stk
Toolkit for 3D volume processing
Build
mkdir build && cd build
cmake ..
make
CMake options:
STK_BUILD_EXAMPLES: build example programsSTK_BUILD_TESTS: build testsSTK_USE_CUDA: build with CUDA supportSTK_WARNINGS_ARE_ERRORS: compilation will fail on warningsSTK_BUILD_WITH_DEBUG_INFO: include debug symbols in the binariesSTK_ENABLE_FAST_MATH: enable unsafe (non IEEE 754-compliant) optimisationsSTK_LOGGING_PREFIX_FILE: add the file name as prefix to each log message
When building with STK_USE_CUDA, in case the version of gcc selected by
CMake was not compatible with the one required by CUDA, it is possible to
specify a different executable with -DCMAKE_CUDA_FLAGS="-ccbin gcc-XX", where
gcc-XX is a version of gcc compatible with your CUDA version.
Python API
A minimalistic Python API is also provided.
Install
Requires the Python development headers (e.g. python3-dev or python3-devel).
python -m pip install -e .
Wheels for multiple Python versions are built with cibuildwheel, which requires Docker or Podman:
pipx run cibuildwheel --platform linux
Example usage
import stk
import numpy as np
# Create volume directly from numpy
vol = stk.Volume(np.zeros((5,5,5)).astype(np.float32), spacing=(2,2,2))
# or read volume from file
vol = stk.read_volume('test.nrrd')
# Modify data (numpy array points to the volume data)
data = np.array(vol, copy=False)
data[0:10] = 0.0
# Access meta data
vol.origin = (2, 2, 2)
vol.spacing = (3, 3, 3)
# Write volume
stk.write_volume('test-out.nrrd', vol)
Metadata
Release files for python-stk 0.5
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| python_stk-0.5.tar.gz | 3.3 MB | Details |
Built distributions (wheels)
Total release size: 15.9 MB
Release files / python_stk-0.5.tar.gz
| Download URL | python_stk-0.5.tar.gz |
|---|---|
| Size | 3.3 MB |
| Tags | Source |
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