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Dear R,
Thank you very much! I followed your instructions, and it worked perfectly.
Best regards,
Kiyotaka
On Thu, Jul 22, 2021 at 3:20 AM fsbuild fsbuild@contbay.com wrote:
Hello Kiyotaka,
Please try refreshing your copy/install of the Ubuntu 7.2.0 distribution as the packages have been updated to fix the warning below.
I think you were using the installer, so you could try the commands below to download and re-install with apt. (If you were using the tar file then just change the file name in the wget command to be freesurfer-linux-ubuntu18_amd64-7.2.0.tar.gz, expand it in the right location and skip the commands with sum, apt remove, apt install).
.... with installer ...
$ rm -f freesurfer_7.2.0_amd64.deb $ wget https://secure-web.cisco.com/1FK_sXs4RH2RQpXvxlC81vWqvKNznb76Y5pxgR_orSVStzm... $ sum freesurfer_7.2.0_amd64.deb 20191 3199044 $ sudo apt remove freesurfer .... output deleted ... $ apt install ./freesurfer_7.2.0_amd64.deb .... output deleted ...
... check environment ...
$ export FREESURFER_HOME=/usr/local/freesurfer/7.2.0 $ source $FREESURFER_HOME/SetUpFreeSurfer.sh .... the output should have no warnings and you can also check ... $ env | grep MINC MINC_BIN_DIR=/usr/local/freesurfer/7.2.0/mni/bin MINC_LIB_DIR=/usr/local/freesurfer/7.2.0/mni/lib $ which nu_correct /usr/local/freesurfer/7.2.0/mni/bin/nu_correct
- R.
-------- freesurfer-linux-ubuntu18_x86_64-7.2.0-20210714-aa8f76b -------- Setting up environment for FreeSurfer/FS-FAST (and FSL) FREESURFER_HOME /usr/local/freesurfer/7.2.0 FSFAST_HOME /usr/local/freesurfer/7.2.0/fsfast FSF_OUTPUT_FORMAT nii.gz SUBJECTS_DIR /home/username/freesurfer/7.2.0/subjects WARNING: MINC_BIN_DIR not defined. 'nu_correct' and other MINC tools are used by some Freesurfer utilities. Set NO_MINC to suppress this warning. WARNING: MINC_LIB_DIR not defined. Some Freesurfer utilities rely on the MINC toolkit libraries. Set NO_MINC to suppress this warning. FSL_DIR /usr/local/fsl =====