and my freesurfer version is 5.1.

2013/5/30 Claudia Dacquino claudia.dacquino@gmail.com

yes I did answer again to the list. no it is no full at all.

2013/5/30 Bruce Fischl fischl@nmr.mgh.harvard.edu

...

is your disk partition full? And please cc the list so others can answer Bruce

On Thu, 30 May 2013, Claudia Dacquino wrote:

Yes I did run mri_info, these are the results:

...

Volume information for brainmask.gcuts.mgz type: MGH dimensions: 256 x 256 x 256 voxel sizes: 1.0000, 1.0000, 1.0000 type: INT (1) fov: 256.000 dof: 0 xstart: -128.0, xend: 128.0 ystart: -128.0, yend: 128.0 zstart: -128.0, zend: 128.0 TR: 7.92 msec, TE: 0.00 msec, TI: 0.00 msec, flip angle: 0.00 degrees nframes: 1 PhEncDir: UNKNOWN ras xform present xform info: x_r = -1.0000, y_r = 0.0000, z_r = -0.0000, c_r = 8.4909 : x_a = -0.0000, y_a = 0.0000, z_a = 1.0000, c_a = -0.4031 : x_s = 0.0000, y_s = -1.0000, z_s = -0.0000, c_s = -34.1638

talairach xfm : Orientation : LIA Primary Slice Direction: coronal

voxel to ras transform: -1.0000 0.0000 -0.0000 136.4909 -0.0000 0.0000 1.0000 -128.4031 0.0000 -1.0000 -0.0000 93.8362 0.0000 0.0000 0.0000 1.0000

voxel-to-ras determinant -1

ras to voxel transform: -1.0000 -0.0000 -0.0000 136.4909 -0.0000 -0.0000 -1.0000 93.8362 -0.0000 1.0000 -0.0000 128.4031 0.0000 0.0000 0.0000 1.0000

Cheers

2013/5/30 Bruce Fischl fischl@nmr.mgh.harvard.edu did you run out of disk space? Can you run mri_info on it? On Thu, 30 May 2013, Claudia Dacquino wrote:

        Hi Freesurfers,I'm trying to remove some dura which
        affect my surfaces with
        the command

        recon-all -skullstrip -clean-bm -gcut -subjid

        but then I can't use tkmedit to check that.
        The message I get is:

        Error: Loading volume brainmask.gcut.mgz Couldn't
        read the anatomical
        volume. Tkmedit couldn't read the volume you
        specified. This could be
        because the image format wasn't recognized, or it
        couldn't find the proper
        header, or the file(s) were unreadable, or it was
        the wrong size.

        Actually I did check in brainmask.gcut.mgz directory
        properties, and I saw
        the size of image is something like 150 KB, instead
        of 1 MB like is
        brainmask.mgz.

        What is the problem?

        Thanks,
        Claudia

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