[Eeglablist] [External] Re: Eeglablist STUDY error: Dataset concatenation

Tue Mar 3 18:23:39 PST 2020

I tried downloading 2019b and running channel pre-computation. Same exact errors at the same spots. :-/

Does anyone have any suggestions regarding the errors for eeg_getdatact (line 111 and 113)?

Thanks!

On Mar 3, 2020, at 12:09 PM, John Johnson <john.johnson at gatech.edu<mailto:john.johnson at gatech.edu>> wrote:

Hi Paul,

I wonder if this as a compatibility issue with MATLAB 2019a.
I just had problems plotting channel measures with similar error text when running my study on my laptop running Matlab 2019a. The same study runs fine on my computer at home which runs 2019b.

Your error:

EEGLab error in function eeg_getdatact() at line 113:
Unable to perform assignment because the size of the left side is 72-by-256-by-438 and the size of the right side is 80-256-by-438.

My error can be seen here:
https://github.com/sccn/eeglab/issues/137

Perhaps they share a Matlab function that is causing the assignment error in both.

Regards,
John

John T. Johnson
PhD Candidate - Cognitive Motor Control Laboratory
Lab TA NEURO 3010 Neuroscience Methods
School of Biological Sciences
Georgia Institute of Technology
john.johnson at gatech.edu<mailto:john.johnson at gatech.edu>
he/him/his

On 3 Mar 2020, at 11:34, Beach, Paul Anthony wrote:

Hi John - thanks again for the reply.

I did attempt interpolation as part of my single subject pre-processing stream using the method endorsed by Makoto before/after use of ASR:

In case helpful, my basic pre-processing steps (using Biosemi 64ch EEG) are:
Import w/ mastoid reference
Down sample to 256
Baseline removal -> FIR filtering (0.5 and 50 Hz) -> Import channel locs
Cleanline -> Makoto’s step for retaining full channels: originalEEG = EEG;
ASR (with pre-post steps outlined above)
Interpolation using Makoto’s step: EEG = pop_interp(EEG, originalEEG.chanlocs, 'spherical');
Avg referencing
Cardiac event marking (R and T waves) and use of ERPLAB to create bin-based epochs
ICA with ‘pca’ keep option and # channels remaining after ASR to protect RANK
DIPFIT/Bilateral dipole fitting

I will say that, while I include every channel in my pre-processing steps with respect to filtering/clean line/ASR, I do exclude from my Avg referencing all non-EEG ancillary channels (e.g mastoid, ECG or others).

Any chance any of the above steps could be causing problems (including my mentioned one) for group analysis?

In either case I’m not sure how to go down to the ‘common denominator’ in using just the bare 64 channels with respect to STUDY creation. I’d love some suggestions to try.

Thanks!
Paul

On Mar 2, 2020, at 8:40 PM, Johnson, John T. <john.johnson at gatech.edu<mailto:john.johnson at gatech.edu><mailto:john.johnson at gatech.edu>> wrote:

Hm. The 72 or 80 channels make me wonder if perhaps it’s problem with channel locations - maybe the other channels can’t be interpolated. Or perhaps the rank of the data is too low to create new channels.
I suppose a last resort would be to use the lowest common denominator and go with the minimum number of channels.

Sent from my iPhone

On Mar 2, 2020, at 8:17 PM, Beach, Paul Anthony <paul.anthony.beach at emory.edu<mailto:paul.anthony.beach at emory.edu><mailto:paul.anthony.beach at emory.edu>> wrote:

Thanks for the response, John.

I tried changing the version to that which is currently on GitHub (2019.1). I still am getting the same error at the same spot. I know it has to have something to do with the ERP pre-computation because if I don’t select it and, for example, just choose ‘power spectrum’ then it completes the task. I’m not really sure where the error would be coming from, though.

Taking out the line in question in the eeg_getdatact.m script (line 111) and then trying to repeat the process of channel pre-computation I get this:

EEGLab error in function eeg_getdatact() at line 113:
Unable to perform assignment because the size of the left side is 72-by-256-by-438 and the size of the right side is 80-256-by-438.

I’m not really sure what to do about this. Yes, some of my subjects’ data were collected with a different number of channels (some 72, some 80, using peripheral Biosemi channels). It seems like EEGlab should be able to function irrespective of this.

Cheers,
Paul

On Mar 2, 2020, at 6:22 PM, John Johnson <john.johnson at gatech.edu<mailto:john.johnson at gatech.edu><mailto:john.johnson at gatech.edu>> wrote:

Have you tried using a non-develop branch of eeglab?
Develop branches are generally more volatile and prone to bugs that release branches.

https://github.com/sccn/eeglab/tree/eeglab2019.1

John T. Johnson
PhD Candidate - Cognitive Motor Control Laboratory
Lab TA NEURO 3010 Neuroscience Methods
School of Biological Sciences
Georgia Institute of Technology
678-575-2093
john.johnson at gatech.edu<mailto:john.johnson at gatech.edu><mailto:john.johnson at gatech.edu>
he/him/his

On 2 Mar 2020, at 16:43, Beach, Paul Anthony wrote:

EEGLAB gurus,

I’m working on creation of a STUDY between a control and patient group. During 'pre-compute channel measures’, selecting pre-computation of ERPs, power spectrum, and ERP-image I’m getting the following error:

“Datasets to be concatenated do not have the same number of channels
(Error occurred in function Eeg_getdatact(ct) at line 111)”

It does this about half-way through the subject list (see output in Matlab below)

Using Matlab v 2019a, eeglab-develop.

Thanks!
Paul
--
Paul Beach DO, PhD
PGY4, Chief Resident Physician
Department of Neurology
Emory University School of Medicine

(Matlab output prior to popup error)
Channel merging warning: dissimilar fields in the two structures
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/PD/YES_DBS/PD08/08.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl11/11.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl12/12.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl13/13.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl14/14.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl15/15.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 2 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl16/16.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl17/17.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl18/18.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl19/19.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Interpolating 2 channels...
Channel merging warning: dissimilar fields in the two structures
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/PD/YES_DBS/PD08/08.daterp'
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl11/11.daterp'
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl12/12.daterp'
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl13/13.daterp'
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl14/14.daterp'
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl15/15.daterp'
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl16/16.daterp'
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl17/17.daterp'
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl18/18.daterp'
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl19/19.daterp'
Channel merging warning: dissimilar fields in the two structures
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/PD/YES_DBS/PD08/08.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl11/11.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl12/12.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl13/13.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl14/14.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl15/15.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 2 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl16/16.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl17/17.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl18/18.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Removing baseline...
Saving ERP file '/Volumes/Research_Beach/DATAS/EEG/PROCESSED EEG/Controls/Ctrl19/19.daterp'
Channel merging warning: dissimilar fields in the two structures
Interpolating 10 channels...
Interpolating 2 channels...

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