[Mne_analysis] inverse operator decomposition error

[obregon at nmr.mgh.harvard.edu]

---------------------------- Original Message ----------------------------
Subject: Re: [Mne_analysis] Inverse Operator error
From:    obregon at nmr.mgh.harvard.edu
Date:    Tue, July 19, 2011 4:04 pm
To:      "Alexandre Gramfort" <gramfort at nmr.mgh.harvard.edu>
--------------------------------------------------------------------------

Hi Alex,

No worries, I'll forward this email to the mailing list soon. I just
realized I was missing the --noisecov argument in the
mne_do_inverse_operator script. Maybe that could my source of error.

Thanks,

--G

> Hi Gabriel,
>
> can you send this email to the mailing list?
> So I am not the only one who can answer :)
>
> I am in the middle of something right now and I'll take a look asap unless
> someone else answers first.
>
> Alex
>
> On Tue, Jul 19, 2011 at 3:04 PM,  <obregon at nmr.mgh.harvard.edu> wrote:
>> Hi Alex,
>>
>> For some reason, I can't find the *-ave.fif file, so for now I can only
>> provide you with the scripts I ran to compute the forward solution, set
>> up
>> the noise-covariance matrix and calculate the inverse operator
>> decomposition, respectively (remember I'm using the MNE software sample
>> dataset):
>>
>> mne_do_forward_solution --all --spacing ico-4p --bem *-bem-sol.fif \
>> --meas *-ave.fif --mri COR-*.fif --mindist 6.2 --megonly
>>
>> mne_process_raw --raw *_raw.fif --lowpass 40 --projon --savecovtag -cov
>> \
>> --cov audvis.cov
>>
>> mne_do_inverse_operator --fwd *-fwd.fif --depth --meg
>>
>> Please let me know if you identify any parameters that could be missing
>> or
>> causing the error previously mentioned.
>>
>> Also, I have a couple of questions that perhaps you could help me
>> answer:
>>
>> 1.1 What is the --all argument used for within the
>> mne_do_forward_solution
>> program?
>> 1.2 How would the results differ in case I excluded this option?
>>
>> 2. If I input the source space file that includes cortical patch
>> information (created with the mne_add_patch_info script) to the
>> mne_do_forward_solution program (using the --spacing ico-4p flag), do I
>> have to use the --csd argument within the mne_do_inverse_operator
>> program?
>>
>> 3. What is the difference between the *_raw.fif and *raw-eve.fif files?
>>
>> 4. When I use the mne_read_source_spaces function from the MNE Matlab
>> toolbox, a 1x2 structure array is returned. What is the difference
>> between
>> the information included within the two columns of this array?
>>
>> Thanks a lot,
>>
>> --G
>>
>>
>>> Hello Gabriel,
>>>
>>> this is very surprising.
>>>
>>> could you share the files that produce the problem and the script you
>>> used to generate them?
>>>
>>> did you transfer the files via ftp or any other protocol?
>>>
>>> Best,
>>> Alex
>>>
>>> On Mon, Jul 18, 2011 at 6:56 PM,  <obregon at nmr.mgh.harvard.edu> wrote:
>>>> Hi,
>>>>
>>>> When trying to compute the inverse solution on the sample data set,
>>>> I'm
>>>> getting the following error prompt when the mne_do_inverse_operator
>>>> program is done running:
>>>>
>>>> '/usr/pubsw/packages/mne/stable/bin/mne_do_inverse_operator: line 320:
>>>> 8678 Segmentation fault $inv_command
>>>> Inverse operator decomposition failed (see above)'
>>>>
>>>> What does this message mean and how can this be fixed?
>>>>
>>>> Thanks a lot,
>>>>
>>>> Gabriel
>>>>
>>>>
>>>>
>>>> _______________________________________________
>>>> 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.
>>>>
>>>>
>>>
>>>
>>>
>>
>>
>
>
>