Hi Michael,
presumably the script failed before the fslvbm2d stage. What is the result of an ls -al fslvbm2?.e* ?
Cheers,
Gwenaelle
> De: Michael B <[log in to unmask]>
> Objet: [FSL] fslvbm_2_template errors, but no template
> À: [log in to unmask]
> Date: Jeudi 25 novembre 2010, 18h00
> Hi there,
>
> As a trial, I'm trying to run "fslvbm_2_template -n" on 9
> subjects. Their T1 images were brain-extracted by a protocol
> besides that executed by "fsl_vbm_bet." From previous
> exchanges on the listserv, I've learned that I should do the
> following:
> - Create a "struc" directory, in which I should input the
> subjects' non-brain-extracted T1 images (*_struc.nii.gz) and
> brain-extracted T1 images (*_struc_brain.nii.gz).
> - I've also learned the importance of a correspondence
> between the contents of the template_list and those of the
> "struc" directory.
>
> The contents of the template_list:
> n_001_T1.nii.gz
> n_002_T1.nii.gz
> n_003_T1.nii.gz
> n_004_T1.nii.gz
> p_001_T1.nii.gz
> p_002_T1.nii.gz
> p_003_T1.nii.gz
> p_004_T1.nii.gz
> The contents of the "struc" directory:
> n_001_T1_struc.nii.gz
> n_002_T1_struc.nii.gz
> n_003_T1_struc.nii.gz
> n_004_T1_struc.nii.gz
> n_005_T1_struc.nii.gz
> n_001_T1_struc_brain.nii.gz
> n_002_T1_struc_brain.nii.gz
> n_003_T1_struc_brain.nii.gz
> n_004_T1_struc_brain.nii.gz
> n_005_T1_struc_brain.nii.gz
> p_001_T1_struc.nii.gz
> p_002_T1_struc.nii.gz
> p_003_T1_struc.nii.gz
> p_004_T1_struc.nii.gz
> p_001_T1_struc_brain.nii.gz
> p_002_T1_struc_brain.nii.gz
> p_003_T1_struc_brain.nii.gz
> p_004_T1_struc_brain.nii.gz
>
> "fslvbm_2_template -n" doesn't create template_GM_4D, but
> yields the following error message (fslvbm2d.e20921):
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Gwenaëlle Douaud, PhD
FMRIB Centre, University of Oxford
John Radcliffe Hospital, Headington OX3 9DU Oxford UK
Tel: +44 (0) 1865 222 523 Fax: +44 (0) 1865 222 717
www.fmrib.ox.ac.uk/~douaud
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