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 <https://surfer.nmr.mgh.harvard.edu/fswiki/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. > >
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