Sorry, our interface is a little bit confusing on this. Use -T2 to
specify the T2 volume (eg, -T2 /path/to/T2.mgz). To apply the T2 to the
pial use -T2pial (without any arguments)
On 5/2/2020 7:55 PM, Octavian Lie wrote:
External Email - Use Caution
Dear All,
I ran recon-all on the 1st run using the -T2pial flag. After wm.mgz
edits, when running
recon-all autorecon2-wm -autorecon3 -T2pial volT2.mgz
it throws an error ~ 'flag volT2.mgz not recognized'. When reruning
recon-all as above, do we need to include the T2pial flag to make use
of the t2 pial information? If not, is the previous T2pial output used
to regenerate the pia?
Thank you,
OL
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