Unfortunately, NaNs make the marker augmentation LSTM fail :/
So I had to make sure that no NaNs remained in the output trc files.

For what contexts did you need the nan values? If you do need them, check the parameters in the config file, such as fill_large_gaps_with for example. If any parameter is not clear, feel free to ask me!

Hi David,

I don’t use markerAugmentation in my processing pipeline, so I hadn’t encountered this issue. My bad for missing that context.

I already set fill_large_gaps_with to 'nan' in the config file, but the resulting TRC file contains empty values instead of 'NaN'. This causes a mismatch between the header and the actual data lines. OpenSim then expects the same number of columns, but empty values shorten the lines, triggering an error when running the kinematics function.