Thank you Michael! So - just to be super sure I'm on the same page here. If I've run a subject using 5.3 I take that same subject directory (after backing it up somewhere) and then run the dev version of recon-all with the -all flag. After it's completed I (should - contingent on checking again as you recommend) have a well edited subject who can now be reported as having been processed with the dev version, right?
Thanks again Kx On 22 June 2016 at 14:48, Harms, Michael <mha...@wustl.edu> wrote: > > Hi, > You can simply rerun 'recon-all -all’ on top of your already > processed/edited subject, and it will respect your previous edits. Of > course, it is a good idea to still review/QC the results afterwards, to > make sure that the outcome of those edits is satisfactory under the new FS > version. > > And, if you want to preserve your results under FS 5.3, then you should > make a copy of those results before rerunning recon-all. > > cheers, > -MH > > -- > Michael Harms, Ph.D. > ----------------------------------------------------------- > Conte Center for the Neuroscience of Mental Disorders > Washington University School of Medicine > Department of Psychiatry, Box 8134 > 660 South Euclid Ave. Tel: 314-747-6173 > St. Louis, MO 63110 Email: mha...@wustl.edu > > From: <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Kirstie > Whitaker <kw...@cam.ac.uk> > Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> > Date: Wednesday, June 22, 2016 at 1:28 AM > To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> > Subject: [Freesurfer] Quality control with different pipelines > > Hi everyone, > > I processed and edited 300 participants for our study using Freesurfer 5.3 > and I'd like to move to using the dev version that's currently available > because we have a bunch more data that's been collected and I think it does > a better job. (This question also applies to moving to v 6 when it is > released). > > If I run the dev version of recon-all and then copy over the control > points and wm.mgz files that we edited in the original run, and run > recon-all with the "-autorecon2-cp -autorecon3" flags will that be a very > good approximation for the edits we conducted? Or does this "shortcut" not > do what I think it does? > > Does anyone have any experience moving from one version of freesurfer to > another without having to start from square one with the edits? > > Thank you again for the fantastic tools! > > Kx > > > -- > Kirstie Whitaker, PhD > Research Associate > > Department of Psychiatry > University of Cambridge > > *Mailing Address* > Brain Mapping Unit > Department of Psychiatry > Sir William Hardy Building > Downing Street > Cambridge CB2 3EB > > *Phone: *+44 7583 535 307 > *Website:* www.kirstiewhitaker.com > > > ------------------------------ > > The materials in this message are private and may contain Protected > Healthcare Information or other information of a sensitive nature. If you > are not the intended recipient, be advised that any unauthorized use, > disclosure, copying or the taking of any action in reliance on the contents > of this information is strictly prohibited. If you have received this email > in error, please immediately notify the sender via telephone or return mail. > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > The information in this e-mail is intended only for the person to whom it > is > addressed. If you believe this e-mail was sent to you in error and the > e-mail > contains patient information, please contact the Partners Compliance > HelpLine at > http://www.partners.org/complianceline . If the e-mail was sent to you in > error > but does not contain patient information, please contact the sender and > properly > dispose of the e-mail. > > -- Kirstie Whitaker, PhD Research Associate Department of Psychiatry University of Cambridge *Mailing Address* Brain Mapping Unit Department of Psychiatry Sir William Hardy Building Downing Street Cambridge CB2 3EB *Phone: *+44 7583 535 307 *Website:* www.kirstiewhitaker.com
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