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build_check.yml
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name: Build and Check
on:
push:
branches:
- 'master'
pull_request:
branches:
- '*'
jobs:
build-gcc-ubuntu:
name: (ubuntu, apt)
runs-on: ubuntu-24.04
steps:
- uses: actions/checkout@v4
- name: Install pre-requisites
run: |
sudo apt-get update
sudo apt-get install gobject-introspection gir1.2-glib-2.0 libgirepository1.0-dev gcc gfortran pkg-config libglib2.0-dev libgmp3-dev libmpfr-dev libgsl0-dev libfftw3-dev libopenblas-dev libflint-dev libcfitsio-dev libfyaml-dev libnlopt-dev libhdf5-dev gtk-doc-tools libopenmpi-dev uncrustify
sudo pip install meson ninja pytest pytest-tap numpy --break-system-packages
- name: Ensure clear Jupyter Notebooks
uses: ResearchSoftwareActions/EnsureCleanNotebooksAction@1.1
- name: Configure NumCosmo
run: meson setup build -Dbuildtype=release -Dnumcosmo_py=true -Dgtkdoc=disabled --prefix=/usr || (cat build/meson-logs/meson-log.txt && exit 1)
- name: Building NumCosmo
run: meson compile -C build
- name: Checking indentation
run: |
uncrustify -c numcosmo_uncrustify.cfg --check -q numcosmo/*.c numcosmo/*.h
uncrustify -c numcosmo_uncrustify.cfg --check -q numcosmo/math/*.c numcosmo/math/*.h
uncrustify -c numcosmo_uncrustify.cfg --check -q numcosmo/model/*.c numcosmo/model/*.h
uncrustify -c numcosmo_uncrustify.cfg --check -q numcosmo/xcor/*.c numcosmo/xcor/*.h
- name: Test python examples
run: |
source build/numcosmo_export.sh
cd examples
python example_simple.py
python example_cbe.py
- name: Test example compilation using non-installed library
run: |
source build/numcosmo_export.sh
cd examples
gcc -D_GNU_SOURCE -Wall example_simple.c -o example_simple -lnumcosmo -lgsl -lm $(pkg-config glib-2.0 gobject-2.0 --libs --cflags)
gcc -D_GNU_SOURCE -Wall example_ca.c -o example_ca -lnumcosmo -lgsl -lm $(pkg-config glib-2.0 gobject-2.0 --libs --cflags)
./example_simple
./example_ca
- name: Check NumCosmo
run: meson test -C build || (cat build/meson-logs/testlog.txt && exit 1)
- name: Create a NumCosmo tarball
run: meson dist -C build --no-tests
- name: Upload a Build Artifact
uses: actions/upload-artifact@v2
with:
name: release
path: build/meson-dist/numcosmo-*.tar.xz
- name: Test example compilation using installed library
run: |
sudo meson install -C build
cd examples
gcc -D_GNU_SOURCE -Wall example_simple.c -o example_simple $(pkg-config numcosmo --libs --cflags)
gcc -D_GNU_SOURCE -Wall example_ca.c -o example_ca $(pkg-config numcosmo --libs --cflags)
./example_simple
./example_ca
build-gcc-macos:
name: (macos, brew)
runs-on: macos-latest
env:
CC: gcc-11
FC: gfortran-11
F77: gfortran-11
F90: gfortran-11
LIBRARY_PATH: /usr/local/lib:/opt/homebrew/Cellar/gmp/6.3.0/lib
LD_LIBRARY_PATH: /usr/local/lib:/opt/homebrew/Cellar/gmp/6.3.0/lib
DYLD_LIBRARY_PATH: /usr/local/lib:/opt/homebrew/Cellar/gmp/6.3.0/lib
CPATH: /usr/local/include
steps:
- uses: actions/checkout@v4
- name: Brew install pre-requisites
run: |
brew install python3 gobject-introspection pygobject3 numpy meson ninja gsl gmp mpfr fftw cfitsio libfyaml nlopt gfortran gtk-doc glib openblas
- name: Pip install pre-requisites
run: |
python3 -m pip install pytest pytest-tap --break-system-packages
- name: Ensure clear Jupyter Notebooks
uses: ResearchSoftwareActions/EnsureCleanNotebooksAction@1.1
- name: Configure NumCosmo
run: |
meson setup build -Dbuildtype=release -Dnumcosmo_py=true -Dmpi=disabled --prefix=/usr || (cat build/meson-logs/meson-log.txt && exit 1)
- name: Building NumCosmo
run: |
meson compile -C build
- name: Test python examples
run: |
source build/numcosmo_export.sh
cd examples
python3 example_simple.py
python3 example_cbe.py
- name: Check NumCosmo
run: meson test -C build || (cat build/meson-logs/testlog.txt && exit 1)
build-miniforge:
name: (${{ matrix.os }}, py${{ matrix.python-version }}, ${{ matrix.mpi }}, Miniforge)
runs-on: ${{ matrix.os }}-latest
strategy:
matrix:
os: ["ubuntu", "macos"]
python-version: ["3.10"]
mpi: ["openmpi", "mpich"]
exclude:
- os: "macos"
mpi: "openmpi"
defaults:
run:
shell: bash -el {0}
steps:
- uses: actions/checkout@v3
- name: Setup miniforge
uses: conda-incubator/setup-miniconda@v3
with:
auto-update-conda: true
activate-environment: numcosmo_developer
python-version: ${{ matrix.python-version }}
miniforge-variant: Mambaforge
show-channel-urls: true
use-mamba: true
- name: Cache date
id: get-date
run: echo "today=$(/bin/date -u '+%Y%m%d')" >> $GITHUB_OUTPUT
- name: Cache Conda env
uses: actions/cache@v3
with:
path: ${{ env.CONDA }}/envs
key: miniforge-${{ runner.os }}--${{ runner.arch }}--python-${{ matrix.python-version }}--${{ matrix.mpi }}--${{ steps.get-date.outputs.today }}-${{ hashFiles('devel_environment.yml') }}-${{ env.CACHE_NUMBER }}
env:
CACHE_NUMBER: 0
id: cache
- name: Update environment
run: |
mamba env update -q -v -n numcosmo_developer -f devel_environment.yml
mamba remove -q -v -n numcosmo_developer openmpi
mamba install -q -v -n numcosmo_developer ${{ matrix.mpi }}
if: steps.cache.outputs.cache-hit != 'true'
- name: Setting up NumCosmo
run: |
conda activate numcosmo_developer
[[ -e $GCC_AR ]] && AR=$GCC_AR
[[ -e $GCC_NM ]] && NM=$GCC_NM
[[ -e $GCC_RANLIB ]] && RANLIB=$GCC_RANLIB
meson setup build -Dbuildtype=release -Dnumcosmo_py=true --libdir=$CONDA_PREFIX/lib --prefix=$CONDA_PREFIX || (cat build/meson-logs/meson-log.txt && exit 1)
- name: Building NumCosmo
run: |
meson compile -C build
- name: Installing NumCosmo
run: |
meson install -C build
cd examples
python example_simple.py
python example_cbe.py
- name: Running black check
run: |
black --check numcosmo_py
- name: Running flake8
run: |
flake8 numcosmo_py
- name: Running mypy
run: |
mypy -p numcosmo_py
#- name: Checking indentation
# run: |
# uncrustify -c numcosmo_uncrustify.cfg --check -q numcosmo/*.c numcosmo/*.h
#- name: Running pylint
# run: |
# pylint --rcfile .pylintrc numcosmo_py
- name: Check NumCosmo
run: meson test -C build || (cat build/meson-logs/testlog.txt && exit 1)
build-miniforge-coverage:
name: Coverage (${{ matrix.os }}, py${{ matrix.python-version }}, openmpi, Miniforge)
runs-on: ${{ matrix.os }}-latest
strategy:
matrix:
os: ["ubuntu"]
python-version: ["3.10"]
defaults:
run:
shell: bash -el {0}
steps:
- uses: actions/checkout@v3
- name: Setup miniforge
uses: conda-incubator/setup-miniconda@v3
with:
auto-update-conda: true
activate-environment: numcosmo_developer
python-version: ${{ matrix.python-version }}
miniforge-variant: Mambaforge
show-channel-urls: true
use-mamba: true
- name: Cache date
id: get-date
run: echo "today=$(/bin/date -u '+%Y%m%d')" >> $GITHUB_OUTPUT
- name: Cache Conda env
uses: actions/cache@v3
with:
path: ${{ env.CONDA }}/envs
key: coverage-miniforge-${{ runner.os }}--${{ runner.arch }}--python-${{ matrix.python-version }}--${{ steps.get-date.outputs.today }}-${{ hashFiles('devel_environment.yml') }}-${{ env.CACHE_NUMBER }}
env:
CACHE_NUMBER: 0
id: cache
- name: Update environment
run: |
conda env update -q -v -n numcosmo_developer -f devel_environment.yml
if: steps.cache.outputs.cache-hit != 'true'
- name: Setting up NumCosmo
run: |
conda activate numcosmo_developer
[[ -e $GCC_AR ]] && AR=$GCC_AR
[[ -e $GCC_NM ]] && NM=$GCC_NM
[[ -e $GCC_RANLIB ]] && RANLIB=$GCC_RANLIB
meson setup build -Dbuildtype=debug -Db_coverage=true -Db_lto=false -Dnumcosmo_py=true --libdir=$CONDA_PREFIX/lib --prefix=$CONDA_PREFIX || (cat build/meson-logs/meson-log.txt && exit 1)
- name: Building NumCosmo
run: |
meson compile -C build
- name: Check and coverage
# First run to generate the coverage base
# Second run to generate the coverage for the tests
# Third run to merge the coverage base and the coverage for the tests
run: |
lcov --config-file .lcovrc --no-external --capture --initial --directory build --directory numcosmo --directory tests --base-directory $(pwd)/build --output-file numcosmo-coverage-base.info
meson test -C build --timeout-multiplier 0 || (cat build/meson-logs/testlog.txt && exit 1)
lcov --config-file .lcovrc --no-external --capture --directory build --directory numcosmo --directory tests --base-directory $(pwd)/build --output-file numcosmo-coverage-tests.info
lcov --config-file .lcovrc --add-tracefile numcosmo-coverage-base.info --add-tracefile numcosmo-coverage-tests.info --output-file numcosmo-coverage-full.info
lcov --config-file .lcovrc --remove numcosmo-coverage-full.info '*/class/*' '*/levmar/*' '*/libcuba/*' '*/plc/*' '*/sundials/*' '*/toeplitz/*' '*/tools/*' --output-file numcosmo-coverage.info
- name: CodeCov
uses: codecov/codecov-action@v4
with:
disable_search: true
fail_ci_if_error: true
files: ./numcosmo-coverage.info
token: ${{ secrets.CODECOV_TOKEN }}
verbose: true
#- name: Generate coverage
# # For some reason, gcovr is ignoring the configured gcovr.cfg file
# # ninja coverage -C build -v -d stats -d explain
# run: |
# gcovr --root . --object-directory build --config gcovr.cfg --xml-pretty -o build/meson-logs/coverage.xml
#- name: Coveralls
# uses: coverallsapp/github-action@v2
# with:
# files: ./numcosmo-coverage.info
# format: lcov
# github-token: ${{ secrets.GITHUB_TOKEN }}