Hi John,
I don't believe this atlas is FLAIR based. Could you please attach a recon-all log for one of these subjects? Thank you, Emma ________________________________ 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 3:25:43 PM To: Boyd, Emma Cc: Freesurfer support list Subject: Re: [Freesurfer] aparc.DKTatlas+aseg.mgz 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.
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