[FieldTrip] Problem with Beamformer demo

Arana, S.L. (Sophie) S.Arana at donders.ru.nl
Wed Mar 4 13:19:13 CET 2020


???Dear Zoltan,


I have indeed recently updated the beamformer tutorial. I just ran it with Matlab 2019a and the most recent Fieldtrip version (available on Github) and the figures look fine to me.

Could you update your Fieldtrip version and try again?


Best,

Sophie

________________________________
From: fieldtrip <fieldtrip-bounces at science.ru.nl> on behalf of Zoltan Juhasz <z65.juhasz at gmail.com>
Sent: Wednesday, March 4, 2020 11:38 AM
To: FieldTrip discussion list
Subject: Re: [FieldTrip] Problem with Beamformer demo

Hi Jan-Mathijs,

Thanks for getting back to me. I noticed that the documentation page has changed since my first email, so I created a new script and ran this again. This time no data is loaded from disk during computation, I am using what is produced by the script. The result is very disappointing, all figures are wrong. I have uploaded the script, the execution log and the output figures. Could you please check what could be wrong here?

The link to the files is the same as before: https://drive.google.com/drive/folders/1XPZd5l3og1WAEt8dK6Bx7a9W8xgSzCMF?usp=sharing
Matlab version: r2019a
Fieldtrip version: 20190121

Thanks,
Zoltan


On Thu, Feb 27, 2020 at 10:00 AM Schoffelen, J.M. (Jan Mathijs) <jan.schoffelen at donders.ru.nl<mailto:jan.schoffelen at donders.ru.nl>> wrote:
Hi Zoltan,


Have you checked the values of the numbers in the functional data prior to calling ft_sourceinterpolate? This would give an indication of whether it is an interpolation issue or not.
I suspect that latter, because it seems that the interpolation is pulling 'activity values' into areas in the volume for which no functional estimate was provided.
This could happen if the specification of the 'inside' field in the source variable, prior to interpolation, behaves unpredictably.
Whether or not this is specific to the Matlab version used, I don't know. Also, it is unclear what version of fieldtrip you are using.

What I can see in your script, though, is that the sourcePost_nocon you use to generate the first 'correct' 2 figures is loaded from disk, whereas the other source structure (with the 'incorrect' interpolation) is not.

Best wishes,
Jan-Mathijs


On 25 Feb 2020, at 13:46, Zoltan Juhasz <z65.juhasz at gmail.com<mailto:z65.juhasz at gmail.com>> wrote:

I have recently run into a problem while executing the Beamformer Fieldtrip demo at http://www.fieldtriptoolbox.org/tutorial/beamformer/

I am using the sample data set and the source code from this page but the picture I get for the section "Source Analysis: Contrast activity to another interval" is rather strange. I include here the 3 outputs, first two are correct, third one is the problematic one. Also included is the source. Matlab version used: R2019a. Could someone check whether it is a script error or perhaps a change in Matlab that generates the odd result?

links to figures and source:
https://drive.google.com/drive/folders/1XPZd5l3og1WAEt8dK6Bx7a9W8xgSzCMF?usp=sharing

Thanks,
Zoltan
University of Pannonia, Hungary
_______________________________________________
fieldtrip mailing list
https://mailman.science.ru.nl/mailman/listinfo/fieldtrip
https://doi.org/10.1371/journal.pcbi.1002202

_______________________________________________
fieldtrip mailing list
https://mailman.science.ru.nl/mailman/listinfo/fieldtrip
https://doi.org/10.1371/journal.pcbi.1002202
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://mailman.science.ru.nl/pipermail/fieldtrip/attachments/20200304/700d1baa/attachment.htm>


More information about the fieldtrip mailing list