It does not look too bad to me. That is a significance map and it is covering most of the occipital region. If you want to see the angle, add -angle to your tksurfer-sess command. doug
Daniel Cole wrote: > I was mistaken, I only have *Polar* (Rotating wedge) not Eccentricity > stimuli. > After running selxavg3-sess I view my results with "tksurfer-sess > -analysis rtopy.self.lh -sf sessid". > The retinotopic data shows up on the surface but looks incorrect... > I'm new to freesurfer so I'm not sure if it's simply the viewing > options causing the graphics to look incorrect or if the analysis > failed. Does the attached picture look correct to you? > > My apologies for the elementary questions. Thanks again for all of > your help, > Daniel > > On Thu, Feb 16, 2012 at 2:16 PM, Douglas N Greve > <gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>> wrote: > > It can't create a fieldsign map from just the eccentricity. > doug > > Daniel Cole wrote: > > Hello, > Thanks for your reply. > You are right, I only have eccentricity. I reran all the > steps and tried your suggestion which worked! > However, now I'm having a different problem. > After running "mkanalysis-sess -analysis rtopy.self.lh > -surface self lh -TR 1.2 -abblocked 38.4 -fsd bold -fwhm 5" > followed by "selxavg3-sess -analysis rtopy.self.lh -sf > sessid", I try running "fieldsign-sess -a rtopy.self.lh > -sphere -sf sessid", > > which gives me the error "ERROR: rtopy.self.lh is not > retinotopy". Will changing the analysis name for > mkanalysis-sess fix this? > > Many thanks, > Daniel > > On Thu, Feb 16, 2012 at 11:16 AM, Douglas N Greve > <gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu> > <mailto:gr...@nmr.mgh.harvard. edu > <mailto:gr...@nmr.mgh.harvard.edu>>> wrote: > > Hi Daniel, sorry for the delay. Is it the case that you > only have > eccentricity? The retinotopy tools are designed to work > with both > eccen and polar. You can still do the same analysis, just use > -abblocked instead of -retinotopy. > doug > > Daniel Cole wrote: > > Hello Doug, > I don't mean to rush your response, but, I was wondering if > you found any reason for why I'm getting this error? I've > been busy doing other analysis but I'm going to be > returning > to this data today and was hoping for your insight. > > Thanks again for taking the time, > Daniel > > On Fri, Feb 10, 2012 at 11:48 AM, Daniel Cole > <dcol...@u.rochester.edu > <mailto:dcol...@u.rochester.edu> <mailto:dcole10@u.rochester. > edu <mailto:dcol...@u.rochester.edu>> > <mailto:dcole10@u.rochester > <mailto:dcole10@u.rochester>. edu > > <mailto:dcole10@u.rochester. edu > <mailto:dcol...@u.rochester.edu>>>> wrote: > > Hi Doug, > Thanks for the response! > Here are the files you requested. > > Daniel > > > On Fri, Feb 10, 2012 at 11:44 AM, Douglas N Greve > <gr...@nmr.mgh.harvard.edu > <mailto:gr...@nmr.mgh.harvard.edu> > <mailto:gr...@nmr.mgh.harvard. edu > <mailto:gr...@nmr.mgh.harvard.edu>> > <mailto:gr...@nmr.mgh.harvard > <mailto:gr...@nmr.mgh.harvard>. edu > > <mailto:gr...@nmr.mgh.harvard. edu > <mailto:gr...@nmr.mgh.harvard.edu>>>> wrote: > > Hi Daniel, can you send me the analysis.info > <http://analysis.info> > <http://analysis.info> > <http://analysis.info> and Xtmp.mat files? > > doug > > Daniel Cole wrote: > > > Hello Freesurfers, > > I think my last email failed to send so here > it is > again - > > > I'm running into problems using fs-fast for > a polar > only, > retinotopic analysis. > > > The error message I get is: > > > ********************* > > > Retinotopy dcole$ selxavg3-sess -analysis > rtopy.self.lh > -sf sessid > > Surface data self lh > > ------------------------------ > ------------------------------ -- > > selxavg3-sess logfile is > /rcbiUsers/dcole/Retinotopy/ > log/selxavg3-sess-bold-rtopy. > self.lh-120209144554.log > > ------------------------------ > ------------------------------ -- > > preproc-sess -s SUB01 -d > /rcbiUsers/dcole/Retinotopy -a > rtopy.self.lh -nolog > > ------------------------------ > ------------------------------ -- > > preproc-sess logfile is /dev/null > > ------------------------------ > ------------------------------ -- > > $Id: preproc-sess,v 1.45.2.1 2011/03/22 17:16:19 > greve Exp $ > > dcole > > setenv FREESURFER_HOME /Volumes/RCBI/freesurfer > > setenv SUBJECTS_DIR /Volumes/rcbiUsers/dcole/ > Retinotopy/Subjects/test > > Darwin commissure.local 11.2.0 Darwin Kernel > Version > 11.2.0: Tue Aug 9 20:54:00 PDT 2011; > root:xnu-1699.24.8~1/RELEASE_ X86_64 x86_64 > > /rcbiUsers/dcole/Retinotopy > > /Volumes/RCBI/freesurfer/ > fsfast/bin/preproc-sess > > -s SUB01 -d /rcbiUsers/dcole/Retinotopy -a > rtopy.self.lh > -nolog > > Thu Feb 9 14:45:54 EST 2012 > > instem f > mc 1 f fmcpr > stc 0 fmcpr > > sm 0 mask 1 brain > > SUB01 Template ----------------------------- > > mktemplate-sess -s SUB01 -d > /rcbiUsers/dcole/Retinotopy > -fsd bold -nolog -update > > Session: > /rcbiUsers/dcole/Retinotopy/ > SUB01 ---------------- > > > Thu Feb 9 14:45:54 EST 2012 > > Detected input format at nii > > SUB01 Update not needed > > Run: 001 ---------------- > > Thu Feb 9 14:45:54 EST 2012 > > SUB01 001 Update not needed > > Run: 002 ---------------- > > Thu Feb 9 14:45:54 EST 2012 > > SUB01 002 Update not needed > > Run: 003 ---------------- > > Thu Feb 9 14:45:55 EST 2012 > > SUB01 003 Update not needed > > Run: 004 ---------------- > > Thu Feb 9 14:45:55 EST 2012 > > SUB01 004 Update not needed > > Run: 005 ---------------- > > Thu Feb 9 14:45:55 EST 2012 > > SUB01 005 Update not needed > > Thu Feb 9 14:45:55 EST 2012 > > mktemplate-sess completed > SUB01 Mask ------------------------ > > mkbrainmask-sess -maskstem brain -fsd bold > -s SUB01 -d > /rcbiUsers/dcole/Retinotopy -nolog -update > > ------------------------------ > ------------------ > > /rcbiUsers/dcole/Retinotopy/ SUB01 > Thu Feb 9 14:45:55 EST 2012 > > SUB01 Update not needed for session-level mask > > SUB01 Update not needed for run 001 mask > > SUB01 Update not needed for run 001 meanval > > SUB01 Update not needed for run 002 mask > > SUB01 Update not needed for run 002 meanval > > SUB01 Update not needed for run 003 mask > > SUB01 Update not needed for run 003 meanval > > SUB01 Update not needed for run 004 mask > > SUB01 Update not needed for run 004 meanval > > SUB01 Update not needed for run 005 mask > > SUB01 Update not needed for run 005 meanval > > Thu Feb 9 14:45:55 EST 2012 > > mkbrainmask-sess done > > SUB01 Registration ----------------------------- > > register-sess -s SUB01 -d > /rcbiUsers/dcole/Retinotopy -fsd > bold -dof 6 -per-run -nolog -update > > ------------------------------ > ------------------------------ -- > > register-sess logfile is /dev/null > > ------------------------------ > ------------------------------ -- > > Thu Feb 9 14:45:55 EST 2012 > > > setenv SUBJECTS_DIR /Volumes/rcbiUsers/dcole/ > Retinotopy/Subjects/test > > cd /rcbiUsers/dcole/Retinotopy > > /Volumes/RCBI/freesurfer/ > fsfast/bin/register-sess -s > > SUB01 -d /rcbiUsers/dcole/Retinotopy -fsd > bold -dof 6 > -per-run -nolog -update > > > freesurfer-Darwin-leopard- > i686-stable-pub-v5.1.0 > > > Darwin commissure.local 11.2.0 Darwin Kernel > Version > 11.2.0: Tue Aug 9 20:54:00 PDT 2011; > root:xnu-1699.24.8~1/RELEASE_ X86_64 x86_64 > > Session: > /rcbiUsers/dcole/Retinotopy/ > SUB01 ---------------- > > > Thu Feb 9 14:45:55 EST 2012 > > Run: 001 ---------------- > > Thu Feb 9 14:45:55 EST 2012 > > Update not needed > > Run: 002 ---------------- > > Thu Feb 9 14:45:55 EST 2012 > > Update not needed > > Run: 003 ---------------- > > Thu Feb 9 14:45:55 EST 2012 > > Update not needed > > Run: 004 ---------------- > > Thu Feb 9 14:45:55 EST 2012 > > Update not needed > > Run: 005 ---------------- > > Thu Feb 9 14:45:55 EST 2012 > > Update not needed > > Thu Feb 9 14:45:55 EST 2012 > > register-sess completed > SUB01 MC ----------------------------- > > mc-sess -fstem f -fmcstem fmcpr -s SUB01 -d > /rcbiUsers/dcole/Retinotopy -fsd bold -per-run > -nolog -update > > Logfile is /dev/null > > ------------------------------ ------------- > > /rcbiUsers/dcole/Retinotopy/ SUB01 > RunList: 001 002 003 004 005 > > SUB01 001 Update not needed > > SUB01 002 Update not needed > > SUB01 003 Update not needed > > SUB01 004 Update not needed > > SUB01 005 Update not needed > > > > Thu Feb 9 14:45:55 EST 2012 > > mc-sess completed SUCCESSFULLY > > SUB01 To Surface ----------------------------- > > rawfunc2surf-sess -fwhm 5 -s SUB01 -d > /rcbiUsers/dcole/Retinotopy -fsd bold -hemi > lh -self > -nolog -update > > instem fmcpr > > outstem fmcpr.sm5.self.hemi > > ------------------------------ > 1/1 SUB01 > > 1/1 SUB01 001 lh --------- > > Thu Feb 9 14:45:55 EST 2012 > > SUB01 001 Update not needed > > 1/1 SUB01 002 lh --------- > > Thu Feb 9 14:45:55 EST 2012 > > SUB01 002 Update not needed > > 1/1 SUB01 003 lh --------- > > Thu Feb 9 14:45:56 EST 2012 > > SUB01 003 Update not needed > > 1/1 SUB01 004 lh --------- > > Thu Feb 9 14:45:56 EST 2012 > > SUB01 004 Update not needed > > 1/1 SUB01 005 lh --------- > > Thu Feb 9 14:45:56 EST 2012 > > SUB01 005 Update not needed > > > Thu Feb 9 14:45:56 EST 2012 > > rawfunc2surf-sess completed > ------------------------------ ---------- > > Started at Thu Feb 9 14:45:54 EST 2012 > > Ended at Thu Feb 9 14:45:56 EST 2012 > > preproc-sess done > > ------------------------------ ------------- > > /rcbiUsers/dcole/Retinotopy/ SUB01 > Thu Feb 9 14:45:56 EST 2012 > > anadir = /rcbiUsers/dcole/Retinotopy/ > SUB01/bold/rtopy.self.lh > > DoGLMFit = 1 > > DoContrasts = 1 > > UpdateNeeded = 1 > > ------------------------------ ------------ > > ------- matlab output -------------------- > > Warning: Unable to open display 'iconic'. > You will > not be > able to display graphics on the screen. > > 2012-02-09 14:45:56.773 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:56.775 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:56.776 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:56.777 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:56.778 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:56.779 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:56.780 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:56.781 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:56.783 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:56.796 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:56.797 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:56.798 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:56.812 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:56.813 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:56.815 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > > < M A T L A B (R) > > > Copyright 1984-2010 The > MathWorks, > Inc. > > Version 7.10.0.499 (R2010a) > 64-bit > (maci64) > > February 5, 2010 > > > 2012-02-09 14:45:57.634 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.636 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.636 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.637 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.638 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.639 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.639 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.640 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.641 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.642 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.643 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.643 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.644 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.645 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.646 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.646 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.647 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.648 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.649 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.649 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.650 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.651 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.651 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.652 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.653 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.654 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.654 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.655 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.656 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.657 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.657 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.658 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.659 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.660 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.660 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.661 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.662 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.663 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.663 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.664 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.665 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.666 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.666 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.667 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.668 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.669 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.669 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > 2012-02-09 14:45:57.670 MATLAB[17738:7103] This > process is > attempting to exclude an item from Time > Machine by path > without administrator privileges. This is not > supported. > > To get started, type one of these: > helpwin, helpdesk, or > demo. > > For product information, visit > www.mathworks.com <http://www.mathworks.com> > <http://www.mathworks.com> > <http://www.mathworks.com> > <http://www.mathworks.com/>. > > > >> >> >> >> >> >> >> > /Volumes/RCBI/freesurfer/ > fsfast/toolbox/fast_selxavg3.m > > >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> > >> >> > >> >> > >> >> > > #@# SUB01 ############################## # > > /rcbiUsers/dcole/Retinotopy/ SUB01 > > > ------------------------- > > $Id: fast_selxavg3.m,v 1.100 2011/03/02 16:14:38 > greve Exp $ > > /Volumes/RCBI/freesurfer/ > fsfast/toolbox/fast_selxavg3.m > > /Volumes/RCBI/freesurfer/ > fsfast/toolbox/fast_ldanaflac. m > > /Volumes/RCBI/freesurfer/ matlab/MRIread.m > > ------------------------- > > outtop = /rcbiUsers/dcole/Retinotopy > > Extension format = nii.gz > > nruns = 5 > > autostimdur = > > > outanadir = /rcbiUsers/dcole/Retinotopy/ > SUB01/bold/rtopy.self.lh > > Found 15746/149363 <tel:15746%2F149363> > <tel:15746%2F149363> > <tel:15746%2F149363> > <tel:15746%2F149363> (10.5) voxels in mask > > > Creating Design Matrix > > ... creation time = 0.011 sec > > DoMCFit = 1 > > ntptot = 1305, nX = 39, DOF = 1266 > > Saving X matrix to /rcbiUsers/dcole/Retinotopy/ > SUB01/bold/rtopy.self.lh/Xtmp. mat > > ??? Error using ==> svd > > Input to SVD must not contain NaN or Inf. > > > Error in ==> cond at 40 > > s = svd(A); > > > Error in ==> fast_selxavg3 at 254 > > XCond = cond(XtX); > > >> ------------------------------ > ------------ > > ERROR: fast_selxavg3() failed\n > > > ********************* > > > I think the problem is with the "??? Error > using ==> > svd... " error, not the matlab errors. I've > found that > many people were reporting this matlab error > but it's > presumably more of an annoyance than a > technical issue. > > > I'm following the tutorial at > http://surfer.nmr.mgh.harvard. edu/fswiki/ > FsFastIndividualRetinotopyAnal ysis > <http://surfer.nmr.mgh. harvard.edu/fswiki/ > <http://harvard.edu/fswiki/> > FsFastIndividualRetinotopyAnal ysis > <http://surfer.nmr.mgh. harvard.edu/fswiki/ > FsFastIndividualRetinotopyAnal ysis > > <http://surfer.nmr.mgh.harvard.edu/fswiki/FsFastIndividualRetinotopyAnalysis>>> > . I'm pretty sure I have my directories set up > properly > and I've used Mricron's dcm2nii tool on my raw > functionals/structurals. I've also already > successfully > preprocessed my data and made the rtopy.par > files > (preproc-sess & mkanalysis-sess). > > I haven't been able to find a response that > fixed the > problem and was hoping for some suggestions. > > > Thanks so much, > > Daniel > > > -- > Daniel Cole > > University of Rochester > > Brain and Cognitive Sciences > > dcol...@u.rochester.edu > <mailto:dcol...@u.rochester.edu> > <mailto:dcole10@u.rochester. edu > <mailto:dcol...@u.rochester.edu>> <mailto:dcole10@u.rochester > <mailto:dcole10@u.rochester>. > edu <mailto:dcole10@u.rochester. edu > <mailto:dcol...@u.rochester.edu>>> > <mailto:dcole10@u.rochester > <mailto:dcole10@u.rochester> > <mailto:dcole10@u.rochester > <mailto:dcole10@u.rochester>>. edu > > <mailto:dcole10@u.rochester > <mailto:dcole10@u.rochester>. edu > <mailto:dcole10@u.rochester. edu > <mailto:dcol...@u.rochester.edu>>>> > > > ------------------------------ > ------------------------------ ------------ > > ______________________________ _________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > <mailto:Freesurfer@nmr.mgh.harvard.edu> > <mailto:freesur...@nmr.mgh. harvard.edu > <mailto:Freesurfer@nmr.mgh.harvard.edu>> > <mailto:freesur...@nmr.mgh > <mailto:freesur...@nmr.mgh>. harvard.edu <http://harvard.edu> > > <mailto:freesur...@nmr.mgh. harvard.edu > <mailto:Freesurfer@nmr.mgh.harvard.edu>>> > https://mail.nmr.mgh.harvard. > edu/mailman/listinfo/ > freesurfer > > <https://mail.nmr.mgh.harvard. > edu/mailman/listinfo/ freesurfer > <https://mail.nmr.mgh.harvard. edu/mailman/listinfo/ > freesurfer > <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer>>> > > > -- Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@nmr.mgh.harvard.edu > <mailto:gr...@nmr.mgh.harvard.edu> > <mailto:gr...@nmr.mgh.harvard. edu > <mailto:gr...@nmr.mgh.harvard.edu>> > <mailto:gr...@nmr.mgh.harvard > <mailto:gr...@nmr.mgh.harvard>. edu > > <mailto:gr...@nmr.mgh.harvard. edu > <mailto:gr...@nmr.mgh.harvard.edu>>> > Phone Number: 617-724-2358 <tel:617-724-2358> > <tel:617-724-2358 <tel:617-724-2358>> > <tel:617-724-2358 <tel:617-724-2358> <tel:617-724-2358 > <tel:617-724-2358>>> Fax: > 617-726-7422 <tel:617-726-7422> > <tel:617-726-7422 <tel:617-726-7422>> <tel:617-726-7422 > <tel:617-726-7422> > <tel:617-726-7422 <tel:617-726-7422>>> > > Bugs: surfer.nmr.mgh.harvard.edu/ > <http://surfer.nmr.mgh.harvard.edu/> > <http://surfer.nmr.mgh. harvard.edu/ > <http://surfer.nmr.mgh.harvard.edu/>> fswiki/BugReporting > <http://surfer.nmr.mgh. harvard.edu/fswiki/ > <http://harvard.edu/fswiki/> > BugReporting > <http://surfer.nmr.mgh. harvard.edu/fswiki/ > BugReporting > <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting>>> > FileDrop: www.nmr.mgh.harvard.edu/ > <http://www.nmr.mgh.harvard.edu/> > <http://www.nmr.mgh.harvard. edu/ > <http://www.nmr.mgh.harvard.edu/>> > facility/filedrop/index.html > <http://www.nmr.mgh.harvard. > edu/facility/filedrop/index. html > > <http://www.nmr.mgh.harvard. > edu/facility/filedrop/index. html > <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html>>> > > > > > The information in this e-mail is intended only > for the > person > to whom it is > addressed. If you believe this e-mail was sent > to you > in error > and the e-mail > contains patient information, please contact the > Partners > Compliance HelpLine at > http://www.partners.org/ complianceline > <http://www.partners.org/ complianceline > <http://www.partners.org/ complianceline > <http://www.partners.org/complianceline>>> . If the e-mail was > sent to you in error > but does not contain patient information, please > contact the > sender and properly > dispose of the e-mail. > > > > > -- Daniel Cole > University of Rochester > Brain and Cognitive Sciences > dcol...@u.rochester.edu > <mailto:dcol...@u.rochester.edu> <mailto:dcole10@u.rochester. > edu <mailto:dcol...@u.rochester.edu>> > <mailto:dcole10@u.rochester > <mailto:dcole10@u.rochester>. edu > <mailto:dcole10@u.rochester. edu > <mailto:dcol...@u.rochester.edu>>> > > > > > > > -- Daniel Cole > University of Rochester > Brain and Cognitive Sciences > dcol...@u.rochester.edu > <mailto:dcol...@u.rochester.edu> <mailto:dcole10@u.rochester. > edu <mailto:dcol...@u.rochester.edu>> > <mailto:dcole10@u.rochester > <mailto:dcole10@u.rochester>. edu <mailto:dcole10@u.rochester. > edu <mailto:dcol...@u.rochester.edu>>> > > > -- Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@nmr.mgh.harvard.edu > <mailto:gr...@nmr.mgh.harvard.edu> > <mailto:gr...@nmr.mgh.harvard. edu > <mailto:gr...@nmr.mgh.harvard.edu>> > Phone Number: 617-724-2358 <tel:617-724-2358> > <tel:617-724-2358 <tel:617-724-2358>> Fax: 617-726-7422 > <tel:617-726-7422> > <tel:617-726-7422 <tel:617-726-7422>> > > Bugs: surfer.nmr.mgh.harvard.edu/ > <http://surfer.nmr.mgh.harvard.edu/> fswiki/BugReporting > <http://surfer.nmr.mgh. harvard.edu/fswiki/ BugReporting > <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting>> > FileDrop: www.nmr.mgh.harvard.edu/ > <http://www.nmr.mgh.harvard.edu/> facility/filedrop/index.html > <http://www.nmr.mgh.harvard. edu/facility/filedrop/index. > html > <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html>> > > > > > -- > Daniel Cole > University of Rochester > Brain and Cognitive Sciences > dcol...@u.rochester.edu <mailto:dcol...@u.rochester.edu> > <mailto:dcole10@u.rochester. edu <mailto:dcol...@u.rochester.edu>> > > > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu> > Phone Number: 617-724-2358 <tel:617-724-2358> Fax: 617-726-7422 > <tel:617-726-7422> > > Bugs: surfer.nmr.mgh.harvard.edu/ fswiki/BugReporting > <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> > FileDrop: www.nmr.mgh.harvard.edu/ facility/filedrop/index.html > <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> > > > > > -- > Daniel Cole > University of Rochester > Brain and Cognitive Sciences > dcol...@u.rochester.edu <mailto:dcol...@u.rochester.edu> > > > ------------------------------------------------------------------------ > -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
