External Email - Use Caution Some updates/bug fixes are available for an existing installation of the Freesurfer 8.0.0 release. The list of files you can update along with a brief comment about the change(s) are: $FREESURFER_HOME/bin/csvprintScript changed to use python3 - values for eTIV should no longer be misreported as 0.00 for data processed with the recon-all command $FREESURFER_HOME/bin/recon-allFixes for options -autorecon1, -nonuintensitycor. Add flag -no-fix-ga to turn off fixing of gyrus ambiens part of the cortex label. $FREESURFER_HOME/bin/gtmseggtmseg now uses samseg by default $FREESURFERR_HOME/bin/xhemiregModifications to make xhemireg work with 8.0. $FREESURFER_HOME/bin/xcerebralseggtmseg now uses samseg by default $FREESURFER_HOME/bin/post-recon-allgtmseg now uses samseg by default $FREESURFER_HOME/python/packages/gems/SamsegLongitudinal.pyfix parameters to surfa.image.transform() $FREESURFER_HOME/etc/recon-config.yaml Added option -no-fix-ga to turn off fixing of gyrus ambiens part of the cortex label. Please note THESE UPDATES DO NOT CHANGE THE OUTPUT OF THE recon-all COMMAND. If these updates are of interest to you, then please go the 8.0.0 download URL,https://secure-web.cisco.com/15mh8yOb2RWi2iQyUfX1LgM0gB5PobUejtWnQDIeOm9Mb2N5lKbYP34Cl9jL9oiAXKBP07nQMe7HgsjOBn6SmAQAufUvsRQw4TO4Kg94eHgAgWzNJYgawsplR5lVwhsgaFZ1OJJ8Cr-4Ez0Pjyp-cU9LStNjYT28EKeZh1Kr4n_DSTT35NI3eaUVXA1xq_LyIgvzTDrFUMKkuBlOA4_LvpdLo1F1ODC2zlLuK2cVJ3KYYyG7optax-o8DtviEsiGolySjwpX1mOFwdf-mMMKeoz9g_Hu_9y7A2jKxidURFcdHzBnL9xf5V6JxspXSWxzmXgfKsAQ1z3klpaPU50Xrxw/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Fpub%2Fdist%2Ffreesurfer%2F8.0.0%2F- and download the fs8_update.sh script. On MacOS run the script as follows,$ sudo FREESURFER_HOME=/Applications/freesurfer/8.0.0 bash fs8_updates..sh On CentOS and Rocky8 Linux run the script as follows,$ sudo FREESURFER_HOME=/usr/local/freesurfer/8.0.0-1 bash fs8_updates.sh On Ubuntu Linux run the scripts as follows,$ sudo FREESURFER_HOME=/usr/local/freesurfer/8.0.0 bash fs8_updates.sh You will be prompted on the command line as to whether or not you want to install each file, including displaying the description of the change(s) listed above.
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