Re: [Freesurfer] fslswapdim.fsl: Command not found

2015-03-19 Thread Z K
If I understand your question correctly, your saying you already have fsl installed and have the fslswapdim binary. If this is the case, I suppose it would be possible to copy the fslswapdim into the FREESURFER_HOME/bin directory. But you would also have to append a ".bin" at the end. This is

Re: [Freesurfer] fslswapdim.fsl: Command not found

2015-03-18 Thread Dr Sampada Sinha
Hello Zeke, Thanks for you valuable reply! I will go with option first of reinstalling freesurfer for 64bit version. I have a quick question though: my fsl binaries already have fslswapdim in it. If I go with an option second (just in case), do I still need to download fsl binaries? Thanks and re

Re: [Freesurfer] fslswapdim.fsl: Command not found

2015-03-18 Thread Z K
Hello Sampada, It appears you are running the 32bit version of freesurfer on your 64bit Mac machine. Which is fine, but you would probably get better performance if you installed the 64bit bit version of freesurfer onto your machine. In regard to the error you are experiencing, you have 2 opti

Re: [Freesurfer] fslswapdim.fsl: Command not found

2015-03-18 Thread Dr Sampada Sinha
I hope you are looking for this: Last login: Tue Mar 17 15:48:52 on ttys009 rmbp:~ Sampada$ export FREESURFER_HOME=/Applications/freesurfer rmbp:~ Sampada$ source $FREESURFER_HOME/SetUpFreeSurfer.sh freesurfer-Darwin-snowleopard-i686-stable-pub-v5.3.0 Setting up environment for F

Re: [Freesurfer] fslswapdim.fsl: Command not found

2015-03-18 Thread Z K
Hello Sampada, Can you please tell me the contents of the "build-stamp.txt" file in your FREESURFER_HOME directory? -Zeke On 03/18/2015 06:06 PM, Dr Sampada Sinha wrote: > Hello Freesurfer experts, > > I am trying to learn dti using data downloaded from the martinis and > everything was running