External Email - Use Caution Hello Ben,
For packages to install, see the following wiki page, https://surfer.nmr.mgh.harvard.edu/fswiki/BuildRequirements Usually to expand the freesurfer *.tar.gz archive under /usr/local, you would need sudo/root privileges, e.g. $ cd /usr/local$ sudo tar zxpf freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0.tar.gz…... output deleted - and you would end up with /usr/local/freesurfer and in turn do $ export FREESURFER_HOME=/usr/local/freesurfer But if you don’t have sudo privileges, e.g., it does not work to do$ sudo touch /usr/local/foo$ sudo rm /usr/local/foo - then you may want to consider putting freesurfer under your $HOME directory or somewhere you have permission to write files w/o needing to use sudo, e.g., $ cd $HOME$ tar zxpf freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0.tar.gz$ export FREESURFER_HOME=$HOME - R. On Mar 3, 2020, at 12:53, Benjamin Ineichen <bv.ineic...@gmail.com> wrote: External Email - Use Caution Dear Freesurfer experts,Even though this problem has been raised in the archives, I was not able to find a specific solution to my problem.I installed Freesurfer on a virtual machine which runs Ubuntu 18.04.4 (Host system: Windows 10). But it seems that Freesurfer is not installed properly. Upon running the installation test, I get the following errors:1.) command line: cp $FREESURFER_HOME/subjects/sample-001.mgz .Error: cp: cannot create regular file './sample-001.mgz': Permission denied2.) command line: mri_convert sample-001.mgz sample-001.nii.gzError: mri_convert..bin sample-001.mgz sample-001.nii.gz$Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 reuter Exp $reading from sample-001.mgz...mghRead(/usr/local/sample-001.mgz, -1): could not open file3.) command line: freeviewError: freeview.bin: error while loading shared libraries: libpng12.so.0: cannot open shared object file: No such file or directory.My permissions are: drwxrwsr-x for freesurfer.Any advice?Many thanks!/Ben-- ____________________________________Benjamin Victor Ineichen, MD PhDKarolinska InstitutetCenter for Molecular MedicineStockholm, swedenineic...@protonmail.ch+41 76 391 04 01Dr. med. et Dr. rer. nat. ETH Benjamin Victor IneichenKarolinska InstitutetCenter for Molecular MedicineStockholm, swedenineic...@protonmail.ch+41 76 391 04 01_______________________________________________Freesurfer mailing listfreesur...@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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