After nodes prediction I can't get those results in hdf5 file

[GioLetti]

Hi,

I started using sleap to perform some tracking analysis and I found the software great, in particular the GUI is really great. Great job.

I have just a small problem, I can't get the prediction data in the hdf5 file.

In particular, I'm using the single_animal model to track a single animal in the video. I perform the training and the inference, selecting even the flow tracker in the inference window of the GUI. But after inference I get just the instance prediction with no track prediction, and when I save the HDF5 analysis file the 'track' dataset is empty.

I can get the track by using the command 'set instance track' of Tracks widget in the menu bar, but I should do this for each frame of the movie.

I already solved the problem by using the command sleap-track directly from the terminal, but is there a way to do so with a single command from the GUI?

Moreover, the problem does not appear if instead of the single animal model I use the top-down model.

Am I doing something wrong?

Help is much appreciated.

Giorgio

[roomrys]

Hi @GioLetti,

For single animal projects, we suggest not using Tracks at all. The main purpose of Tracks is to sort which pose estimation/annotation belongs to which animal throughout an entire video. However, if there is just a single pose estimation/annotation in each LabeledFrame, then we already know that the pose estimation belongs to the one and only animal being annotated (i.e. single animal project).

However, the logic for checking whether the user has a single animal project is not as direct as looping through all the user's labels to check that there are not more than 1 annotation per frame. Instead, we (in this case, incorrectly) assume that the Labels/slp project will have no Tracks to save time - or, in cases like yours, cause headaches.

In the GUI, can you Track > Delete Multiple Tracks > Unused. Save As. Retry the export.

Sorry for the troubles! Please let us know if that helped.

Thanks,
Liezl