Merge commit '464364b55468e5a78a3579ea05f9703011fd31bc' into update-libs

src/zfp/.github/dependabot.yml

@@ -0,0 +1,7 @@
+# https://docs.github.com/en/code-security/dependabot/dependabot-version-updates/configuration-options-for-the-dependabot.yml-file
+version: 2
+updates:
+  - package-ecosystem: "github-actions"
+    directory: "/"
+    schedule:
+      interval: "weekly"

src/zfp/.github/workflows/coverage.yml

@@ -0,0 +1,49 @@
+name: Coverage Report
+
+on:
+  workflow_run:
+    workflows: [Tests]
+    types: [completed]
+
+jobs:
+  coverage:
+    runs-on: ubuntu-latest
+    if: ${{ github.event.workflow_run.conclusion == 'success' }}
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v4
+
+      - name: Setup Python
+        uses: actions/setup-python@v4
+        with:
+          python-version: '3.x'
+          architecture: x64
+
+      - name: Install Dependencies
+        run: |-
+          sudo apt install lcov
+          python -m pip install lcov_cobertura
+
+      - name: Run CMake
+        run: cmake -B ${{github.workspace}}/build -DCMAKE_BUILD_TYPE=Release -DCMAKE_CXX_COMPILER=g++-11 -DCMAKE_C_COMPILER=gcc-11 -DCMAKE_CXX_FLAGS="-fprofile-arcs -ftest-coverage" -DCMAKE_C_FLAGS="-fprofile-arcs -ftest-coverage" -DBUILD_TESTING_FULL=ON -DBUILD_CFP=ON -DZFP_WITH_OPENMP=ON
+
+      - name: Build
+        run: cmake --build ${{github.workspace}}/build
+
+      - name: Run Tests
+        working-directory: ${{github.workspace}}/build
+        run: ctest -j 8
+
+      - name: Generate Coverage Report
+        working-directory: ${{github.workspace}}/build
+        run: |-
+          lcov -c --directory ${{github.workspace}}/build --output-file coverage.info
+          lcov --remove coverage.info '${{github.workspace}}/build/tests/*' --remove coverage.info '${{github.workspace}}/tests/*' --remove coverage.info '/usr/include/*' -o coverage.info
+          lcov_cobertura ${{github.workspace}}/build/coverage.info -d -o ${{github.workspace}}/build/coverage.xml
+
+      - name: Upload Report to Codecov
+        uses: codecov/codecov-action@v3
+        with:
+           files: ${{github.workspace}}/build/coverage.xml
+           env_vars: Actions
+           fail_ci_if_error: true

src/zfp/.github/workflows/debug-linux.yml

@@ -0,0 +1,29 @@
+name: Debug (Linux)
+
+on: [workflow_dispatch]
+
+jobs:
+    debug:
+      runs-on: ubuntu-latest
+      steps:
+        - name: Checkout Zfp
+          uses: actions/checkout@v4
+
+        - name: Setup Python
+          uses: actions/setup-python@v4
+          with:
+            python-version: '3.x'
+            architecture: x64
+
+        - name: Install Zfpy Dependencies
+          run: |
+            python -m pip install cython
+            python -m pip install oldest-supported-numpy
+            python -m pip install setuptools
+
+        - name: Install OpenMP
+          run: |
+            sudo apt-get update; sudo apt-get install -y libomp5 libomp-dev
+
+        - name: Setup Tmate Session
+          uses: mxschmitt/action-tmate@v3

src/zfp/.github/workflows/debug-macos.yml

@@ -0,0 +1,29 @@
+name: Debug (MacOS)
+
+on: [workflow_dispatch]
+
+jobs:
+    debug:
+      runs-on: macos-latest
+      steps:
+        - name: Checkout Zfp
+          uses: actions/checkout@v4
+
+        - name: Setup Python
+          uses: actions/setup-python@v4
+          with:
+            python-version: '3.x'
+            architecture: x64
+
+        - name: Install Zfpy Dependencies
+          run: |
+            python -m pip install cython
+            python -m pip install oldest-supported-numpy
+            python -m pip install setuptools
+
+        - name: Install OpenMP
+          run: |
+            brew install libomp
+
+        - name: Setup Tmate Session
+          uses: mxschmitt/action-tmate@v3

src/zfp/.github/workflows/tests.yml

@@ -0,0 +1,78 @@
+name: Tests
+
+on: push
+
+env:
+  BUILD_TYPE: Release
+
+jobs:
+  build:
+    runs-on: ${{matrix.os}}
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            cxx_compiler: g++-10
+            c_compiler: gcc-10
+            omp: ON
+            target: all
+
+          - os: ubuntu-latest
+            cxx_compiler: clang++
+            c_compiler: clang
+            omp: ON
+            target: all
+
+          - os: macos-latest
+            cxx_compiler: g++-11
+            c_compiler: gcc-11
+            omp: ON
+            target: all
+
+          - os: macos-latest
+            cxx_compiler: clang++
+            c_compiler: clang
+            omp: OFF
+            target: all
+
+    steps:
+      - uses: actions/checkout@v4
+
+      - name: Setup Python
+        uses: actions/setup-python@v4
+        with:
+          python-version: '3.x'
+          architecture: x64
+
+      - name: Install zfpy dependencies
+        run: |
+          python -m pip install cython
+          python -m pip install oldest-supported-numpy
+          python -m pip install setuptools
+      
+      - name: Setup OpenMP (Linux)
+        if: ${{matrix.os == 'ubuntu-latest' && matrix.cxx_compiler == 'clang++'}}
+        run: sudo apt-get update; sudo apt-get install -y libomp5 libomp-dev
+
+      - name: Setup OpenMP (MacOS)
+        if: ${{matrix.os == 'macos-latest'}}
+        run: |
+          brew install libomp
+          echo "CC=$(brew --prefix llvm)/bin/clang" >> $GITHUB_ENV
+          echo "CXX=$(brew --prefix llvm)/bin/clang++" >> $GITHUB_ENV
+          echo "LDFLAGS=\"-L$(brew --prefix llvm)/lib\"" >> $GITHUB_ENV
+          echo "CPPFLAGS=\"-I$(brew --prefix llvm)/include\"" >> $GITHUB_ENV
+
+      - name: Run CMake
+        id: cmake
+        run: cmake -B ${{github.workspace}}/build ${{matrix.generator}} -DCMAKE_BUILD_TYPE=${{env.BUILD_TYPE}} -DCMAKE_CXX_COMPILER=${{matrix.cxx_compiler}} -DCMAKE_C_COMPILER=${{matrix.c_compiler}} -DBUILD_TESTING_FULL=ON -DZFP_WITH_OPENMP=${{matrix.omp}} -DBUILD_ZFPY=ON -DPYTHON_INCLUDE_DIR=$(python -c "from distutils.sysconfig import get_python_inc; print(get_python_inc())")  -DPYTHON_LIBRARY=$(python -c "import distutils.sysconfig as sysconfig; print(sysconfig.get_config_var('LIBDIR'))")
+
+      - name: Build
+        id: build
+        run: cmake --build ${{github.workspace}}/build --target ${{matrix.target}} --config ${{env.BUILD_TYPE}}
+
+      - name: Run Tests
+        id: test
+        working-directory: ${{github.workspace}}/build
+        run: ctest -C ${{env.BUILD_TYPE}} -VV

src/zfp/.gitignore

@@ -3,3 +3,7 @@
 bin
 build
 lib
+dist
+wheelhouse
+zfpy.egg-info
+modules

src/zfp/.readthedocs.yaml

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+# Read the Docs configuration file for Sphinx projects
+# See https://docs.readthedocs.io/en/stable/config-file/v2.html for details
+
+# Required
+version: 2
+
+# Set the OS, Python version and other tools you might need
+build:
+  os: ubuntu-22.04
+  tools:
+    python: "3.12"
+    # You can also specify other tool versions:
+    # nodejs: "20"
+    # rust: "1.70"
+    # golang: "1.20"
+
+# Build documentation in the "docs/" directory with Sphinx
+sphinx:
+  configuration: docs/source/conf.py
+  # You can configure Sphinx to use a different builder, for instance use the dirhtml builder for simpler URLs
+  # builder: "dirhtml"
+  # Fail on all warnings to avoid broken references
+  # fail_on_warning: true
+
+# Optionally build your docs in additional formats such as PDF and ePub
+formats:
+  - pdf
+#   - epub
+
+# Optional but recommended, declare the Python requirements required
+# to build your documentation
+# See https://docs.readthedocs.io/en/stable/guides/reproducible-builds.html
+python:
+  install:
+    - requirements: docs/requirements.txt