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Bump codecov/codecov-action from 3 to 4 #304

Bump codecov/codecov-action from 3 to 4

Bump codecov/codecov-action from 3 to 4 #304

Workflow file for this run

name: ci
on:
push:
branches:
- "master"
pull_request:
branches:
- "master"
defaults:
run:
shell: bash -l {0}
jobs:
test:
runs-on: ${{ matrix.os }}
strategy:
fail-fast: false
matrix:
os:
- macOS-latest
- ubuntu-latest
python-version:
- "3.8"
- "3.9"
env:
CI_OS: ${{ matrix.os }}
PYVER: ${{ matrix.python-version }}
PACKAGE: forcebalance
steps:
- name: Checkout
uses: actions/checkout@v3
- name: Install dependencies with Miniconda
uses: conda-incubator/setup-miniconda@v2
with:
python-version: ${{ matrix.python-version }}
mamba-version: "*"
activate-environment: forcebalance-test
environment-file: devtools/conda-envs/test_env.yaml
auto-activate-base: false
- name: Additional info about the build
shell: bash
run: |
uname -a
df -h
ulimit -a
- name: Environment Information
run: |
conda info --all
conda list
# Need to replace ndcctools with this block
# - name: Install Work Queue
# run: |
# wget https://raw.githubusercontent.com/leeping/forcebalance/master/tools/install-cctools.sh
# bash install-cctools.sh
# echo "Checking for Work Queue import; if successful, no message will be printed"
# python -c "import work_queue"
# export PATH="$GITHUB_WORKSPACE/opt/cctools/current/bin:$PATH"
- name: Install Tinker
run: |
if [[ "$CI_OS" == 'ubuntu-latest' ]]; then
wget https://dasher.wustl.edu/tinker/downloads/bin-linux-8.8.3.tar.gz -O tinker.tar.gz
fi
if [[ "$CI_OS" == 'macOS-latest' ]]; then
wget https://dasher.wustl.edu/tinker/downloads/bin-macos-8.8.3.tar.gz -O tinker.tar.gz
fi
tar xvzf tinker.tar.gz &> untar.log
mkdir -p $GITHUB_WORKSPACE/opt/tinker/8.8.3
if [[ "$CI_OS" == 'ubuntu-latest' ]]; then
mv bin-linux $GITHUB_WORKSPACE/opt/tinker/8.8.3/bin
fi
if [[ "$CI_OS" == 'macOS-latest' ]]; then
mv bin-macos $GITHUB_WORKSPACE/opt/tinker/8.8.3/bin
fi
echo "$GITHUB_WORKSPACE/opt/tinker/8.8.3/bin" >> $GITHUB_PATH
- name: Install Gromacs
run: |
wget http://ftp.gromacs.org/pub/gromacs/gromacs-5.1.5.tar.gz
tar xvzf gromacs-5.1.5.tar.gz
cd gromacs-5.1.5
cp -r cmake cmake_s
cd cmake
cmake -DCMAKE_INSTALL_PREFIX=$GITHUB_WORKSPACE/opt/gromacs/5.1.5 -DGMX_DOUBLE=ON -DGMX_BUILD_OWN_FFTW=ON ..
make -j 8 && make install
cd ../cmake_s
cmake -DCMAKE_INSTALL_PREFIX=$GITHUB_WORKSPACE/opt/gromacs/5.1.5 -DGMX_BUILD_OWN_FFTW=ON ..
make -j 8 && make install
cd ..
. $GITHUB_WORKSPACE/opt/gromacs/5.1.5/bin/GMXRC.bash
echo "$GITHUB_WORKSPACE/opt/gromacs/5.1.5/bin" >> $GITHUB_PATH
which gmx
which gmx_d
- name: Extract data archives
run: |
cd studies/001_water_tutorial
tar xvjf targets.tar.bz2
cd ../../
- name: Install package
run: |
python -m pip install --no-deps .
python -c "import forcebalance; print(forcebalance.__version__)"
- name: Run tests
run: |
pytest -v --cov=forcebalance --cov-config=setup.cfg --durations=0 --cov-report=xml
- name: Run water study
run: |
cd studies/001_water_tutorial
tar xvjf targets.tar.bz2
ForceBalance very_simple.in
cd ../../
- name: Codecov
uses: codecov/codecov-action@v4
with:
file: ./coverage.xml
fail_ci_if_error: true