That means that geometry information (ie, what is left and right, anterior or posterior) is not part of the nifti file. Without that information, the anatomical analysis cannot be done. You will either have to fix it yourself (ie, imbed that info into the file) or, better, recreate the file with the proper geometry info
On 09/11/2017 01:52 PM, Ariana Vajdi wrote:
Hello,
Hope this message finds you well.
I was beginning to run recon-all on a dataset and was encountering a problem with the talairach registration. I've encountered this error before here and there, but I've been receiving the same error for every scan that I've been trying to run, and I'm not sure why. It's also the first time I've used NIFTI files as the input - not sure if that's a contributing factor. I've also tried the -use-mritotal flag without any luck.
These are the errors I receive:
WARNING: neither NIfTI-1 qform or sform are valid WARNING: your volume will probably be incorrectly oriented ERROR: talairach_afd: Talairach Transform: transforms/talairach.xfm ***FAILED*** (p=0.0000, pval=0.0000 < threshold=0.0050) Manual Talairach alignment may be necessary, or include the -notal-check flag to skip this test, making sure the -notal-check flag follows -all or -autorecon1 in the command string.I would appreciate your help. Thank you!
Warmly, Ariana
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