External Email - Use Caution
Hello Nicholas, Please check you setting for the environment variable FREESURFER_HOME. I used the Mac 7.1.1 release package from https://secure-web.cisco.com/1UkHJYwewl8qS85O_CWV-J5WUiafp7vGnbHtJ7jYex3q0G5... install freesurfer, so that means after installation FREESURFER_HOME is set as, $ export FREESURFER_HOME=/Applications/freesurfer/7.1.1 .... and the ls command outputs … $ ls $FREESURFER_HOMEASegStatsLUT.txt* SetUpFreeSurfer.sh* etc/ sources.csh*DefectLUT.txt* Simple_surface_labels2009.txt* fsafd/ sources.sh*FreeSurferColorLUT.txt* WMParcStatsLUT.txt* fsfast/ subjects/FreeSurferEnv.csh* average/ lib/ tkmeditParcColorsCMA*FreeSurferEnv.sh* bin/ matlab/ trctrain/Freeview.app/ build-stamp.txt* mni/ uninstall.sh*SegmentNoLUT.txt* diffusion/ python/SetUpFreeSurfer.csh* docs/ sessions/ … and shows the SetUpFreesurfer.sh script is there … Once you have set FREESURFER_HOME and verify with the ls command that you can see the SetUpFreesurfer.sh script, then it should work to do, $ source $FREESURFER_HOME/SetUpFreeSurfer.sh-------- freesurfer-darwin-macOS-7.1.1-20200726-8b40551 --------Setting up environment for FreeSurfer/FS-FAST (and FSL)FREESURFER_HOME /Applications/freesurfer/7.1.1FSFAST_HOME /Applications/freesurfer/7.1.1/fsfastFSF_OUTPUT_FORMAT nii.gzSUBJECTS_DIR /Applications/freesurfer/7.1.1/subjectsMNI_DIR /Applications/freesurfer/7.1.1/mni There are instructions at https://secure-web.cisco.com/1yfyz92Kb9rfbFcHszgMJR0t3oQo4dtacsW4yWoxKnJic0O... the section "Using the Mac Package Installer” about using the installer package. - R.
On Nov 4, 2020, at 22:58, Nicholas BH NG (NUHS) <nicholas_bh_ng@nuhs.edu.sg> wrote: External Email - Use Caution Dear Free SurferI followed the excellent video step by step instructions. At the last part of putting the code/ key into the terminal, I encountered the error message as below: no such file or directory. As such I think my set up was not complete.Kindly advice.Thank youNicholas Nicholass-MacBook-Pro:~ Nic$ source $FREESURFER_HOME/SetUpFreeSurfer.sh-bash: /Applications/freesurfer/7.1.0/SetUpFreeSurfer.sh: No such file or directoryNicholass-MacBook-Pro:~ Nic$ source $FREESURFER_HOME/SetUpFreeSurfer.sh-bash: /Applications/freesurfer/7.1.0/SetUpFreeSurfer.sh: No such file or directoryNicholass-MacBook-Pro:~ Nic$ Begin forwarded message:From: <freesurfer-request@nmr.mgh.harvard.edu>Subject: Welcome to the "Freesurfer" mailing listDate: 5 November 2020 at 11:56:45 AM SGTTo: <nicholas_bh_ng@nuhs.edu.sg>Email is from external source. Do not click on links or open files if unsure of sender..Welcome to the Freesurfer@nmr.mgh.harvard.edu mailing list!To post to this list, send your email to: freesurfer@nmr.mgh.harvard.eduGeneral information about the mailing list is at: MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://secure-web.cisco.com/1U1Az2RL5IBE60ro0LKNRX0VzCwNbYE3pMJyje23j47fWom... you ever want to unsubscribe or change your options (eg, switch toor from digest mode, change your password, etc.), visit yoursubscription page at: MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://secure-web.cisco.com/19HZrRkjfKoxZblZuo0R6GPVxEHVP2CQHZavVhBZBqM-SjM... can also make such adjustments via email by sending a message to: Freesurfer-request@nmr.mgh.harvard.eduwith the word `help' in the subject or body (don't include thequotes), and you will get back a message with instructions.You must know your password to change your options (including changingthe password, itself) or to unsubscribe. It is: 3:5proverbsNormally, Mailman will remind you of your nmr.mgh.harvard..edu mailinglist passwords once every month, although you can disable this if youprefer. This reminder will also include instructions on how tounsubscribe or change your account options. There is also a button onyour options page that will email your current password to you.<p></p><image94f29b.PNG>MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be http://secure-web.cisco.com/1f9F22Nst6o56NQIQrR5eAr7N2En2k2SbYSUoiZkfrHbhSnF... Facebook | LinkedIn | VimeoImportant: This email and its attachments are confidential and may be privileged. If you are not the intended recipient, please notify the sender and delete it immediately; you should not copy or use it for any purpose, nor disclose its contents to any other person without prior written permission. Thank you._______________________________________________Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer