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 MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/7.1.1/freesurfer-darwin-macOS-7.1.1.pkg to 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_HOME
ASegStatsLUT.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/7.1.1
FSFAST_HOME       /Applications/freesurfer/7.1.1/fsfast
FSF_OUTPUT_FORMAT nii.gz
SUBJECTS_DIR      /Applications/freesurfer/7.1.1/subjects
MNI_DIR           /Applications/freesurfer/7.1.1/mni

There are instructions at MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://surfer.nmr.mgh.harvard.edu/fswiki//FS7_mac under 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 Surfer

I 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 you
Nicholas 

Nicholass-MacBook-Pro:~ Nic$ source $FREESURFER_HOME/SetUpFreeSurfer.sh
-bash: /Applications/freesurfer/7.1.0/SetUpFreeSurfer.sh: No such file or directory
Nicholass-MacBook-Pro:~ Nic$ source $FREESURFER_HOME/SetUpFreeSurfer.sh
-bash: /Applications/freesurfer/7.1.0/SetUpFreeSurfer.sh: No such file or directory
Nicholass-MacBook-Pro:~ Nic$ 




Begin forwarded message:

Subject: Welcome to the "Freesurfer" mailing list
Date: 5 November 2020 at 11:56:45 AM SGT

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.edu

General information about the mailing list is at:

 MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://imsva91-ctp.trendmicro.com:443/wis/clicktime/v1/query?url=https%3a%2f%2fmail.nmr.mgh.harvard.edu%2fmailman%2flistinfo%2ffreesurfer&umid=6C40AF93-B354-1005-91D2-143031300E5E&auth=6e3fe59570831a389716849e93b5d483c90c3fe4-2c14fd1e8ed25694009262e9fed95eddaed6939f

If you ever want to unsubscribe or change your options (eg, switch to
or from digest mode, change your password, etc.), visit your
subscription page at:

 MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://imsva91-ctp.trendmicro.com:443/wis/clicktime/v1/query?url=https%3a%2f%2fmail.nmr.mgh.harvard.edu%2fmailman%2foptions%2ffreesurfer%2fnicholas%5fbh%5fng%2540nuhs.edu.sg&umid=6C40AF93-B354-1005-91D2-143031300E5E&auth=6e3fe59570831a389716849e93b5d483c90c3fe4-daf2defebb68054e3bf85857b5f07f65916df753


You can also make such adjustments via email by sending a message to:

 Freesurfer-request@nmr.mgh.harvard.edu

with the word `help' in the subject or body (don't include the
quotes), and you will get back a message with instructions..

You must know your password to change your options (including changing
the password, itself) or to unsubscribe.  It is:

 3:5proverbs

Normally, Mailman will remind you of your nmr.mgh.harvard.edu mailing
list passwords once every month, although you can disable this if you
prefer.  This reminder will also include instructions on how to
unsubscribe or change your account options.  There is also a button on
your 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 www.nuhs.edu.sg
NUHS Facebook | LinkedIn | Vimeo

Important: 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 list
Freesurfer@nmr.mgh.harvard.edu
MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer