Fix 2D position computation #1337
Workflow file for this run
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name: test_build | |
on: | |
push: | |
# triggered on commit pushes on the "dev" branch | |
branches: | |
- 'dev' | |
# triggered on tag pushes with tags beginning with either "v" or "dev" | |
tags: | |
- 'v*' | |
- 'dev*' | |
- 'ci*' | |
- 'build*' | |
- 'test*' | |
pull_request: | |
# also triggered by pull requests on the "dev" branch | |
branches: | |
- 'dev' | |
concurrency: | |
group: ${{ github.workflow }}-${{ github.ref }} | |
cancel-in-progress: true | |
env: | |
PV_TAG: v5.13.0-headless | |
PV_REPO: topology-tool-kit/ttk-paraview | |
jobs: | |
# ------------------# | |
# Test Ubuntu build # | |
# ------------------# | |
test-build-ubuntu: | |
runs-on: ${{ matrix.os }} | |
# trigger job when push event on a branch (not on a tag) only for | |
# the "topology-tool-kit/ttk" repository | |
# (pull-requests and tag pushes not affected) | |
if: ${{ github.repository_owner == 'topology-tool-kit' || !contains(github.ref, 'heads') }} | |
strategy: | |
matrix: | |
os: [ubuntu-20.04, ubuntu-22.04, ubuntu-24.04] | |
steps: | |
- uses: actions/checkout@v4 | |
name: Checkout TTK source code | |
- name: Install Ubuntu dependencies | |
run: | | |
sudo apt update | |
# TTK dependencies | |
sudo apt install -y \ | |
cargo \ | |
libboost-system-dev \ | |
libeigen3-dev \ | |
libgraphviz-dev \ | |
libosmesa-dev \ | |
libopenmpi-dev \ | |
libsqlite3-dev \ | |
libwebsocketpp-dev \ | |
graphviz \ | |
python3-sklearn \ | |
ninja-build \ | |
zlib1g-dev \ | |
libqhull-dev \ | |
dpkg-dev | |
cargo install sccache --version 0.4.2 --locked | |
echo "PATH=/root/.cargo/bin:$PATH" >> $GITHUB_ENV | |
- name: Install and setup sccache | |
uses: f3d-app/sccache-setup-action@v1 | |
with: | |
key: ${{ matrix.os }}-0 | |
- name: Install optional dependencies | |
uses: ./.github/actions/install-deps-unix | |
# TODO: try to replicate for mac | |
- name: Install Torch | |
shell: bash | |
run: | | |
wget https://download.pytorch.org/libtorch/cpu/libtorch-cxx11-abi-shared-with-deps-2.3.1%2Bcpu.zip | |
unzip libtorch-cxx11-abi-shared-with-deps-2.3.1+cpu.zip | |
sudo cp -R libtorch/* /usr/local/ | |
- name: Fetch TTK-ParaView headless Debian package | |
run: | | |
wget -O ttk-paraview-headless.deb \ | |
https://github.com/${{ env.PV_REPO }}/releases/download/${{ env.PV_TAG }}/ttk-paraview-headless-${{ matrix.os }}.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=Release \ | |
-DCMAKE_C_COMPILER_LAUNCHER=sccache \ | |
-DCMAKE_CXX_COMPILER_LAUNCHER=sccache \ | |
-DCMAKE_INSTALL_PREFIX=/usr \ | |
-DTTK_BUILD_PARAVIEW_PLUGINS=TRUE \ | |
-DTTK_BUILD_VTK_WRAPPERS=TRUE \ | |
-DTTK_BUILD_STANDALONE_APPS=TRUE \ | |
-DTTK_ENABLE_KAMIKAZE=TRUE \ | |
-DTTK_ENABLE_MPI=TRUE \ | |
-DTTK_ENABLE_CPU_OPTIMIZATION=FALSE \ | |
-DTTK_ENABLE_SHARED_BASE_LIBRARIES=TRUE \ | |
-DTTK_IMPLICIT_PRECONDITIONS_THRESHOLD=64*64*64 \ | |
-GNinja \ | |
$GITHUB_WORKSPACE | |
env: | |
CXXFLAGS: -Werror | |
- uses: ammaraskar/gcc-problem-matcher@master | |
- name: Build, install TTK & package it | |
run: | | |
cd build | |
cmake --build . --parallel | |
cpack -G DEB | |
sudo cmake --build . --target install | |
- name: Show sccache results | |
shell: bash | |
run: sccache --show-stats | |
- name: Run TTK tests | |
uses: ./.github/actions/test-ttk-unix | |
- name: Upload TTK .deb package for fast install in tests | |
uses: actions/upload-artifact@v4 | |
with: | |
name: ttk-for-tests-${{ matrix.os }}.deb | |
path: build/ttk.deb | |
# ------------------# | |
# Tests on ttk-data # | |
# ------------------# | |
run-python-screenshots-tests: | |
runs-on: ${{ matrix.os }} | |
needs: test-build-ubuntu | |
strategy: | |
matrix: | |
os: [ubuntu-20.04, ubuntu-22.04, ubuntu-24.04] | |
testSet: [pyTests, screenshotTests] | |
steps: | |
- name: Install Ubuntu dependencies | |
run: | | |
sudo apt update | |
- name: Install Torch | |
shell: bash | |
run: | | |
wget https://download.pytorch.org/libtorch/cpu/libtorch-cxx11-abi-shared-with-deps-2.3.1%2Bcpu.zip | |
unzip libtorch-cxx11-abi-shared-with-deps-2.3.1+cpu.zip | |
sudo cp -R libtorch/* /usr/local/ | |
- name: Fetch TTK-ParaView headless Debian package | |
run: | | |
wget -O ttk-paraview-headless.deb \ | |
https://github.com/${{ env.PV_REPO }}/releases/download/${{ env.PV_TAG }}/ttk-paraview-headless-${{ matrix.os }}.deb | |
- name: Install ParaView .deb | |
run: | | |
sudo apt install ./ttk-paraview-headless.deb | |
- name: Fetch TTK packages we just built in the test-build-ubuntu job | |
uses: actions/[email protected] | |
with: | |
name: ttk-for-tests-${{ matrix.os }}.deb | |
- name: Installing the previously built ttk package | |
run: | | |
sudo apt install ./ttk.deb | |
- uses: actions/checkout@v4 | |
with: | |
repository: "topology-tool-kit/ttk-data" | |
ref: "dev" | |
path: "ttk-data" | |
name: Checkout ttk-data | |
- name: Resample large datasets | |
shell: python3 {0} | |
working-directory: ./ttk-data | |
run: | | |
from paraview import simple | |
for ds in ["ctBones.vti"]: | |
vti = simple.XMLImageDataReader(FileName=ds) | |
rsi = simple.ResampleToImage(Input=vti) | |
rsi.SamplingDimensions = [128, 128, 128] | |
simple.SaveData(ds, rsi) | |
- name: Run ttk-data states [NOT ENFORCED] | |
if: matrix.testSet == 'screenshotTests' | |
id: validate | |
continue-on-error: true | |
run: | | |
VERS=$(hostnamectl | grep "Operating System") | |
# Ubuntu 22.04 OOM killer also kills the parent process... | |
if [[ "$VERS" == *"22.04"* ]] || [[ "$VERS" == *"24.04"* ]]; then | |
rm ttk-data/states/mergeTreeClustering.pvsm | |
rm ttk-data/states/mergeTreePGA.pvsm | |
rm ttk-data/states/mergeTreeTemporalReduction.pvsm | |
rm ttk-data/states/persistentGenerators_darkSky.pvsm | |
fi | |
# remove buggy example | |
# related issue: https://github.com/topology-tool-kit/ttk/issues/1055 | |
rm ttk-data/states/nestedTrackingFromOverlap.py | |
# remove examples which fill up the memory | |
rm ttk-data/states/topologicalOptimization_darkSky.pvsm | |
cd ttk-data/tests | |
mkdir output_screenshots | |
if ! python3 -u validate.py; then | |
if [[ "$VERS" == *"22.04"* ]] || [[ "$VERS" == *"24.04"* ]]; then | |
# weird opacity difference between the two Ubuntus | |
rm -f output_screenshots/clusteringKelvinHelmholtzInstabilities_1.png | |
rm -f output_screenshots/clusteringKelvinHelmholtzInstabilities_2.png | |
fi | |
if [ "$(ls -A output_screenshots)" ]; then | |
tar zcf screenshots.tar.gz output_screenshots | |
false | |
fi | |
fi | |
- name: Upload result screenshots | |
if: steps.validate.outcome == 'failure' && matrix.testSet == 'screenshotTests' | |
uses: actions/upload-artifact@v4 | |
with: | |
name: screenshots-${{ matrix.os }}.tar.gz | |
path: ttk-data/tests/screenshots.tar.gz | |
retention-days: 10 | |
- name: Run ttk-data Python scripts | |
if: matrix.testSet == 'pyTests' | |
run: | | |
cd ttk-data | |
# remove buggy example | |
# related issue: https://github.com/topology-tool-kit/ttk/issues/1055 | |
rm python/nestedTrackingFromOverlap.py | |
# tmp removal of mpi example | |
rm python/mpiExample.py | |
# remove examples which fill up the memory | |
rm python/topologicalOptimization_darkSky.py | |
python3 -u python/run.py | |
- name: Test ttk-data Python scripts results [NOT ENFORCED] | |
if: matrix.testSet == 'pyTests' | |
continue-on-error: true | |
run: | | |
cd ttk-data | |
cat python/res.json | |
diff python/hashes/${{ matrix.os }}.json python/res.json | |
- name: Delete TTK package artifact | |
uses: geekyeggo/delete-artifact@v2 | |
# delete package only once | |
if: matrix.testSet == 'screenshotTests' | |
with: | |
name: ttk-for-tests-${{ matrix.os }}.deb | |
# -----------------# | |
# Test macOS build # | |
# -----------------# | |
test-build-macos: | |
runs-on: ${{ matrix.os }} | |
strategy: | |
matrix: | |
os: [macos-12, macos-14] | |
if: ${{ github.repository_owner == 'topology-tool-kit' || !contains(github.ref, 'heads') }} | |
env: | |
DYLD_LIBRARY_PATH: /usr/local/lib | |
steps: | |
- uses: actions/checkout@v4 | |
name: Checkout TTK source code | |
- name: Remove hosted Python | |
run: | | |
sudo rm -rf /Library/Frameworks/Python.framework/ | |
sudo rm -rf /usr/local/Frameworks/Python.framework/ | |
- name: Install macOS dependencies | |
run: | | |
# ParaView dependencies | |
brew reinstall python | |
brew install --cask xquartz | |
brew install llvm ninja open-mpi | |
# TTK dependencies | |
brew install boost eigen graphviz spectra sqlite zlib numpy qhull | |
- name: Install and setup sccache | |
uses: f3d-app/sccache-setup-action@v1 | |
with: | |
key: macos-0 | |
- name: Install optional dependencies | |
uses: ./.github/actions/install-deps-unix | |
- name: Fetch TTK-ParaView headless macOS binary archive | |
run: | | |
if [[ "${{ matrix.os }}" == "macos-12" ]]; then | |
wget -O ttk-paraview-headless.tar.gz \ | |
https://github.com/${{ env.PV_REPO }}/releases/download/${{ env.PV_TAG }}/ttk-paraview-headless-${{ matrix.os }}.tar.gz | |
fi | |
if [[ "${{ matrix.os }}" == "macos-14" ]]; then | |
wget -O ttk-paraview-headless.tar.gz \ | |
https://github.com/${{ env.PV_REPO }}/releases/download/${{ env.PV_TAG }}/ttk-paraview-headless-${{ matrix.os }}-arm64.tar.gz | |
fi | |
- name: Install ParaView | |
run: | | |
tar xzf ttk-paraview-headless.tar.gz | |
sudo cp -r ttk-paraview/* /usr/local | |
pvpython -m pip install --break-system-packages scikit-learn | |
- name: Set compilers as environment variables | |
run: | | |
echo "CC=$(brew --prefix llvm)/bin/clang" >> $GITHUB_ENV | |
echo "CXX=$(brew --prefix llvm)/bin/clang++" >> $GITHUB_ENV | |
- name: Create & configure TTK build directory | |
run: | | |
mkdir build | |
cd build | |
cmake \ | |
-DCMAKE_BUILD_TYPE=Release \ | |
-DCMAKE_C_COMPILER_LAUNCHER=sccache \ | |
-DCMAKE_CXX_COMPILER_LAUNCHER=sccache \ | |
-DTTK_BUILD_PARAVIEW_PLUGINS=TRUE \ | |
-DTTK_BUILD_VTK_WRAPPERS=TRUE \ | |
-DTTK_BUILD_STANDALONE_APPS=TRUE \ | |
-DTTK_ENABLE_KAMIKAZE=TRUE \ | |
-DTTK_ENABLE_MPI=TRUE \ | |
-DTTK_ENABLE_CPU_OPTIMIZATION=FALSE \ | |
-DTTK_ENABLE_SHARED_BASE_LIBRARIES=TRUE \ | |
-DTTK_IMPLICIT_PRECONDITIONS_THRESHOLD=64*64*64 \ | |
-GNinja \ | |
$GITHUB_WORKSPACE | |
env: | |
CXXFLAGS: -Werror | |
- uses: ammaraskar/gcc-problem-matcher@master | |
- name: Build & install TTK | |
run: | | |
cd build | |
cmake --build . --parallel | |
sudo cmake --build . --target install | |
- name: Show sccache results | |
shell: bash | |
run: sccache --show-stats | |
- name: Set PYTHONPATH for macOS pvpython | |
run: | | |
# pvpython does not embed the correct PYTHONPATH | |
echo "PYTHONPATH=/usr/local/lib/python3.12/site-packages:$PYTHONPATH" >> $GITHUB_ENV | |
- name: Run TTK tests | |
uses: ./.github/actions/test-ttk-unix | |
- uses: actions/checkout@v4 | |
with: | |
repository: "topology-tool-kit/ttk-data" | |
ref: "dev" | |
path: "ttk-data" | |
name: Checkout ttk-data | |
- name: Run ttk-data states [NOT ENFORCED] | |
if: false | |
id: validate | |
continue-on-error: true | |
run: | | |
# remove buggy example | |
# related issue: https://github.com/topology-tool-kit/ttk/issues/1055 | |
rm ttk-data/states/nestedTrackingFromOverlap.py | |
# remove examples which fill up the memory | |
rm ttk-data/states/topologicalOptimization_darkSky.pvsm | |
cd ttk-data/tests | |
mkdir output_screenshots | |
pvpython -u validate.py || (tar zcf screenshots.tar.gz output_screenshots && false) | |
env: | |
PV_PLUGIN_PATH: /usr/local/bin/plugins/TopologyToolKit | |
- name: Upload result screenshots | |
if: steps.validate.outcome == 'failure' | |
uses: actions/upload-artifact@v4 | |
with: | |
name: screenshots-macOS.tar.gz | |
path: ttk-data/tests/screenshots.tar.gz | |
retention-days: 10 | |
- name: Run ttk-data Python scripts | |
run: | | |
cd ttk-data | |
# remove buggy example | |
# related issue: https://github.com/topology-tool-kit/ttk/issues/1055 | |
rm python/nestedTrackingFromOverlap.py | |
# tmp removal of mpi example | |
rm python/mpiExample.py | |
# remove examples which fill up the memory | |
rm python/topologicalOptimization_darkSky.py | |
pvpython -u python/run.py | |
env: | |
PV_PLUGIN_PATH: /usr/local/bin/plugins/TopologyToolKit | |
- name: Test ttk-data Python scripts results [NOT ENFORCED] | |
continue-on-error: true | |
run: | | |
cd ttk-data | |
cat python/res.json | |
diff python/hashes/macOS.json python/res.json | |
# ------------------ # | |
# Test Windows build # | |
# ------------------ # | |
test-build-windows: | |
runs-on: windows-2022 | |
if: ${{ github.repository_owner == 'topology-tool-kit' || !contains(github.ref, 'heads') }} | |
env: | |
PV_DIR: C:\Program Files\TTK-ParaView | |
TTK_DIR: C:\Program Files (x86)\ttk | |
CONDA_ROOT: C:\Miniconda | |
steps: | |
- uses: actions/checkout@v4 | |
name: Checkout TTK source code | |
- uses: s-weigand/setup-conda@v1 | |
- name: Install dependencies with conda | |
shell: bash | |
run: | | |
conda install -c conda-forge libboost-devel glew eigen spectralib zfp \ | |
sqlite scikit-learn graphviz ninja python=3.10 zlib qhull \ | |
llvm-openmp clangxx=18 | |
# add TTK & ParaView install folders to PATH | |
echo "$PV_DIR/bin" >> $GITHUB_PATH | |
echo "$TTK_DIR/bin" >> $GITHUB_PATH | |
conda info --all | |
- name: Install and setup sccache | |
uses: f3d-app/sccache-setup-action@v1 | |
with: | |
key: windows-0 | |
- name: Remove hosted Python | |
shell: bash | |
run: | | |
rm -rf C:/hostedtoolcache/windows/Python | |
- name: Fetch TTK-ParaView headless Windows installer | |
run: | | |
curl.exe -OL https://github.com/${{ env.PV_REPO }}/releases/download/${{ env.PV_TAG }}/ttk-paraview-headless.exe | |
- name: Install ParaView | |
shell: cmd | |
run: | | |
ttk-paraview-headless.exe /S | |
- name: Create & configure TTK build directory | |
shell: cmd | |
run: | | |
set CMAKE_PREFIX_PATH=%CONDA_ROOT%\Library\lib\cmake;%CONDA_ROOT%\Library\share\eigen3\cmake;%CONDA_ROOT%\Library\share\Qull\cmake;%CONDA_ROOT%\Library\cmake;%ProgramFiles%\TTK-ParaView\lib\cmake; | |
set CC=clang-cl.exe | |
set CXX=clang-cl.exe | |
call "%ProgramFiles%\Microsoft Visual Studio\2022\Enterprise\VC\Auxiliary\Build\vcvars64.bat" | |
mkdir build | |
cd build | |
cmake ^ | |
-DCMAKE_BUILD_TYPE=Release ^ | |
-DCMAKE_POLICY_DEFAULT_CMP0092=NEW ^ | |
-DCMAKE_POLICY_DEFAULT_CMP0074=NEW ^ | |
-DBUILD_SHARED_LIBS:BOOL=TRUE ^ | |
-DCMAKE_C_COMPILER_LAUNCHER=sccache ^ | |
-DCMAKE_CXX_COMPILER_LAUNCHER=sccache ^ | |
-DPython3_ROOT_DIR="%CONDA_ROOT%" ^ | |
-DGraphviz_INCLUDE_DIR="%CONDA_ROOT%\Library\include\graphviz" ^ | |
-DGraphviz_CDT_LIBRARY="%CONDA_ROOT%\Library\lib\cdt.lib" ^ | |
-DGraphviz_GVC_LIBRARY="%CONDA_ROOT%\Library\lib\gvc.lib" ^ | |
-DGraphviz_CGRAPH_LIBRARY="%CONDA_ROOT%\Library\lib\cgraph.lib" ^ | |
-DGraphviz_PATHPLAN_LIBRARY="%CONDA_ROOT%\Library\lib\pathplan.lib" ^ | |
-DZLIB_ROOT="%CONDA_ROOT%\Library" ^ | |
-DSQLite3_ROOT="%CONDA_ROOT%\Library" ^ | |
-DTTK_BUILD_PARAVIEW_PLUGINS=TRUE ^ | |
-DTTK_BUILD_VTK_WRAPPERS=TRUE ^ | |
-DTTK_BUILD_STANDALONE_APPS=TRUE ^ | |
-DTTK_ENABLE_KAMIKAZE=TRUE ^ | |
-DTTK_ENABLE_OPENMP=TRUE ^ | |
-DTTK_ENABLE_CPU_OPTIMIZATION=FALSE ^ | |
-DTTK_ENABLE_SHARED_BASE_LIBRARIES=TRUE ^ | |
-DTTK_IMPLICIT_PRECONDITIONS_THRESHOLD=64*64*64 ^ | |
-GNinja ^ | |
.. | |
env: | |
CXXFLAGS: -Werror | |
- name: Fix clang-cl OpenMP flags in build.ninja | |
shell: bash | |
run: | | |
sed -i 's/-Xclang -fopenmp/-openmp/' build/build.ninja | |
- name: Build & install TTK | |
shell: cmd | |
run: | | |
cd build | |
call "%ProgramFiles%\Microsoft Visual Studio\2022\Enterprise\VC\Auxiliary\Build\vcvars64.bat" | |
cmake --build . --config Release --parallel --target install | |
- name: Show sccache results | |
shell: bash | |
run: sccache --show-stats | |
- name: Test C++ example | |
shell: cmd | |
run: | | |
set CC=clang-cl.exe | |
set CXX=clang-cl.exe | |
call "%ProgramFiles%\Microsoft Visual Studio\2022\Enterprise\VC\Auxiliary\Build\vcvars64.bat" | |
set CMAKE_PREFIX_PATH=%TTK_DIR%\lib\cmake;%PV_DIR%\lib\cmake | |
cd %GITHUB_WORKSPACE%\examples\c++ | |
mkdir build | |
cd build | |
cmake -DCMAKE_BUILD_TYPE=Release -GNinja .. | |
cmake --build . --config Release --parallel | |
ttkExample-c++.exe -i ..\..\data\inputData.off | |
- name: Test VTK-C++ example | |
shell: cmd | |
run: | | |
set CC=clang-cl.exe | |
set CXX=clang-cl.exe | |
call "%ProgramFiles%\Microsoft Visual Studio\2022\Enterprise\VC\Auxiliary\Build\vcvars64.bat" | |
set CMAKE_PREFIX_PATH=%TTK_DIR%\lib\cmake;%PV_DIR%\lib\cmake | |
cd %GITHUB_WORKSPACE%\examples\vtk-c++ | |
mkdir build | |
cd build | |
cmake -DCMAKE_BUILD_TYPE=Release -GNinja .. | |
cmake --build . --config Release --parallel | |
ttkExample-vtk-c++.exe -i ..\..\data\inputData.vtu | |
- name: Test Python example [TEMPORARILY NOT ENFORCED] | |
continue-on-error: true | |
shell: cmd | |
run: | | |
set PYTHONPATH=%PV_DIR%\bin\Lib\site-packages;%TTK_DIR%\bin\Lib\site-packages;%CONDA_ROOT%\Lib | |
cd %GITHUB_WORKSPACE%\examples\python | |
python example.py ..\data\inputData.vtu | |
- name: Test pvpython example | |
shell: cmd | |
run: | | |
set PYTHONPATH=%CONDA_ROOT%\Lib | |
set PV_PLUGIN_PATH=%TTK_DIR%\bin\plugins | |
cd %GITHUB_WORKSPACE%\examples\pvpython | |
pvpython.exe example.py ..\data\inputData.vtu | |
- name: Test standalone | |
shell: cmd | |
run: | | |
cd %GITHUB_WORKSPACE%\examples\vtk-c++ | |
ttkHelloWorldCmd.exe -i %GITHUB_WORKSPACE%\examples\data\inputData.vtu | |
- uses: actions/checkout@v4 | |
with: | |
repository: "topology-tool-kit/ttk-data" | |
ref: "dev" | |
path: "ttk-data" | |
name: Checkout ttk-data | |
- name: Resample large datasets | |
shell: cmd | |
run: | | |
set PYTHONPATH=%CONDA_ROOT%\Lib | |
set PV_PLUGIN_PATH=%TTK_DIR%\bin\plugins | |
cd ttk-data | |
pvpython.exe python\resample.py ctBones.vti 128 128 128 ctBones.vti | |
- name: Run ttk-data Python scripts | |
shell: cmd | |
run: | | |
set PYTHONPATH=%PV_DIR%\bin\Lib\site-packages;%TTK_DIR%\bin\Lib\site-packages;%CONDA_ROOT%\Lib;%CONDA_ROOT%\DLLs | |
set PV_PLUGIN_PATH=%TTK_DIR%\bin\plugins | |
cd ttk-data | |
rm python/nestedTrackingFromOverlap.py | |
# tmp removal of mpi example | |
rm python/mpiExample.py | |
# remove examples which fill up the memory | |
rm python/topologicalOptimization_darkSky.py | |
pvpython.exe -u python\run.py | |
- name: Test ttk-data Python scripts results [NOT ENFORCED] | |
continue-on-error: true | |
shell: cmd | |
run: | | |
cd ttk-data | |
type python\res.json | |
FC python\hashes\windows.json python\res.json |