P.S. These are the scripts I tried. (Could you please tell me what a base is, and how I get one? transformation matrix to rotate my pig brain MRI maybe? I have no idea how to get this)
- Celia
[imac-de-claire-mazzocco:Celia/150304minipig450254/T1] celiagellman%
3dQwarp -source r01_MC+orig.HEAD -prefix qwarp-output-r01_MC+orig -lpc -verb -iwarp -blur 0 3
++ OpenMP thread count = 2
++ 3dQwarp: AFNI version=AFNI_2011_12_21_1014 (Jul 17 2015) [64-bit]
++ Authored by: Zhark the (Hermite) Cubically Warped
*+ WARNING: If you are performing spatial transformations on an oblique dset,
such as ./r01_MC+orig.BRIK,
or viewing/combining it with volumes of differing obliquity,
you should consider running:
3dWarp -deoblique
on this and other oblique datasets in the same session.
See 3dWarp -help for details.
++ Oblique dataset:./r01_MC+orig.BRIK is 21.963942 degrees from plumb.
** ERROR: You can't use -source without -base!
** FATAL ERROR: Cannot continue after above error
** Program compile date = Jul 17 2015
[imac-de-claire-mazzocco:Celia/150304minipig450254/T1] celiagellman%
3dWarp -deoblique -source r01_MC+orig.HEAD -prefix qwarp-output-r01_MC+orig
++ 3dWarp: AFNI version=AFNI_2011_12_21_1014 (Jul 17 2015) [64-bit]
++ Authored by: RW Cox
** ERROR: Unknown option -source
Here's hoping these excerpts from '3dWarp -help' enlighten:
'-cubic } = Chooses spatial interpolation method.'
'-oblique_parent obl_dset = Read in the oblique transformation matrix'
'-deoblique or'
[imac-de-claire-mazzocco:Celia/150304minipig450254/T1] celiagellman%
[imac-de-claire-mazzocco:Celia/150304minipig450254/T1] celiagellman% 3dQwarp -source r01_MC+orig.HEAD -prefix qwarp-output-r01_MC+orig -lpc -verb -iwarp -blur 0 3
++ OpenMP thread count = 2
++ 3dQwarp: AFNI version=AFNI_2011_12_21_1014 (Jul 17 2015) [64-bit]
++ Authored by: Zhark the (Hermite) Cubically Warped
*+ WARNING: If you are performing spatial transformations on an oblique dset,
such as ./r01_MC+orig.BRIK,
or viewing/combining it with volumes of differing obliquity,
you should consider running:
3dWarp -deoblique
on this and other oblique datasets in the same session.
See 3dWarp -help for details.
++ Oblique dataset:./r01_MC+orig.BRIK is 21.963942 degrees from plumb.
** ERROR: You can't use -source without -base!
** FATAL ERROR: Cannot continue after above error
** Program compile date = Jul 17 2015
[imac-de-claire-mazzocco:Celia/150304minipig450254/T1] celiagellman% 3dWarp -deoblique -source r01_MC+orig.HEAD -prefix qwarp-output-r01_MC+orig
++ 3dWarp: AFNI version=AFNI_2011_12_21_1014 (Jul 17 2015) [64-bit]
++ Authored by: RW Cox
** ERROR: Unknown option -source
Here's hoping these excerpts from '3dWarp -help' enlighten:
'-cubic } = Chooses spatial interpolation method.'
'-oblique_parent obl_dset = Read in the oblique transformation matrix'
'-deoblique or'
[imac-de-claire-mazzocco:Celia/150304minipig450254/T1] celiagellman%
