They definitely could be the problem. I would try that first
Hi Dan,
I'm running mne_average_estimates --desc [descfileaname]
which lists individual stc files morphed to a single subject (I've used
fsaverage and one of the subjects in the study to morph to).
The individual stc files are fine and display expected activity displayed on
the surface to which they were morphed.
As I said before:
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].
the stc files were made with timing parameters - tmin 0 --tmax 500 (or
--tmax 1000) --tstep 10 (or 5) --smooth 6
Could those timing parameters be a problem as Hari suggested? Or something
else?
thanks,
Kestas
Hi Kestas,
Perhaps you could describe your specific problem for us, since it is
not the same as the previous one.
D
Hi Steve,
but I'm running a network version of MNE at MGH, so that should not be a
problem?
thanks,
Kestas
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/
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
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
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
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/
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Stephen Politzer-Ahles
University of Kansas
Linguistics Department
http://www.linguistics.ku.edu/
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Kestas Kveraga, Ph.D.
Instructor in Radiology/Neuroscience
Martinos Center for Biomedical Imaging
MGH-Harvard Medical School
Kestas Kveraga, Ph.D.
Instructor in Radiology/Neuroscience
Martinos Center for Biomedical Imaging
MGH-Harvard Medical School
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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
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MyComplianceReport.com: Compliance and Ethics Reporting . If the e-mail was sent to you in
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but does not contain patient information, please contact the sender and
properly
dispose of the e-mail.
_______________________________________________
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Mne_analysis Info Page
Kestas Kveraga, Ph.D.
Instructor in Radiology/Neuroscience
Martinos Center for Biomedical Imaging
MGH-Harvard Medical School
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contains patient information, please contact the Partners Compliance
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but does not contain patient information, please contact the sender and
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dispose of the e-mail.