[Freesurfer] tkregister2 woes

Aloha fellow Surfers, while testing the dev20060224 centos4_x86_64 release I stumbled upon some issues with tkregister2. That is tkregister2 produces X errors leading to a black screen once the image window is clicked into. Since I try to cheat monkey data into the freesurfer chain I use

Re: [Freesurfer] tkregister2 woes

Hmmm, I have not seen anything like this around here. Does it only happen with your monkey data? What are the sizes of the volumes you are trying to run? Can you send all your command lines? doug Sebastian Moeller wrote: Aloha fellow Surfers, while testing the dev20060224 centos4_x86_64

Re: [Freesurfer] tkregister2 woes

Sebastian, Which platform are you running the centos4_x86_64 release upon? Also, can you send me the output of this command: ldd `which tkregister2` Also, if not running on a 64bit Centos4 platform, then you could attempt the following: cd $FREESURFER_HOME/lib mv tcltktixblt

Re: [Freesurfer] tcl script - rotate and save graphics

Hi Daniel et al., thanks for the rotate and save_tiff script. I've installed the dev version (redhat 9 download onto Debian sarge) and the script works well. I would like to set the resolution of the .tif output files (eg, 600 dpi), can we do that? I have a problem when using a label in

Re: [Freesurfer] tcl script - rotate and save graphics

Sorry, there's no way to change the resolution of the TIFF images. However, we don't supersample when taking screen shots, so just make the window as big as you can, take the TIFF, and then you can use an image conversion program to change the DPI. I don't think you want to use

[Freesurfer] autoreg-sess and spmregister-sess problem

Hi, In the FS-FAST analysis stream (dev environment), I used autoreg-sess command as follows: autoreg-sess -s mvp022106 -df df.txt It successfully generated a register.dat file in the bold directory. Then I used tkregister-sess as follows: tkregister-sess -s mvp022106 -df df.txt -rsd t1epi

[Freesurfer] Freesurfer tutorial

Hello, I am new to using freesurfer. I have installed it successfully and am attempting to go through the tutorial. The tutorial seems to be out of date. I am at the Data Conversion step of the tutorial with the tutorial_subjs directory from the gzipped buckner_data tarball. If I try to run

Re: [Freesurfer] Freesurfer tutorial

Hi Gabe, What version of freesurfer are you using? The -autorecon-all, -autorecon1, and -i flags should work with a current version - but are relatively new. If you are using an older version these flags will not work. Could you also send the specific command line and error message you

[Freesurfer] nearest Talairach point

Dear Bruce etal, Let's say we have a list of Talairach coordinates from a database of fMRI results, in a text file. Can we create a tcl script to read those values and then find the nearest surface point for any subject to each xyz Talairach value? The tcl script should just return a list

Re: [Freesurfer] tcl script - rotate and save graphics

Hi Kevin, I tried this alterate command, however, the main window continues to display the orig surface, given tksurfer -subjid rh orig It doesn't automatically update the view for the new data in $field. Using the 'UpdateAndRedraw' command and the 'redraw' commands do not change the

Re: [Freesurfer] autoreg-sess and spmregister-sess problem

Hi Reza, I need more information that you have supplied. Please look over the instructions in surfer.nmr.mgh.harvard.edu/fswiki/BugReporting thanks doug Reza Rajimehr wrote: Hi, In the FS-FAST analysis stream (dev environment), I used autoreg-sess command as follows: autoreg-sess -s