Hi,
I tried to de-project my tbss data. First, I used tbss_deproject xx 1 and it
worked. Next, I tried tbss_depoject xx 2, but the only new files I find in
my FAi directory are subject_FAi_to_target_nonlinear_inv.nii.
I want to deproject the whole skeleton, called SKEL.nii. I will be very
grateful if you can have a look on the commands before and outputs and help
me figure out what went wrong. My stats directory has a modified name (stats
25), can this cause the problem for option 2 but not for option 1?
Thanks!
Aga
-----------------
tbss_deproject SKEL.nii 2
/usr/local/fsl/bin/tbss_deproject: line 1: sl#!/bin/sh: No such file or
directory
de-projecting <skeleton-space-image> into all_FA (nonlinearly aligned)
subject space
output will be SKEL_to_all_FA
processing subject1_FAi:
BOUND = (0.505558,2.12219) (0,0.779109) (-0.808892,0.820176)
BOUND = (0,0.462407) (-0.172311,0.383608) (-0.302999,0.428936)
BOUND = (0.110172,0.506126) (0,0.383608) (-0.176276,0.38572)
BOUND = (0.100894,0.457127) (0,0.354172) (-0.161431,0.373548)
BOUND = (0.0952364,0.425322) (0,0.334708) (-0.152378,0.36181)
BOUND = (0.095717,0.406732) (0,0.32005) (-0.153147,0.35798)
BOUND = (0.0945744,0.390617) (0,0.308534) (-0.151319,0.353759)
BOUND = (0.0971113,0.38118) (0,0.299277) (-0.155378,0.355612)
BOUND = (0.0994486,0.374525) (0,0.291736) (-0.159118,0.359585)
BOUND = (0.1059,0.374119) (0,0.285507) (-0.169441,0.372069)
***************************************************
The following COMPULSORY options have not been set:
-w,--warp filename for warp transform (volume)
-o,--out filename for output (warped) image
***************************************************
applywarp (Version 1.2)
Copyright(c) 2001, University of Oxford (Mark Jenkinson)
Usage:
applywarp -i invol -o outvol -r refvol -w warpvol
Compulsory arguments (You MUST set one or more of):
-i,--in filename of input image (to be warped)
-w,--warp filename for warp transform (volume)
-o,--out filename for output (warped) image
Optional arguments (You may optionally specify one or more of):
-r,--ref filename for reference image
--abs treat warp field as absolute: x' = w(x)
--rel treat warp field as relative: x' = x + w(x)
--premat filename for pre-transform (affine matrix)
--postmat filename for post-transform (affine matrix)
-m,--mask filename for mask image (in reference space)
--interp interpolation method {nn,trilinear,sinc}
-v,--verbose switch on diagnostic messages
-h,--help display this message
Usage: /usr/local/fsl/bin/imrm <list of image names to remove>
NB: filenames can be basenames or not
