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add Topological Optimization code #1245

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add Topological Optimization code

add Topological Optimization code #1245

Workflow file for this run

.github/workflows/check.yml at 2e9f001
name: check_code
on:
push:
# triggered on tag pushes with tags beginning with either "v" or "dev"
branch-ignore:
- '*'
tags:
- 'v*'
- 'dev*'
- 'ci*'
- 'check*'
pull_request:
# also triggered by pull requests on the "dev" & "mpi" branches
branches:
- 'dev'
- 'mpi'
concurrency:
group: ${{ github.workflow }}-${{ github.ref }}
cancel-in-progress: true
env:
PV_TAG: v5.12.0-headless
PV_REPO: topology-tool-kit/ttk-paraview
jobs:
# ----------------------- #
# Check source formatting #
# ----------------------- #
check-formatting:
runs-on: ubuntu-22.04
steps:
- uses: actions/checkout@v3
- name: Install latest clang-format
run: |
sudo apt update
sudo apt install -y clang-format
- name: Use clang-format to detect formatting issues
run: |
git ls-files | grep -E "\.cpp$|\.cxx$|\.h$|\.hpp$" | xargs clang-format -n -Werror
- name: Check line endings (Unix rather than DOS)
run: |
! git ls-files | xargs file "{}" ";" | grep CRLF
- name: Check files not ending with a newline [NOT ENFORCED]
run: |
for f in $(git ls-files | grep -Ev 'png$|ico$' ); do
test $(tail -c 1 $f | wc -l) -eq 0 && echo $f || true
done
- name: Check non-standard C++ file extensions [NOT ENFORCED]
run: |
git ls-files | grep -E "\.cxx$|\.cc$|\.hpp$|\.hxx$|\.txx$|\.tpp$|\.inl$" || true
- name: Check for files containing Unicode characters [NOT ENFORCED]
run: |
git ls-files | xargs file | grep Unicode || true
- name: Check for empty files
run: |
! git ls-files | xargs file | grep empty
- name: Check for VTK includes in the base layer
run: |
! git ls-files \
| grep "core/base" \
| grep -E "\.cpp$|\.cxx$|\.h$|\.hpp$" \
| xargs grep -e "^#include.*vtk"
- name: No "using namespace" directive in header files
run: |
! git ls-files \
| grep -E "\.h$|\.hpp$" \
| xargs grep "using namespace"
# ------------- #
# Code lint job #
# ------------- #
lint-code:
runs-on: ubuntu-22.04
strategy:
matrix:
config:
- {tidy: true, sa: false, dox: false}
- {tidy: false, sa: true, dox: false}
- {tidy: false, sa: false, dox: true}
env:
CMAKE_EXPORT_COMPILE_COMMANDS: ON
steps:
- uses: actions/checkout@v3
- name: Install Ubuntu dependencies
run: |
sudo apt update
# TTK dependencies
sudo apt install -y \
libboost-system-dev \
libeigen3-dev \
libgraphviz-dev \
libosmesa-dev \
libsqlite3-dev \
libwebsocketpp-dev \
graphviz \
python3-sklearn \
zlib1g-dev \
libqhull-dev \
doxygen \
clang-tidy
- name: Install optional dependencies
uses: ./.github/actions/install-deps-unix
- name: Fetch TTK-ParaView headless Debian package
run: |
wget -O ttk-paraview-headless.deb \
https://github.com/${{ env.PV_REPO }}/releases/download/${{ env.PV_TAG }}/ttk-paraview-headless-ubuntu-22.04.deb
- name: Install ParaView .deb
run: |
sudo apt install ./ttk-paraview-headless.deb
- name: Create & configure TTK build directory
run: |
mkdir build
cd build
cmake \
-DCMAKE_BUILD_TYPE=Debug \
-DTTK_BUILD_PARAVIEW_PLUGINS=TRUE \
-DTTK_BUILD_VTK_WRAPPERS=TRUE \
-DTTK_BUILD_STANDALONE_APPS=TRUE \
-DTTK_ENABLE_OPENMP=FALSE \
-DTTK_ENABLE_MPI=TRUE \
-DTTK_BUILD_DOCUMENTATION=TRUE \
$GITHUB_WORKSPACE
- name: Use clang-tidy to lint code
if: matrix.config.tidy
run: |
git ls-files \
| grep core \
| grep -E "\.cpp$|\.cxx$" \
| xargs -n1 -P$(nproc) clang-tidy -p build --warnings-as-errors="*" 2> /dev/null
- name: Use Clang static analyzer
if: matrix.config.sa
run: |
git ls-files \
| grep core \
| grep -E "\.cpp$|\.cxx$" \
| xargs -n1 -P$(nproc) clang-tidy -p build --checks="-*,clang-analyzer-*" --warnings-as-errors="*" 2> /dev/null
- name: Check Doxygen documentation warnings
if: matrix.config.dox
run: |
cd build
! cmake --build . --target doc |& grep warning
# ----------------------- #
# Check compiler warnings #
# ----------------------- #
check-warnings:
runs-on: ubuntu-22.04
strategy:
matrix:
kamikaze: [KAMIKAZE=TRUE, KAMIKAZE=FALSE]
omp: [OPENMP=TRUE, OPENMP=FALSE]
simplexId: [64BIT_IDS=TRUE, 64BIT_IDS=FALSE]
opt: [Debug, Release]
mpi: [MPI=TRUE, MPI=FALSE]
env:
CMAKE_EXPORT_COMPILE_COMMANDS: ON
steps:
- uses: actions/checkout@v3
- name: Install Ubuntu dependencies
run: |
sudo apt update
# TTK dependencies
sudo apt install -y \
libboost-system-dev \
libeigen3-dev \
libgraphviz-dev \
libosmesa-dev \
libsqlite3-dev \
libwebsocketpp-dev \
graphviz \
python3-sklearn \
zlib1g-dev \
libqhull-dev \
clang-tools \
libomp-dev
- name: Install optional dependencies
uses: ./.github/actions/install-deps-unix
- name: Fetch TTK-ParaView headless Debian package
run: |
wget -O ttk-paraview-headless.deb \
https://github.com/${{ env.PV_REPO }}/releases/download/${{ env.PV_TAG }}/ttk-paraview-headless-ubuntu-22.04.deb
- name: Install ParaView .deb
run: |
sudo apt install ./ttk-paraview-headless.deb
- name: Create & configure TTK build directory
run: |
mkdir build
cd build
cmake \
-DCMAKE_BUILD_TYPE=${{ matrix.opt }} \
-DTTK_BUILD_PARAVIEW_PLUGINS=TRUE \
-DTTK_BUILD_VTK_WRAPPERS=TRUE \
-DTTK_BUILD_STANDALONE_APPS=TRUE \
-DTTK_ENABLE_${{ matrix.kamikaze }} \
-DTTK_ENABLE_${{ matrix.omp }} \
-DTTK_ENABLE_${{ matrix.mpi }} \
-DTTK_ENABLE_${{ matrix.simplexId }} \
$GITHUB_WORKSPACE
- name: Use clang-check for compiler warnings
run: |
git ls-files \
| grep core \
| grep -E "\.cpp$|\.cxx$" \
| xargs -n1 -P$(nproc) clang-check -p build --extra-arg=-Werror