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Adding seed for reproducibility and sampling methods #114

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Adding seed for reproducibility and sampling methods

Adding seed for reproducibility and sampling methods #114

Workflow file for this run

.github/workflows/pytest.yml at 82838d1
name: tests
on: [push, pull_request]
jobs:
pytest-unit:
runs-on: ubuntu-latest
strategy:
matrix:
python-version: ["3.9"]
steps:
- name: System Dependencies
run: |
sudo apt install -y build-essential \
libcairo2-dev \
pkg-config \
python3-dev \
python3-openssl
- uses: actions/checkout@v3
- name: Set up Python ${{ matrix.python-version }}
uses: actions/setup-python@v4
with:
python-version: ${{ matrix.python-version }}
- name: Cache Python dependencies
uses: actions/cache@v3
with:
path: ~/.cache/pip
key: ${{ runner.os }}-pip-${{ hashFiles('pip/*.txt') }}
restore-keys: |
${{ runner.os }}-pip-
- name: Install dependencies
run: |
python3.9 -m pip install --upgrade pip
pip install -e .
if [ -f pip/cpu_requirements.txt ]; then pip install -r pip/cpu_requirements.txt; fi
if [ -f pip/dev_requirements.txt ]; then pip install -r pip/dev_requirements.txt; fi
- name: pytest
run: |
# python3.9 -m pytest --capture=sys --capture=fd --cov=atomsci/ -vv atomsci/ddm/test/unit
cd atomsci/ddm/test/unit && python3.9 -m pytest -n 2 --capture=sys --capture=fd --cov=atomsci/ -vv
env:
ENV: test
# - name: Upload coverage reports to Codecov
# uses: codecov/codecov-action@v3
# env:
# CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
pytest-integrative-1:
runs-on: ubuntu-latest
strategy:
matrix:
python-version: ["3.9"]
steps:
- name: System Dependencies
run: |
sudo apt install -y build-essential \
libcairo2-dev \
pkg-config \
python3-dev \
python3-openssl
- uses: actions/checkout@v3
- name: Set up Python ${{ matrix.python-version }}
uses: actions/setup-python@v4
with:
python-version: ${{ matrix.python-version }}
- name: Cache Python dependencies
uses: actions/cache@v3
with:
path: ~/.cache/pip
key: ${{ runner.os }}-pip-${{ hashFiles('pip/*.txt') }}
restore-keys: |
${{ runner.os }}-pip-
- name: Install dependencies
run: |
python3.9 -m pip install --upgrade pip
pip install -e .
if [ -f pip/cpu_requirements.txt ]; then pip install -r pip/cpu_requirements.txt; fi
if [ -f pip/dev_requirements.txt ]; then pip install -r pip/dev_requirements.txt; fi
- name: pytest
run: |
# TODO: Run this test with pytest for paralell testing
# python3.9 -m pytest -n 2 --capture=sys --capture=fd --cov=atomsci/ -vv atomsci/ddm/test/integrative
cd atomsci/ddm/test/integrative && ./integrative_batch_chunk_tests 0
env:
ENV: test
# - name: Upload coverage reports to Codecov
# uses: codecov/codecov-action@v3
# env:
# CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
pytest-integrative-2:
runs-on: ubuntu-latest
strategy:
matrix:
python-version: ["3.9"]
steps:
- name: System Dependencies
run: |
sudo apt install -y build-essential \
libcairo2-dev \
pkg-config \
python3-dev \
python3-openssl
- uses: actions/checkout@v3
- name: Set up Python ${{ matrix.python-version }}
uses: actions/setup-python@v4
with:
python-version: ${{ matrix.python-version }}
- name: Cache Python dependencies
uses: actions/cache@v3
with:
path: ~/.cache/pip
key: ${{ runner.os }}-pip-${{ hashFiles('pip/*.txt') }}
restore-keys: |
${{ runner.os }}-pip-
- name: Install dependencies
run: |
python3.9 -m pip install --upgrade pip
pip install -e .
if [ -f pip/cpu_requirements.txt ]; then pip install -r pip/cpu_requirements.txt; fi
if [ -f pip/dev_requirements.txt ]; then pip install -r pip/dev_requirements.txt; fi
- name: pytest
run: |
# TODO: Run this test with pytest for paralell testing
# python3.9 -m pytest -n 2 --capture=sys --capture=fd --cov=atomsci/ -vv atomsci/ddm/test/integrative
cd atomsci/ddm/test/integrative && ./integrative_batch_chunk_tests 1
env:
ENV: test
# - name: Upload coverage reports to Codecov
# uses: codecov/codecov-action@v3
# env:
# CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
pytest-integrative-3:
runs-on: ubuntu-latest
strategy:
matrix:
python-version: ["3.9"]
steps:
- name: System Dependencies
run: |
sudo apt install -y build-essential \
libcairo2-dev \
pkg-config \
python3-dev \
python3-openssl
- uses: actions/checkout@v3
- name: Set up Python ${{ matrix.python-version }}
uses: actions/setup-python@v4
with:
python-version: ${{ matrix.python-version }}
- name: Cache Python dependencies
uses: actions/cache@v3
with:
path: ~/.cache/pip
key: ${{ runner.os }}-pip-${{ hashFiles('pip/*.txt') }}
restore-keys: |
${{ runner.os }}-pip-
- name: Install dependencies
run: |
python3.9 -m pip install --upgrade pip
pip install -e .
if [ -f pip/cpu_requirements.txt ]; then pip install -r pip/cpu_requirements.txt; fi
if [ -f pip/dev_requirements.txt ]; then pip install -r pip/dev_requirements.txt; fi
- name: pytest
run: |
# TODO: Run this test with pytest for paralell testing
# python3.9 -m pytest -n 2 --capture=sys --capture=fd --cov=atomsci/ -vv atomsci/ddm/test/integrative
cd atomsci/ddm/test/integrative && ./integrative_batch_chunk_tests 2
env:
ENV: test
# - name: Upload coverage reports to Codecov
# uses: codecov/codecov-action@v3
# env:
# CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
pytest-integrative-4:
runs-on: ubuntu-latest
strategy:
matrix:
python-version: ["3.9"]
steps:
- name: System Dependencies
run: |
sudo apt install -y build-essential \
libcairo2-dev \
pkg-config \
python3-dev \
python3-openssl
- uses: actions/checkout@v3
- name: Set up Python ${{ matrix.python-version }}
uses: actions/setup-python@v4
with:
python-version: ${{ matrix.python-version }}
- name: Cache Python dependencies
uses: actions/cache@v3
with:
path: ~/.cache/pip
key: ${{ runner.os }}-pip-${{ hashFiles('pip/*.txt') }}
restore-keys: |
${{ runner.os }}-pip-
- name: Install dependencies
run: |
python3.9 -m pip install --upgrade pip
pip install -e .
if [ -f pip/cpu_requirements.txt ]; then pip install -r pip/cpu_requirements.txt; fi
if [ -f pip/dev_requirements.txt ]; then pip install -r pip/dev_requirements.txt; fi
- name: pytest
run: |
# TODO: Run this test with pytest for paralell testing
# python3.9 -m pytest -n 2 --capture=sys --capture=fd --cov=atomsci/ -vv atomsci/ddm/test/integrative
cd atomsci/ddm/test/integrative && ./integrative_batch_chunk_tests 3
env:
ENV: test
# - name: Upload coverage reports to Codecov
# uses: codecov/codecov-action@v3
# env:
# CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}