RE: [Freesurfer] cannot read file as type 3

hmmm, no idea why this would happen. Do you want to put it on the filedrop for us (we'll need everything to run mri_surf2surf to replicate the error) On Sat, 11 Jul 2009, Lars M. Rimol wrote:

Yes, I can load it as an overlay in tksurfer.

Here's the mri_info output:

[lmr@localhost area]$ mri_info TOP_sm100_lh_cc2_11072009.mgh

Volume information for TOP_sm100_lh_cc2_11072009.mgh

type: MGH

dimensions: 163842 x 1 x 1 x 216

voxel sizes: 1.0000, 1.0000, 1.0000

type: FLOAT (3)

fov: 163842.000

dof: 1

xstart: -81921.0, xend: 81921.0

ystart: -0.5, yend: 0.5

zstart: -0.5, zend: 0.5

TR: 0.00 msec, TE: 0.00 msec, TI: 0.00 msec, flip angle: 0.00 degrees

nframes: 216

ras xform present

xform info: x_r = 1.0000, y_r = 0.0000, z_r = 0.0000, c_r = 81921.0000

: x_a = 0.0000, y_a = 1.0000, z_a = 0.0000, c_a = 0.5000

: x_s = 0.0000, y_s = 0.0000, z_s = 1.0000, c_s = 0.5000

talairach xfm :

Orientation : RAS

Primary Slice Direction: axial

voxel to ras transform:

1.0000 0.0000 0.0000 0.0000

0.0000 1.0000 0.0000 0.0000

0.0000 0.0000 1.0000 0.0000

0.0000 0.0000 0.0000 1.0000

voxel-to-ras determinant 1

ras to voxel transform:

1.0000 -0.0000 -0.0000 -0.0000

-0.0000 1.0000 -0.0000 -0.0000

-0.0000 -0.0000 1.0000 -0.0000

0.0000 0.0000 0.0000 1.0000

PS! I originally had this file (TOP_sm100_lh.mgh), which I reduced in Matlab, i.e. I removed 150 of the 366 subjects and then saved the new matrix with save_mgh. Both the original file and the new one crash in msi_surf2surf, both are viewable in tksurfer and their mri_info info looks similar to me.

[lmr@localhost area]$ mri_info TOP_sm100_lh.mgh

Volume information for TOP_sm100_lh.mgh

type: MGH

dimensions: 163842 x 1 x 1 x 366

voxel sizes: 1.0000, 1.0000, 1.0000

type: FLOAT (3)

fov: 163842.000

dof: 1

xstart: -81921.0, xend: 81921.0

ystart: -0.5, yend: 0.5

zstart: -0.5, zend: 0.5

TR: 0.00 msec, TE: 0.00 msec, TI: 0.00 msec, flip angle: 0.00 degrees

nframes: 366

ras xform present

xform info: x_r = 1.0000, y_r = 0.0000, z_r = 0.0000, c_r = 81921.0000

: x_a = 0.0000, y_a = 1.0000, z_a = 0.0000, c_a = 0.5000

: x_s = 0.0000, y_s = 0.0000, z_s = 1.0000, c_s = 0.5000

talairach xfm :

Orientation : RAS

Primary Slice Direction: axial

voxel to ras transform:

1.0000 0.0000 0.0000 0.0000

0.0000 1.0000 0.0000 0.0000

0.0000 0.0000 1.0000 0.0000

0.0000 0.0000 0.0000 1.0000

voxel-to-ras determinant 1

ras to voxel transform:

1.0000 -0.0000 -0.0000 -0.0000

-0.0000 1.0000 -0.0000 -0.0000

-0.0000 -0.0000 1.0000 -0.0000

0.0000 0.0000 0.0000 1.0000