Dear Vasudev,
I dont think I am the right person to give you a deffinite answer -- the FSL experts are deffinitely more qualified to give a concrete answer.
I would say, though, you will get errors if you use raw fMRI data as the way FLICA must be set up is that the number of volumes in each of the different 4D modality files must be the same, i.e. # of volumes in fMRI file = # of volumes in TBSS file = # of volumes in VBM file
Kind regards,
Isaac
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