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Deprecated kcdf density from gsva fixing numba issue #24

Deprecated kcdf density from gsva fixing numba issue

Deprecated kcdf density from gsva fixing numba issue #24

Workflow file for this run

name: ci
on:
push:
branches: [ main ]
pull_request:
types: [ opened, synchronize, reopened ]
jobs:
build:
runs-on: ${{ matrix.os }}
defaults:
run:
shell: bash -e {0}
strategy:
fail-fast: false
matrix:
python: ['3.8', '3.9', '3.10', '3.11', '3.12']
os: [ubuntu-latest, macos-latest]
env:
OS: ${{ matrix.os }}
PYTHON: ${{ matrix.python }}
MODULE: decoupler
steps:
- name: Check out main
uses: actions/checkout@v4
- name: Setup Python ${{ matrix.python }}
uses: actions/setup-python@v5
with:
python-version: ${{ matrix.python }}
- name: System dependencies Linux
if: ${{ matrix.os == 'ubuntu-latest' }}
run: |
sudo apt-get update
sudo apt-get install -y libcurl4-openssl-dev
- name: System dependencies OSX
if: ${{ matrix.os == 'macos-latest' }}
run: |
brew install openssl
export LDFLAGS="-L/usr/local/opt/openssl@3/lib"
export CPPFLAGS="-I/usr/local/opt/openssl@3/include"
export PKG_CONFIG_PATH="/usr/local/opt/openssl@3/lib/pkgconfig"
- name: Install Poetry
uses: snok/install-poetry@v1
with:
virtualenvs-create: true
virtualenvs-in-project: true
installer-parallel: true
- name: Load cached venv
id: cached-poetry-dependencies
uses: actions/cache@v4
with:
path: .venv
key: venv-${{ runner.os }}-${{ matrix.python }}-${{ hashFiles('**/poetry.lock') }}
- name: Install dependencies
if: ${{ steps.cached-poetry-dependencies.outputs.cache-hit != 'true' }}
run: poetry install --no-interaction --no-root
- name: Install library
run: poetry install --no-interaction
- name: Lint with flake8
run: |
# stop the build if there are Python syntax errors or undefined names
poetry run flake8 $MODULE --count --select=E9,F63,F7,F82 --show-source --statistics
# exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
poetry run flake8 $MODULE --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
- name: Tests and test coverage
if: ${{ github.event_name == 'push' }}
run: |
poetry run pytest --cov --disable-warnings
- name: Tests
if: ${{ github.event_name == 'pull_request' }}
run: |
poetry run pytest --disable-warnings
- name: Upload coverage reports to Codecov
if: ${{ github.event_name == 'push' && matrix.os == 'ubuntu-latest' }}
run: |
curl -Os https://uploader.codecov.io/latest/linux/codecov
chmod +x codecov
./codecov -t ${CODECOV_TOKEN}