Adjust to handle full array types #12
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| name: "CodeQL Advanced" | |
| on: | |
| push: | |
| branches: [ "master" ] | |
| pull_request: | |
| branches: [ "master" ] | |
| schedule: | |
| - cron: "16 7 * * 0" | |
| jobs: | |
| analyze: | |
| name: Analyze | |
| # Runner size impacts CodeQL analysis time. To learn more, please see: | |
| # - https://gh.io/recommended-hardware-resources-for-running-codeql | |
| # - https://gh.io/supported-runners-and-hardware-resources | |
| # - https://gh.io/using-larger-runners (GitHub.com only) | |
| # Consider using larger runners or machines with greater resources for possible analysis time improvements. | |
| runs-on: ubuntu-latest | |
| permissions: | |
| # required for all workflows | |
| security-events: write | |
| # required to fetch internal or private CodeQL packs | |
| packages: read | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| include: | |
| - language: c-cpp | |
| build-mode: manual | |
| # CodeQL supports the following values keywords for 'language': 'c-cpp', 'csharp', 'go', 'java-kotlin', 'javascript-typescript', 'python', 'ruby', 'swift' | |
| # Use `c-cpp` to analyze code written in C, C++ or both | |
| # Use 'java-kotlin' to analyze code written in Java, Kotlin or both | |
| # Use 'javascript-typescript' to analyze code written in JavaScript, TypeScript or both | |
| # To learn more about changing the languages that are analyzed or customizing the build mode for your analysis, | |
| # see https://docs.github.com/en/code-security/code-scanning/creating-an-advanced-setup-for-code-scanning/customizing-your-advanced-setup-for-code-scanning. | |
| # If you are analyzing a compiled language, you can modify the 'build-mode' for that language to customize how | |
| # your codebase is analyzed, see https://docs.github.com/en/code-security/code-scanning/creating-an-advanced-setup-for-code-scanning/codeql-code-scanning-for-compiled-languages | |
| steps: | |
| - name: Install Dependencies (Linux) | |
| run: | | |
| sudo gem install apt-spy2 | |
| sudo apt-spy2 check | |
| sudo apt-spy2 fix --commit | |
| sudo apt update | |
| sudo apt upgrade | |
| sudo apt-get install -qq libhdf5-dev | |
| sudo apt-get install -qq hdf5-tools | |
| echo "HDF5_HOME=/usr/include/hdf5/serial,/usr/lib/x86_64-linux-gnu/hdf5/serial,/usr/bin" >> $GITHUB_ENV | |
| # Set env vars | |
| echo "CC=gcc" >> $GITHUB_ENV | |
| echo "FC=gfortran" >> $GITHUB_ENV | |
| echo "CXX=g++" >> $GITHUB_ENV | |
| - name: Checkout | |
| uses: actions/checkout@v3 | |
| ################################## | |
| # INSTALL ZFP | |
| ################################## | |
| - name: install ZFP | |
| run: | | |
| git clone https://github.com/LLNL/zfp.git | |
| export HOME_DIR=$(echo ~) | |
| cd zfp | |
| mkdir build;cd build | |
| cmake -D ZFP_BIT_STREAM_WORD_SIZE=8 -D BUILD_CFP=ON -D CMAKE_INSTALL_PREFIX=$PWD/zfp -D BUILD_TESTING=OFF -D BUILD_UTILITIES=OFF .. | |
| make install | |
| echo "ZFP_HOME=$PWD/zfp" >> $GITHUB_ENV | |
| echo "ZFP_DIR=$PWD/zfp" >> $GITHUB_ENV | |
| shell: bash | |
| ################################## | |
| # BUILD AND TEST H5Z-ZFP | |
| ################################## | |
| - name: Initialize CodeQL | |
| uses: github/codeql-action/init@v3 | |
| with: | |
| languages: c-cpp | |
| build-mode: manual | |
| # If you wish to specify custom queries, you can do so here or in a config file. | |
| # By default, queries listed here will override any specified in a config file. | |
| # Prefix the list here with "+" to use these queries and those in the config file. | |
| # For more details on CodeQL's query packs, refer to: | |
| #https://docs.github.com/en/code-security/code-scanning/automatically-scanning-your-code-for-vulnerabilities-and-errors/configuring-code-scanning#using-queries-in-ql-packs | |
| config: | | |
| query-filters: | |
| - exclude: | |
| # See: https://codeql.github.com/codeql-query-help/cpp/cpp-guarded-free/ | |
| id: cpp/guarded-free | |
| - exclude: | |
| # See: https://codeql.github.com/codeql-query-help/cpp/cpp-unused-static-function/ | |
| id: cpp/unused-static-function | |
| queries: +security-extended,security-and-quality | |
| - name: configure h5z-zfp | |
| run: | | |
| mkdir build; cd build | |
| cmake -D FORTRAN_INTERFACE=ON -D CMAKE_BUILD_TYPE=Debug -DBUILD_TESTING=ON .. | |
| shell: bash | |
| - name: build and test | |
| run: | | |
| cd build | |
| cmake --build . | |
| ctest -C Debug . | |
| shell: bash | |
| # NOTE: C/C++ does not support path-based filtering when using the manual build mode. | |
| # The "paths" and "paths-ignore" configuration properties will have no effect for this | |
| # language. If desired, you can use the advanced-security/filter-sarif Action to rewrite | |
| # the SARIF file to exclude alerts from these paths. For more information, | |
| # see https://github.com/advanced-security/filter-sarif | |
| - name: Perform CodeQL Analysis | |
| uses: github/codeql-action/analyze@v3 | |
| with: | |
| category: "/language:c-cpp" | |
| output: sarif-results | |
| upload: failure-only | |
| - name: filter-sarif | |
| uses: advanced-security/filter-sarif@main | |
| with: | |
| patterns: | | |
| -**/* | |
| src/**/* | |
| input: sarif-results/cpp.sarif | |
| output: sarif-results/cpp.sarif | |
| - name: Upload SARIF | |
| uses: github/codeql-action/upload-sarif@v3 | |
| with: | |
| sarif_file: sarif-results/cpp.sarif | |
| - name: Upload loc as a Build Artifact | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: sarif-results | |
| path: sarif-results | |
| retention-days: 1 |