[Mne_analysis] problem with sample data set: attempt to compute noise-cov fails

[Jeff Eriksen]

Steve,

I am using the build I installed last October, 2.7.0, which I assume is the same build I could download now. Well, maybe not exactly, since I know edf2fiff was updated. I guess the "3106" is the build number below, and the current 2.7.0 will have a higher build number.


MNE software location set to:    /Applications/MNE-2.7.0-3106-MacOSX-i386

MATLAB software location set to: /Applications


/Applications/MNE-2.7.0-3106-MacOSX-i386/bin added to PATH

/Applications/MNE-2.7.0-3106-MacOSX-i386/lib added to DYLD_LIBRARY_PATH

/Applications/MNE-2.7.0-3106-MacOSX-i386/share/app-defaults/%N added to XUSERFILESEARCHPATH


I did not have an errors in the averaging. I suppose I could re-install using the latest build of 2.7.0.


Thanks,

-Jeff


From: Stephen Politzer-Ahles <politzerahless at gmail.com<mailto:politzerahless at gmail.com>>
Date: Fri, 13 Apr 2012 17:24:08 -0700
To: Jeff Eriksen <eriksenj at ohsu.edu<mailto:eriksenj at ohsu.edu>>
Subject: Re: [Mne_analysis] problem with sample data set: attempt to compute noise-cov fails

Hi Jeff,

I'm not sure what exactly would be causing the problem, but just to check, which version of MNE did you download--2.7.0, or one of the more recent nightly builds? I heard that in the nightly build mne_process_raw has been updated so that multiple events can be specified together to make a single condition in the .ave and .cov files (previously, it was necessary to rewrite the event codes in the event file), see https://mail.nmr.mgh.harvard.edu/pipermail//mne_analysis/2012-February/000906.html , so I wonder if this problem might arise when using the tutorial commands but with the nightly build. But if that were the problem then it would probably have caused an error when you did averaging as well.

Best,
Steve Politzer-ahles

On Fri, Apr 13, 2012 at 7:11 PM, Jeff Eriksen <eriksenj at ohsu.edu<mailto:eriksenj at ohsu.edu>> wrote:
Eric,

Thanks for the input, but this is part of the sample/tutorial data
provided with the MNE installation and manual, and should just work. I am
hoping someone at MGH will respond.

-Jeff

On 4/13/12 5:01 PM, "Eric Larson" <larson.eric.d at gmail.com<mailto:larson.eric.d at gmail.com>> wrote:

>It's likely that you either have too few events being used, or there
>are too many epochs that are being thrown out (due to exceeded
>thresholds or flat channels).
>
>Eric
>
>
>On Fri, Apr 13, 2012 at 4:55 PM, Jeff Eriksen <eriksenj at ohsu.edu<mailto:eriksenj at ohsu.edu>> wrote:
>> Hi,
>>
>> I am trying to review the tutorial in Chapter 12. In section 12.10 I
>>entered
>> the mne-process-raw command to compute the noise-cov matrix,
>>
>> mne_process_raw --raw sample_audvis_raw.fif --lowpass 40 --projon
>> --savecovtag -cov --cov audvis.cov
>>
>> and got this error:
>>
>> Too few samples (required : 1835 got : 363)
>>
>> I used fresh copies of the input files.
>>
>> What could be going wrong? I cannot continue with
>>mne-do-inverse-operator
>> since it complains it does not have the sample-aaudvis-cov.fif file.
>>
>> Thanks,
>> -Jeff
>>
>>
>>
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--
Stephen Politzer-Ahles
University of Kansas
Linguistics Department
http://www.linguistics.ku.edu/
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