Dear all,

I am trying to convert 4D volume time series to GIFTI surface time series. Following the instructions given in a previous post,  so far, I have tried using mri_vol2surf and mris_convert, with no success (i.e. when I try to open the surface file in freeview I get Failed to load Surface /home/osboxes/Desktop/AL_subject/AL_registrations/AL_time_series_white_lh.gii). I would really appreciate if anyone could give me an advise on how to make it work.  I give below the logs of each process.

Thank you,
Prokopis

osboxes@osboxes:~$ mri_vol2surf --mov /home/osboxes/Desktop/Windows-Share/EEG_fMRI_Data_CUBRIC/AL/eyesshut_mc_bet.feat/filtered_func_data.nii --reg $SUBJECTS_DIR/AL_subject/AL_registrations/AL.mat --hemi lh --o /home/osboxes/Desktop/AL_subject/AL_registrations/AL_surface_time_series_lh.mgh --projfrac 0.5 --interp nearest

srcvol = /home/osboxes/Desktop/Windows-Share/EEG_fMRI_Data_CUBRIC/AL/eyesshut_mc_bet.feat/filtered_func_data.nii

srcreg = /home/osboxes/Desktop/Windows-Share/EEG_fMRI_test//AL_subject/AL_registrations/AL.mat

srcregold = 0

srcwarp unspecified

surf = white

hemi = lh

ProjFrac = 0.5

thickness = thickness

reshape = 0

interp = nearest

float2int = round

GetProjMax = 0

INFO: float2int code = 0

Done loading volume

Reading surface /home/osboxes/Desktop/Windows-Share/EEG_fMRI_test//AL_subject/AL/surf/lh.white

Done reading source surface

Reading thickness /home/osboxes/Desktop/Windows-Share/EEG_fMRI_test//AL_subject/AL/surf/lh.thickness

Done

Mapping Source Volume onto Source Subject Surface

1 0.5 0.5 0.5

using old

Done mapping volume to surface

Number of source voxels hit = 11976

Writing to /home/osboxes/Desktop/AL_subject/AL_registrations/AL_surface_time_series_lh.mgh

Dim: 139848 1 1

osboxes@osboxes:~$ mri_info /home/osboxes/Desktop/AL_subject/AL_registrations/AL_surface_time_series_lh.mgh

Volume information for /home/osboxes/Desktop/AL_subject/AL_registrations/AL_surface_time_series_lh.mgh

          type: MGH

    dimensions: 139848 x 1 x 1 x 400

   voxel sizes: 1.0000, 1.0000, 1.0000

          type: FLOAT (3)

           fov: 139848.000

           dof: 0

        xstart: -69924.0, xend: 69924.0

        ystart: -0.5, yend: 0.5

        zstart: -0.5, zend: 0.5

            TR: 3000.00 msec, TE: 0.00 msec, TI: 0.00 msec, flip angle: 0.00 degrees

       nframes: 400

       PhEncDir: UNKNOWN

ras xform present

    xform info: x_r =  -1.0000, y_r =   0.0000, z_r =   0.0000, c_r =    -3.2031

              : x_a =   0.0000, y_a =   1.0000, z_a =   0.0000, c_a =     3.2031

              : x_s =   0.0000, y_s =   0.0000, z_s =   1.0000, c_s =    72.0000

talairach xfm :

Orientation   : LAS

Primary Slice Direction: axial

voxel to ras transform:

               -1.0000   0.0000   0.0000 69920.7969

                0.0000   1.0000   0.0000     2.7031

                0.0000   0.0000   1.0000    71.5000

                0.0000   0.0000   0.0000     1.0000

voxel-to-ras determinant -1

ras to voxel transform:

               -1.0000   0.0000   0.0000 69920.7969

               -0.0000   1.0000  -0.0000    -2.7031

               -0.0000  -0.0000   1.0000   -71.5000

                0.0000   0.0000   0.0000     1.0000

osboxes@osboxes:~$ mris_convert -f /home/osboxes/Desktop/AL_subject/AL_registrations/AL_surface_time_series_lh.mgh   $SUBJECTS_DIR/AL_subject/AL/surf/lh.white   /home/osboxes/Desktop/AL_subject/AL_registrations/AL_time_series_white_lh.gii

freeview log:

osboxes@osboxes:~$ mriseadGIFTIfile: mris is NULL! found when parsing file /home/osboxes/Desktop/AL_subject/AL_registrations/AL_time_series_white_lh.gii

MRISread failed

mriseadGIFTIfile: mris is NULL! found when parsing file /home/osboxes/Desktop/AL_subject/AL_registrations/AL_time_series_white_lh.gii