Hi Sampada, FS 6.0 is not out yet, but you can download the latest dev version from here: ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/dev/ Using this version, you can run the brainstem module on subjects that have already been processed with 5.3. Cheers, Eugenio
Juan Eugenio Iglesias Postdoctoral researcher BCBL www.jeiglesias.com www.bcbl.eu Legal disclaimer/Aviso legal/Lege-oharra: www.bcbl.eu/legal-disclaimer ----- Original Message ----- From: "Dr Sampada Sinha" <drsampadasi...@gmail.com> To: "Freesurfer support list" <freesurfer@nmr.mgh.harvard.edu> Sent: Saturday, July 11, 2015 6:37:12 PM Subject: Re: [Freesurfer] Regarding: Brainstem substructures Thanks so much Bruce for your reply. when I open the link for brain stem structures ( https://surfer.nmr.mgh.harvard.edu/fswiki/BrainstemSubstructures ), it says " This functionality is present in FreeSurfer 6.0 and later " . And, when I go to the freesurfer download page, the only latest version of freesurfer (last updated by Zeke on 2015-06-02) I see is stable v5.3.0. If the version 6.0 is out, will you please send me the link so that I can download it? Thanks and regards, Sampada On Sat, Jul 11, 2015 at 7:30 PM, Bruce Fischl < fis...@nmr.mgh.harvard.edu > wrote: Hi Sampada the brainstem stuff was developed after 5.3 so it is likely not in the version you have. Eugenio or Zeke can point you in the right direction. cheers Bruce On Sat, 11 Jul 2015, Dr Sampada Sinha wrote: > Dear freesurfer experts, > > I am trying to do the brainstem volumetric analysis especially of the > medullary > region. My recon-all command ran successfully and now when I am trying to run > the > command ' recon-all -s IMRAN -brainstem-structures' > ( https://surfer.nmr.mgh.harvard.edu/fswiki/BrainstemSubstructures ) but, I > get the > following error: > > > ERROR: Flag -brainstem-structures unrecognized. > -s IMRAN -brainstem-structures > Linux localhost.localdomain 2.6.32-431.el6.x86_64 #1 SMP Fri Nov 22 03:15:09 > UTC > 2013 x86_64 x86_64 x86_64 GNU/Linux > > Will you please let me know where I am going wrong? I am using the > freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0 > version for my analysis. > > Thanks for your time! > > Kind regards, > > Sampada > > > > > > > > > > > > > _______________________________________________ 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. _______________________________________________ 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. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
