Thanks for your replay

Sorry for the dumb questions, but I'm very new using spm

(1) How I know the coordinates for the AC (anterior comissure I  guess)? This coordinates will be the ones in x, y and z position?

(2) How I resample my data? Do I need to resample the functional MRI too?

Best regards,

Carolina

2011/3/2 MCLAREN, Donald <[log in to unmask]>

(1) You need to make sure the origin on the AC. You can use the display function to change the origin with the reorient button after change the x y z position.

(2) You should resample your data to 1x1x1 mm. There is no need for .5 mm voxels and this is what is taking up the memory.

Best Regards, Donald McLaren
=================
D.G. McLaren, Ph.D.
Postdoctoral Research Fellow, GRECC, Bedford VA
Research Fellow, Department of Neurology, Massachusetts General Hospital and Harvard Medical School
Office: (773) 406-2464
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On Wed, Mar 2, 2011 at 10:03 PM, Carolina Valencia <[log in to unmask]> wrote:

Thanks for the responses

I tried the solution using the spm Dicom importer (image attached) and then re run the segmentation and once I get a poor result (image attached) and tried several times to run it again but now, I have memory problems with this error:

------------------------------------------------------------------------

Running job #1

------------------------------------------------------------------------

Running 'Segment'

Failed  'Segment'

Out of memory. Type HELP MEMORY for your options.

In file "C:\spm8\spm_prep2sn.m" (v1143), function "create_def" at line 188.

In file "C:\spm8\spm_prep2sn.m" (v1143), function "spm_prep2sn" at line 20.

In file "C:\spm8\config\spm_run_preproc.m" (v2312), function "spm_run_preproc" at line 20.

The following modules did not run:

Failed: Segment

Best regards,

Carolina

2011/3/2 John Ashburner <[log in to unmask]>

It looks like your images were acquired sagittally, but the headers
encode an axial orientation.  Before trying to segment the images,
you'll need to correct the orientation using the Display button.
You'll need to enter various +/- 90 degree rotations (ie pi/2
rotations, because Display works in radians) until you get the right
ones.  Once you've done this, hit the reorient images button and apply
the same transformation to all images that have the same wrong
information in their headers.

You may also need to try to figure out which is the left or right side
of the brain.  If the headers are wrong, then there's no way that SPM
can work out which is left and which is right.  If you use DICOM
conversion routines that support NIfTI, then the headers should be
written correctly.

Best regards,
-John

On 2 March 2011 03:01, Carolina Valencia <[log in to unmask]> wrote:
> Hi all,
>
> I am having problems with the segmentation step within SPM8.  I have gotten deformed images (please see attached jpeg images).  I have tried to adjust some of the segmentation defaults (gaussian, space), but have gotten similar results in each case.
>
> Thanks in advance,
>
> Carollina
>