AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

History of AFNI updates  

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August 13, 2020 09:12AM
Yes, this has to do with the FreeSurfer setup. But there is no real problem to necessarily fix.

You probably have something set to run SetUpFreeSurfer.sh, which sets up environment variables and such. That file sets your DYLD_LIBRARY_PATH variable to access the shared libraries that FreeSurfer provides with their software.

But you do not have that automatically run when starting tcsh, which led to that dyld error, because @SUMA_Make_Spec_FS is a tcsh script. One option would be to set up your .cshrc similar to what is being done in .bashrc/.bash_profile, to source $FREESURFER_HOME/SetUpFreeSurfer.csh.

That is what -fs_setup option does. It has @SUMA_Make_Spec_FS runsthe SetUpFreeSurfer.csh script (source it, to be specific), if FREESURFER_HOME is set.

So you do not need to do anything but apply the -fs_setup option for the Make_Spec script. Alternatively, update your .cshrc file, though that might not be preferable.

- rick
Subject Author Posted

Error using @SUMA_Make_Spec_FS

swallowwly October 11, 2018 09:57AM

Re: Error using @SUMA_Make_Spec_FS

ptaylor October 11, 2018 10:01AM

Re: Error using @SUMA_Make_Spec_FS

swallowwly October 11, 2018 11:22AM

Re: Error using @SUMA_Make_Spec_FS

ptaylor October 11, 2018 03:10PM

Re: Error using @SUMA_Make_Spec_FS

swallowwly October 11, 2018 03:51PM

Re: Error using @SUMA_Make_Spec_FS

SarahChang August 11, 2020 04:29AM

Re: Error using @SUMA_Make_Spec_FS

SarahChang August 11, 2020 04:56AM

Re: Error using @SUMA_Make_Spec_FS

ptaylor August 11, 2020 03:33PM

Re: Error using @SUMA_Make_Spec_FS

rick reynolds August 11, 2020 06:00PM

Re: Error using @SUMA_Make_Spec_FS

SarahChang August 13, 2020 04:11AM

Re: Error using @SUMA_Make_Spec_FS

rick reynolds August 13, 2020 09:12AM