Hello Jessica,

I believe the environment variable FREESURFER_HOME should point to where the license.txt file lives. That is set when you source the freesurfer setup script, e.g., SetUpFreeSurfer.sh, in the terminal window.

You can see the wiki page here for the 5.3 setup,
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It looks like the message indicates it is looking for ".license.txt" and not "license.txt"

So in a terminal window you could try the following.

First make sure FREESURFER_HOME is set,

$ echo $FREESURFER_HOME
/Applications/freesurfer

Then take the "license.txt" file that was emailed to you and copy it into $FREESURFER_HOME, e.g.

$ cp -p -f license.txt $FREESURFER_HOME/.

Now also make a copy of it there as ".license" - no harm in having it named both ways under $FREESURFER_HOME

$ cd $FREESURFER_HOME
$ cp -p -f license.txt .license.txt

... then try running things again.

- R.

Hua, Jessica

August 12, 2020 at 17:13

External Email - Use Caution

Hi FreeSurfer,

I was able to find the older versions of FreeSurfer and download v5.1. I am trying to run recon-all and am running into this issue:

ERROR: FreeSurfer license file /Applications/freesurfer/.license not found.
If you are outside the NMR-Martinos Center,

go to MailScanner has detected a possible fraud attempt from "urldefense.proofpoint.com" claiming to be http://surfer.nmr.mgh.harvard.edu to

get a valid license file (it's free).

If you are inside the NMR-Martinos Center,
make sure to source the standard environment.

I went online and filled out information to get a license. I then added the license.txt file to the Applications/freesurfer folder, but I am still getting the same error message. How do I get a .license file? I checked to unhide hidden files, and there is no .license file.

Jessica

From: Hua, Jessica
Sent: Wednesday, August 12, 2020 12:36 PM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: FreeSurfer v5.1

Hi FreeSurfer,

To be consistent with old analyses, I need to process my data using FreeSurfer v5.1 on my Mac. Do you know where I can find the link to install v5.1?

Best,

Jessica Hua

_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
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Hua, Jessica

August 12, 2020 at 15:36

External Email - Use Caution

Hi FreeSurfer,

To be consistent with old analyses, I need to process my data using FreeSurfer v5.1 on my Mac. Do you know where I can find the link to install v5.1?

Best,

Jessica Hua

_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
MailScanner has detected a possible fraud attempt from "urldefense.proofpoint.com" claiming to be https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer