Dear Bruce,

 

        This is the all information in tci:

 

%%%%%

 $  tksurfer xalbertM lh inflated
surfer: current subjects dir: /home/Joe/study
surfer: not in "scripts" dir ==> using cwd for session root

surfer: session root data dir ($session) set to:

surfer:     /home/Joe/study
surfer: Reading header info from /home/Joe/study/xalbertM/mri/T1.mgz

surfer: vertices=119274, faces=238544

 

WARNING: No colortable found!

surfer: single buffered window
surfer: tkoInitWindow(xalbertM)

surfer: using interface /usr/local/freesurfer/lib/tcl/tksurfer.tcl

Reading /usr/local/freesurfer/lib/tcl/tkm_common.tcl
Reading /usr/local/freesurfer/lib/tcl/tkm_wrappers.tcl

Reading /usr/local/freesurfer/lib/tcl/fsgdfPlo
t.tcl

Reading /usr/local/freesurfer/lib/tcl/tkUtils.tcl

Successfully parsed tksurfer.tcl

reading white matter vertex locations...

% MRISreadVertexPositions(/home/Joe/study/xalbertM/surf/lh_compute.volume): surfaces differ. Main: 119274 verts 238544 faces, /home/Joe/study/xalbertM/surf/lh_compute.volume: 465 verts 30670850 faces

surfer: Couldn't load *.volume, Vset_read_vertex_set:MRISreadVertexposition failed.

 

%%%%%

 And I put the volume file I calculate in the attach.

 

 I am appreciated for your instruction!

Best regards

Joe

 

 

 

2010/2/2, Bruce Fischl <fischl@nmr.mgh.harvard.edu>:

can you send us the complete output in the tcl window (the one with the % prompt)

On Tue, 2 Feb 2010, keepmoon wrote:

Dear Bruce and All,

     In my *View--Configure*....there are three button which are activated
(*Light, caption and phase Encoded Dat Display*), without "*functional
overlay*" option.
     And in these activated buttons: light(light 0,...,light 3, with the
value, 0.4, 0.0, 0.6, 0.2. and brightness: 0.35). In the option of *phase
Encoded Dat Display *(*Angle Cycles:1.0; Angle offset: 0.0*)

     I just use *File--load overlay*  then choose that **.volume* file to
show that volume. And in the terminal there are error information:Couldn't
load *.volume, Vset_read_vertex_set:MRISreadVertexposition failed.

    Thanks a lot for your help!

    Joe






2010/2/2, Bruce Fischl <fischl@nmr.mgh.harvard.edu>:

have you tried changing the threshold in configure->functional overlay?
What kind of values do you see?
On Tue, 2 Feb 2010, keepmoon wrote:

 Dear all experters,

     First I am appreciated for the help of Bruce.
I tried to following his instruction, but I still have some problem and  I
can't show any result on the flated surface. I don't know whether my
method
to calculate the volume is wrong or I display it wrongly. Expecting
someone
gives me a struction again!
     My method is: using *read_curv* function to read*
lh.thickness* and*lh.area
*. Then the matrix of thickness product the matrix of area getting a new
matrix. Then using *write_curv* function to write this new matrix into a
*.volume. I think this volume file should be the grey volume image. (I am
not sure about this process)
    And now I want to show this volume on a flated lh hemispere (using
tksurfer), But when I overlay this volume onto inflated surface, there is
not anything overlay on this surface? (this matrix is not all with 0. )

    Anywhere am I wrong?

   Any instruction will be appriciated!

    Joe





2010/2/1, keepmoon <keepmoon1224@googlemail.com>:

Dear developer,

   I want to compare the grey matter volume by VBM to cortical thickness
by freesurfer. But in this process, I meet a problem: how to change the
points number of grey matter into the same with the vertex of thickness
by
freesurfer?

    Any help will be appreciated!

    Best regards

Joe