Sorry, forgot to attach the log.
Matt ________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of Hibert, Matthew Louis [MHIBERT@mgh.harvard.edu] Sent: Monday, July 17, 2017 4:39 PM To: Freesurfer support list Cc: Gholipour, Taha,M.D. Subject: [Freesurfer] dev -FLAIRpial bug?
Hi FS Devs, We're running some reconstructions of 7T MPRAGEs with the -FLAIRpial flag turned on using the Martinos install of the dev version. Recently we encountered the error in the attached recon-all log in which it appears that recon-all is trying to use the aseg.mgz before it has been created. According to the dev table online, the mris_make_surfaces command as part of the -FLAIRpial processing should use aseg.presurf.mgz, but it crashes with an error that it was unable to open aseg.mgz.
Thanks, Matt