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I'm trying to analyze MD maps between 2 groups, after obtaining pretty satisfactory results of FA analysis.

I have followed the steps specified in the TBSS website, however when I typed 'tbss_non_fa MD', the following error messages appear in the terminal.

kim@kim-desktop:~/TBSS/FA_CONTROL_LHS$ tbss_non_FA MD
using pre-chosen registration target: target
upsampling alternative images into standard space
C01_FA
** ERROR (nifti_image_read): failed to find header file for '../MD/C01_FA'
** ERROR: nifti_image_open(../MD/C01_FA): bad header info
Error: failed to open file ../MD/C01_FA
ERROR: Could not open image ../MD/C01_FA
Image Exception : #22 :: Failed to read volume ../MD/C01_FA
terminate called after throwing an instance of 'RBD_COMMON::BaseException'
Aborted
.

merging all upsampled MD images into single 4D image
projecting all_MD onto mean FA skeleton
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)

1) From the messages, I quess that, in addition to MD maps, all original FA maps should be copied to the MD directory. Is it right?

2) Despite this message, I found that 'all_MD.nii.gz' and 'all_MD_skeletonised.nii.gz' files were created in the 'stats' directory. It is quite strange that, when I check these two files using mricron, these are not MD maps but exactly same with FA map. After randomising, I found that the results were identical to those of FA analysis, as is expected.

I do not understand why this happens, because I strictly complied with the methods indicated in the online manual.