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Thanks! I have changed the error, but the problem is still there. I think the error happens when "loading mesh files". But I can not see the script of probtrackx and can not see what is whrong there. What is the correct print-out when running probtrackx from surface seed? I wonder what is the next step? Thank! Xiangzhen 2011-09-23 bnucon 发件人： Saad Jbabdi 发送时间： 2011-09-23 16:47:09 收件人： FSL 抄送： 主题： Re: [FSL] Segmentation fault when using probtrackx Hi In your options, please replace "--samples=./merged" by the full path, as this command line is not interpreted before being passed to probtrackx. Cheers, Saad. On 23 Sep 2011, at 06:55, bnucon wrote: HI, all~ I came across a problem when using the probtrackx. Log directory is: . loading mesh files log: line 1: 18158 Segmentation fault probtrackx --cthr=0.200 --forcedir --loopcheck -m /path1/S0295/mask/d_roi_brain_mask.nii.gz --mesh=/path2/S0295/surf/rh.white,asc --mode=seedmask --nsamples=5000 --nsteps=2000 --opd --os2t --dir=. --s2tastext --samples=./merged --seed=/path3/S0295_rIPS.label --seedref=/path2/S0295/mri/nifti/brain.nii.gz --steplength=0.500 --waypoints=/path4/masks/mask.r.v1.ac.60.196.nii.gz --xfm=/path2/S0295/mri/freesurfer2fa.mat I have double checked all the files are there, BUT the segmentation happened. Thanks! 2011-09-23 Xiangzhen -- Saad Jbabdi University of Oxford, FMRIB Centre JR Hospital, Headington, OX3 9DU, UK (+44)1865-222466 (fax 717) www.fmrib.ox.ac.uk/~saad