Analyze ROI data not working for multiple videos

[breannashi]

Here are the steps I took: 1.) added video and DLC csv to existing project 2.) added a measurement for the new video in video parameters 3.) Defined ROI for the new video 4.) run analyze roi data aggregates and Analyze Distances Problem: for step 4 I am only getting results for the first video, when I want results for the new video. Video of what I am seeing on my end found here: https://youtu.be/yxb-5UfGMjw

Thank you!

[sronilsson]

Hi @breannashi - I think (maybe wrong) someone reported this issue a few weeks ago and we fixed it.

Which version of SimBA are you running? pip show simba-uw-tf-dev

If you run pip install simba-uw-tf-dev --upgrade do you still see this error?

PS. I think github has fixed so you can drag and drop video mp4 files straight into these chats.

[sronilsson]

Ah I can see the version number in your video :) Anyway, try to upgrade to latest as above, and let me know if that fixes it or not please.

[breannashi]

This did not fix the error. It is functioning exactly the same.

[breannashi]

for context: Simba: SimBA v.1.94.2 OS: Ubuntu 22.04.4 LTS

[sronilsson]

Thanks @breannashi - very helpful. So I better understand the issue, please correct me if I am wrong:

You first define ROIs on more than one videos, you then analyze ROI aggregate data including distances moved for these videos. However, the results you see in only contain data for a single video?

Sorry I only have a Mac at present, but are you essentially doing this process in the video below, but the final CSV only has data for one video?

https://github.com/sgoldenlab/simba/assets/34761092/f1a76cfc-8739-4df8-8923-1bca9c1c4342

[breannashi]

Yes that's right. and where your simba prints that it runs on both videos mine only prints one.

[sronilsson]

Thanks @breannashi, two more questions:

1) Can you send me your /project_folder/logs/measures/ROI_definitions.h5 file and I will take a look at it? This file stores your drawn ROI definitions. You should be able to zip it and drop it into this chat thread.

2) How many files do you have represented in the /project_folder/csv/outlier_corrected_movement_location directory of your SimBA project - can you send me a screenshot of the content of this directory?

[breannashi]

Thank you! here are the files requested! ROI_definitions.zip

[sronilsson]

Thanks @breannashi!

For the screenshoot, I can see that you have data for a single video (CC1_tank_exploration_29-11-22).

Opening the ROI definitions, I can also see that you have polygons drawn for two videos (with or without the _29-11-22 suffix):

If you want to compute the ROI data for both CC1_tank_exploration_29-11-22 and CC2_Tank_exploration, there needs to be data-files inside the /project_folder/csv/outlier_corrected_movement_location directory representing the two videos.

The reason you are getting results for only a single video file, is likely because there is only a single file in this directory, SimBA can't find any more data. Let me know if that makes sense.

[breannashi]

That makes sense. I am wondering why it defaults to add my regions to video 1 csv rather than make a new one? and will the .h5 also need to be altered?

[sronilsson]

Hi @breannashi - I am note completly sure what you mean. When you say "defaults" what do you mean?

Some notes that may be relevant:

The videos you see listed in the image below are videos that SimBA find in the project_folder/videos/ directory of your SimBA project. If the video is not there, there is nothing to draw your regions on. Add the video to that folder to be able to draw on it.

To duplicate the ROIs you've drawn on one video, to all the other videos listed, click the Apply to all button. For example, of I have drawn polygons on the first video in the list, but not the others, but I want the same polygons on the remaining 7 videos, I click the apply to all button associated with row 1:

[breannashi]

Never-mind! I did not read properly. The problem is I forgot to click skip outlier correction. Thank you for your help!!

[sronilsson]

No problem, just let me know if anything else comes up