Merge pull request #43 from thewtex/all-repos_autofix_ci-itk-5.4.0-se…

…cret-syntax

ENH: Upgrade CI for ITK 5.4.0

.github/workflows/build-test-package.yml

@@ -1,278 +1,15 @@
+
 name: Build, test, package
 
 on: [push,pull_request]
 
 jobs:
-  build-test-cxx:
-    runs-on: ${{ matrix.os }}
-    strategy:
-      max-parallel: 3
-      matrix:
-        os: [ubuntu-18.04, windows-2019, macos-10.15]
-        include:
-          - os: ubuntu-18.04
-            c-compiler: "gcc"
-            cxx-compiler: "g++"
-            itk-git-tag: "d6acfd26bfcdec606d605beb1301bddfb17c05a6"
-            cmake-build-type: "MinSizeRel"
-          - os: windows-2019
-            c-compiler: "cl.exe"
-            cxx-compiler: "cl.exe"
-            itk-git-tag: "d6acfd26bfcdec606d605beb1301bddfb17c05a6"
-            cmake-build-type: "Release"
-          - os: macos-10.15
-            c-compiler: "clang"
-            cxx-compiler: "clang++"
-            itk-git-tag: "d6acfd26bfcdec606d605beb1301bddfb17c05a6"
-            cmake-build-type: "MinSizeRel"
-
-    steps:
-      - uses: actions/checkout@v1
-
-      - name: Set up Python 3.7
-        uses: actions/setup-python@v1
-        with:
-          python-version: 3.7
-
-      - name: Install build dependencies
-        run: |
-          python -m pip install --upgrade pip
-          python -m pip install ninja
-
-      - name: Get specific version of CMake, Ninja
-        uses: lukka/[email protected]
-
-      - name: Download ITK
-        run: |
-          cd ..
-          git clone https://github.com/InsightSoftwareConsortium/ITK.git
-          cd ITK
-          git checkout ${{ matrix.itk-git-tag }}
-
-      - name: Build ITK
-        if: matrix.os != 'windows-2019'
-        run: |
-          cd ..
-          mkdir ITK-build
-          cd ITK-build
-          cmake -DCMAKE_C_COMPILER:FILEPATH="${{ matrix.c-compiler }}" -DBUILD_SHARED_LIBS:BOOL=OFF -DCMAKE_CXX_COMPILER="${{ matrix.cxx-compiler }}" -DCMAKE_BUILD_TYPE:STRING=${{ matrix.cmake-build-type }} -DBUILD_TESTING:BOOL=OFF -GNinja ../ITK
-          ninja
-
-      - name: Build ITK
-        if: matrix.os == 'windows-2019'
-        run: |
-          cd ..
-          mkdir ITK-build
-          cd ITK-build
-          call "C:\Program Files (x86)\Microsoft Visual Studio\2019\Enterprise\VC\Auxiliary\Build\vcvars64.bat"
-          cmake -DCMAKE_C_COMPILER:FILEPATH="${{ matrix.c-compiler }}" -DBUILD_SHARED_LIBS:BOOL=OFF -DCMAKE_CXX_COMPILER="${{ matrix.cxx-compiler }}" -DCMAKE_BUILD_TYPE:STRING=${{ matrix.cmake-build-type }} -DBUILD_TESTING:BOOL=OFF -GNinja ../ITK
-          ninja
-        shell: cmd
-
-      - name: Fetch CTest driver script
-        run: |
-          curl -L https://raw.githubusercontent.com/InsightSoftwareConsortium/ITK/dashboard/itk_common.cmake -O
-
-      - name: Configure CTest script
-        shell: bash
-        run: |
-          operating_system="${{ matrix.os }}"
-          cat > dashboard.cmake << EOF
-          set(CTEST_SITE "GitHubActions")
-          file(TO_CMAKE_PATH "\$ENV{GITHUB_WORKSPACE}/.." CTEST_DASHBOARD_ROOT)
-          file(TO_CMAKE_PATH "\$ENV{GITHUB_WORKSPACE}/" CTEST_SOURCE_DIRECTORY)
-          file(TO_CMAKE_PATH "\$ENV{GITHUB_WORKSPACE}/../build" CTEST_BINARY_DIRECTORY)
-          set(dashboard_source_name "${GITHUB_REPOSITORY}")
-          if(ENV{GITHUB_REF} MATCHES "master")
-            set(branch "-master")
-            set(dashboard_model "Continuous")
-          else()
-            set(branch "-${GITHUB_REF}")
-            set(dashboard_model "Experimental")
-          endif()
-          set(CTEST_BUILD_NAME "${GITHUB_REPOSITORY}-${operating_system}-\${branch}")
-          set(CTEST_UPDATE_VERSION_ONLY 1)
-          set(CTEST_TEST_ARGS \${CTEST_TEST_ARGS} PARALLEL_LEVEL \${PARALLEL_LEVEL})
-          set(CTEST_BUILD_CONFIGURATION "Release")
-          set(CTEST_CMAKE_GENERATOR "Ninja")
-          set(CTEST_CUSTOM_WARNING_EXCEPTION
-            \${CTEST_CUSTOM_WARNING_EXCEPTION}
-            # macOS Azure VM Warning
-            "ld: warning: text-based stub file"
-            )
-          set(dashboard_no_clean 1)
-          set(ENV{CC} ${{ matrix.c-compiler }})
-          set(ENV{CXX} ${{ matrix.cxx-compiler }})
-          if(WIN32)
-            set(ENV{PATH} "\${CTEST_DASHBOARD_ROOT}/ITK-build/bin;\$ENV{PATH}")
-          endif()
-          set(dashboard_cache "
-          ITK_DIR:PATH=\${CTEST_DASHBOARD_ROOT}/ITK-build
-          BUILD_TESTING:BOOL=ON
-          ")
-          string(TIMESTAMP build_date "%Y-%m-%d")
-          message("CDash Build Identifier: \${build_date} \${CTEST_BUILD_NAME}")
-          message("CTEST_SITE = \${CTEST_SITE}")
-          include(\${CTEST_SCRIPT_DIRECTORY}/itk_common.cmake)
-          EOF
-          cat dashboard.cmake
-
-      - name: Build and test
-        if: matrix.os != 'windows-2019'
-        run: |
-          ctest --output-on-failure -j 2 -V -S dashboard.cmake
-
-      - name: Build and test
-        if: matrix.os == 'windows-2019'
-        run: |
-          call "C:\Program Files (x86)\Microsoft Visual Studio\2019\Enterprise\VC\Auxiliary\Build\vcvars64.bat"
-          ctest --output-on-failure -j 2 -V -S dashboard.cmake
-        shell: cmd
-
-  build-linux-python-packages:
-    runs-on: ubuntu-18.04
-    strategy:
-      max-parallel: 2
-      matrix:
-        python-version: [37, 38, 39, 310]
-        include:
-          - itk-python-git-tag: "v5.3rc04"
-
-    steps:
-      - uses: actions/checkout@v2
-
-      - name: 'Free up disk space'
-        run: |
-          # Workaround for https://github.com/actions/virtual-environments/issues/709
-          df -h
-          sudo apt-get clean
-          sudo rm -rf "/usr/local/share/boost"
-          sudo rm -rf "$AGENT_TOOLSDIRECTORY"
-          df -h
-
-      - name: 'Fetch build script'
-        run: |
-          curl -L https://raw.githubusercontent.com/InsightSoftwareConsortium/ITKPythonPackage/master/scripts/dockcross-manylinux-download-cache-and-build-module-wheels.sh -O
-          chmod u+x dockcross-manylinux-download-cache-and-build-module-wheels.sh
-
-      - name: 'Build 🐍 Python 📦 package'
-        run: |
-          export ITK_PACKAGE_VERSION=${{ matrix.itk-python-git-tag }}
-          ./dockcross-manylinux-download-cache-and-build-module-wheels.sh cp${{ matrix.python-version }}
-
-      - name: Publish Python package as GitHub Artifact
-        uses: actions/upload-artifact@v1
-        with:
-          name: LinuxWheel${{ matrix.python-version }}
-          path: dist
-
-  build-macos-python-packages:
-    runs-on: macos-10.15
-    strategy:
-      max-parallel: 2
-      matrix:
-        include:
-          - itk-python-git-tag: "v5.3rc04"
-
-    steps:
-      - uses: actions/checkout@v2
-
-      - name: 'Specific XCode version'
-        run: |
-          sudo xcode-select -s "/Applications/Xcode_11.7.app"
-
-      - name: Get specific version of CMake, Ninja
-        uses: lukka/[email protected]
-
-      - name: 'Fetch build script'
-        run: |
-          curl -L https://raw.githubusercontent.com/InsightSoftwareConsortium/ITKPythonPackage/master/scripts/macpython-download-cache-and-build-module-wheels.sh -O
-          chmod u+x macpython-download-cache-and-build-module-wheels.sh
-
-      - name: 'Build 🐍 Python 📦 package'
-        run: |
-          export ITK_PACKAGE_VERSION=${{ matrix.itk-python-git-tag }}
-          export MACOSX_DEPLOYMENT_TARGET=10.9
-          ./macpython-download-cache-and-build-module-wheels.sh
-
-      - name: Publish Python package as GitHub Artifact
-        uses: actions/upload-artifact@v1
-        with:
-          name: MacOSWheels
-          path: dist
-
-  build-windows-python-packages:
-    runs-on: windows-2019
-    strategy:
-      max-parallel: 2
-      matrix:
-        python-version-minor: [7, 8, 9, 10]
-        include:
-          - itk-python-git-tag: "v5.3rc04"
-
-    steps:
-      - uses: actions/checkout@v2
-        with:
-          path: "im"
-
-      - name: 'Install Python'
-        run: |
-          $pythonArch = "64"
-          $pythonVersion = "3.${{ matrix.python-version-minor }}"
-          iex ((new-object net.webclient).DownloadString('https://raw.githubusercontent.com/scikit-build/scikit-ci-addons/master/windows/install-python.ps1'))
-
-      - name: 'Fetch build dependencies'
-        shell: bash
-        run: |
-          mv im ../../
-          cd ../../im
-          curl -L "https://github.com/InsightSoftwareConsortium/ITKPythonBuilds/releases/download/${{ matrix.itk-python-git-tag }}/ITKPythonBuilds-windows.zip" -o "ITKPythonBuilds-windows.zip"
-          7z x ITKPythonBuilds-windows.zip -o/c/P -aoa -r
-          curl -L "https://data.kitware.com/api/v1/file/5c0ad59d8d777f2179dd3e9c/download" -o "doxygen-1.8.11.windows.bin.zip"
-          7z x doxygen-1.8.11.windows.bin.zip -o/c/P/doxygen -aoa -r
-          curl -L "https://data.kitware.com/api/v1/file/5bbf87ba8d777f06b91f27d6/download/grep-win.zip" -o "grep-win.zip"
-          7z x grep-win.zip -o/c/P/grep -aoa -r
-
-      - name: 'Build 🐍 Python 📦 package'
-        shell: cmd
-        run: |
-          cd ../../im
-          call "C:\Program Files (x86)\Microsoft Visual Studio\2019\Enterprise\VC\Auxiliary\Build\vcvars64.bat"
-          set PATH=C:\P\grep;%PATH%
-          set CC=cl.exe
-          set CXX=cl.exe
-          C:\Python3${{ matrix.python-version-minor }}-x64\python.exe C:\P\IPP\scripts\windows_build_module_wheels.py --py-envs "3${{ matrix.python-version-minor }}-x64"
-
-      - name: Publish Python package as GitHub Artifact
-        uses: actions/upload-artifact@v1
-        with:
-          name: WindowsWheel3.${{ matrix.python-version-minor }}
-          path: ../../im/dist
-
-  publish-python-packages-to-pypi:
-    needs:
-      - build-linux-python-packages
-      - build-macos-python-packages
-      - build-windows-python-packages
-    runs-on: ubuntu-18.04
-
-    steps:
-      - name: Download Python Packages
-        uses: actions/download-artifact@v2
-
-      - name: Prepare packages for upload
-        run: |
-          ls -R
-          for d in */; do
-            mv ${d}/*.whl .
-          done
-          mkdir dist
-          mv *.whl dist/
-          ls dist
-
-      - name: Publish 🐍 Python 📦 package to PyPI
-        if: github.event_name == 'push' && startsWith(github.event.ref, 'refs/tags')
-        uses: pypa/gh-action-pypi-publish@master
-        with:
-          user: __token__
-          password: ${{ secrets.pypi_password }}
+  cxx-build-workflow:
+    uses: InsightSoftwareConsortium/ITKRemoteModuleBuildTestPackageAction/.github/workflows/[email protected]
+
+  python-build-workflow:
+    uses: InsightSoftwareConsortium/ITKRemoteModuleBuildTestPackageAction/.github/workflows/[email protected]
+    with:
+      test-notebooks: false
+    secrets:
+      pypi_password: ${{ secrets.pypi_password }}

pyproject.toml

@@ -0,0 +1,108 @@
+[build-system]
+requires = ["scikit-build-core"]
+build-backend = "scikit_build_core.build"
+
+[project]
+name = "itk-phasesymmetry"
+version = "1.0.5"
+description = "itk-phasesymmetry provides multi-scale steerable filters "
+readme = "README.rst"
+license = {file = "LICENSE"}
+authors = [
+    { name = "Charles Hatt", email = "[email protected]" },
+]
+keywords = [
+    "itk",
+]
+classifiers = [
+    "Development Status :: 4 - Beta",
+    "Intended Audience :: Developers",
+    "Intended Audience :: Education",
+    "Intended Audience :: Healthcare Industry",
+    "Intended Audience :: Science/Research",
+    "License :: OSI Approved :: Apache Software License",
+    "Operating System :: Android",
+    "Operating System :: MacOS",
+    "Operating System :: Microsoft :: Windows",
+    "Operating System :: POSIX",
+    "Operating System :: Unix",
+    "Programming Language :: C++",
+    "Programming Language :: Python",
+    "Topic :: Scientific/Engineering",
+    "Topic :: Scientific/Engineering :: Information Analysis",
+    "Topic :: Scientific/Engineering :: Medical Science Apps.",
+    "Topic :: Software Development :: Libraries",
+]
+requires-python = ">=3.8"
+dependencies = [
+    "itk == 5.4.*",
+]
+
+[project.urls]
+Download = "https://github.com/KitwareMedical/ITKPhaseSymmetry"
+Homepage = "https://github.com/KitwareMedical/ITKPhaseSymmetry"
+
+[tool.scikit-build]
+# The versions of CMake to allow. If CMake is not present on the system or does
+# not pass this specifier, it will be downloaded via PyPI if possible. An empty
+# string will disable this check.
+cmake.version = ">=3.16.3"
+
+# A list of args to pass to CMake when configuring the project. Setting this in
+# config or envvar will override toml. See also ``cmake.define``.
+cmake.args = []
+
+# A table of defines to pass to CMake when configuring the project. Additive.
+cmake.define = {}
+
+# Verbose printout when building.
+cmake.verbose = true
+
+# The build type to use when building the project. Valid options are: "Debug",
+# "Release", "RelWithDebInfo", "MinSizeRel", "", etc.
+cmake.build-type = "Release"
+
+# The source directory to use when building the project. Currently only affects
+# the native builder (not the setuptools plugin).
+cmake.source-dir = "."
+
+# The versions of Ninja to allow. If Ninja is not present on the system or does
+# not pass this specifier, it will be downloaded via PyPI if possible. An empty
+# string will disable this check.
+ninja.version = ">=1.11"
+
+# The logging level to display, "DEBUG", "INFO", "WARNING", and "ERROR" are
+# possible options.
+logging.level = "INFO"
+
+# Files to include in the SDist even if they are skipped by default. Supports
+# gitignore syntax.
+sdist.include = []
+
+# Files to exclude from the SDist even if they are included by default. Supports
+# gitignore syntax.
+sdist.exclude = []
+
+# A list of license files to include in the wheel. Supports glob patterns.
+wheel.license-files = ["LICEN[CS]E*",]
+
+# Target the platlib or the purelib. If not set, the default is to target the
+# platlib if wheel.cmake is true, and the purelib otherwise.
+wheel.platlib = "false"
+
+# If CMake is less than this value, backport a copy of FindPython. Set to 0
+# disable this, or the empty string.
+backport.find-python = "3.26.1"
+
+# Select the editable mode to use. Can be "redirect" (default) or "inplace".
+editable.mode = "redirect"
+
+# Rebuild the project when the package is imported. The build-directory must be
+# set.
+editable.rebuild = false
+
+# If set, this will provide a method for scikit-build-core backward compatibility.
+minimum-version = "0.8.2"
+
+# The build directory. Defaults to a temporary directory, but can be set.
+build-dir = "build/{wheel_tag}"