i'm guessing from the 'compute-0-1.local' bit of your output that this was run on cluster, which probably doesnt have the X-libs installed (clusters generally dont include the graphics libs). unfortunately, our mris_volmask is built against a VTK lib which relies upon linking against these (even though it doesnt use them: VTK is primarily a visualization lib, but has some very useful volume/surface routines as well). the only short-term solution for you is to use mris_volmask_novtk, which is an alternate binary that doesnt use vtk, but doesnt produce nearly the quality cortical ribbon that VTK does. but it will have to do (and is irrelevant if you need only the cortical and subcortical data: the volmask is used only the create the aparc +aseg.mgz and wmparc.mgz files).
for the long-term, we are working on a replacement to mris_volmask that doesnt use the VTK lib, but produces identical (or nearly so) results. this wont appear for a couple more months though.
n.
On Sun, 2009-12-13 at 10:57 +0900, SG KIM wrote:
Dear Freesurfer, I ran recon-all with -all flag, and I've got an error message as below:
mris_volmask.bin: error while loading shared libraries: libXss.so.1:
cannot open shared object file: No such file or directory
Linux compute-0-1.local 2.6.18-92.1.13.el5PAE #1 SMP Wed Sep 24
20:07:49 EDT 2008 i686 i686 i386 GNU/Linux
recon-all exited with ERRORS at Tue Dec 8 07:43:35 KST 2009
I ran it on {Intel(R) Xeon(R) CPU E5345 @ 2.33GHz (4096 KB cache)} with {Linux compute-0-1.local 2.6.18-92.1.13.el5PAE #1 SMP Wed Sep 24 20:07:49 EDT 2008 i686 i686 i386 GNU/Linux}
I've googled it, only one case was posted via this mailing list. Yes, I want to know why this error occur but also how to fix it.
Please help me out here! 'A`
Mr. SG KIM. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer