Hello,
I am encountering an error when using the -B option with fsl bet. I am running fsl 5.0.8 on a fedora 22 linux workstation.
The error mentions that _tmp_unbiased_premask is not valid, but I can see it being made briefly and then erased when the error appears.
I am new to fsl, so I am sorry if I missed any information.
Any ideas?
Here is the error I get:
bet T1_fov_denoised.nii T1_brain -B -m -f 0.5
terminate called after throwing an instance of 'NEWMAT::SingularException'
/usr/local/fsl/bin/standard_space_roi: line 212: 27745 Aborted (core dumped) ${FSLDIR}/bin/convert_xfm -inverse -omat ${out}_tmp_to_std_inv.mat ${out}_tmp_to_std.mat
Could not open matrix file T1_brain_tmp_premask_tmp_to_std_inv.mat
terminate called after throwing an instance of 'NEWMAT::IncompatibleDimensionsException'
/usr/local/fsl/bin/standard_space_roi: line 229: 27779 Aborted (core dumped) ${FSLDIR}/bin/flirt -ref $in -in ${out}_tmp_standard_mask -o ${out}_tmp_standard_mask_to_in -applyxfm -init ${out}_tmp_to_std_inv.mat
Cannot open volume T1_brain_tmp_premask_tmp_standard_mask_to_in for reading!
Image Exception : #22 :: ERROR: Could not open image T1_brain_tmp_premask_tmp_standard_mask_to_in
terminate called after throwing an instance of 'RBD_COMMON::BaseException'
/usr/local/fsl/bin/standard_space_roi: line 229: 27785 Aborted (core dumped) ${FSLDIR}/bin/fslmaths $inapply -mas ${out}_tmp_standard_mask_to_in ${out}_tmp_masked
/usr/local/fsl/bin/bet: line 393: 27839 Aborted (core dumped) ${FSLDIR}/bin/fast -b ${OUT}_tmp_premask > /dev/null 2>&1
Image Exception : #22 :: ERROR: Could not open image T1_brain_tmp_premask_bias
terminate called after throwing an instance of 'RBD_COMMON::BaseException'
/usr/local/fsl/bin/bet: line 393: 27843 Aborted (core dumped) ${FSLDIR}/bin/fslmaths $IN -div ${OUT}_tmp_premask_bias ${OUT}_tmp_unbiased
Input image T1_brain_tmp_unbiased not valid
Image Exception : #22 :: ERROR: Could not open image T1_brain_tmp_unbiased_forskull_reduced
terminate called after throwing an instance of 'RBD_COMMON::BaseException'
/usr/local/fsl/bin/bet: line 393: 27899 Aborted (core dumped) ${FSLDIR}/bin/bet2 ${OUT}_tmp_unbiased_forskull_reduced ${OUT}_tmp_unbiased_forskull $bet2opts
Input image T1_brain_tmp_unbiased not valid
Error: input image T1_brain_tmp_unbiased_premask not valid
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