External Email - Use Caution
When I changed the permissions on the directory where FreeSurfer was installed and ran it from there, and all went well. However, when I tried to display the results with Freeview, there was a problem: error while loading shared libraries: libpng12.so.0
This was a more serious error. I saw some mention of this error occurring, but am not sure what to do about it. The answers given don't quite help. Somehow I need to extract a very specific library which I have no idea how to find. I installed all this using Anaconda in a virtual environment. I have several copies of libpng12.so.0 in various conda environments, but not the specific version that seems to be required by Freeview...
On Fri, Dec 20, 2019 at 12:33 PM Hoopes, Andrew AHOOPES@mgh.harvard.edu wrote:
Hi Rafael,
Is your subject directory stored on an external drive like an SD card? The “Function not implemented” error implies that symlinks are not supported on the filesystem that you’re saving to. Ubuntu 18 definitely supports symlinks and I see that SUBJECTS_DIR points to /media/rafa…. You should process your data on the ubuntu filesystem first, then try copying it onto a card after.
Best,
Andrew
*From: *freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Rafael Espericueta resperic@ucsc.edu *Reply-To: *FS Help freesurfer@nmr.mgh.harvard.edu *Date: *Wednesday, December 18, 2019 at 8:57 PM *To: *FS Help freesurfer@nmr.mgh.harvard.edu *Subject: *[Freesurfer] Error running "Test your FreeSurfer Installation"
External Email - Use Caution *I was trying to run the command: recon-all -s bert -all
It ran for hours, but finally output the following:
writing Gaussian curvature to ./lh.white.preaparc.K...done. writing mean curvature to ./lh.white.preaparc.H...done. rm -f lh.white.H ln -s lh.white.preaparc.H lh.white.H ln: failed to create symbolic link 'lh.white.H': Function not implemented Linux hypatia 4.15.0-66-generic #75-Ubuntu SMP Tue Oct 1 05:24:09 UTC 2019 x86_64 x86_64 x86_64 GNU/Linux
recon-all -s bert exited with ERRORS at Wed Dec 18 16:18:43 PST 2019
- FreeSurfer version:
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c 2) Platform: Ubuntu 18.04.3 3) recon-all.log: see attached _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer