Dear FSL experts
I tried to run tbss_non_FA on the MD images, but the following error
occured:
Freesurfer:~/Desktop/DTI_TBSS] Nicki% tbss_non_FA MD
using pre-chosen registration target: gcs_con_14_fa_FAi
upsampling alternative images into standard space
merging all upsampled MD images into single 4D image
Usage: fslmerge <-x/y/z/t/a> <output> <file1 file2 .......>
-t : concatenate images in time
-x : concatenate images in the x direction
-y : concatenate images in the y direction
-z : concatenate images in the z direction
-a : auto-choose: single slices -> volume, volumes -> 4D (time series)
** ERROR (nifti_image_read): failed to find header file for 'all_MD'
** ERROR: nifti_image_open(all_MD): bad header info
Error: failed to open file all_MD
Cannot open volume all_MD for reading!
projecting all_MD onto mean FA skeleton
** ERROR (nifti_image_read): failed to find header file for 'all_MD'
** ERROR: nifti_image_open(all_MD): bad header info
Error: failed to open file all_MD
ERROR: Could not open image all_MD
Image Exception : #22 :: Failed to read volume all_MD
terminate called after throwing an instance of 'RBD_COMMON::BaseException'
/Applications/fsl/bin/tbss_non_FA: line 104: 14490 Abort trap
${FSLDIR}/bin/tbss_skeleton -i mean_FA -p $thresh mean_FA_skeleton_mask_dst
${FSLDIR}/data/standard/LowerCingulum_1mm all_FA all_${ALTIM}_skeletonised
-a all_$ALTIM
now run stats - for example:
randomise -i all_MD_skeletonised -o tbss_MD -m mean_FA_skeleton_mask -d
design.mat -t design.con -n 500 --T2 -V
(after generating design.mat and design.con)
[Freesurfer:~/Desktop/DTI_TBSS] Nicki%
When I tried to run fslmerge alone, the following error occurred:
[Freesurfer:~/Desktop/DTI_TBSS/MD] Nicki% fslmerge -t all_MD gcs_*
Error in size-match along non-concatenated dimension
Any idea what is wrong and how to check whether the images are really
mismatched in size?
Thanks in advance
Regards
Juergen
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Juergen Haenggi
Ph.D. (Dr. des.)
Division of Neuropsychology
Institute of Psychology
University of Zurich
Binzmuehlestrasse 14, PO Box 25
8050 Zurich, Switzerland
0041 44 635 73 97 (phone office)
0041 76 445 86 84 (phone mobile)
0041 44 635 74 09 (fax office)
BIN 4.D.04 (office room number)
[log in to unmask] (email)
http://www.psychologie.uzh.ch/neuropsy/ (website)
http://www.juergenhaenggi.ch (private website)
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