when I put mri_info I have this message:
[ash:14725/mri/orig] wpark% ls
14725.hdr 14725.img
[ash:14725/mri/orig] wpark% mri_info 14725.img
INFO: analyzeRead(): found 1 files for /usr/local/freesurfer_package/freesurfer
subjects/14725/mri/orig/14725.img
-----------------------------------------------------------------
INFO: could not find /usr/local/freesurfer_package/freesurfer/subjects/14725/mr
/orig/14725.mat file for direction cosine info.
INFO: use Analyze 7.5 hdr->hist.orient value: 0, transverse unflipped (default)
INFO: if not valid, please provide the information in /usr/local/freesurfer_pac
age/freesurfer/subjects/14725/mri/orig/14725.mat file
-----------------------------------------------------------------
Volume information for 14725.img
type: analyze3d
dimensions: 256 x 256 x 124
voxel sizes: 0.7812, 0.7812, 1.5000
type: SHORT (4)
fov: 0.000
xstart: 0.0, xend: 0.0
ystart: 0.0, yend: 0.0
zstart: 0.0, zend: 0.0
TR: 0.00 msec, TE: 0.00 msec, TI: 0.00 msec, flip angle: 0.00 degre
s
nframes: 1
ras xform present
xform info: x_r = -1.0000, y_r = 0.0000, z_r = 0.0000, c_r = 0.000
: x_a = 0.0000, y_a = 1.0000, z_a = 0.0000, c_a = 0.000
: x_s = 0.0000, y_s = 0.0000, z_s = 1.0000, c_s = 0.000
voxel to ras transform:
-0.7812 0.0000 0.0000 100.0000
0.0000 0.7812 0.0000 -100.0000
0.0000 0.0000 1.5000 -93.0000
0.0000 0.0000 0.0000 1.0000
[ash:14725/mri/orig] wpark%
I know that doing mri_convert -iid x_r x_a x_s -ijd y_r y_a y_s -ikd z_r z_a z_s I can change the orientation.
In this case it would be
mri_convert -iid -1 0 0 -ijd 0 1 0 -ikd 0 0 1 14725.img .
My questions:
1) Are these the "default" values that the mri_convert use if I do not specify anything? (mri_convert 14725.img .)
2) If I want to change, the possible values are -1 0 and 1?
Thank you very much.
Wan
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