External Email - Use Caution        

10-15 mins or so

Sent from my phone, please excuse brevity and typos

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Erik O'Hanlon <erikohanlon@rcsi.ie>
Sent: Tuesday, September 11, 2018 12:32:23 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] Using the new Thalamus tool
 

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Thanks Eugenio,


I'll intall the latest dev version so. How long does it typically take to run a subject through the thalamus pipeline typically?


Thanks again for the prompt reply. Very much appreciated.


Cheers


Erik

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Iglesias Gonzalez, Eugenio <e.iglesias@ucl.ac.uk>
Sent: 10 September 2018 18:00:20
To: freesurfer@nmr.mgh.harvard.edu; Freesurfer support list
Subject: Re: [Freesurfer] Using the new Thalamus tool
 

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Dear Erik,
Installing only the thalamic tool is technically possible but requires a level of hacking that i don't want to encourage or support ;-)
Please install the new dev on a separate directory, and make FREESURFER_HOME point to that the directory (and source freesurfer) to run the thalamic tool. No need to rerun recon-all on the subjects.
Cheers
Eugenio

Sent from my phone, please excuse brevity and typos

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Erik O'Hanlon <erikohanlon@rcsi.ie>
Sent: Thursday, September 6, 2018 3:44:57 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: [Freesurfer] Using the new Thalamus tool
 

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Hi FS Experts


I've run my data through the brainstem, hippocampus and amygdala following the usual Recon_all and using the developmental version downloaded and stalled around Jan2018. I'd like to use the new thalamus tool and am wondering if I need to do a full install of the latest DEV version to do so. As I am still working on certain aspects of the analyses I've run so far, I don't want to overwrite my main FS installation mid analysis. Is it possible to download the toolbox and add it to my current dev version or is it best just to do another install with teh complete new Dev version?  Is it possible to run the Thalamus analysis as an addtional component without having to rerun the recon_all again?


Thanks and regards


Erik


Erik O'Hanlon
Postdoctoral researcher

RCSI Psychiatry
Royal College of Surgeons in Ireland
Beaumont Road, Beaumont D9 Ireland
T: 8093740
E: erikohanlon@rcsi.ie W: www.rcsi.com

Transforming Healthcare Education, Research and Service: RCSI Strategic Plan 2018-2022





Erik O'Hanlon
Postdoctoral researcher

RCSI Psychiatry
Royal College of Surgeons in Ireland
Beaumont Road, Beaumont D9 Ireland
T: 8093740
E: erikohanlon@rcsi.ie W: www.rcsi.com

Transforming Healthcare Education, Research and Service: RCSI Strategic Plan 2018-2022