External Email - Use Caution
If you prefer to run the last stable release (7.4.1), then I suggest downloading and installing the Intel binary package installer, https://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/7.4.1/freesurfer-macO...; To bypass some security prompts, right click on the package file and then choose "open will default ..."
You should check the path, but I think you would set things up in the (bash) shell as, $ export FREESURFER_HOME=/Applications/freesurfer/7.4.1... source the environment setup script ...$ source $FREESURFER_HOME/SetUpFreeSurfer.sh
If you don't mind running the latest development build (which can be unstable), then you can try the native arm64 binary package installer via the link, https://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/dev/freesurfer-macOS-...; Install the same way via right click as listed above. Then check the path, e.g, $ export FREESURFER_HOME=/Applications/freesurfer/dev... source the environment setup script ...$ source $FREESURFER_HOME/SetUpFreeSurfer.sh
Assuming you have your license file setup, e.g., to be read via FS_LICENSE environment variable with license.txt under your home directory,
$ export FS_LICENSE=$HOME/license.txt
- then it should work to run freeview. I would first try running freeview from the shell command line w/o any arguments to see if it opens an empty window.
$ freeview
Then exit and try it again with a known to be good volume,
$ freevivew $SUBJECTS_DIR/bert/mri/brain.mgz
- R.
On 7/1/24 13:42, Melih Keskin (keskinmelih07@gmail.com) wrote:
External Email - Use Caution Hi, I am trying to open Freeview using my M1 Macbook (Monterey version 12.5). I am posting the error it gives me below. I followed the steps from the below thread but none of the solutions worked (mainly changing the privacy settings and getting a new Freesurfer license). https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg70979.html
Is there a solution to this problem as of 2024? Thank you in advance,Melih
2024-07-01 20:41:03.731 Freeview[70874:2969887] *** WARNING: Method userSpaceScaleFactor in class NSView is deprecated on 10.7 and later. It should not be used in new applications. Use convertRectToBacking: instead. [0]PETSC ERROR: ------------------------------------------------------------------------ [0]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation, probably memory access out of range [0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger [0]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/petsc-as/documentation/troubleshooting.html#Sig... ERROR: or try http://valgrind.org on linux or man libgmalloc on Apple to find memory corruption errors [0]PETSC ERROR: configure using --with-debugging=yes, recompile, link, and run [0]PETSC ERROR: to get more information on the crash. [0]PETSC ERROR: --------------------- Error Message ------------------------------------ [0]PETSC ERROR: Signal received! [0]PETSC ERROR: ------------------------------------------------------------------------ [0]PETSC ERROR: Petsc Release Version 2.3.3, Patch 13, Thu May 15 17:29:26 CDT 2008 HG revision: 4466c6289a0922df26e20626fd4a0b4dd03c8124 [0]PETSC ERROR: See docs/changes/index.html for recent updates. [0]PETSC ERROR: See docs/faq.html for hints about trouble shooting. [0]PETSC ERROR: See docs/index.html for manual pages. [0]PETSC ERROR: ------------------------------------------------------------------------ [0]PETSC ERROR: Unknown Name on a darwin12. named Melihs-MacBook-Pro.local by keskin Mon Jul 1 20:41:01 2024 [0]PETSC ERROR: Libraries linked from /usr/pubsw/packages/petsc/2.3.3-p13-64b/src/petsc-2.3.3-p13/lib/darwin12.2.0-c-opt [0]PETSC ERROR: Configure run at Mon Dec 17 15:29:35 2012 [0]PETSC ERROR: Configure options --with-debugging=no --with-cc=gcc --with-fc=0 --download-f-blas-lapack=0 --download-mpich=1 --with-mpi=1 --with-x=0 --with-gnu-copyright-code=0 --with-shared=0 COPTFLAGS=-O3 CXXOPTFLAGS=-O3 FOPTFLAGS=-O3 [0]PETSC ERROR: ------------------------------------------------------------------------ [0]PETSC ERROR: User provided function() line 0 in unknown directory unknown file [unset]: aborting job: application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Mass General Brigham Compliance HelpLine at https://www.massgeneralbrigham.org/complianceline <https://www.massgeneralbrigham.org/complianceline%3E; . Please note that this e-mail is not secure (encrypted). If you do not wish to continue communication over unencrypted e-mail, please notify the sender of this message immediately. Continuing to send or respond to e-mail after receiving this message means you understand and accept this risk and wish to continue to communicate over unencrypted e-mail.