[Mne_analysis] Dipole fitting problem

[Boric, Katica A.]

I think we don't!

The average files you see are spikes averages.

attached is the inv operator output

Thanks again!
K





________________________________________
From: dgw [dgwakeman at gmail.com]
Sent: Friday, March 14, 2014 12:54 PM
To: Boric, Katica A.; mne_analysis at nmr.mgh.harvard.edu
Subject: Re: [Mne_analysis] Dipole fitting problem

Ok, so how do they get created? You are creating the average and the
covariance matrix files? I can see from one of the files there is an
average file:

2 bad channels read from
/home/spaz/Cat/subjects/PtMGH012/EEG/MGH012_clip2_onsetaverage.fif:
CZ CPZ
Loaded dataset 06/13/13 08:47:06>Average to trigger # 1002>average
from /home/spaz/Cat/subjects/PtMGH012/EEG/MGH012_clip2_onsetaverage.fif
Loaded all requested data from
/home/spaz/Cat/subjects/PtMGH012/EEG/MGH012_clip2_onsetaverage.fif


Also can you send me the output of your mne_inverse_operator command?
I am not familiar with this --eegnoise option, and I am not sure where
it comes from.

Thanks,
D

On Fri, Mar 14, 2014 at 12:42 PM, Boric, Katica A.
<KBORIC at mgh.harvard.edu> wrote:
> Hi D!
> We don't do that (what we do is on the file that says commands) And actually we do not create the average and covariance matrix files...
> ________________________________________
> From: dgw [dgwakeman at gmail.com]
> Sent: Friday, March 14, 2014 12:37 PM
> To: Boric, Katica A.
> Cc: mne_analysis at nmr.mgh.harvard.edu
> Subject: Re: [Mne_analysis] Dipole fitting problem
>
> Hi Katica,
>
> Did you run mne_process raw? How did you create the average and
> covariance matrix files?
>
> On Fri, Mar 14, 2014 at 12:26 PM, Boric, Katica A.
> <KBORIC at mgh.harvard.edu> wrote:
>> Hi D!
>> I am rookie at all this, so hopefully what I am sending is ok. If not, please let me know!
>> Also, I am not sure what you mean with  "what system this data is recorded from". We get our EEG and MRI from MGH databases.
>>
>> Thank you very much!
>> Katica
>> ________________________________________
>> From: dgw [dgwakeman at gmail.com]
>> Sent: Friday, March 14, 2014 11:45 AM
>> To: Boric, Katica A.
>> Cc: mne_analysis at nmr.mgh.harvard.edu
>> Subject: Re: [Mne_analysis] Dipole fitting problem
>>
>> Hi Katica,
>>
>> In order to help us help you:
>> Please send us the exact lines you ran in mne_process_raw etc. (in
>> order) with each command on separate lines. throughout the whole
>> processing stream. Along with the raw text file you used with
>> mne_rename_channels. Also, please include what system this data is
>> recorded from.
>>
>> Thanks,
>> D
>>
>> On Fri, Mar 14, 2014 at 11:34 AM, Boric, Katica A.
>> <KBORIC at mgh.harvard.edu> wrote:
>>> Hi D!
>>> Thanks for your fast response
>>> So I did do rename alias for none EEG channels (not CP2) and also marked bad channels, but CP2 is not one of them. I did this before  calculating the default noise covariance matrix.
>>>
>>> Any thoughs on how I can fix this?
>>> Thanks!!
>>>
>>> Katica
>>> ________________________________________
>>> From: mne_analysis-bounces at nmr.mgh.harvard.edu [mne_analysis-bounces at nmr.mgh.harvard.edu] on behalf of dgw [dgwakeman at gmail.com]
>>> Sent: Friday, March 14, 2014 11:03 AM
>>> To: Boric, Katica A.
>>> Cc: mne_analysis at nmr.mgh.harvard.edu
>>> Subject: Re: [Mne_analysis] Dipole fitting problem
>>>
>>> It looks like CP2 is missing from the covariance matrix file. Did you
>>> remove or rename channels before or after calculating the covariance
>>> matrix?
>>>
>>> D
>>>
>>> On Fri, Mar 14, 2014 at 10:58 AM, Boric, Katica A.
>>> <KBORIC at mgh.harvard.edu> wrote:
>>>>
>>>> Hello Folks!
>>>> I ran into this problem when trying to calculate dipoles:
>>>> When setting up , this message appears:
>>>>
>>>> "All desire channels not found in the covariance matrix" (see attachment for
>>>> an example). And of course it can't calculate the dipole.
>>>> Do you know what the problem is?
>>>>
>>>> I would really appreciate if you could give me some advice!
>>>>
>>>> Thank you very much,
>>>>
>>>>
>>>> Katica
>>>>
>>>> _______________________________________________
>>>> Mne_analysis mailing list
>>>> Mne_analysis at nmr.mgh.harvard.edu
>>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/mne_analysis
>>>>
>>>>
>>>> The information in this e-mail is intended only for the person to whom it is
>>>> addressed. If you believe this e-mail was sent to you in error and the
>>>> e-mail
>>>> contains patient information, please contact the Partners Compliance
>>>> HelpLine at
>>>> http://www.partners.org/complianceline . If the e-mail was sent to you in
>>>> error
>>>> but does not contain patient information, please contact the sender and
>>>> properly
>>>> dispose of the e-mail.
>>>>
>>> _______________________________________________
>>> Mne_analysis mailing list
>>> Mne_analysis at nmr.mgh.harvard.edu
>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/mne_analysis
-------------- next part --------------
An embedded and charset-unspecified text was scrubbed...
Name: INV operator.txt
Url: http://mail.nmr.mgh.harvard.edu/pipermail/mne_analysis/attachments/20140314/dbcc608b/attachment.txt