Brainstorm Protocol Data not Opening after Updating Brainstorm

Hello,

M Brainstorm updated to the 09/18/2025 version and now when I try to open one of my protocols it does not show any of the subject data folders. The other protocols included in my data base folder are showing up normally. The protocol folder is saved to my computer and I can see all the subject data folders there. Would it be possible for me to get the older version of brainstorm back, would that restore my data? Or does anyone know how I can get these subject data folders to load in brainstorm again?

When I try to reload the protocol it says “the input files do not exist anymore”. I do see that all the raw files are still saved on my computer though.

Thank you,

Karolina

Before starting, make a backup of your protocol (StroopTask) folder, and store it outside of the Brainstorm database folder. With this done, follow theses steps:

  1. In the main Brainstorm window go to File > Delete protocol > Only detach from database
  2. Close Brainstorm and Matlab
  3. Delete the file /brainstorm_db/StroopTask/data/protocol.mat
  4. Start Brainstorm
  5. In the main window, go to File > Load protocol > Load from folder and select your protocol folder `/brainstorm_db/StroopTask``

With this Brainstorm will regenerate the contents of the protocol.mat file (used to fill in the database tree in the GUI) from all the files in the protocol.

Hi Raymundo,

Thank you for the reply. Unfortunately, after following the given steps, Brainstorm is still not working. When we load the file, we don’t see anything. I’m attaching a picture to show that:

What else could we do?

Thank you in advance,
Ana

Did you get any message in the Matlab command window?

Hi again Raymundo,

This is what we’re getting in the MATLAB command

I was wondering if I could arrange a quick call to chat about this issue?

Thank you,
Ana