The only problem that I can see with the input image is that the nose wraps around to the back, and that the intensity is slightly higher at the back of the head.
-Anders
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Från: FSL - FMRIB's Software Library [[log in to unmask]] för Stephen Smith [[log in to unmask]]
Skickat: den 18 april 2013 17:28
Till: [log in to unmask]
Ämne: Re: [FSL] bet fails
Hi - almost certainly the problem is with the image you are feeding into BET - so we would need to know more about that. Have you checked that the input image is fine?
Cheers.
On 18 Apr 2013, at 11:38, Anders Eklund <[log in to unmask]<mailto:[log in to unmask]>> wrote:
Dear FSL experts,
when I try to perform a brain segmentation, bet fails. However, bet seems to work well for other T1 volumes. Any idea what the problem can be?
cheers,
Anders
bet ANAT.nii ANAT_brain.nii -R -B -v
IN=ANAT
OUT=ANAT_brain
bet2opts= -v
verbose=1
debug=0
variation=7
Image Exception : #22 :: ERROR: Could not open image ANAT_brain_tmp_premask_bias
terminate called after throwing an instance of 'RBD_COMMON::BaseException'
/home/andek/fsl/bin/bet: line 391: 21484 Aborted (core dumped) ${FSLDIR}/bin/fslmaths $IN -div ${OUT}_tmp_premask_bias ${OUT}_tmp_unbiased
Image Exception : #22 :: ERROR: Could not open image ANAT_brain_tmp_unbiased
terminate called after throwing an instance of 'RBD_COMMON::BaseException'
/home/andek/fsl/bin/bet: line 391: 21486 Aborted (core dumped) ${FSLDIR}/bin/bet2 ${OUT}_tmp_unbiased ${OUT}_tmp_unbiased_forskull $bet2opts
Input image ANAT_brain_tmp_unbiased not valid
Error: input image ANAT_brain_tmp_unbiased_premask not valid
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Stephen M. Smith, Professor of Biomedical Engineering
Associate Director, Oxford University FMRIB Centre
FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
+44 (0) 1865 222726 (fax 222717)
[log in to unmask]<mailto:[log in to unmask]> http://www.fmrib.ox.ac.uk/~steve
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