Join members of the OpenSim Team on Wednesday July 26th for an introduction to OpenSim and new tools for rapidly developing musculoskeletal simulations.

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OpenSim with Python (Windows only)

1. Open the Anaconda Prompt (or, Powershell on Windows, Terminal on Mac, etc).If not using the Anaconda Prompt, you may need to initialize conda for shell interaction by running

   Code Block
   > conda init <shell-name>

   where <shell-name> is one of the following: cmd.exe (Windows default), bash (macOS default), powershell, fish, zsh, tcsh, xonsh.

2. Create a new conda environment for Python 3.10.

   Code Block
   (base) C:\Users\me> conda create -n addbio-processing python=3.10 matplotlib

   
   

3. Activate the conda environment.

   Code Block
   (base) C:\Users\me> conda activate tgcs2023

   
   

4. If paths to previous OpenSim versions exist on your PYTHONPATH environment variable, remove them and restart the shell.

5. Install the OpenSim conda package. This installs a version of OpenSim including Moco that is compatible with Python 3.10 and includes NumPy 1.21. 

   Code Block
   (addbio-processing) C:\Users\me> conda install -c opensim-org opensim-moco=4.4.1=py310np121

   
   

6. Launch a Python interpreter from your conda environment.

   Code Block
   (addbio-processing) C:\Users\me> python

   
   

7. Test the OpenSim configuration by checking the timestamp from running 

   Code Block
   >>> import opensim >>> opensim.GetVersionAndDate()

   in the Python interpreter; the date should be in June 2023.

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Visit the Moco website here.

Slides

TODO

Publications

Uhlrich SD, Falisse A, Kidzinski L, Muccini J, Ko M, Chaudhari AS, Hicks JL, Delp SL (2022) OpenCap: 3D human movement dynamics from smartphone videos. bioRxiv. https://doi.org/10.1101/2022.07.07.499061

Werling K, Bianco NA, Raitor M, Stingel J, Hicks JL, Collins SH, Delp SL, Liu CK (2023) AddBiomechanics: Automating model scaling, inverse kinematics, and inverse dynamics from human motion data through sequential optimization. bioRxiv. https://doi.org/10.1101/2023.06.15.545116

Dembia CL, Bianco NA, Falisse A, Hicks JL, Delp SL (2020) OpenSim Moco: Musculoskeletal optimal control. PLoS Comput Biol 16(12): e1008493. https://doi.org/10.1371/journal.pcbi.1008493

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