e9dddfe3e0 # v7.0.0
- uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
with:
persist-credentials: false
- uses: actions/setup-python@a26af69be951a213d495a4c3e4e4022e16d87065 # v5.6.0
- uses: actions/setup-python@5fda3b95a4ea91299a34e894583c3862153e4b97 # v7.0.0
with:
python-version: 3.x
- name: Build wheels
Expand Down Expand Up @@ -62,7 +62,7 @@ jobs:
# fi
# env | grep SSL # for debugging when rust crate fails to find headers
- name: Upload wheels
uses: actions/upload-artifact@ea165f8d65b6e75b540449e92b4886f43607fa02 # v4.6.2
uses: actions/upload-artifact@043fb46d1a93c77aae656e7c1c64a875d1fc6a0a # v7.0.1
with:
name: wheels-linux-${{ matrix.platform.target }}
path: dist
Expand All @@ -77,10 +77,10 @@ jobs:
- runner: ubuntu-22.04
target: aarch64
steps:
- uses: actions/checkout@9c091bb21b7c1c1d1991bb908d89e4e9dddfe3e0 # v7.0.0
- uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
with:
persist-credentials: false
- uses: actions/setup-python@a26af69be951a213d495a4c3e4e4022e16d87065 # v5.6.0
- uses: actions/setup-python@5fda3b95a4ea91299a34e894583c3862153e4b97 # v7.0.0
with:
python-version: 3.x
- name: Build wheels
Expand All @@ -97,7 +97,7 @@ jobs:
apt-get install -y gcc-aarch64-linux-gnu g++-aarch64-linux-gnu
fi
- name: Upload wheels
uses: actions/upload-artifact@ea165f8d65b6e75b540449e92b4886f43607fa02 # v4.6.2
uses: actions/upload-artifact@043fb46d1a93c77aae656e7c1c64a875d1fc6a0a # v7.0.1
with:
name: wheels-musllinux-${{ matrix.platform.target }}
path: dist
Expand All @@ -112,10 +112,10 @@ jobs:
- runner: macos-latest
target: aarch64
steps:
- uses: actions/checkout@9c091bb21b7c1c1d1991bb908d89e4e9dddfe3e0 # v7.0.0
- uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
with:
persist-credentials: false
- uses: actions/setup-python@a26af69be951a213d495a4c3e4e4022e16d87065 # v5.6.0
- uses: actions/setup-python@5fda3b95a4ea91299a34e894583c3862153e4b97 # v7.0.0
with:
python-version: 3.x
- name: Build wheels
Expand All @@ -124,15 +124,15 @@ jobs:
target: ${{ matrix.platform.target }}
args: --release --out dist --find-interpreter
- name: Upload wheels
uses: actions/upload-artifact@ea165f8d65b6e75b540449e92b4886f43607fa02 # v4.6.2
uses: actions/upload-artifact@043fb46d1a93c77aae656e7c1c64a875d1fc6a0a # v7.0.1
with:
name: wheels-macos-${{ matrix.platform.target }}
path: dist

sdist:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@9c091bb21b7c1c1d1991bb908d89e4e9dddfe3e0 # v7.0.0
- uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
with:
persist-credentials: false
- name: Build sdist
Expand All @@ -141,7 +141,7 @@ jobs:
command: sdist
args: --out dist
- name: Upload sdist
uses: actions/upload-artifact@ea165f8d65b6e75b540449e92b4886f43607fa02 # v4.6.2
uses: actions/upload-artifact@043fb46d1a93c77aae656e7c1c64a875d1fc6a0a # v7.0.1
with:
name: wheels-sdist
path: dist
Expand All @@ -156,13 +156,13 @@ jobs:
contents: write
attestations: write
steps:
- uses: actions/download-artifact@d3f86a106a0bac45b974a628896c90dbdf5c8093 # v4.3.0
- uses: actions/download-artifact@3e5f45b2cfb9172054b4087a40e8e0b5a5461e7c # v8.0.1
with:
pattern: wheels-*
path: dist
merge-multiple: true
- name: Generate artifact attestation
uses: actions/attest-build-provenance@ef244123eb79f2f7a7e75d99086184180e6d0018 # v1.4.4
uses: actions/attest-build-provenance@4d101475d8b20a2381f78447822ac1eab6504dd8 # v4.2.2
with:
subject-path: "dist/*"
- name: Publish to PyPI
Expand Down
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