mri_surf2surf error - Freesurfer

3 May 2022

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Hi Dr. Greve,

I got this when I ran the line you sent.

Thanks,

Fan

Hans-iMac-Pro:CCn_band fanzhang$ mri_info
lh.CCn_band.Seed1_20220314.V1.13subjs.mgh

Volume information for lh.CCn_band.Seed1_20220314.V1.13subjs.mgh

type: MGH

dimensions: 0 x 0 x 0

voxel sizes: 1.000000, 1.000000, 1.000000

type: UCHAR (0)

fov: 0.000

dof: 0

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 degrees

nframes: 0

PhEncDir: UNKNOWN

FieldStrength: 0.000000

ras xform not present

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

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

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

talairach xfm :

Orientation : ???

Primary Slice Direction: unknown

voxel to ras transform:

-1.0000 0.0000 0.0000 0.0000

0.0000 0.0000 1.0000 0.0000

0.0000-1.0000 0.0000 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

-0.0000-0.0000-1.0000-0.0000

-0.0000 1.0000-0.0000-0.0000

-0.0000-0.0000-0.0000 1.0000

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

*From:* freesurfer-bounces@nmr.mgh.harvard.edu
<freesurfer-bounces@nmr.mgh.harvard.edu>
<mailto:freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of
Douglas N. Greve <dgreve@mgh.harvard.edu>
<mailto:dgreve@mgh.harvard.edu>
*Sent:* Thursday, May 5, 2022 3:33 PM
*To:* freesurfer@nmr.mgh.harvard.edu
<freesurfer@nmr.mgh.harvard.edu>
<mailto:freesurfer@nmr.mgh.harvard.edu>
*Subject:* Re: [Freesurfer] mri_surf2surf error

what happens if you run
mri_info lh.CCn_band.Seed1_20220314.V1.13subjs.mgh

On 5/3/2022 11:54 AM, Zhang, Fan wrote:

    *        External Email - Use Caution *

    Hello Everyone,

    I am trying to run mri_surf2surf. But I got some errors saying
    "no such file or directory" while in fact there are files in
    the pathway. I was able to run this previously, so I am not
    sure if this is relevant to the recent upgrade of the Mac
    operation system (12.2.1). My FreeSurfer version is
    (Darwin-OSX-stable-pub-v6.0.0-2beb96c). Does anyone know how
    to resolve this?

    Thank you so much for the help!

    Fan

    mri_surf2surf --hemi lh --s fsaverage5 --sval
    lh.CCn_band.Seed1_20220314.V1.13subjs.mgh --fwhm 13 --tval
    lh.CCn_band.Seed1_20220314.V1.13subjs.13.mgh

    sysnameDarwin

    hostname Hans-iMac-Pro.local

    machinex86_64

    userfanzhang

    srcsubject = fsaverage5

    srcval= lh.CCn_band.Seed1_20220314.V1.13subjs.mgh

    srctype=

    trgsubject = fsaverage5

    trgval= lh.CCn_band.Seed1_20220314.V1.13subjs.13.mgh

    trgtype=

    srcsurfreg = sphere.reg

    trgsurfreg = sphere.reg

    srchemi= lh

    trghemi= lh

    frame= 0

    fwhm-in= 0

    fwhm-out= 13

    label-src= (null)

    label-trg= (null)

    OKToRevFaceOrder= 1

    UseDualHemi = 0

    Reading source surface reg
    /Applications/freesurfer/subjects/fsaverage5/surf/lh.sphere.reg

    Loading source data

    MRIallocSequence(0, 0, 0, 0): bad parm

    No such file or directory

    Segmentation fault: 11

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