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DeepLabCut / napari-deeplabcut

a napari plugin for labeling and refining keypoint data within DeepLabCut projects
GNU Lesser General Public License v3.0
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frames without label are not skipped #139

Closed Habedank closed 3 months ago

Habedank commented 3 months ago

Hi, we encountered the problem that we reopened a labeled video (i.e., a file with already labeled frames) and found the labels in "strange" places, meaning in frames in which no mouse was seen, still a mouse was labeled. We narrowed the problem down to the following:

In the stored csv file, only the frames are listed in which labels were asigned. Meaning if there was nothing to be labeled, the frame is noot listed. Napari, on the other hand, seems to use just the order of the labels and does not check to which frame it belongs.

So it's merely a "cosmetic" problem (napari displays it wrong) but all the labels are saved correctly in the csv file. However, this also leads to the problem, that video for which labeling was already started, can't be continued / corrected later on because the shown labels in napari are all shifted.

Hope this discription somehow helps.

jeylau commented 3 months ago

Thanks for reporting the issue @Habedank. Could you please tell me what version of napari-deeplabcut you're using?

Habedank commented 3 months ago

Of course, sorry. We're using napari version 0.4.18 through deeplabcut (version 2.3.9) and on a Windows 11 computer, in case this might also play a role.

jeylau commented 3 months ago

No worries, what is the version of napari-deeplabcut specifically that you're using? You can either get it with pip freeze | grep napari-deeplabcut or when in the labeling GUI, in the Plugins > Install/Uninstall Plugins menu. I suspect you may be using an old version. Updating with pip install -U napari-deeplabcut should normally fix the issue you describe.

Habedank commented 3 months ago

We use the version which was automaticaly included when installing deeplabcut in May. The napari-deeplabcut version is 0.2.1.6 according to your instructions (thank you for those). And you were right, in 0.2.1.7 the problem ist fixed. Thank you!

jeylau commented 3 months ago

Great to hear! With DeepLabCut 3 onwards, you'll get notified in the GUI if/when a new version of is available.