Remove duplicate alphabets and replace seqan2::String #632
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name: CI misc | |
on: | |
push: | |
branches: | |
# Push events to branches matching refs/heads/main | |
- 'main' | |
pull_request: | |
workflow_dispatch: | |
concurrency: | |
group: misc-${{ github.event.pull_request.number || github.ref }} | |
cancel-in-progress: true | |
env: | |
CMAKE_VERSION: 3.16.9 | |
SEQAN3_NO_VERSION_CHECK: 1 | |
TZ: Europe/Berlin | |
defaults: | |
run: | |
shell: bash -ex {0} | |
jobs: | |
build: | |
name: ${{ matrix.name }} | |
runs-on: ubuntu-22.04 | |
timeout-minutes: 120 | |
strategy: | |
fail-fast: false | |
matrix: | |
include: | |
- name: "Documentation" | |
build: documentation | |
build_threads: 2 | |
test_threads: 2 | |
cmake: 3.16.9 | |
doxygen: 1.9.4 | |
requires_toolchain: false | |
requires_ccache: false | |
skip_build_tests: true | |
skip_run_tests: false | |
- name: "Header gcc12" | |
cxx: "g++-12" | |
cc: "gcc-12" | |
build_type: Release | |
build: header | |
build_threads: 2 | |
test_threads: 2 | |
cmake: 3.16.9 | |
requires_toolchain: true | |
requires_ccache: true | |
skip_build_tests: false | |
skip_run_tests: true | |
- name: "Header gcc10" | |
cxx: "g++-10" | |
cc: "gcc-10" | |
build_type: Release | |
build: header | |
build_threads: 2 | |
test_threads: 2 | |
cmake: 3.16.9 | |
requires_toolchain: true | |
requires_ccache: true | |
skip_build_tests: false | |
skip_run_tests: true | |
steps: | |
- name: Set repository name | |
run: echo "REPOSITORY_NAME=$(echo '${{ github.repository }}' | awk -F '/' '{print $2}')" >> $GITHUB_ENV | |
- name: Checkout | |
uses: actions/checkout@v3 | |
with: | |
path: ${{ env.REPOSITORY_NAME }} | |
fetch-depth: 2 | |
submodules: recursive | |
- name: Add package source | |
run: bash ./${{ env.REPOSITORY_NAME }}/lib/seqan3/.github/workflows/scripts/configure_apt.sh | |
- name: Install CMake | |
env: | |
BUILD: ${{ matrix.build }} | |
CMAKE_VERSION: ${{ matrix.cmake }} | |
run: bash ./${{ env.REPOSITORY_NAME }}/lib/seqan3/.github/workflows/scripts/install_cmake.sh | |
- name: Install Doxygen | |
if: matrix.build == 'documentation' | |
env: | |
DOXYGEN_VERSION: ${{ matrix.doxygen }} | |
run: bash ./${{ env.REPOSITORY_NAME }}/lib/seqan3/.github/workflows/scripts/install_doxygen.sh | |
- name: Install ccache | |
if: matrix.requires_ccache | |
run: | | |
conda install --yes --override-channels --channel conda-forge ccache | |
sudo ln -s $CONDA/bin/ccache /usr/bin/ccache | |
- name: Install compiler ${{ matrix.cxx }} | |
if: matrix.requires_toolchain | |
run: sudo apt-get install --yes ${{ matrix.cxx }} | |
- name: Load ccache | |
if: matrix.requires_ccache | |
uses: actions/cache@v3 | |
with: | |
path: .ccache | |
key: ${{ matrix.name }}-ccache-${{ github.ref }}-${{ github.run_number }} | |
# Restoring: From current branch, otherwise from base branch, otherwise from any branch. | |
restore-keys: | | |
${{ matrix.name }}-ccache-${{ github.ref }} | |
${{ matrix.name }}-ccache-${{ github.base_ref }} | |
${{ matrix.name }}-ccache- | |
- name: Tool versions | |
run: | | |
env cmake --version | |
env doxygen --version || true | |
env ${{ matrix.cxx }} --version || true | |
- name: Configure tests | |
env: | |
CXX: ${{ matrix.cxx }} | |
CC: ${{ matrix.cc }} | |
run: | | |
mkdir build | |
cd build | |
header_test_flag=$(echo "${{ env.REPOSITORY_NAME }}_HEADER_TEST_ONLY" | tr '[:lower:]' '[:upper:]') | |
cmake ../${{ env.REPOSITORY_NAME }} -DCMAKE_BUILD_TYPE=${{ matrix.build_type }} \ | |
-DCMAKE_CXX_FLAGS="${{ matrix.cxx_flags }}" \ | |
-D${header_test_flag}=${{ matrix.build == 'header' && 'ON' || 'OFF'}} | |
if [[ "${{ matrix.build }}" =~ ^(header)$ ]]; then | |
make -j${{ matrix.build_threads }} gtest_build | |
fi | |
- name: Build tests | |
if: ${{!matrix.skip_build_tests}} | |
env: | |
CCACHE_BASEDIR: ${{ github.workspace }} | |
CCACHE_DIR: ${{ github.workspace }}/.ccache | |
CCACHE_COMPRESS: true | |
CCACHE_COMPRESSLEVEL: 12 | |
CCACHE_MAXSIZE: 75M | |
CMAKE_BUILD_PARALLEL_LEVEL: ${{ matrix.build_threads }} | |
run: | | |
ccache -p || true | |
cd build | |
make -k test | |
ccache -s || true | |
- name: Run tests | |
if: ${{!matrix.skip_run_tests}} | |
run: | | |
cd build | |
if [[ "${{ matrix.build }}" =~ ^(documentation)$ ]]; then | |
make -k -j${{ matrix.test_threads }} doc 2>doxygen_warnings.txt | |
cat doxygen_warnings.txt | |
# test ! -s doxygen_warnings.txt | |
else | |
ctest . -j${{ matrix.test_threads }} --output-on-failure | |
fi | |
- name: Package documentation | |
if: matrix.build == 'documentation' | |
continue-on-error: true | |
run: tar -zcf documentation.tar.gz build | |
- name: Upload documentation | |
if: matrix.build == 'documentation' | |
continue-on-error: true | |
uses: actions/upload-artifact@v3 | |
with: | |
name: documentation | |
path: documentation.tar.gz |