In general the FSLDIR variable needs to be set up for freesurfer scripts to find FSL executables. Others on the list will be more qualified than me to address the VM aspects of this.
On Tue, 5 Feb 2013, Varghese Chikku wrote:
Hi Anastasia, First of all,thanks for your mail and forgive my ignorance again. I have now downloaded FSL on VMplayer I also have FS running on Oracle VM.So my question is if I run dti_recon,will freesurfer automatically detect FSL,which is running on a different VM.- Many thanks for your help, Chikku
On 4 February 2013 16:39, Anastasia Yendiki ayendiki@nmr.mgh.harvard.edu wrote:
Yes. On Mon, 4 Feb 2013, Varghese Chikku wrote: Dear Team, I tried to run dt_recon and the systems says cannot find eddy_correct,Make sure FSL is installed. So ,do I need to install the whole FSL package to run this. In Thanks ChikkuThe 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 . 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.