That means that you need to add something like --surface fsaverage lh

the above assumes that you used the left hemi of fsaverage

On 09/05/2014 02:56 AM, Minjeong Wang wrote:

Dear all,

i have some problem with mri_glmfit.

The error message is "you must use '--surface subject hemi' with surface data"

What do I do for solving this problem??

Help me.. :(

M.J.

---

mri_glmfit \

--glmdir lh.cdr.glmdir \

--y lh.cdr.thickness.10.mgh \

--fsgd cdr.fsgd dods \

--C normal-CDR0.5.mtx \

--C normal-CDR1.mtx \

--C CDR0.5-CDR1.mtx \

--C group.effect.mtx \

--C normal+CDR0.5-vs-CDR1.mtx \

--surf fsaverage lh \

--cortex ? --glmdir lh.cdr.glmdir \

? --y lh.cdr.thickness.10.mgh \

? --fsgd cdr.fsgd dods \

? --C normal-CDR0.5.mtx \

? --C normal-CDR1.mtx \

gdfReadHeader: reading cdr.fsgd

INFO: gd2mtx_method is dods

$Id: mri_glmfit.c,v 1.196.2.8 2012/11/01 18:51:41 greve Exp $

cwd /Applications/freesurfer/subjects

cmdline mri_glmfit --glmdir lh.cdr.glmdir --y lh.cdr.thickness.10.mgh --fsgd cdr.fsgd dods --C normal-CDR0.5.mtx --C normal-CDR1.mtx

sysname Darwin

hostname Youngui-Mac-Pro.local

machine x86_64

user younghopark

FixVertexAreaFlag = 1

UseMaskWithSmoothing 1

OneSampleGroupMean 0

y /Applications/freesurfer/subjects/lh.cdr.thickness.10.mgh

logyflag 0

usedti 0

FSGD cdr.fsgd

glmdir lh.cdr.glmdir

IllCondOK 0

ReScaleX 1

DoFFx 0

Creating output directory lh.cdr.glmdir

Loading y from /Applications/freesurfer/subjects/lh.cdr.thickness.10.mgh

ERROR: you must use '--surface subject hemi' with surface data

[Youngui-Mac-Pro:/Applications/freesurfer/subjects] younghopark% --C CDR0.5-CDR1.mtx \

--C: Command not found.

[Youngui-Mac-Pro:/Applications/freesurfer/subjects] younghopark% --C group.effect.mtx \

--C: Command not found.

[Youngui-Mac-Pro:/Applications/freesurfer/subjects] younghopark% --C normal+CDR0.5-vs-CDR1.mtx \

? --surf fsaverage lh \

? --cortex \

?

--C: Command not found.

---

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