Test on macos #322
Workflow file for this run
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
# ----------------------------------------------------------------------------- | |
# | |
# Copyright (c) 2017 Sam Cox, Roberto Sommariva | |
# | |
# This file is part of the AtChem2 software package. | |
# | |
# This file is covered by the MIT license which can be found in the file | |
# LICENSE.md at the top level of the AtChem2 distribution. | |
# | |
# ----------------------------------------------------------------------------- | |
# Workflow for continuous integration (CI) of AtChem2, | |
# using Github Actions and Codecov | |
# | |
# Acknowledgements: J. Allsopp | |
# ----------------------------------------------------- # | |
name: AtChem2 CI | |
# ------------------------------ EVENTS ------------------------------ # | |
# Controls when the workflow is activated | |
on: | |
# Triggers when a pull request is created or updated (only on the | |
# master branch) | |
pull_request: | |
branches: [ master ] | |
# Triggers when a push is made to the master branch (either by | |
# merging a pull request, or by direct commit) | |
push: | |
branches: | |
- master | |
# Run manually from the Actions tab | |
workflow_dispatch: | |
# ------------------------------ JOBS ------------------------------ # | |
# This workflow contains a single job called `testing`, which compiles | |
# the AtChem2 model, runs the Testsuite, and checks the Testsuite code | |
# coverage using Codecov | |
jobs: | |
testing: | |
# The job runs on both linux (ubuntu) and macos runner images, | |
# with three versions of gnu fortran -- the runner images are | |
# described here: https://github.com/actions/runner-images | |
runs-on: ${{ matrix.os }} | |
strategy: | |
matrix: | |
os: [macos-11] #, macos-12] | |
fortran: [9, 10, 11] | |
# exclude: #TODO: fortran9 does not work on macos12 | |
# - os: macos-12 | |
# fortran: 9 | |
fail-fast: false | |
# ------------------------------------------------------------- | |
# Sequence of tasks to be executed as part of the `testing` job: | |
# 1. checkout the repository | |
# 2. install gfortran, AtChem2 dependencies | |
# 3. compile AtChem2 | |
# 4. run all tests (indent, style, unit, model) | |
# 5. recompile AtChem2, run unit and model tests for Codecov | |
steps: | |
# ------------------------------------------------------------- | |
# (1) Checkout the repository under $GITHUB_WORKSPACE | |
- uses: actions/checkout@v3 | |
with: | |
fetch-depth: 2 | |
# ------------------------------------------------------------- | |
# (2) Install gfortran, if not supplied with the runner image, | |
# and the AtChem2 dependencies (CVODE, openlibm, numdiff, FRUIT) | |
# gfortran on macos-11 | |
- name: Install gfortran-9 (macos-11) | |
if: matrix.os == 'macos-11' && matrix.fortran == 9 | |
run: brew install gcc@${{ matrix.fortran }} | |
# gfortran on macos-12 | |
- name: Install gfortran-9 and gfortran-10 (macos-12) | |
if: matrix.os == 'macos-12' && (matrix.fortran == 9 || matrix.fortran == 10) | |
run: brew install gcc@${{ matrix.fortran }} | |
# AtChem2 dependencies | |
- name: Install CVODE | |
run: ./tools/install/install_cvode.sh $PWD $(which gfortran-${{ matrix.fortran }}) | |
- name: Install openlibm | |
run: ./tools/install/install_openlibm.sh $PWD | |
- name: Install numdiff | |
run: ./tools/install/install_numdiff.sh $PWD | |
- name: Install FRUIT | |
run: sudo ./tools/install/install_fruit.sh $PWD | |
# ------------------------------------------------------------- | |
# (3) Compile AtChem2 using the standard compilation flags | |
- name: Build AtChem2 | |
# Set $FORT_VERSION for use with the `Makefile`, called from | |
# the `build_atchem2.sh` script | |
env: | |
FORT_VERSION: ${{ matrix.fortran }} | |
run: | | |
cp tools/install/Makefile.skel Makefile | |
./build/build_atchem2.sh ./model/mechanism.fac | |
# macos only | |
if [ $RUNNER_OS != "Linux" ] ; then | |
install_name_tool -change libopenlibm.4.dylib $PWD/openlibm-0.8.1/libopenlibm.4.dylib atchem2 ; | |
install_name_tool -change @rpath/libsundials_cvode.2.dylib $PWD/cvode/lib/libsundials_cvode.dylib atchem2 ; | |
install_name_tool -change @rpath/libsundials_fnvecserial.2.dylib $PWD/cvode/lib/libsundials_fnvecserial.dylib atchem2 ; | |
install_name_tool -change @rpath/libsundials_nvecserial.2.dylib $PWD/cvode/lib/libsundials_nvecserial.dylib atchem2 ; | |
fi | |
# ------------------------------------------------------------- | |
# (4) Run all tests: indent, style, unit, model | |
- name: Indent and Style tests | |
run: | | |
make indenttest | |
make styletest | |
- name: Unit and Model tests | |
# Set $FORT_VERSION for use with the `Makefile` | |
env: | |
FORT_VERSION: ${{ matrix.fortran }} | |
run: | | |
export PATH=$PATH:$PWD/numdiff/bin | |
#make unittests | |
#make oldtests # NB: oldtests will eventually be merged into modeltests | |
make modeltests # NB: modeltests are temporarily deactivated (pass on linux, fail on macos) | |
# ------------------------------------------------------------- | |
# (5) Recompile AtChem2 using the code coverage flags, then | |
# upload the gcov files to Codecov | |
# - name: Unit and Model tests (x Codecov) | |
# if: matrix.os == 'ubuntu-22.04' && matrix.fortran == 11 | |
# # Set $FORT_VERSION for use with the `Makefile` | |
# env: | |
# FORT_VERSION: ${{ matrix.fortran }} | |
# run: | | |
# export PATH=$PATH:$PWD/numdiff/bin | |
# make clean | |
# make unittests CCOV=true | |
# mv tests/unit_tests/*.gc* ./ # Needed to deal with gcc11 changing the way it handles gcda and gcna files | |
# make modeltests CCOV=true # Run only the new model Testsuite | |
- name: Upload coverage reports to Codecov | |
if: matrix.os == 'ubuntu-22.04' && matrix.fortran == 11 | |
uses: codecov/codecov-action@v3 | |
with: | |
gcov: true |