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Slicer-SOFA

Key Investigators

• Rafael Palomar (Oslo University Hospital / NTNU, Norway)
• Paul Baksic (INRIA, France)
• Steve Pieper (Isomics, USA)
• Andras Lasso (Queen's University, Canada)
• Jean-Christophe Fillion-Robin (Kitware, USA)
• Sam Horvath (Kitware, USA)
• Naomi Catwell (ETS Montreal, Canada)
• Chi Zhang (Texas A&M School of Dentistry, USA)
• Ron Alkalay (Beth Israel Deaconess Medical Center, USA)
• Quinn Williams (Brigham and Women's Hospital, USA)

Presenter location: In-person

Project Description

Slicer-SOFA was born during PW40 with the aim to support the use of the SOFA simulation library within 3D Slicer. This project will continue the development of the extension.

Objective

1. Engage with the community to understand the needs and possibilities
2. Establish a roadmap for future development of the Slicer-SOFA extension
   • Extension architecture to support simulation modules RafaelPalomar/Slicer-SOFA#15
   • Distribution of third-party libraries RafaelPalomar/Slicer-SOFA#14
   • …

Approach and Plan

1. Meetings with the community, the SOFA and 3D Slicer developers.
2. Add new example modules
3. Add documentation
4. Bug fixes and extension release

Progress and Next Steps

• Modifications towards the binary distribution of SlicerSOFA as an extension (rafaelpalomar/SlicerSOFA#22) by Jean-Christophe Fillion-Robin
• Tested Slicer-SOFA extension on mac os build
  • Requires a local slicer build (tested on debug, see notes below for details)
  • Issues * Turning off Qt and OpenGL dependencies doesn’t seem to work - it would be best to build just the core simulation and python wrapping. * Building in release mode didn’t recognize libaries
• Added a reset simulation functionality (rafaelpalomar/SlicerSOFA#23) by Quinn Williams

Illustrations

No response

Background and References

No response

Notes

Mac OS build

* Configure and make:
  ```
  cmake \
      -DCMAKE_BUILD_TYPE:STRING=Debug \
      -DSlicer_DIR:PATH=${SLICER_BUILD} \
  	-DCMAKE_OSX_DEPLOYMENT_TARGET:STRING=11.0 \
  	../Slicer-SOFA

  make -j50 |& tee log
  ```   * Launch:
```
export SLICERSOFA_DIR=/Users/pieper/slicer/latest/SOFA
export SLICER_DIR=/opt/s
    SOFA_ROOT=${SLICERSOFA_DIR}/Slicer-SOFA-build/SOFA-build \
    ${SLICER_DIR}/Slicer-build/Slicer \
    --launcher-additional-settings ${DIR}/Slicer-SOFA-build/inner-build/AdditionalLauncherSettings.ini
```   * Then paste a [script like this](https://github.com/pieper/Slicer-SOFA/blob/main/Experiments/lung.py) into the python console.