hi folks,

we are setting up freesurfer on a new cluster and trying to be as modular as possible in terms of dependencies. at present we are only installing 5.3.0 + tracula updates.

will libnetcdf (required by tracula) be included in freesurfer? or is it considered a dependency?

and talking of which, is there a patch (a 5.3.1) in the horizon which will include the tracula updates and perhaps netcdf in the freesurfer download.

cheers,

satra

On Wed, Feb 5, 2014 at 11:07 PM, Satrajit Ghosh <satra@mit.edu> wrote:

update: the lack of libnetcdf eventually makes it fail.

i found a libnetcdf.so.7 on the cluster and soft linked it to libnetcdf.so.6 and added the path to LD_LIBRARY_PATH.

that let trac-all -prep run to completion.

cheers,

satra

On Wed, Feb 5, 2014 at 9:02 PM, Satrajit Ghosh <satra@mit.edu> wrote:

hi a.y.,

when running trac-preproc i'm getting this error (for dmri_motion and dmri_group), but it continues running:

/software/freesurfer/bin/dmri_motion: error while loading shared libraries: libnetcdf.so.6: cannot open shared object file: No such file or directory

what will this fail to do?

also is libnetcdf now a dependency for freesurfer? the reason i ask is that i'm running this on a remote cluster for which i don't have admin privileges.

cheers,

satra