it looks like you are trying to load the volume measures as a surface, not as an overlay. Use file->load overlay. Note that you can also use mris_calc to generate the volume measures.
cheers Bruce On Tue, 2 Feb 2010, keepmoon wrote: > 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 <fis...@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 <fis...@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 <keepmoon1...@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 >>>>>> >>>>>> >>>>>> >>>>> >>> > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
