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chore: add Python 3.13 wheel #258

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cfb5caf
add python 313 build
sameeul Jan 23, 2025
569b28e
update upload-artifacts
sameeul Jan 23, 2025
411d20c
Fix syntax
sameeul Jan 23, 2025
db7fa53
update libpng
sameeul Feb 4, 2025
bfe2392
exclude some libs in wheel repair
sameeul Feb 5, 2025
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10 changes: 5 additions & 5 deletions .github/workflows/build_cuda11_wheels.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -12,7 +12,7 @@ jobs:
matrix:
os: [windows-2019, ubuntu-20.04]
cibw_archs: ["auto64"]
cibw_build: ["cp39-*", "cp310-*", "cp311-*", "cp312-*"]
cibw_build: ["cp39", "cp310", "cp311", "cp312", "cp313"]

steps:
- uses: actions/checkout@v3
Expand Down Expand Up @@ -47,13 +47,13 @@ jobs:

- name: Install cibuildwheel
run: |
python -m pip install cibuildwheel==2.16.2 delvewheel wheel
python -m pip install cibuildwheel delvewheel wheel

- name: Building wheels
run: |
python -m cibuildwheel --output-dir dist
env:
CIBW_BUILD: ${{ matrix.cibw_build }}
CIBW_BUILD: ${{ matrix.cibw_build }}-*
CIBW_SKIP: "*musllinux*"
CIBW_BUILD_VERBOSITY: 3
CIBW_MANYLINUX_X86_64_IMAGE: manylinux2014
Expand All @@ -78,8 +78,8 @@ jobs:
CIBW_TEST_COMMAND: python -m pip check

- name: Upload Artifact
uses: actions/upload-artifact@v3
uses: actions/upload-artifact@v4
with:
name: nyxus-cuda11-wheels
name: nyxus-cuda11-wheels-${{ matrix.os }}-${{ matrix.cibw_archs }}-${{ matrix.cibw_build }}
path: dist/*.whl
retention-days: 1
10 changes: 5 additions & 5 deletions .github/workflows/build_cuda12_wheels.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -12,7 +12,7 @@ jobs:
matrix:
os: [windows-2019, ubuntu-20.04]
cibw_archs: ["auto64"]
cibw_build: ["cp39-*", "cp310-*", "cp311-*", "cp312-*"]
cibw_build: ["cp39", "cp310", "cp311", "cp312", "cp313"]

steps:
- uses: actions/checkout@v3
Expand Down Expand Up @@ -47,13 +47,13 @@ jobs:

- name: Install cibuildwheel
run: |
python -m pip install cibuildwheel==2.16.2 delvewheel wheel
python -m pip install cibuildwheel delvewheel wheel

- name: Building wheels
run: |
python -m cibuildwheel --output-dir dist
env:
CIBW_BUILD: ${{ matrix.cibw_build }}
CIBW_BUILD: ${{ matrix.cibw_build }}-*
CIBW_SKIP: "*musllinux*"
CIBW_BUILD_VERBOSITY: 3
CIBW_MANYLINUX_X86_64_IMAGE: manylinux2014
Expand All @@ -78,8 +78,8 @@ jobs:
CIBW_TEST_COMMAND: python -m pip check

- name: Upload Artifact
uses: actions/upload-artifact@v3
uses: actions/upload-artifact@v4
with:
name: nyxus-cuda12-wheels
name: nyxus-cuda12-wheels-${{ matrix.os }}-${{ matrix.cibw_archs }}-${{ matrix.cibw_build }}
path: dist/*.whl
retention-days: 1
24 changes: 12 additions & 12 deletions .github/workflows/build_wheels.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -14,7 +14,7 @@ jobs:
matrix:
os: [ubuntu-20.04, macos-13, windows-latest]
cibw_archs: ["auto64"]
cibw_build: ["cp39-*", "cp310-*", "cp311-*", "cp312-*"]
cibw_build: ["cp39", "cp310", "cp311", "cp312", "cp313"]

steps:
- uses: actions/checkout@v3
Expand All @@ -32,13 +32,13 @@ jobs:

- name: Install cibuildwheel
run: |
python -m pip install cibuildwheel==2.16.2 delvewheel wheel
python -m pip install cibuildwheel delvewheel wheel

- name: Building wheels
run: |
python -m cibuildwheel --output-dir dist
env:
CIBW_BUILD: ${{ matrix.cibw_build }}
CIBW_BUILD: ${{ matrix.cibw_build }}-*
CIBW_SKIP: "*musllinux*"
CIBW_BUILD_VERBOSITY: 3
CIBW_MANYLINUX_X86_64_IMAGE: manylinux2014
Expand All @@ -59,16 +59,16 @@ jobs:
CIBW_ENVIRONMENT_MACOS: REPAIR_LIBRARY_PATH="/tmp/nyxus_bld/local_install/lib:/tmp/nyxus_bld/local_install/lib64" PATH="$(brew --prefix llvm@16)/bin:$PATH" COMPILER="/usr/local/opt/llvm@16/bin/clang++" CFLAGS="-I /usr/local/include -I/usr/local/opt/llvm@16/include" CXXFLAGS="-I /usr/local/include -I/usr/local/opt/llvm@16/include" LDFLAGS="-L /usr/local/lib -L/usr/local/opt/llvm@16/lib -Wl,-rpath,/usr/local/opt/llvm@16/lib" CXX="/usr/local/opt/llvm@16/bin/clang++" CC="/usr/local/opt/llvm@16/bin/clang" NYXUS_DEP_DIR="/tmp/nyxus_bld/local_install"
CIBW_ENVIRONMENT_LINUX: LD_LIBRARY_PATH="/tmp/nyxus_bld/local_install/lib:/tmp/nyxus_bld/local_install/lib64:$LD_LIBRARY_PATH" NYXUS_DEP_DIR="/tmp/nyxus_bld/local_install"
CIBW_ENVIRONMENT_WINDOWS: PATH="C:\\TEMP\\nyxus_bld\\local_install\\bin;$PATH" NYXUS_DEP_DIR="C:\\TEMP\\nyxus_bld\\local_install"
CIBW_REPAIR_WHEEL_COMMAND_MACOS: DYLD_LIBRARY_PATH=$REPAIR_LIBRARY_PATH delocate-listdeps {wheel} && DYLD_LIBRARY_PATH=$REPAIR_LIBRARY_PATH delocate-wheel --require-archs {delocate_archs} -w {dest_dir} {wheel}
CIBW_REPAIR_WHEEL_COMMAND_MACOS: DYLD_LIBRARY_PATH=$REPAIR_LIBRARY_PATH delocate-listdeps {wheel} && DYLD_LIBRARY_PATH=$REPAIR_LIBRARY_PATH delocate-wheel --require-archs {delocate_archs} -w {dest_dir} {wheel} --exclude libzstd*.dylib --exclude liblzma*.dylib
CIBW_REPAIR_WHEEL_COMMAND_WINDOWS: "delvewheel repair -w {dest_dir} {wheel}"
CIBW_ARCHS: ${{ matrix.cibw_archs }}
CIBW_TEST_REQUIRES: numpy pandas pyarrow pytest bfio
CIBW_TEST_COMMAND: pytest -vv {project}/tests/python

- name: Upload Artifact
uses: actions/upload-artifact@v3
uses: actions/upload-artifact@v4
with:
name: nyxus-wheels
name: nyxus-wheels-${{ matrix.os }}-${{ matrix.cibw_archs }}-${{ matrix.cibw_build }}
path: dist/*.whl
retention-days: 1

Expand All @@ -82,7 +82,7 @@ jobs:
matrix:
os: [macos-13-xlarge]
cibw_archs: ["arm64"]
cibw_build: ["cp39-*", "cp310-*", "cp311-*", "cp312-*"]
cibw_build: ["cp39", "cp310", "cp311", "cp312"]

steps:
- uses: actions/checkout@v3
Expand All @@ -95,13 +95,13 @@ jobs:

- name: Install cibuildwheel
run: |
python -m pip install cibuildwheel==2.16.2 delocate wheel
python -m pip install cibuildwheel delocate wheel

- name: Building wheels
run: |
python -m cibuildwheel --output-dir dist
env:
CIBW_BUILD: ${{ matrix.cibw_build }}
CIBW_BUILD: ${{ matrix.cibw_build }}-*
CIBW_BUILD_VERBOSITY: 3
CIBW_ARCHS_MACOS: arm64
CIBW_BEFORE_ALL_MACOS: brew install llvm@16 &&
Expand All @@ -111,14 +111,14 @@ jobs:
cp -r local_install /tmp/nyxus_bld

CIBW_ENVIRONMENT_MACOS: REPAIR_LIBRARY_PATH="/tmp/nyxus_bld/local_install/lib:/tmp/nyxus_bld/local_install/lib64" PATH="/opt/homebrew/opt/llvm@16/bin:$PATH" COMPILER="/opt/homebrew/opt/llvm@16/bin/clang++" CFLAGS="-I/opt/homebrew/opt/llvm@16/include" CPPFLAGS="-I/opt/homebrew/opt/llvm@16/include" LDFLAGS="-L/opt/homebrew/opt/llvm@16/lib -L/opt/homebrew/opt/llvm@16/lib/c++ -Wl,-rpath,/opt/homebrew/opt/llvm@16/lib/c++" CXX="/opt/homebrew/opt/llvm@16/bin/clang++" CC="/opt/homebrew/opt/llvm@16/bin/clang" NYXUS_DEP_DIR="/tmp/nyxus_bld/local_install"
CIBW_REPAIR_WHEEL_COMMAND_MACOS: DYLD_LIBRARY_PATH=$REPAIR_LIBRARY_PATH delocate-listdeps {wheel} && DYLD_LIBRARY_PATH=$REPAIR_LIBRARY_PATH delocate-wheel --require-archs {delocate_archs} -w {dest_dir} {wheel}
CIBW_REPAIR_WHEEL_COMMAND_MACOS: DYLD_LIBRARY_PATH=$REPAIR_LIBRARY_PATH delocate-listdeps {wheel} && DYLD_LIBRARY_PATH=$REPAIR_LIBRARY_PATH delocate-wheel --require-archs {delocate_archs} -w {dest_dir} {wheel} --exclude libzstd*.dylib --exclude liblzma*.dylib
CIBW_ARCHS: ${{ matrix.cibw_archs }}
CIBW_TEST_REQUIRES: numpy pandas pyarrow pytest bfio
CIBW_TEST_COMMAND: pytest -vv {project}/tests/python

- name: Upload Artifact
uses: actions/upload-artifact@v3
uses: actions/upload-artifact@v4
with:
name: nyxus-wheels-apple-arm64
name: nyxus-wheels-${{ matrix.os }}-${{ matrix.cibw_archs }}-${{ matrix.cibw_build }}
path: dist/*.whl
retention-days: 1
6 changes: 3 additions & 3 deletions .github/workflows/publish_cuda11_pypi.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -14,7 +14,7 @@ jobs:
matrix:
os: [windows-2019, ubuntu-20.04]
cibw_archs: ["auto64"]
cibw_build: ["cp39-*", "cp310-*", "cp311-*", "cp312-*"]
cibw_build: ["cp39", "cp310", "cp311", "cp312", "cp313"]

steps:
- uses: actions/checkout@v3
Expand Down Expand Up @@ -49,13 +49,13 @@ jobs:

- name: Install cibuildwheel
run: |
python -m pip install cibuildwheel==2.16.2 delvewheel wheel
python -m pip install cibuildwheel delvewheel wheel

- name: Building wheels
run: |
python -m cibuildwheel --output-dir dist
env:
CIBW_BUILD: ${{ matrix.cibw_build }}
CIBW_BUILD: ${{ matrix.cibw_build }}-*
CIBW_SKIP: "*musllinux*"
CIBW_BUILD_VERBOSITY: 3
CIBW_MANYLINUX_X86_64_IMAGE: manylinux2014
Expand Down
6 changes: 3 additions & 3 deletions .github/workflows/publish_cuda12_pypi.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -14,7 +14,7 @@ jobs:
matrix:
os: [windows-2019, ubuntu-20.04]
cibw_archs: ["auto64"]
cibw_build: ["cp39-*", "cp310-*", "cp311-*", "cp312-*"]
cibw_build: ["cp39", "cp310", "cp311", "cp312", "cp313"]

steps:
- uses: actions/checkout@v3
Expand Down Expand Up @@ -49,13 +49,13 @@ jobs:

- name: Install cibuildwheel
run: |
python -m pip install cibuildwheel==2.16.2 delvewheel wheel
python -m pip install cibuildwheel delvewheel wheel

- name: Building wheels
run: |
python -m cibuildwheel --output-dir dist
env:
CIBW_BUILD: ${{ matrix.cibw_build }}
CIBW_BUILD: ${{ matrix.cibw_build }}-*
CIBW_SKIP: "*musllinux*"
CIBW_BUILD_VERBOSITY: 3
CIBW_BEFORE_ALL_LINUX: sed -i s/mirror.centos.org/vault.centos.org/g /etc/yum.repos.d/*.repo &&
Expand Down
12 changes: 6 additions & 6 deletions .github/workflows/publish_pypi.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -16,7 +16,7 @@ jobs:
matrix:
os: [ubuntu-20.04, macos-13, windows-latest]
cibw_archs: ["auto64"]
cibw_build: ["cp39-*", "cp310-*", "cp311-*", "cp312-*"]
cibw_build: ["cp39", "cp310", "cp311", "cp312", "cp313"]

steps:
- uses: actions/checkout@v3
Expand All @@ -34,13 +34,13 @@ jobs:

- name: Install cibuildwheel
run: |
python -m pip install cibuildwheel==2.16.2 delvewheel wheel
python -m pip install cibuildwheel delvewheel wheel

- name: Building wheels
run: |
python -m cibuildwheel --output-dir dist
env:
CIBW_BUILD: ${{ matrix.cibw_build }}
CIBW_BUILD: ${{ matrix.cibw_build }}-*
CIBW_SKIP: "*musllinux*"
CIBW_BUILD_VERBOSITY: 3
CIBW_MANYLINUX_X86_64_IMAGE: manylinux2014
Expand Down Expand Up @@ -85,7 +85,7 @@ jobs:
matrix:
os: [macos-13-xlarge]
cibw_archs: ["arm64"]
cibw_build: ["cp39-*", "cp310-*", "cp311-*", "cp312-*"]
cibw_build: ["cp39", "cp310", "cp311", "cp312", "cp313"]

steps:
- uses: actions/checkout@v3
Expand All @@ -98,13 +98,13 @@ jobs:

- name: Install cibuildwheel
run: |
python -m pip install cibuildwheel==2.16.2 delocate wheel
python -m pip install cibuildwheel delocate wheel

- name: Building wheels
run: |
python -m cibuildwheel --output-dir dist
env:
CIBW_BUILD: ${{ matrix.cibw_build }}
CIBW_BUILD: ${{ matrix.cibw_build }}-*
CIBW_BUILD_VERBOSITY: 3
CIBW_ARCHS_MACOS: arm64
CIBW_BEFORE_ALL_MACOS: brew install llvm@16 &&
Expand Down
6 changes: 3 additions & 3 deletions ci-utils/install_prereq_linux.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -153,9 +153,9 @@ make install -j4
cd ../../

if [[ $BULD_DCMTK_DEP -eq 1 ]]; then
curl -L https://github.com/glennrp/libpng/archive/refs/tags/v1.6.39.zip -o v1.6.39.zip
unzip v1.6.39.zip
cd libpng-1.6.39
curl -L https://github.com/glennrp/libpng/archive/refs/tags/v1.6.39.zip -o v1.6.46.zip
unzip v1.6.46.zip
cd libpng-1.6.46
mkdir build_man
cd build_man
cmake -DCMAKE_INSTALL_PREFIX=../../"$LOCAL_INSTALL_DIR"/ -DCMAKE_PREFIX_PATH=../../"$LOCAL_INSTALL_DIR"/ ..
Expand Down
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