Replace Travis with GitHub actions

.github/workflows/build.yml

@@ -0,0 +1,74 @@
+name: build
+
+on:
+  push:
+    branches:
+      - master
+  pull_request:
+    branches:
+      - master
+  schedule:
+    - cron: 42 5 */14 * *
+
+jobs:
+  test:
+    name: Unit tests for Python package
+    runs-on: ${{ matrix.os }}
+    strategy:
+      matrix:
+        #os: [ 'ubuntu-latest', 'macos-latest', 'windows-latest' ]
+        os: [ 'windows-latest' ]
+        # minimal and latest
+        #py: [ '3.6', '3.9' ]
+        py: [ '3.6' ]
+        openblas_version: [ '0.2.14.1' ]
+    steps:
+      - name: Install Python ${{ matrix.py }}
+        uses: actions/setup-python@v2
+        with:
+          python-version: ${{ matrix.py }}
+
+      - name: Install system dependencies (Linux)
+        if: runner.os == 'Linux'
+        run: sudo apt-get install libatlas-base-dev liblapack-dev liblapacke-dev
+
+      - name: Install system dependencies (OSX)
+        if: runner.os == 'macOS'
+        run: brew install openblas
+
+      - name: Install system dependencies (Windows)
+        if: runner.os == 'Windows'
+        run: |
+          nuget install OpenBLAS -Version ${{ matrix.openblas_version }} -OutputDirectory /cibw/openblas -Verbosity detailed
+          echo "[openblas]" | Out-File -FilePath ~/.numpy-site.cfg -Encoding utf8
+          echo "libraries = openblas" | Out-File -FilePath ~/.numpy-site.cfg -Encoding utf8 -Append
+          echo 'library_dirs = D:\cibw\openblas\OpenBLAS.${{ matrix.openblas_version }}\lib\native\lib\x64' | Out-File -FilePath ~/.numpy-site.cfg -Encoding utf8 -Append
+          echo 'include_dir = D:\cibw\openblas\OpenBLAS.${{ matrix.openblas_version }}\lib\native\include' | Out-File -FilePath ~/.numpy-site.cfg -Encoding utf8 -Append
+          TREE "D:\\cibw\\openblas" /F
+          Rename-Item "D:\\cibw\\openblas\\OpenBLAS.${{ matrix.openblas_version }}\\lib\\native\\lib\\x64\\libopenblas.dll.a" "libopenblas.lib"
+          Rename-Item "D:\\cibw\\openblas\\OpenBLAS.${{ matrix.openblas_version }}\\lib\\native\\lib\\win32\\libopenblas.dll.a" "libopenblas.lib"
+          TREE "D:\\cibw\\openblas" /F
+          #echo "[build]`ncompiler=mingw32" | Out-File -Encoding ASCII 
+          #~/pydistutils.cfg
+
+      - name: Checkout
+        uses: actions/checkout@v2
+        with:
+          submodules: recursive
+
+      - name: Run unit tests (Linux)
+        if: runner.os == 'Linux'
+        run: make test_direct
+
+      - name: Run unit tests (OSX)
+        if: runner.os == 'macOS'
+        env:
+          LDFLAGS: "-L/usr/local/opt/openblas/lib"
+          CPPFLAGS: "-I/usr/local/opt/openblas/include"
+        run: make test_direct
+
+      - name: Run unit tests (Windows)
+        if: runner.os == 'Windows'
+        run: make test_direct
+
+

.github/workflows/deploy.yml

@@ -0,0 +1,52 @@
+name: Deploy to PyPI
+
+on:
+  pull_request:
+    branches:
+      - master
+
+jobs:
+  build_wheels:
+    name: Build wheels on ${{ matrix.os }}
+    runs-on: ${{ matrix.os }}
+    strategy:
+      matrix:
+        os: [ 'windows-latest' ]
+        python: [37]
+        openblas_version: [ '0.2.14.1' ]
+        include:
+          - os: windows-latest
+            bitness: 64
+            platform_id: win_amd64
+          - os: windows-latest
+            bitness: 32
+            platform_id: win32
+
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v2
+        with:
+          submodules: recursive
+
+      - name: Install Python ${{ matrix.py }}
+        uses: actions/setup-python@v2
+        with:
+          python-version: '3.7'
+
+            #      - name: Setup tmate session
+            #        uses: mxschmitt/action-tmate@v3
+
+      - name: Build and test wheels
+        env:
+          CIBW_BUILD: cp${{ matrix.python }}-${{ matrix.platform_id }}
+          CIBW_REPAIR_WHEEL_COMMAND_WINDOWS: bash build_tools/github/repair_windows_wheels.sh {wheel} {dest_dir} ${{ matrix.bitness }}
+          CIBW_BEFORE_TEST_WINDOWS: bash build_tools/github/build_minimal_windows_image.sh ${{ matrix.python }} ${{ matrix.bitness }}
+          CIBW_TEST_COMMAND: "python -VV && python -m unittest discover -f -s {project}/tests/"
+          CIBW_TEST_EXTRAS: "dev"
+          CIBW_SKIP: "pp* cp27-* cp33-* cp34-* cp35-*"
+          CIBW_BEFORE_ALL_WINDOWS: pwsh build_tools/github/setup_windows.ps1
+          CIBW_BEFORE_BUILD: "pip install numpy Cython"
+          CIBW_BUILD_VERBOSITY: 1
+            #CIBW_ARCHS_MACOS: x86_64 arm64 universal2
+            #CIBW_ARCHS_LINUX: auto aarch64
+        run: bash build_tools/github/build_wheels.sh

Makefile

@@ -17,33 +17,73 @@ help:
 		 awk 'BEGIN {FS = ":.*?## "}; {printf "\033[36m%-15s\033[0m\
 		 %s\n", $$1, $$2}'
 
-in: inplace
-inplace:
-	python setup.py build_ext -i
+################
+# Installation #
+################
+
+.PHONY: inplace install
+
+inplace: ## Build C extensions
+	pip install numpy Cython && python setup.py build_ext -i
 
 install: ## Install for the current user using the default python command
-	python setup.py build_ext --inplace
-	python setup.py install --user
+	python setup.py build_ext --inplace && \
+		python setup.py install --user
 
-test: venv ## Run nosetests using the default nosetests command
-	source $(VENV_DIR)/bin/activate && green -a -vv -f
+################
+# Distribution #
+################
 
-develop: ## Install a development version of the package needed for testing
-	python setup.py develop --user
+.PHONY: release dist
 
 dist: ## Make Python source distribution
 	python setup.py sdist
 
-release:
+release: ## Prepare a release
 	python make_release.py
 
+###########
+# Testing #
+###########
+
+.PHONY: test test_direct
+
+test: venv ## Run nosetests using the default nosetests command
+	source $(VENV_DIR)/bin/activate && green -a -vv -f ./tests
+
+test_direct: inplace ## Run unit tests without a virtual environment
+	pip install wheel numpy && pip install . && \
+		python -m unittest discover ./tests
+
+#################
+# Documentation #
+#################
+
 docs: doc
 doc: venv ## Build documentation with Sphinx
 	source $(VENV_DIR)/bin/activate && m2r README.md && mv README.rst $(DOC_DIR)
 	source $(VENV_DIR)/bin/activate && m2r CHANGELOG.md && mv CHANGELOG.rst $(DOC_DIR)
 	source $(VENV_DIR)/bin/activate && $(MAKE) -C $(DOC_DIR) html
 
-clean: ## Clean build dist and egg directories left after install
+#######################
+# Virtual environment #
+#######################
+
+.PHONY: venv
+
+venv: $(VENV_DIR)/bin/activate
+
+$(VENV_DIR)/bin/activate: setup.py
+	test -d $(VENV_DIR) || python -m venv $(VENV_DIR)
+	source $(VENV_DIR)/bin/activate && pip install -U numpy && \
+		pip install -e .[dev]
+	touch $(VENV_DIR)/bin/activate
+
+############
+# Clean up #
+############
+
+clean: ## Clean up after build or dist and remove compiled code
 	rm -rf ./dist
 	rm -rf ./build
 	rm -rf ./$(PACKAGE).egg-info
@@ -55,13 +95,5 @@ clean: ## Clean build dist and egg directories left after install
 	find . -type f -iname '*.pyc' -delete
 	find . -type d -name '__pycache__' -empty -delete
 
-cleaner: clean
+cleaner: clean ## Remove Cython output too
 	rm -f ./src/wrapper.c
-
-venv: $(VENV_DIR)/bin/activate
-
-$(VENV_DIR)/bin/activate: setup.py
-	test -d $(VENV_DIR) || python -m venv $(VENV_DIR)
-	source $(VENV_DIR)/bin/activate && pip install -U numpy && \
-		pip install -e .[dev]
-	touch $(VENV_DIR)/bin/activate

build_tools/github/Windows

@@ -0,0 +1,15 @@
+# Get the Python version of the base image from a build argument
+ARG PYTHON_VERSION
+FROM winamd64/python:$PYTHON_VERSION-windowsservercore
+
+ARG WHEEL_NAME
+ARG CONFTEST_NAME
+ARG CIBW_TEST_REQUIRES
+
+# Copy and install the Windows wheel
+COPY $WHEEL_NAME $WHEEL_NAME
+COPY $CONFTEST_NAME $CONFTEST_NAME
+RUN pip install $env:WHEEL_NAME
+
+# Install the testing dependencies
+RUN pip install $env:CIBW_TEST_REQUIRES.split(" ")

build_tools/github/build_minimal_windows_image.sh

@@ -0,0 +1,31 @@
+#!/bin/bash
+
+set -e
+set -x
+
+PYTHON_VERSION=$1
+BITNESS=$2
+
+if [[ "$PYTHON_VERSION" == "36" || "$BITNESS" == "32" ]]; then
+	# Python 3.6 and 32-bit architectures are not supported by the 
+	# official Docker images: Tests will just be run on the host (instead 
+	# of the minimal Docker container)
+	exit 0
+fi
+
+TEMP_FOLDER="$HOME/AppData/Local/Temp"
+WHEEL_PATH=$(ls -d $TEMP_FOLDER/*/repaired_wheel/*)
+WHEEL_NAME=$(basename $WHEEL_PATH)
+
+cp $WHEEL_PATH $WHEEL_NAME
+
+# Dot the Python version for identifying the base Docker image
+PYTHON_VERSION=$(echo ${PYTHON_VERSION:0:1}.${PYTHON_VERSION:1:2})
+
+# Build a minimal Windows Docker image for testing the wheels
+docker build --build-arg PYTHON_VERSION=$PYTHON_VERSION \
+	--build-arg WHEEL_NAME=$WHEEL_NAME \
+	--build-arg CONFTEST_NAME=$CONFTEST_NAME \
+	--build-arg CIBW_TEST_REQUIRES="$CIBW_TEST_REQUIRES" \
+	-f build_tools/github/windows \
+	-t gensvm/minimal-windows .

build_tools/github/build_wheels.sh

@@ -0,0 +1,11 @@
+#!/bin/bash
+
+set -e
+set -x
+
+# The version of the built dependencies are specified
+# in the pyproject.toml file, while the tests are run
+# against the most recent version of the dependencies
+
+python -m pip install cibuildwheel
+python -m cibuildwheel --output-dir wheelhouse

build_tools/github/inspect_pyd.ps1

@@ -0,0 +1 @@
+dumpbin /dependents gensvm-0.2.8/gensvm/cython_wrapper/wrapper.cp37-win32.pyd

build_tools/github/repair_windows_wheels.sh

@@ -0,0 +1,32 @@
+#!/bin/bash
+
+# TODO: This file is adapted from scikit-learn
+
+set -e
+set -x
+
+WHEEL=$1
+DEST_DIR=$2
+BITNESS=$3
+
+# By default, the Windows wheels are not repaired.
+# In this case, we need to vendor VCRUNTIME140.dll
+wheel unpack "$WHEEL"
+WHEEL_DIRNAME=$(ls -d gensvm-*)
+
+ls -R -a "${WHEEL_DIRNAME}"
+
+python build_tools/github/vendor.py "$WHEEL_DIRNAME" "$BITNESS"
+
+sleep 1
+
+ls -R -a "${WHEEL_DIRNAME}"
+
+sleep 1
+
+cat "${WHEEL_DIRNAME}/gensvm/_distributor_init.py"
+
+sleep 1
+
+wheel pack "$WHEEL_DIRNAME" -d "$DEST_DIR"
+rm -rf "$WHEEL_DIRNAME"

build_tools/github/setup_windows.ps1

@@ -0,0 +1,16 @@
+
+
+nuget install OpenBLAS -Version 0.2.14.1 -OutputDirectory /cibw/openblas -Verbosity detailed
+
+echo "[openblas]" | Out-File -FilePath ~/.numpy-site.cfg -Encoding utf8
+
+echo "libraries = openblas" | Out-File -FilePath ~/.numpy-site.cfg -Encoding utf8 -Append
+echo 'library_dirs = D:\cibw\openblas\OpenBLAS.0.2.14.1\lib\native\lib\x64' | Out-File -FilePath ~/.numpy-site.cfg -Encoding utf8 -Append
+echo 'include_dir = D:\cibw\openblas\OpenBLAS.0.2.14.1\lib\native\include' | Out-File -FilePath ~/.numpy-site.cfg -Encoding utf8 -Append
+
+TREE "D:\\cibw\\openblas" /F
+
+Rename-Item "D:\\cibw\\openblas\\OpenBLAS.0.2.14.1\\lib\\native\\lib\\x64\\libopenblas.dll.a" "libopenblas.lib"
+Rename-Item "D:\\cibw\\openblas\\OpenBLAS.0.2.14.1\\lib\\native\\lib\\win32\\libopenblas.dll.a" "libopenblas.lib"
+
+TREE "D:\\cibw\\openblas" /F