[Mne_analysis] Error using mne_average_estimates

[Stephen Politzer-Ahles]

Hi Kestas,

In my case, the problem was solved by adding libgfortran.so.1 to my
library; the rest of this discussion must have been off-list or ended up in
another thread. I believe somewhere on the list, someone sent me (via
attachment) a copy of this file which I could download and put in  /usr/lib64/,
which fixed the issue.

Best,
Steve



Stephen Politzer-Ahles
New York University, Abu Dhabi
Neuroscience of Language Lab
http://www.nyu.edu/projects/politzer-ahles/


On Tue, Mar 18, 2014 at 9:38 PM, Kestas Kveraga
<kestas at nmr.mgh.harvard.edu>wrote:

> Hi,
> I was wondering whether this issue was solved, as I am having it as well
> (despite previously using identically scripted commands and .desc files to
> successfully make average stc files on a different data set).
> The error doesn't provide much info - after compiling the individual stc
> files, after 'Temporal resampling...' the first subject stc file, it simply
> says [failed].
> Any ideas?
>
> Thanks,
> Kestas
>
>
> On Mar 31, 2012, at 6:44 AM, Stephen Politzer-Ahles wrote:
>
> Hi Alex,
>
> Thank you. Here are links to two of my stc files and to the
> mne_average_estimates description file:
> http://dl.dropbox.com/u/9929284/AL023_ave-rh.stc
> http://dl.dropbox.com/u/9929284/AL023_ave-lh.stc
> http://dl.dropbox.com/u/9929284/stcdescrip
>
> I made the stc files using the following command line:
>
> mne_make_movie --subject $SUBJECT --meas
>> $SAMPLE/MEG/$SUBJECT/$SUBJECT"_ave.fif" --inv
>> $SAMPLE/MEG/$SUBJECT/$SUBJECT"_ave-7-meg-inv.fif" --morph average --smooth
>> 5 --stc $SAMPLE/MEG/$SUBJECT"_ave"
>>
>
> (My directory structure is, within $SAMPLE I have a /subjects folder with
> the MRI data and an /MEG folder with the MEG data.) I didn't use the --bmin
> and --bmax options because I already did baseline correction when I
> averaged the MEG data.
>
> After creating stc files like that for every subject, I ran
>
> mne_average_estimates --desc stcdescrip
>
> using the attached description file.
>
> Best,
> Steve
>
> On Sat, Mar 31, 2012 at 3:47 AM, Alexandre Gramfort <
> gramfort at nmr.mgh.harvard.edu> wrote:
>
>> hi Steve,
>>
>> In case you have not solved your problem yet, can you share a couple
>> of stc files that cause
>> the problem and give me the exact command line you typed?
>>
>> Alex
>>
>> On Fri, Mar 30, 2012 at 8:30 PM, Stephen Politzer-Ahles
>> <politzerahless at gmail.com> wrote:
>> > Hello,
>> >
>> > I'm encountering an error running mne_average_estimates. The program
>> > successfully loads all my stc files and sets up the time scale, but
>> then I
>> > get:
>> >
>> > Temporal resampling...
>> > /<path to my data>/subj001_ave-lh.stc .. LH .. [failed]
>> >
>> > Before running mne_average_estimates, I had first created an average
>> brain
>> > in Freesurfer (make_average_subject), then created morph maps from each
>> > subject to the average brain (mne_make_morph_maps --from <subject> --to
>> > average), then for each subject did current estimates using
>> mne_make_movie
>> > with "--morph average" specified, so for each subject I have both
>> > <subject>-lh.stc. and <subject>-rh.stc. For mne_average_estimates, my
>> > description file looks like this:
>> >
>> > stc /<path_to_my_data>/subj001_ave-lh.stc
>> > stc /<path_to_my_data>/subj001_ave-rh.stc
>> > stc /<path_to_my_data>/subj002_ave-lh.stc
>> > stc /<path_to_my_data>/subj002_ave-rh.stc
>> > stc /<path_to_my_data>/subj003_ave-lh.stc
>> > ...
>> > deststc /<path_to_my_data>/averagestc
>> >
>> > (I also tried the same thing but without including the "-lh.stc" and
>> > "-rh.stc" in my description file, but I got the same error.)
>> >
>> > Any suggestions or guidance would be greatly appreciated. Thank you very
>> > much!
>> > Steve Politzer-Ahles
>> >
>> > --
>> > Stephen Politzer-Ahles
>> > University of Kansas
>> > Linguistics Department
>> > http://www.linguistics.ku.edu/
>> >
>> > _______________________________________________
>> > 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.
>> >
>>
>
>
>
> --
> Stephen Politzer-Ahles
> University of Kansas
> Linguistics Department
> http://www.linguistics.ku.edu/
> _______________________________________________
> Mne_analysis mailing list
> Mne_analysis at nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/mne_analysis
>
>
> Kestas Kveraga, Ph.D.
> Instructor in Radiology/Neuroscience
> Martinos Center for Biomedical Imaging
> MGH-Harvard Medical School
>
>
>
>
>
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mail.nmr.mgh.harvard.edu/pipermail/mne_analysis/attachments/20140318/688eb987/attachment.html