Merge commit '5f272b1fe3cfa93d5e5512461e41d049fc3a00be' #315
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| name: CMake | |
| on: | |
| push: | |
| pull_request: | |
| branches: | |
| - master | |
| schedule: | |
| - cron: '15 14 4,11,18,25 * *' | |
| workflow_dispatch: | |
| env: | |
| # Customize the CMake build type here (Release, Debug, RelWithDebInfo, etc.) | |
| BUILD_TYPE: Release | |
| NAME: IPhreeqc | |
| jobs: | |
| init: | |
| runs-on: ubuntu-latest | |
| # Map step outputs to job outputs | |
| outputs: | |
| VER: ${{ steps.vars.outputs.VER }} | |
| REL: ${{ steps.vars.outputs.REL }} | |
| DATE: ${{ steps.vars.outputs.DATE }} | |
| DATE_RFC_3339: ${{ steps.vars.outputs.DATE_RFC_3339 }} | |
| steps: | |
| - name: Setup vars | |
| id: vars | |
| run: | | |
| echo VER=$(curl -sS https://raw.githubusercontent.com/usgs-coupled/phreeqc-version/main/next_ver.sh | sh) >> $GITHUB_OUTPUT | |
| echo REL=$(curl -sS https://raw.githubusercontent.com/usgs-coupled/phreeqc-version/main/rel.py | python3) >> $GITHUB_OUTPUT | |
| echo DATE=$(date "+%x") >> $GITHUB_OUTPUT | |
| echo DATE_RFC_3339=$(date --rfc-3339=date) >> $GITHUB_OUTPUT | |
| test: | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [macos-latest, ubuntu-latest, windows-latest] | |
| runs-on: ${{ matrix.os }} | |
| env: | |
| BUILD_DIR: _ctest # set in ctest.cmake | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install ninja valgrind (Linux) | |
| if: runner.os == 'Linux' | |
| run: sudo apt-get update && sudo apt-get install -y ninja-build valgrind | |
| - name: Install ninja (macOS) | |
| if: runner.os == 'macOS' | |
| run: brew install ninja | |
| - name: Set up Visual Studio shell (Windows) | |
| if: runner.os == 'Windows' | |
| uses: egor-tensin/vs-shell@v2 | |
| with: | |
| arch: x64 | |
| - name: CTest | |
| run: ctest -S ctest.cmake -V --output-on-failure --timeout 900 | |
| - name: Upload results | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: ${{ matrix.os }}-${{ github.job }}-results | |
| path: ${{ github.workspace }}/${{ env.BUILD_DIR }}/Testing/ | |
| test-shared: | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [macos-latest, ubuntu-latest, windows-latest] | |
| runs-on: ${{ matrix.os }} | |
| env: | |
| BUILD_DIR: _ctest_shared # set in ctest-shared.cmake | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install ninja valgrind (Linux) | |
| if: runner.os == 'Linux' | |
| run: sudo apt-get update && sudo apt-get install -y ninja-build valgrind | |
| - name: Install ninja (macOS) | |
| if: runner.os == 'macOS' | |
| run: brew install ninja | |
| - name: Set up Visual Studio shell (Windows) | |
| if: runner.os == 'Windows' | |
| uses: egor-tensin/vs-shell@v2 | |
| with: | |
| arch: x64 | |
| - name: CTest | |
| run: ctest -S ctest-shared.cmake -V --output-on-failure --timeout 900 | |
| - name: Upload results | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: ${{ matrix.os }}-${{ github.job }}-results | |
| path: ${{ github.workspace }}/${{ env.BUILD_DIR }}/Testing/ | |
| test-clang: | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [macos-latest, ubuntu-latest, windows-latest] | |
| shared_libs: [OFF, ON] | |
| enable_module: [OFF, ON] | |
| runs-on: ${{ matrix.os }} | |
| env: | |
| BUILD_DIR: _build | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install ninja valgrind (Linux) | |
| if: runner.os == 'Linux' | |
| run: sudo apt-get update && sudo apt-get install -y ninja-build clang valgrind | |
| - name: Install ninja (macOS) | |
| if: runner.os == 'macOS' | |
| run: brew install ninja | |
| - name: Set up Visual Studio shell (Windows) | |
| if: runner.os == 'Windows' | |
| uses: egor-tensin/vs-shell@v2 | |
| with: | |
| arch: x64 | |
| - name: CMake configure | |
| if: runner.os == 'Linux' | |
| run: CC=clang CXX=clang++ cmake -B ${{ env.BUILD_DIR }} -DBUILD_SHARED_LIBS=${{ matrix.shared_libs }} -DIPHREEQC_ENABLE_MODULE=${{ matrix.enable_module }} -DCMAKE_CXX_STANDARD=20 -DCMAKE_CXX_STANDARD_REQUIRED=ON | |
| - name: CMake configure | |
| if: runner.os == 'macOS' | |
| run: CC=$(brew --prefix llvm@15)/bin/clang CXX=$(brew --prefix llvm@15)/bin/clang++ cmake -B ${{ env.BUILD_DIR }} -DBUILD_SHARED_LIBS=${{ matrix.shared_libs }} -DIPHREEQC_ENABLE_MODULE=${{ matrix.enable_module }} -DCMAKE_CXX_STANDARD=20 -DCMAKE_CXX_STANDARD_REQUIRED=ON | |
| - name: CMake configure | |
| if: runner.os == 'Windows' | |
| run: cmake -B ${{ env.BUILD_DIR }} -A x64 -T "ClangCL" -DBUILD_SHARED_LIBS=${{ matrix.shared_libs }} -DIPHREEQC_ENABLE_MODULE=${{ matrix.enable_module }} -DCMAKE_CXX_STANDARD=20 -DCMAKE_CXX_STANDARD_REQUIRED=ON | |
| - name: CMake build | |
| run: cmake --build ${{ env.BUILD_DIR }} | |
| - name: CTest | |
| run: ctest --test-dir ${{ env.BUILD_DIR }} | |
| - name: Upload results | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: ${{ matrix.os }}-${{ github.job }}-SHARED=${{ matrix.shared_libs }}-MODULE=${{ matrix.enable_module }}-results | |
| path: ${{ github.workspace }}/${{ env.BUILD_DIR }}/Testing/ | |
| chm: | |
| runs-on: windows-latest | |
| steps: | |
| - name: Checkout phreeqc3-HTMLversion | |
| uses: actions/checkout@v4 | |
| with: | |
| repository: usgs-coupled-subtrees/phreeqc3-HTMLversion | |
| ref: master | |
| - name: cache htmlhelp | |
| id: cache-htmlhelp | |
| uses: actions/cache@v4 | |
| with: | |
| path: "C:/Program Files (x86)/HTML Help Workshop" | |
| key: ${{ runner.os }}-htmlhelp | |
| - name: install htmlhelp | |
| if: steps.cache-htmlhelp.outputs.cache-hit != 'true' | |
| timeout-minutes: 5 | |
| run: | | |
| curl -L -O --max-time 120 http://web.archive.org/web/20160201063255/http://download.microsoft.com/download/0/A/9/0A939EF6-E31C-430F-A3DF-DFAE7960D564/htmlhelp.exe | |
| cmd /c start /wait .\htmlhelp.exe /q /c /t:$(Get-Location)\tmp | |
| $file = "$(Get-Location)\tmp\htmlhelp.inf" | |
| (Get-Content $file) | Foreach-Object { $_ ` | |
| -replace '^BeginPrompt', ';;BeginPrompt' ` | |
| -replace '^EndPrompt', ';;EndPrompt' ` | |
| -replace '^49000=CustomLDID49000, 1', '49000=CustomLDID49000, 5' ` | |
| -replace '^"hhupd.exe', ';;hhupd.exe' ` | |
| -replace '^DefaultInstallDir="C:\\Program Files\\HTML Help Workshop"', 'DefaultInstallDir="%ProgramFiles%\\HTML Help Workshop"' | |
| } | Set-Content $file | |
| cmd /c start /wait .\tmp\setup.exe | |
| Remove-Item -Recurse -Force .\tmp | |
| Remove-Item -Recurse -Force .\htmlhelp.exe | |
| # the next line doesn't seem to work (supposed to set the path) | |
| # echo 'C:\Program Files (x86)\HTML Help Workshop' >> $GITHUB_PATH | |
| - name: compile chm | |
| shell: bash | |
| run: | | |
| pushd HTML | |
| bash fixup_html.bash | |
| popd | |
| # hhc returns 1 on success | |
| set +e | |
| 'C:\Program Files (x86)\HTML Help Workshop\hhc' phreeqc3.hhp | tee hhc.out | |
| status=${PIPESTATUS[0]} | |
| set -e | |
| if [ "$status" -eq 1 ]; then | |
| echo "[OK]" | |
| exit 0 | |
| else | |
| echo "[FAILED]" | |
| exit 1 | |
| fi | |
| - uses: actions/upload-artifact@v4 | |
| with: | |
| name: chm | |
| path: ${{github.workspace}}/phreeqc3.chm | |
| R-CMD-check: | |
| needs: [init] | |
| runs-on: ${{ matrix.config.os }} | |
| name: ${{ matrix.config.os }} (${{ matrix.config.r }}) | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| - {os: macos-latest, r: 'release'} | |
| - {os: windows-latest, r: 'release'} | |
| - {os: ubuntu-latest, r: 'devel', http-user-agent: 'release'} | |
| - {os: ubuntu-latest, r: 'release'} | |
| - {os: ubuntu-latest, r: 'oldrel-1'} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: versioning | |
| run: ./jenkins-dist.sh -v ${{ needs.init.outputs.VER }} -r ${{ needs.init.outputs.REL }} -d ${{ needs.init.outputs.DATE }} | |
| - name: Setup R | |
| uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: ${{ matrix.config.r }} | |
| http-user-agent: ${{ matrix.config.http-user-agent }} | |
| use-public-rspm: true | |
| - name: create source | |
| working-directory: R | |
| run: make VERSION=${{ needs.init.outputs.VER }} RELEASE_DATE=${{ needs.init.outputs.DATE_RFC_3339 }} source | |
| - name: Install dependencies | |
| uses: r-lib/actions/setup-r-dependencies@v2 | |
| with: | |
| extra-packages: any::roxygen2, any::pkgbuild, any::rcmdcheck | |
| needs: roxygen2, pkgbuild, check | |
| working-directory: R/phreeqc | |
| - name: Display sessionInfo() | |
| run: sessionInfo() | |
| working-directory: R/phreeqc | |
| shell: Rscript {0} | |
| - name: roxygen2::roxygenise() | |
| run: roxygen2::roxygenise() | |
| working-directory: R/phreeqc | |
| shell: Rscript {0} | |
| - name: Check | |
| uses: r-lib/actions/check-r-package@v2 | |
| with: | |
| working-directory: R/phreeqc | |
| - name: List files | |
| if: matrix.config.os == 'ubuntu-latest' && matrix.config.r == 'release' | |
| run: | | |
| pwd | |
| ls -lR | |
| find -name "*.tar.gz" | |
| - uses: actions/upload-artifact@v4 | |
| if: matrix.config.os == 'ubuntu-latest' && matrix.config.r == 'release' | |
| with: | |
| name: cran | |
| path: ${{ github.workspace }}/R/phreeqc/check/phreeqc_*.tar.gz | |
| # r-build: | |
| # needs: [init] | |
| # runs-on: ubuntu-latest | |
| # steps: | |
| # - uses: actions/checkout@v4 | |
| # - uses: r-lib/actions/setup-r@v2 | |
| # with: | |
| # use-public-rspm: true | |
| # - name: install devtools | |
| # run: Rscript -e 'install.packages("devtools")' | |
| # - name: install curl | |
| # run: Rscript -e 'install.packages("curl")' | |
| # - name: versioning | |
| # run: ./jenkins-dist.sh -v ${{ needs.init.outputs.VER }} -r ${{ needs.init.outputs.REL }} -d ${{ needs.init.outputs.DATE }} | |
| # - name: setup clang | |
| # run: | | |
| # mkdir -p ~/.R | |
| # echo CC=clang -Qunused-arguments > ~/.R/Makevars | |
| # echo CXX=clang++ -Qunused-arguments >> ~/.R/Makevars | |
| # - name: check | |
| # run: cd R && make VERSION=${{ needs.init.outputs.VER }} check_built | |
| # - uses: actions/upload-artifact@v4 | |
| # with: | |
| # name: cran | |
| # path: ${{github.workspace}}/R/phreeqc_*.tar.gz | |
| # r-valgrind: | |
| # needs: [r-build] | |
| # runs-on: ubuntu-latest | |
| # steps: | |
| # - uses: actions/checkout@v4 | |
| # - uses: actions/download-artifact@v4 | |
| # with: | |
| # name: cran | |
| # path: R | |
| # - name: Display structure of downloaded files | |
| # working-directory: R | |
| # run: ls -lR | |
| # - uses: r-lib/actions/setup-r@v2 | |
| # with: | |
| # use-public-rspm: true | |
| # - name: install devtools | |
| # run: Rscript -e 'install.packages("devtools")' | |
| # - name: install curl | |
| # run: Rscript -e 'install.packages("curl")' | |
| # - name: install valgrind | |
| # run: sudo apt-get install -y valgrind | |
| # - name: setup clang | |
| # run: | | |
| # mkdir -p ~/.R | |
| # echo CC=clang -Qunused-arguments > ~/.R/Makevars | |
| # echo CXX=clang++ -Qunused-arguments >> ~/.R/Makevars | |
| # - name: install | |
| # run: cd R && R CMD INSTALL --build phreeqc_*.tar.gz | |
| # - name: run | |
| # run: cd R && R -d "valgrind --tool=memcheck --leak-check=full" --vanilla < valgrind.R 2>&1 | tee valgrind.full.out | |
| # - uses: actions/upload-artifact@v4 | |
| # with: | |
| # name: valgrind | |
| # path: ${{github.workspace}}/R/valgrind.full.out | |
| distcheck: | |
| needs: [init, chm] | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/download-artifact@v4 | |
| with: | |
| name: chm | |
| - name: mv chm | |
| run: mv phreeqc3.chm doc/. | |
| - name: versioning | |
| run: ./jenkins-dist.sh -v ${{ needs.init.outputs.VER }} -r ${{ needs.init.outputs.REL }} -d ${{ needs.init.outputs.DATE }} | |
| - name: doxygen | |
| run: sudo apt-get install -y doxygen && cd doc && doxygen | |
| - name: autoreconf | |
| run: autoreconf -fvi | |
| - name: mkdir | |
| run: mkdir _build | |
| - name: configure | |
| working-directory: ${{github.workspace}}/_build | |
| run: ../configure --prefix=$(pwd)/INSTALL | |
| - name: make | |
| working-directory: ${{github.workspace}}/_build | |
| run: make -j2 distcheck | |
| - name: convert | |
| run: | | |
| sudo apt install -y dos2unix | |
| native=" | |
| doc/Makefile \ | |
| doc/examples/AccumulateLine.c \ | |
| doc/examples/CreateIPhreeqc.c \ | |
| doc/examples/F90ClearAccumulatedLines.f90 \ | |
| doc/examples/F90CreateIPhreeqc.f90 \ | |
| doc/examples/F90DestroyIPhreeqc.f90 \ | |
| doc/examples/F90GetComponent.f90 \ | |
| doc/examples/F90GetDumpStringLine.f90 \ | |
| doc/examples/F90GetSelectedOutputValue.f90 \ | |
| doc/examples/F90GetVersionString.f90 \ | |
| doc/examples/GetComponent.c \ | |
| doc/examples/GetDumpString.c \ | |
| doc/examples/GetSelectedOutputValue.c \ | |
| doc/examples/GetVersionString.c \ | |
| doc/examples/IPhreeqc.cpp \ | |
| doc/examples/Makefile \ | |
| doc/examples/phreeqc.dat \ | |
| src/CSelectedOutput.cpp \ | |
| src/CSelectedOutput.hxx \ | |
| src/CVar.hxx \ | |
| src/Debug.h \ | |
| src/ErrorReporter.hxx \ | |
| src/IPhreeqc.cpp \ | |
| src/IPhreeqc.f.inc \ | |
| src/IPhreeqc.f90.inc \ | |
| src/IPhreeqc.h \ | |
| src/IPhreeqc.hpp \ | |
| src/IPhreeqcCallbacks.h \ | |
| src/IPhreeqcF.f \ | |
| src/IPhreeqcLib.cpp \ | |
| src/IPhreeqc_interface.F90 \ | |
| src/IPhreeqc_interface_F.cpp \ | |
| src/IPhreeqc_interface_F.h \ | |
| src/Var.c \ | |
| src/Var.h \ | |
| src/Version.h \ | |
| src/fimpl.h \ | |
| src/fwrap.cpp \ | |
| src/fwrap.h \ | |
| src/fwrap1.cpp \ | |
| src/fwrap2.cpp \ | |
| src/fwrap3.cpp \ | |
| src/fwrap4.cpp \ | |
| src/fwrap5.cpp \ | |
| src/fwrap6.cpp \ | |
| src/fwrap7.cpp \ | |
| src/fwrap8.cpp \ | |
| src/pp_sys.cpp \ | |
| src/thread.h \ | |
| test/llnl.dat \ | |
| test/phreeqc.dat \ | |
| test2/Makefile \ | |
| test2/wateq4f.dat \ | |
| test5/Makefile \ | |
| test5/phreeqc.dat \ | |
| test5/test5.c \ | |
| tests/main_fortran.cxx \ | |
| tests/test_c.c \ | |
| tests/test_cxx.cxx \ | |
| tests/test_f90.F90 \ | |
| unit/TestCVar.cpp \ | |
| unit/TestCVar.h \ | |
| unit/TestInterface.cpp \ | |
| unit/TestInterface.h \ | |
| unit/TestSelectedOutput.cpp \ | |
| unit/TestSelectedOutput.h \ | |
| unit/TestVar.cpp \ | |
| unit/TestVar.h \ | |
| unit/llnl.dat.old \ | |
| unit/missing_e.dat \ | |
| unit/phreeqc.dat.old \ | |
| unit/unit.cpp" | |
| for f in ${native}; do | |
| unix2dos "${f}" | |
| done | |
| - name: dist-zip | |
| working-directory: ${{github.workspace}}/_build | |
| run: make dist-zip | |
| - name: copy | |
| run: cp doc/README IPhreeqc_ReadMe.txt | |
| - uses: actions/upload-artifact@v4 | |
| with: | |
| name: readme | |
| path: ${{github.workspace}}/IPhreeqc_ReadMe.txt | |
| - uses: actions/upload-artifact@v4 | |
| with: | |
| name: tarball | |
| path: ${{github.workspace}}/_build/*.tar.gz | |
| - uses: actions/upload-artifact@v4 | |
| with: | |
| name: zipball | |
| path: ${{github.workspace}}/_build/*.zip | |
| # build: | |
| # needs: [init] | |
| # # The CMake configure and build commands are platform agnostic and should work equally | |
| # # well on Windows or Mac. You can convert this to a matrix build if you need | |
| # # cross-platform coverage. | |
| # # See: https://docs.github.com/en/free-pro-team@latest/actions/learn-github-actions/managing-complex-workflows#using-a-build-matrix | |
| # runs-on: windows-2019 | |
| # # Check all combinations of BUILD_SHARED_LIBS and BUILD_CLR_LIBS | |
| # strategy: | |
| # matrix: | |
| # BUILD_SHARED_LIBS: [ON, OFF] | |
| # BUILD_CLR_LIBS: [ON, OFF] | |
| # exclude: | |
| # - BUILD_SHARED_LIBS: OFF | |
| # BUILD_CLR_LIBS: ON | |
| # steps: | |
| # - uses: actions/checkout@v4 | |
| # - name: Configure CMake | |
| # # Configure CMake in a 'build' subdirectory. `CMAKE_BUILD_TYPE` is only required if you are using a single-configuration generator such as make. | |
| # # See https://cmake.org/cmake/help/latest/variable/CMAKE_BUILD_TYPE.html?highlight=cmake_build_type | |
| # run: cmake -B ${{github.workspace}}/build -DCMAKE_BUILD_TYPE=${{env.BUILD_TYPE}} -DBUILD_SHARED_LIBS=${{matrix.BUILD_SHARED_LIBS}} -DBUILD_CLR_LIBS=${{matrix.BUILD_CLR_LIBS}} | |
| # - name: Build | |
| # # Build your program with the given configuration | |
| # run: cmake --build ${{github.workspace}}/build --config ${{env.BUILD_TYPE}} | |
| # - name: Test | |
| # working-directory: ${{github.workspace}}/build | |
| # # Execute tests defined by the CMake configuration. | |
| # # See https://cmake.org/cmake/help/latest/manual/ctest.1.html for more detail | |
| # run: ctest -C ${{env.BUILD_TYPE}} |