setenv SUBJECTS_DIR Applications/freesurfer/subjects/XXX/XXX.24.2014/mri
set dtroot = Applications/freesurfer/subjects/XXX/XXX7.24.2014/mri
set subjlist = (XXX7.24.14)
set dcmroot = Applications/freesurfer/subjects/XXX/XXX7.24.14AXDWI
set dcmlist = (MR0001.dcm)
set bvecfile = (Applications/freesurfer/subjects/XXX/20140724_132003HNSBRAINMSREVISEDs005a1001.bvec.txt)
set bvalfile = (Applications/freesurfer/subjects/XXX/20140724_132003HNSBRAINMSREVISEDs005a1001.bval.txt)
set doeddy = 1
set dorotbvecs = 1
set usemaskanat = 1
set threat = 0.3
set doregflt = 0
set doregbbr = 1
set doregmni = 1
set doregcvs = 0
set mnitemp = $FSLDIR/data/standard/MNI152_T1_1mm_brain.nii.gz
set pathlist = (lh.cst_AS rh.cst_AS\h.ilf_AS rh.ilf_AS\lh.unc_AS rh.unc_AS\fmajor_PP fminor_PP\lh.atr_PP rh.atr_PP\lh.cab_PP rh.cab_PP\lh.ccg_PP rh.ccg_PP\lh.slfp_PP rh.slfp_PP\h.slft_PP rh.slft_PP)
set ncpts = (6 6 5 5 5 5 7 5 5 5 5 5 4 4 5 5 5 5)