address remaining codeql issues #22
Workflow file for this run
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| name: "CodeQL Advanced" | |
| on: | |
| push: | |
| branches: [ "develop" ] | |
| pull_request: | |
| branches: [ "develop" ] | |
| schedule: | |
| - cron: '16 17 * * 5' | |
| 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: Checkout submodule Argobots | |
| uses: actions/[email protected] | |
| with: | |
| submodules: 'true' | |
| - name: Checkout HDF5 latest | |
| uses: actions/[email protected] | |
| with: | |
| repository: HDFGroup/hdf5 | |
| path: hdf5 | |
| - name: Dependencies | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install libtool libopenmpi-dev zlib1g-dev python3 cmake | |
| - name: Configure Async VOL (install dependencies) | |
| run: | | |
| mydir="$PWD" | |
| export HDF5_DIR=$mydir/hdf5/install | |
| export ABT_DIR=$mydir/argobots | |
| export VOL_DIR=$mydir/vol-async/install | |
| mkdir $HDF5_DIR | |
| # Compile HDF5 | |
| cd hdf5 | |
| mkdir build | |
| cd build | |
| cmake -DCMAKE_INSTALL_PREFIX=$HDF5_DIR -DHDF5_ENABLE_PARALLEL=ON -DHDF5_ENABLE_THREADSAFE=ON \ | |
| -DHDF5_ALLOW_UNSUPPORTED=ON -DBUILD_TESTING=OFF -DHDF5_BUILD_HL_LIB=OFF \ | |
| -DHDF5_BUILD_EXAMPLES=OFF -DHDF5_BUILD_FORTRAN=OFF -DCMAKE_C_COMPILER=mpicc .. | |
| make -j && make install | |
| # Compile Argobots | |
| cd $ABT_DIR | |
| ./autogen.sh | |
| ./configure --prefix=$ABT_DIR | |
| make && make install | |
| # Configure Asynchronous VOL connector | |
| pwd | |
| cd ../ | |
| mkdir build | |
| cd build | |
| cmake -DCMAKE_INSTALL_PREFIX=$VOL_DIR -DCMAKE_C_COMPILER=mpicc .. | |
| # Initializes the CodeQL tools for scanning. | |
| - name: Initialize CodeQL | |
| uses: github/codeql-action/init@v3 | |
| with: | |
| languages: c-cpp | |
| build-mode: manual | |
| config-file: ./.github/codeql-config.yml | |
| # 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 | |
| queries: +security-extended,security-and-quality | |
| # If the analyze step fails for one of the languages you are analyzing with | |
| # "We were unable to automatically build your code", modify the matrix above | |
| # to set the build mode to "manual" for that language. Then modify this step | |
| # to build your code. | |
| - name: Async VOL -- Build and Test | |
| shell: bash | |
| run: | | |
| cd build | |
| make && make install | |
| ctest -V . | |
| - name: Perform CodeQL Analysis | |
| uses: github/codeql-action/analyze@v3 | |
| with: | |
| category: "/language:c-cpp" |