Hello Alessandra,
This is a known issue with pre-freesurfer v5.3 releases and the most recent version of Ubuntu. To fix the issue, if you have access to a machine that still runs Ubuntu 12.04, please do the following:
1) On the Ubuntu 12.04 system, find the find the file "libcrypt-2.*.so" usually located in the /lib64 folder. (/lib/i386-linux-gnu on 32bit machines).
2) Copy that file into the $FREESURFER_HOME/lib on your new Ubuntu 14.04 machine and give it the name "libcrypt.so.1".
3) Lastly, after loading freesurfer, update your LD_LIBRARY_PATH environment variable to include the $FREESURFER_HOME/lib directory. This can either be done manually in the terminal or in your .cshrc file (or .bashrc file).
$> setenv LD_LIBRARY_PATH $FREESURFER_HOME/lib:$LD_LIBRARY_PATH
Hope this helps. Contact me directly if you have a any specific issues. Also, if you are unable to find a version of libcrypt on an older version of Ubuntu let me know and I will search for one.
-Zeke
Dear all,
I am running FreeSurfer version [recon-all,v 1.313.2.6 2010/08/04] on an Ubuntu machine. After updating my system from Ubuntu 12.04 to Ubuntu 14.04 I get a segmentation fault when I try to resample images using mri_convert:
/mri_convert -vs 1 1 1 /folder/original_image.nii.gz /folder/resampled image.nii.gz // //$Id: mri_convert.c,v 1.166.2.2 2010/08/10 19:11:50 greve Exp $// //reading from /folder/original_image.nii.gz...// //Segmentation fault (core dumped)/
Any help on this? (for consistency with an on-going study I would like not to install a newer FreeSurfer version)
Thank you very much! Alessandra
--
Alessandra Griffa Doctoral assistant
Signal Processing Laboratory 5 EPFL STI IEL LTS5 ELD 233 (Bâtiment ELD) Station 11 CH-1015 Lausanne Tel.: +41216934807
web: http://lts5www.epfl.ch/ personal page: http://people.epfl.ch/alessandra.griffa?lang=en
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer