Margaret,

I think you may just need to open a new terminal and re-'source' your freesurfer environment. I've confirmed that mris_euler_number exists on machine 'troy'.

You have a Fedora Core 2 Linux machine, and last night a switch was made to run the Red Hat 9 build on FC2 machines, which should work fine (the freesurfer binaries between RH9 and FC2 are the same), but the underlying pathnames are different, hence it is necessary to re-source.

Let me know if things are working you, as I want to keep an eye on an subtle difference between FC2 and RH9. Freesurfer should work identically, and you should not have to do anything different.

Nick

On Fri, 2005-09-09 at 10:45 -0400, Margaret Duff wrote:

Hi, I am running the command recon-all -subjid SM2C4_autoreconall -autorecon2 on troy, with subjects directory being /space/troy/1/users/FREESURFER. I just got this error message, which I have never gotten before:

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Euler Number rh Fri Sep 9 02:03:07 EDT 2005 /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/scripts /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/scripts /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/scripts /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/scripts /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/scripts /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/mri /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/scripts /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/scripts /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/scripts /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/scripts /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/scripts /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/scripts /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/scripts /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/scripts /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/mri /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/mri /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/mri /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/mri /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/mri /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/mri /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/mri /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/mri /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall mris_euler_number /autofs/space/troy_001/users/FREESURFER/SM2C4_autoreconall/surf/rh.orig mris_euler_number: Command not found. ERROR: mris_euler_number exited with non-zero status Linux troy 2.6.6-1.436.2.3smp #1 SMP Fri Jul 9 15:27:18 EDT 2004 i686 i686 i386 GNU/Linux recon-all exited with errors at Fri Sep 9 02:03:08 EDT 2005

Why is the command all of a sudden not found? Thanks, Margaret _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer