Re: [Freesurfer] Question on saving interim files when generating an fsavearge

Hi Douglas.

Thanks for the reply. Forgive me for not responding quickly.

It turns out what we really want is the interim files that are saved during recon-all if you add the -qcache option. Is there any way to generate those files after running recon-all without having to run recon-all again in its entirety? We would also be ok with running the sub command manually if we could know what the command line would be.

Thanks so much. -John

-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Wednesday, February 15, 2017 5:28 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Question on saving interim files when generating an fsavearge

There is not a flag to do this, but you could edit the scripts so that it does not delete the tmpdir.

On 02/14/2017 09:43 AM, West, John D. wrote:

Hello.

We are looking to save the interim subject files generated when creating an fsaverage. These seem to be automatically deleted at the end of the process so we were wondering if there is a flag or script that would save these for us?

Thanks for your help.

*John D. West, M.S.*

Principal Systems Analyst | Center for Neuroimaging

Indiana University School of Medicine

**

355 West 16^th Street | GH 4100

Indianapolis, IN 46202

317-963-7510

jdwest@iupui.edu mailto:jdwest@iupui.edu

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