You might want to echo your FSL path in terminal to see if it reflexes a right environment. FSL processes NIFTI data. I threw into our clinical data as a trial when I started playing with it, and it worked fine. Xuelin **************************************** Xuelin Cui Department of Electrical Engineering University of Hawaii-Manoa Honolulu HI 96822 Tel: 1-808-956-0856 Email: [log in to unmask] **************************************** ----- Original Message ----- From: SUBSCRIBE FSL Yan Shuai <[log in to unmask]> Date: Tuesday, February 17, 2009 6:36 Subject: [FSL] Problems from a learner To: [log in to unmask] > Dear Sirs: > > I'm a new learner of FSL, and I'm now trying to begin to use FSL > with the > data from seeds. For Fdt, I want to know is it right to begin > the processing > pipeline from "data.nii.gz" from the fdt_subj1? > > P.S There's a more important question. I install the FSL under > Linux, and > when it's installed it seems working well, but once I shut down > the computer > and restart it ,I just can't run FSL through the terminal, I > don't know how > can I fix this problem. > > Thank you very much for your reply. > > Yan Shuai