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Add resume for samples, delay indexing on ancestor matching batches a… #261

Add resume for samples, delay indexing on ancestor matching batches a…

Add resume for samples, delay indexing on ancestor matching batches a… #261

Workflow file for this run

name: Build and test wheels
on:
push:
branches:
- main
- test
tags:
- '*'
release:
types: [published]
jobs:
OSX:
runs-on: macos-latest
strategy:
matrix:
python: [3.7, 3.8, 3.9, "3.10"]
steps:
- name: Checkout
uses: actions/checkout@v3
with:
submodules: true
- name: Set up Python ${{ matrix.python }}
uses: actions/setup-python@v4
with:
python-version: ${{ matrix.python }}
- name: Install deps
run: |
pip install --upgrade pip build delocate
- name: Build Wheel
run: |
python -m build --wheel
- name: Delocate to bundle dynamic libs
run: |
delocate-wheel -v dist/*.whl
- name: Upload Wheels
uses: actions/upload-artifact@v3
with:
name: osx-wheel-${{ matrix.python }}
path: dist
windows:
runs-on: windows-latest
strategy:
matrix:
python: [3.7, 3.8, 3.9, "3.10"]
wordsize: [64]
steps:
- name: Checkout
uses: actions/checkout@v3
with:
submodules: true
- name: Install deps
env:
PYTHON: "py -${{ matrix.python }}-${{ matrix.wordsize }}"
shell: bash
run: |
set -ex
${PYTHON} -m pip install --upgrade pip build
- name: Build Wheel
env:
PYTHON: "py -${{ matrix.python }}-${{ matrix.wordsize }}"
shell: bash
run: |
set -ex
${PYTHON} -m build --wheel
- name: Upload Wheels
uses: actions/upload-artifact@v3
with:
name: win-wheel-${{ matrix.python }}-${{ matrix.wordsize }}
path: dist
manylinux:
runs-on: ubuntu-latest
steps:
- name: Checkout
uses: actions/checkout@v3
with:
submodules: true
- name: Set up Python 3.8
uses: actions/setup-python@v4
with:
python-version: 3.8
- name: Build sdist
shell: bash
run: |
pip install --upgrade pip build
python -m build --sdist
- name: Upload sdist
uses: actions/upload-artifact@v3
with:
name: sdist
path: dist
- name: Build wheels in docker
shell: bash
run: |
docker run --rm -v `pwd`:/project -w /project quay.io/pypa/manylinux2010_x86_64 bash .github/workflows/docker/buildwheel.sh
- name: Upload Wheels
uses: actions/upload-artifact@v3
with:
name: linux-wheels
path: dist/wheelhouse
OSX-test:
needs: ['OSX']
runs-on: macos-latest
strategy:
matrix:
python: [3.7, 3.8, 3.9, "3.10"]
steps:
- name: Download wheels
uses: actions/download-artifact@v3
with:
name: osx-wheel-${{ matrix.python }}
- name: Set up Python ${{ matrix.python }}
uses: actions/setup-python@v4
with:
python-version: ${{ matrix.python }}
- name: Install wheel and test
run: |
python -VV
# Install the local wheel
pip install tsinfer --only-binary tsinfer -f .
python -c "import tsinfer"
windows-test:
needs: ['windows']
runs-on: windows-latest
strategy:
matrix:
python: [3.7, 3.8, 3.9, "3.10"]
wordsize: [64]
steps:
- name: Download wheels
uses: actions/download-artifact@v3
with:
name: win-wheel-${{ matrix.python }}-${{ matrix.wordsize }}
- name: Set up Python ${{ matrix.python }}
uses: actions/setup-python@v4
with:
python-version: ${{ matrix.python }}
- name: Install wheel and test
run: |
python -VV
#patch-ng required to build lmdb
pip install patch-ng
# Install the local wheel
pip install tsinfer --only-binary tsinfer -f .
python -c "import tsinfer"
manylinux-test:
runs-on: ubuntu-latest
needs: ['manylinux']
strategy:
matrix:
python: [3.7, 3.8, 3.9, "3.10"]
steps:
- name: Download wheels
uses: actions/download-artifact@v3
with:
name: linux-wheels
- name: Set up Python
uses: actions/setup-python@v4
with:
python-version: ${{ matrix.python }}
- name: Install wheel and test
run: |
python -VV
# Install the local wheel
pip install tsinfer --only-binary tsinfer -f .
python -c "import tsinfer"
PyPI_Upload:
runs-on: ubuntu-latest
needs: ['windows-test', 'OSX-test', 'manylinux-test']
steps:
- name: Download all
uses: actions/download-artifact@v3
- name: Move to dist
run: |
mkdir dist
cp */*.{whl,gz} dist/.
- name: Publish distribution to Test PyPI
if: github.event_name == 'push' && startsWith(github.event.ref, 'refs/tags')
uses: pypa/gh-action-pypi-publish@master
with:
password: ${{ secrets.test_pypi_password }}
repository_url: https://test.pypi.org/legacy/
- name: Publish distribution to PRODUCTION PyPI
if: github.event_name == 'release'
uses: pypa/gh-action-pypi-publish@master
with:
password: ${{ secrets.pypi_password }}