If it is just 1mm3, then you can use the standard recon-all, but it is not guaranteed to work on the UNI or INV1 or INV2

On 4/18/2020 4:26 AM, Tali Weiss wrote:

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Dear FreeSurfer Developers,

1. I have mp2rage on 7T  (Siemens, MAGNETOM Terra)  resolution 1 mm3 , from the forum i see it is recommend to use:

ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/6.0.0-patch/hcp/

If i correctly it ignore INV1, INV2 and the only input is the UNI.

Is it correct?

2. I have macOS Sierra (version 10.13.6)

I Copy these files into $FREESURFER_HOME/bin

and apply:

sudochownroot:wheel <file>

sudochmod 755 <file>

ls -l

-rwxr-xr-x@ 1 rootwheel 22917 Apr 18 10:11 conf2hires.txt

-rwxr-xr-x@ 1 rootwheel323951 Apr 18 10:29 recon-all.v6.hires

I tried to run

recon-all.v6.hires -all -s <foldername> -i <.nii> -conf2hires

ERROR: cannot find conf2hires

Thank you for your help

Tali

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