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macos-ci.yml
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# Copyright (C) 2022 Roberto Rossini ([email protected])
# SPDX-License-Identifier: MIT
name: MacOS CI
on:
push:
branches: [ main ]
paths:
- ".github/workflows/macos-ci.yml"
- "cmake/**"
- "external/**"
- "src/**"
- "test/**"
- "!test/scripts/devel/**"
- "CMakeLists.txt"
- "conanfile.txt"
tags:
- 'v*.*.*'
pull_request:
paths:
- ".github/workflows/macos-ci.yml"
- "cmake/**"
- "external/**"
- "src/**"
- "test/**"
- "!test/scripts/devel/**"
- "CMakeLists.txt"
- "conanfile.txt"
# https://stackoverflow.com/a/72408109
concurrency:
group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }}
cancel-in-progress: true
env:
CCACHE_DIR: "${{ github.workspace }}/ccache-cache"
CCACHE_COMPRESSLEVEL: "13"
CCACHE_MAXSIZE: "200M"
CONAN_HOME: "${{ github.workspace }}/.conan2"
HOMEBREW_NO_AUTO_UPDATE: "1"
defaults:
run:
shell: bash
jobs:
matrix-factory:
name: Generate job matrix
runs-on: ubuntu-latest
outputs:
matrix: ${{ steps.set-result.outputs.result }}
steps:
- uses: actions/github-script@v6
id: set-result
with:
script: |
// Documentation
// https://docs.github.com/en/actions/learn-github-actions/contexts#fromjson
// https://github.com/actions/runner/issues/982#issuecomment-809360765
var includes = []
includes.push({ compiler_name: 'apple-clang', compiler_version: '13.0', os: 'macos-11', conan: '2.0.*', cmake: '3.26.*', build_type: 'Release', developer_mode: 'OFF' })
includes.push({ compiler_name: 'apple-clang', compiler_version: '14.0', os: 'macos-12', conan: '2.0.*', cmake: '3.26.*', build_type: 'Release', developer_mode: 'OFF' })
includes.push({ compiler_name: 'apple-clang', compiler_version: '14.0', os: 'macos-13', conan: '2.0.*', cmake: '3.26.*', build_type: 'Release', developer_mode: 'OFF' })
includes.push({ compiler_name: 'apple-clang', compiler_version: '14.0', os: 'macos-13', conan: '2.0.*', cmake: '3.26.*', build_type: 'Debug', developer_mode: 'OFF' })
return { include: includes }
cache-test-datasets:
uses: paulsengroup/modle/.github/workflows/cache-test-datasets.yml@main
build-project:
name: Build project
needs: matrix-factory
runs-on: ${{ matrix.os }}
strategy:
fail-fast: false
matrix: ${{ fromJSON(needs.matrix-factory.outputs.matrix) }}
steps:
- uses: actions/checkout@v3
- name: Generate requirements.txt for pip
run: |
echo 'conan==${{ matrix.conan }}' > requirements.txt
echo 'cmake==${{ matrix.cmake }}' >> requirements.txt
- name: Setup Python
uses: actions/setup-python@v4
with:
python-version: '3.11'
cache: 'pip'
- name: Install build deps
run: |
pip install -r requirements.txt
brew install ccache
- name: Detect number available CPUs
run: |
ncpus=$(python -c 'import multiprocessing as mp; print(mp.cpu_count())')
echo "CMAKE_BUILD_PARALLEL_LEVEL=$ncpus" >> $GITHUB_ENV
- name: Generate cache key
id: cache-key
run: |
set -u
os="${{ matrix.os }}"
compiler="${{ matrix.compiler_name }}"
build_type="${{ matrix.build_type }}"
conanfile_hash="${{ hashFiles('conanfile.txt') }}"
workflow_hash="${{ hashFiles('.github/workflows/macos-ci.yml') }}"
combined_hash="${{ hashFiles('conanfile.txt', '.github/workflows/macos-ci.yml') }}"
# This can be used by to always update a cache entry (useful e.g. for ccache)
current_date="$(date '+%s')"
conan_key_prefix="conan-$os-$compiler-$conanfile_hash-$build_type"
ccache_key_prefix="ccache-$os-$compiler-$conanfile_hash-$build_type"
echo "conan-key=$conan_key_prefix" >> $GITHUB_OUTPUT
echo "conan-restore-key=$conan_key_prefix" >> $GITHUB_OUTPUT
echo "ccache-key=${ccache_key_prefix}-${current_date}" >> $GITHUB_OUTPUT
echo "ccache-restore-key=$ccache_key_prefix" >> $GITHUB_OUTPUT
- name: Cache Conan packages
id: cache-conan
uses: actions/cache@v3
with:
key: ${{ steps.cache-key.outputs.conan-key }}
restore-keys: ${{ steps.cache-key.outputs.conan-restore-key }}
path: ${{ env.CONAN_HOME }}
- name: Configure Conan
if: steps.cache-conan.outputs.cache-hit != 'true'
run: conan profile detect --force
- name: Clean Conan cache (pre-build)
if: steps.cache-conan.outputs.cache-hit != 'true'
run: |
conan cache clean "*" --build
conan cache clean "*" --download
conan cache clean "*" --source
conan remove --confirm "*"
- name: Build conanfile.txt
run: |
conan install conanfile.txt \
--build=missing \
-pr default \
-s build_type=${{ matrix.build_type }} \
-s compiler.libcxx=libc++ \
-s compiler.cppstd=17 \
--output-folder="${{ github.workspace }}/build"
- name: Clean Conan cache (post-build)
if: steps.cache-conan.outputs.cache-hit != 'true'
run: |
conan cache clean "*" --build
conan cache clean "*" --download
conan cache clean "*" --source
- name: Configure project
run: |
cmake -DCMAKE_BUILD_TYPE=${{ matrix.build_type }} \
-DCMAKE_PREFIX_PATH="${{ github.workspace }}/build" \
-DMODLE_ENABLE_TESTING=ON \
-DMODLE_DOWNLOAD_TEST_DATASET=OFF \
-DENABLE_DEVELOPER_MODE=${{ matrix.developer_mode }} \
-DOPT_ENABLE_CLANG_TIDY=OFF \
-DOPT_ENABLE_CPPCHECK=OFF \
-DCMAKE_INSTALL_PREFIX=dest \
-S "${{ github.workspace }}" \
-B "${{ github.workspace }}/build"
- name: Cache Ccache folder
uses: actions/cache@v3
with:
key: ${{ steps.cache-key.outputs.ccache-key }}
restore-keys: ${{ steps.cache-key.outputs.ccache-restore-key }}
path: ${{ env.CCACHE_DIR }}
- name: Build test units
run: |
cmake --build build -t test_main
- name: Package unit tests
run: |
gtar -cf - build/ | zstd -T0 -13 -o unit-tests.tar.zst
- name: Build modle and modle_tools
run: cmake --build build
- name: Package binaries
run: |
cmake --install build
gtar -cf - -C dest/ bin |
zstd -T0 -13 -o binaries.tar.zst
- name: Upload unit tests
uses: actions/upload-artifact@v3
with:
name: unit-tests-${{ matrix.os }}-${{ matrix.compiler_name }}-${{ matrix.compiler_version }}-${{ matrix.build_type }}
path: unit-tests.tar.zst
if-no-files-found: error
retention-days: 1
- name: Upload binaries
uses: actions/upload-artifact@v3
with:
name: binaries-${{ matrix.os }}-${{ matrix.compiler_name }}-${{ matrix.compiler_version }}-${{ matrix.build_type }}
path: binaries.tar.zst
if-no-files-found: error
retention-days: 1
run-unit-tests:
name: Run unit tests
needs: [matrix-factory, cache-test-datasets, build-project]
runs-on: ${{ matrix.os }}
strategy:
fail-fast: false
matrix: ${{ fromJSON(needs.matrix-factory.outputs.matrix) }}
steps:
- name: Checkout repo
uses: actions/checkout@v3
- name: Download unit tests artifact
uses: actions/download-artifact@v4
with:
name: unit-tests-${{ matrix.os }}-${{ matrix.compiler_name }}-${{ matrix.compiler_version }}-${{ matrix.build_type }}
- name: Download test datasets
id: test-dataset
uses: actions/download-artifact@v4
with:
name: ${{ needs.cache-test-datasets.outputs.artifact-name }}
- name: Extract binaries and test dataset
run: |
zstd -dcf unit-tests.tar.zst | gtar -xf -
gtar -xf modle_test_data.tar.xz
- name: Generate requirements.txt for pip
run: echo 'cmake==${{ matrix.cmake }}' > requirements.txt
- name: Setup Python
uses: actions/setup-python@v4
with:
python-version: '3.11'
cache: 'pip'
- name: Install CMake
run: pip install -r requirements.txt
- name: Run unit tests
working-directory: ${{ github.workspace }}/build
run: |
ncpus=$(python -c 'import multiprocessing as mp; print(mp.cpu_count())')
export CTEST_PARALLEL_LEVEL="$ncpus"
ctest --test-dir . \
--schedule-random \
--output-on-failure \
--no-tests=error \
--timeout 300
run-modle-integration-test:
name: Run modle integration tests
needs: [matrix-factory, cache-test-datasets, build-project]
runs-on: ${{ matrix.os }}
strategy:
fail-fast: false
matrix: ${{ fromJSON(needs.matrix-factory.outputs.matrix) }}
steps:
- name: Checkout repo
uses: actions/checkout@v3
- name: Download binary artifact
uses: actions/download-artifact@v4
with:
name: binaries-${{ matrix.os }}-${{ matrix.compiler_name }}-${{ matrix.compiler_version }}-${{ matrix.build_type }}
- name: Download test datasets
id: test-dataset
uses: actions/download-artifact@v4
with:
name: ${{ needs.cache-test-datasets.outputs.artifact-name }}
- name: Extract binaries and test dataset
run: |
zstd -dcf binaries.tar.zst | gtar -xf -
gtar -xf modle_test_data.tar.xz
- name: Generate requirements.txt for pip
run: |
echo 'cooler>=0.9.1' > requirements.txt
echo 'pyBigWig>=0.3.22' >> requirements.txt
- name: Setup Python
uses: actions/setup-python@v4
with:
python-version: '3.11'
cache: 'pip'
- name: Install test deps
run: pip install -r requirements.txt
- name: Inspect modle version
run: bin/modle --version
- name: Run modle integration test(s)
run: test/scripts/modle_integration_test.sh bin/modle | head -n 1000
run-modle-tools-integration-test:
name: Run modle_tools integration tests
needs: [ matrix-factory, cache-test-datasets, build-project ]
runs-on: ${{ matrix.os }}
strategy:
fail-fast: false
matrix: ${{ fromJSON(needs.matrix-factory.outputs.matrix) }}
steps:
- name: Checkout repo
uses: actions/checkout@v3
- name: Download binary artifact
uses: actions/download-artifact@v4
with:
name: binaries-${{ matrix.os }}-${{ matrix.compiler_name }}-${{ matrix.compiler_version }}-${{ matrix.build_type }}
- name: Download test datasets
id: test-dataset
uses: actions/download-artifact@v4
with:
name: ${{ needs.cache-test-datasets.outputs.artifact-name }}
- name: Extract binaries and test dataset
run: |
zstd -dcf binaries.tar.zst | gtar -xf -
gtar -xf modle_test_data.tar.xz
- name: Generate requirements.txt for pip
run: |
echo 'cooler>=0.9.1' > requirements.txt
echo 'pyBigWig>=0.3.22' >> requirements.txt
- name: Setup Python
uses: actions/setup-python@v4
with:
python-version: '3.11'
cache: 'pip'
- name: Install test deps
run: pip install -r requirements.txt
- name: Inspect modle_tools version
run: bin/modle_tools --version
- name: Run modle_tools transform integration test(s)
run: test/scripts/modle_tools_transform_integration_test.sh bin/modle_tools | head -n 1000
- name: Run modle_tools evaluate integration test(s)
run: test/scripts/modle_tools_eval_integration_test.sh bin/modle_tools | head -n 1000
- name: Run modle_tools annotate-barriers integration test(s)
run: test/scripts/modle_tools_annotate_barriers_integration_test.sh bin/modle_tools | head -n 1000
macos-ci-status-check:
name: Status Check (MacOS CI)
if: ${{ always() }}
runs-on: ubuntu-latest
needs:
- matrix-factory
- cache-test-datasets
- build-project
- run-unit-tests
- run-modle-integration-test
- run-modle-tools-integration-test
steps:
- name: Collect job results
if: |
needs.matrix-factory.result != 'success' ||
needs.cache-test-datasets.result != 'success' ||
needs.build-project.result != 'success' ||
needs.run-unit-tests.result != 'success' ||
needs.run-modle-integration-test.result != 'success' ||
needs.run-modle-tools-integration-test.result != 'success'
run: exit 1