Add scripts for traccuracy metric evaluation

[anwai98]

No description provided.

[anwai98]

There are a few issues I spotted - not sure the root cause of them, but I'll mention them. To begin with the status:

• Creating tracking graphs from segmentations works!
  • For TrackMate (StarDIst), it works out-of-the-box. Does not give any troubles.
  • However, we get errors as some object tracks in the ground-truth and the micro-sam segmentations, look something like this: (Object ID: 10; Frames - 1, 2, 3, 5, 6, 7) (the _check_ctc functionality complains of the missing segmentation in the 4th frame as the example above - I run it as a sanity check as building the graphs gives me a similar, yet convoluted error)
  • Removing these objects out of the segmentation allows to create the graphs.
• For evaluation:
  • I can get the CTC metric numbers running for TrackMate (StarDist) (w.r.t. gt) and the generalist segmentation (w.r.t. gt) (NOTE: removing out the tracks from my mention above allows me to make this work)

I have a few suspicions, I'll dig it and get back on this tomorrow (or we can have a look at it together tomorrow). Thanks!

[anwai98]

@constantinpape
The scripts are updated now, and the files are at /scratch/projects/nim00007/sam/for_tracking/for_traccuracy/