Hi Andi - You can try, but the trac-* files are just wrapper scripts that call the executables of tracula, which are the dmri_* files. You should also replace the entire $FREESURFER_HOME/trctrain directory with the new version.
Hope this helps, a.y
On Fri, 8 Mar 2013, Andi Heckel wrote:
Hi Anastasia,
thank you your reply!
Can I actually use the new tracula also within the previous Freesurfer release (v.5.1) ? I mean by simply copying the new trac-all , trac-paths, trac-preproc to the freesurfer/bin directory of v.5.1 ?
kind regards, andi
-----Original Message----- From: Anastasia Yendiki ayendiki@nmr.mgh.harvard.edu To: Andi Heckel ahheckel@aol.com Cc: freesurfer freesurfer@nmr.mgh.harvard.edu Sent: Tue, Mar 5, 2013 12:07 am Subject: Re: [Freesurfer] new tracula
Hi Andi - You're very welcome! I hope you'll find it useful.
That's correct, if you turn off these pre-processing options then trac-all will simply copy your DWIs, gradient table and b-value table from the location that you specify to the dmri/ directory and continue from there.
You can certainly use a past dmrirc file, trac-all is backwards compatible that way. But some of the defaults have changed, and you want to make sure you're not overriding the new defaults unless you have a reason to do so.
I've updated the page of the example dmrirc with the new defaults but also put a link in there to the old defaults so you can compare: http://surfer.nmr.mgh.harvard.edu/fswiki/dmrirc
The tutorial hasn't been updated yet to reflect the 5.2 defaults (ick!) but I'll get to that soon.
a.y
On Mon, 4 Mar 2013, Andi Heckel wrote:
Dear Tracula Team,
first, thank you very much for the new version with its many improvements
!
I have dwi data (as nii.gz) that have already been unwarped and
eddy-corrected, the bvector-textfiles have also been rotated
accordingly. So, I guess, when I use TRACULA on these data, I simply set dob0=0, and
doeddy=0 and dorotbvecs=0
to indicate that these steps have already been performed outside of tracul
a, correct ? (just want to be sure...)
btw. is it safe to use the dmrirc config file from the previous version in
the new version ?
thank you very much and kind regards, andi
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