Right, I think this is a new file with version 6.
On 08/31/2017 04:32 PM, John Anderson wrote: > Thank you Dr Bruce, > It seems that FS5.3 doesn't output this file. I just checked many > recons processed using FS5.3 without FLAIR and the file > "aparc.DKTatlas+aseg.mgz" is missing in all these recons. > I see aseg.mgz, aseg+aparc.mgz and wmparc.mgz > > >> -------- Original Message -------- >> Subject: Re: [Freesurfer] aparc.DKTatlas+aseg.mgz >> Local Time: August 31, 2017 4:04 PM >> UTC Time: August 31, 2017 8:04 PM >> From: fis...@nmr.mgh.harvard.edu >> To: John Anderson <john.ande...@protonmail.com>, Freesurfer support >> list <freesurfer@nmr.mgh.harvard.edu> >> "Boyd, Emma" <ebo...@mgh.harvard.edu> >> >> Hi John >> >> the atlas isn"t flair-based (and is done before the flair processing). I >> thought we always generated both (plus Christophe"s for 3 total), so I"m >> a bit confused >> cheers >> Bruce >> On Thu, 31 Aug 2017, John Anderson wrote: >> >> > Hi Emma, >> > Thank you for your response. >> > I am running my recons using V5.3 and V6.0 >> > In the data base I have ~200 T1 images and for some I have FLAIR >> images. >> > When I run recon all with the flag FLAIR I get the file >> "aparc.DKTatlas+aseg.mgz" in FS5.3 and FS6.0 >> > If I run recon-all without the flag FLAIR i don"t see the >> file aparc.DKTatlas+aseg.mgz >> > as an output of FS5.3 or FS6.0 >> > >> > I am a bit confused about this!! Is this atlas FALIR-based or I am >> doing something wrong?! >> > >> > >> > >> > >> > -------- Original Message -------- >> > Subject: Re: [Freesurfer] aparc.DKTatlas+aseg.mgz >> > Local Time: August 31, 2017 3:11 PM >> > UTC Time: August 31, 2017 7:11 PM >> > From: ebo...@mgh.harvard.edu >> > To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>, John >> Anderson >> > <john.ande...@protonmail.com> >> > >> > >> > Hi John, >> > >> > Which version of FreeSurfer are you running? >> > >> > >> > Emma >> > >> > >> > --------- >> > >> > Emma Boyd >> > >> > Research Technician II >> > >> > Laboratory for Computational Neuroimaging >> > >> > Martinos Center for Biomedical Imaging >> > >> > >> ____________________________________________________________________________________________________ >> > >> > From: freesurfer-boun...@nmr.mgh.harvard.edu >> <freesurfer-boun...@nmr.mgh.harvard.edu> on >> > behalf of John Anderson <john.ande...@protonmail.com> >> > Sent: Thursday, August 31, 2017 12:17 PM >> > To: Freesurfer support list >> > Subject: Re: [Freesurfer] aparc.DKTatlas+aseg.mgz >> > >> > Dear experts, >> > looking into the output of Freesurfer in this >> > page https://surfer.nmr.mgh.harvard.edu/fswiki/ReconAllOutputFiles >> > I see that there should be a file named "aparc.DKTatlas+aseg.mgz". >> Is this atlas can be >> > generated with the presence of FLAIR images. >> > >> > When i run recon-all without FLAIR or T2 I don"t see this atlas!! >> Is this atlas FLAIR -based? >> > >> > thank you for any clarification >> > John >> > >> > -------- Original Message -------- >> > Subject: aparc.DKTatlas+aseg.mgz >> > Local Time: August 30, 2017 7:49 PM >> > UTC Time: August 30, 2017 11:49 PM >> > From: john.ande...@protonmail.com >> > To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> >> > >> > Dear experts, >> > looking into the output of Freesurfer in this >> > page https://surfer.nmr.mgh.harvard.edu/fswiki/ReconAllOutputFiles >> > I see that there should be a file named "aparc.DKTatlas+aseg.mgz". >> Do I need FLAIR >> > images to get this file. >> > >> > I ran the command recon-all --s subj --all and I can";t find this file >> > >> > >> > thank you for any clarification >> > John >> > >> > >> > >> > 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 -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
