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petersaj / neuropixels_trajectory_explorer

Neuropixels trajectory explorer with the Allen CCF mouse atlas
GNU General Public License v3.0
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Error running rat version #9

Closed cyf203 closed 11 months ago

cyf203 commented 11 months ago

Hi,

I am trying to run neuropixels_trajectory_explorer_rat.m. I put the rat altas in the same folder as neuropixels_trajectory_explorer_rat.m and added to my path. In rat altas folder, it contains 4 files:

WHS_SD_rat_atlas_v4.label
WHS_SD_rat_atlas_v4.nii.gz
WHS_SD_brainmask_v1.01.nii.gz
WHS_SD_rat_T2star_v1.01.nii.gz

Then, I run the following line in another matlab file: neuropixels_trajectory_explorer_rat

I met this problem: 

Error using textscan
Use fopen to generate a valid file identifier.

Error in neuropixels_trajectory_explorer_rat (line 48)
dataArray = textscan(fileID, formatSpec,
'Delimiter', '', 'WhiteSpace', '',
'TextType', 'string', 'HeaderLines'
,startRow-1, 'ReturnOnError', false,
'EndOfLine', '\r\n');

I am running this code on window 11 matlab 2023a.

Thank you!

cyf203 commented 11 months ago

I further tried on 2020b. The same error showed up again.

petersaj commented 11 months ago

That was from a typo on my end - I've just fixed, do you want to pull the latest version and try again?

I think you may be the first person to ever use the rat version of this! It's not very up-to-date, but let me know if you find any other issues.

cyf203 commented 11 months ago

Hi, Thank you so much!!!

We do have a cohort of rat people who are trying neuropixel at Johns Hopkins University. I will spread your fantastic tools with them as well!

For now, I can run the UI without any obvious problems now.