Its hard to tell without seeing the pixel intensities under the segmentation, but at first glance, it looks fine to me

Sent from my phone, please excuse brevity and typos

From: Ramesh Babu Sent: Monday, May 1, 06:58 Subject: Re: [Freesurfer] Hippo-subfiled Need Help To: Freesurfer support list

Dear Eugenio,

Thanks for your suggestion. What about the quality if segmented image which I have attached.

Please give your suggestions on the attached hippo-seg.

Thanks

Ramesh

On Mon, May 1, 2017 at 12:23 AM, Iglesias Gonzalez, Eugenio <e.iglesias@ucl.ac.ukmailto:e.iglesias@ucl.ac.uk> wrote:

Dear Ramesh,

The subfield segmentations requires running recon-all -all first. But you can greatly speed up the execution with the openmp option. Also, you can try running two subjects simultaneously, but only for the recon-all -all part (the subfields use more memory and might crash).

Cheers,

/Eugenio

Juan Eugenio Iglesias

Translational Imaging Group

University College London

http://www.jeiglesias.com

http://cmictig.cs.ucl.ac.uk/

From: freesurfermailto:freesurfer-bounces@nmr.mgh.harvard.edu-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu <freesurfermailto:freesurfer-bounces@nmr.mgh.harvard.edu-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Ramesh Babu <mgrameshbabu2013@gmail.commailto:mgrameshbabu2013@gmail.com> Sent: Saturday, April 29, 2017 9:46:24 AM To: Freesurfer support list Subject: [Freesurfer] Hippo-subfiled Need Help

Dear Experts,

I ave done hippocampal subfield segmentation by using 1x1x1 t1 scan. Please see the attached image and give your suggestions.

It took nearly 7 hrs 10 min. to complete hippo-subfield segmentation for one scan by using the command

recon-all -i grp205_t1.nii -s grp205 -sd grp205 -all

Started at Wed Apr 26 11:03:34 IST 2017 Ended at Wed Apr 26 17:17:35 IST 2017 #@#%# recon-all-run-time-hours 6.234 recon-all -s grp205 finished without error at Wed Apr 26 17:17:35 IST 2017 done

Then for hipposubfield,

recon-all -s grp205 -sd grp205 -hippocampal-subfields-T1

I want to run for 40 scans grp-1 20 scans and grp-2 20 scans. How to modify in the command. Since it is taking long time I want to run 10 scans n give rest again 10 scans. Can I do so?

I am15.6 GiB ram, Intel® Core™ i7-4790 CPU @ 3.60GHz × 8 processor, GeForce GT 610/PCIe/SSE2 graphic card.It is octa core processor. Can I run 8 analysis simultaneously (in 8 separate terminal?).

Your suggestion will be helpful to me to proceed further.

Thanks

RB

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