Test compatibility with newer C++ standards

Refactor FileStream and HiCFileWriter to be more robust against data races #85

Workflow file for this run

	# Copyright (C) 2024 Roberto Rossini <[email protected]>
	# SPDX-License-Identifier: MIT

	name: Test compatibility with newer C++ standards

	on:
	push:
	branches: [main]
	paths:
	- ".github/workflows/build-conan-deps.yml"
	- ".github/workflows/cppstd.yml"
	- ".github/workflows/evict-gha-cache.yml"
	- "cmake/**"
	- "examples/**"
	- "src/**"
	- "test/scripts/**"
	- "test/units/**"
	- "CMakeLists.txt"
	- "conanfile.py"

	pull_request:
	paths:
	- ".github/workflows/build-conan-deps.yml"
	- ".github/workflows/cppstd.yml"
	- ".github/workflows/evict-gha-cache.yml"
	- "cmake/**"
	- "examples/**"
	- "src/**"
	- "test/scripts/**"
	- "test/units/**"
	- "CMakeLists.txt"
	- "conanfile.py"

	# https://stackoverflow.com/a/72408109
	concurrency:
	group: ${{ github.workflow }}-${{ github.event.pull_request.number \|\| github.ref }}
	cancel-in-progress: true

	defaults:
	run:
	shell: bash

	jobs:
	build-conan-deps-cpp20:
	name: Build Conan deps
	uses: paulsengroup/hictk/.github/workflows/build-conan-deps.yml@main
	with:
	os: ubuntu-24.04
	cppstd: 20

	build-conan-deps-cpp23:
	name: Build Conan deps
	uses: paulsengroup/hictk/.github/workflows/build-conan-deps.yml@main
	with:
	os: ubuntu-24.04
	cppstd: 23

	build-project:
	runs-on: ubuntu-latest
	name: Build project
	needs:
	- build-conan-deps-cpp20
	- build-conan-deps-cpp23
	container:
	image: ghcr.io/paulsengroup/ci-docker-images/ubuntu-24.04-cxx-clang-19
	options: "--user=root"

	outputs:
	ccache-old-cache-key: ${{ steps.cache-ccache.outputs.cache-matched-key }}

	env:
	CCACHE_DIR: "/opt/ccache-cache"
	CCACHE_COMPILERCHECK: "content"
	CCACHE_COMPRESSLEVEL: "1"
	CCACHE_MAXSIZE: "150M"
	CONAN_HOME: "/opt/conan/"

	strategy:
	fail-fast: false
	matrix:
	cppstd:
	- 20
	- 23

	steps:
	- uses: actions/checkout@v4

	- name: Fix permissions
	run: \|
	chown -R $(id -u):$(id -g) $PWD

	- name: Generate cache key
	id: generate-cache-key
	run: \|
	conanfile_hash="${{ hashFiles('conanfile.py') }}"

	# This can be used by to always update a cache entry (useful e.g. for ccache)
	current_date="$(date '+%s')"

	ccache_key_prefix="ccache-cppstd-${{ matrix.cppstd }}-$conanfile_hash"

	echo "ccache-key=${ccache_key_prefix}-$GITHUB_REF-${current_date}" \| tee -a "$GITHUB_OUTPUT"
	echo "ccache-restore-key-1=$ccache_key_prefix-$GITHUB_REF" \| tee -a "$GITHUB_OUTPUT"
	echo "ccache-restore-key-2=$ccache_key_prefix" \| tee -a "$GITHUB_OUTPUT"

	- name: Restore Conan cache (C++20)
	if: matrix.cppstd == '20'
	uses: actions/cache/restore@v4
	with:
	key: ${{ needs.build-conan-deps-cpp20.outputs.conan-key }}
	path: ${{ env.CONAN_HOME }}/p
	fail-on-cache-miss: true

	- name: Restore CMake configs (C++20)
	if: matrix.cppstd == '20'
	uses: actions/cache/restore@v4
	with:
	key: ${{ needs.build-conan-deps-cpp20.outputs.cmake-prefix-debug-key }}
	path: /tmp/cmake-prefix-dbg.tar
	fail-on-cache-miss: true

	- name: Restore Conan cache (C++23)
	if: matrix.cppstd == '23'
	uses: actions/cache/restore@v4
	with:
	key: ${{ needs.build-conan-deps-cpp23.outputs.conan-key }}
	path: ${{ env.CONAN_HOME }}/p
	fail-on-cache-miss: true

	- name: Restore CMake configs (C++23)
	if: matrix.cppstd == '23'
	uses: actions/cache/restore@v4
	with:
	key: ${{ needs.build-conan-deps-cpp23.outputs.cmake-prefix-debug-key }}
	path: /tmp/cmake-prefix-dbg.tar
	fail-on-cache-miss: true

	- name: Extract CMake configs
	run: \|
	mkdir conan-env
	tar -xf /tmp/cmake-prefix-dbg.tar -C conan-env/ --strip-components=1

	- name: Install Python headers
	run: \|
	apt-get update
	apt-get install -y python3.12-dev

	- name: Configure project
	run: \|
	find src test \
	-type f \
	-name CMakeLists.txt \
	-exec sed -i 's/set(CMAKE_CXX_STANDARD 17)/set(CMAKE_CXX_STANDARD ${{ matrix.cppstd }})/' {} +

	cmake -DCMAKE_BUILD_TYPE=Debug \
	-DCMAKE_PREFIX_PATH="$PWD/conan-env" \
	-DHICTK_ENABLE_TESTING=ON \
	-DHICTK_ENABLE_FUZZY_TESTING=ON \
	-DHICTK_BUILD_TOOLS=OFF \
	-DHICTK_BUILD_EXAMPLES=ON \
	-DHICTK_DOWNLOAD_TEST_DATASET=OFF \
	-DHICTK_ENABLE_GIT_VERSION_TRACKING=OFF \
	-S . \
	-B build

	- name: Restore Ccache folder
	id: cache-ccache
	uses: actions/cache/restore@v4
	with:
	key: ${{ steps.generate-cache-key.outputs.ccache-restore-key-1 }}
	restore-keys: ${{ steps.generate-cache-key.outputs.ccache-restore-key-2 }}
	path: ${{ env.CCACHE_DIR }}

	- name: Reset Ccache stats
	run: ccache --zero-stats

	- name: Build project
	run: cmake --build build -j $(nproc)

	- name: Print Ccache statistics (pre-cleanup)
	run: \|
	ccache --show-stats \
	--show-compression \
	--verbose

	- name: Cleanup Ccache folder
	run: \|
	ccache --evict-older-than=14400s # 4h
	ccache --recompress=19 --recompress-threads="$(nproc)"
	ccache --cleanup

	- name: Print Ccache statistics (post-cleanup)
	run: \|
	ccache --show-stats \
	--show-compression \
	--verbose

	- name: Save Ccache folder
	uses: actions/cache/save@v4
	with:
	key: ${{ steps.generate-cache-key.outputs.ccache-key }}
	path: ${{ env.CCACHE_DIR }}
	env:
	ZSTD_CLEVEL: 1

	clean-stale-cache:
	needs: [build-project]
	uses: paulsengroup/hictk/.github/workflows/evict-gha-cache.yml@main
	name: Clean stale Ccache cache
	permissions:
	actions: write
	if: needs.build-project.outputs.ccache-old-cache-key != ''
	with:
	cache-key: "${{ needs.build-project.outputs.ccache-old-cache-key }}"

	cppstd-status-check:
	name: Status Check (cppstd)
	if: ${{ always() }}
	runs-on: ubuntu-latest
	needs:
	- build-project

	steps:
	- name: Collect job results
	if: needs.build-project.result != 'success'
	run: exit 1

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Refactor FileStream and HiCFileWriter to be more robust against data races #85

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Refactor FileStream and HiCFileWriter to be more robust against data races #85

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