Dear all, How "fatal" is the FSL environment not being initialized for FreeSurfer 5.3 with FLAIR refinement? I do get results (which look good). Should I rerun them with FSL installed? Thank you very much in advance! Sincerely, Veronica
-----Original Message----- From: Bruce Fischl [mailto:fis...@nmr.mgh.harvard.edu] Sent: maandag 27 mei 2013 14:19 To: Popescu, Veronica Cc: 'freesurfer@nmr.mgh.harvard.edu' Subject: RE: [Freesurfer] recon-all with FLAIR error no FSL installed Hi Veronica thanks for the offer, but I don't need to see them. Glad it seems to be working. As for BBR, I'll leave that for Doug Bruce On Mon, 27 May 2013, Popescu, Veronica wrote: > Dear Bruce, > They look good to me. Should I upload a couple of them, so you can have a > look? They're about 230MB each. > My question is: how serious is the BBR not initializing? Should I run > everything again with FSL installed? > Best wishes, > Veronica > > -----Original Message----- > From: Bruce Fischl [mailto:fis...@nmr.mgh.harvard.edu] > Sent: vrijdag 24 mei 2013 15:59 > To: Popescu, Veronica > Cc: 'freesurfer@nmr.mgh.harvard.edu' > Subject: Re: [Freesurfer] recon-all with FLAIR error no FSL installed > > Hi Veronica > > BBR can use FSL or SPM to initialize, although we'll probably add an option > in the future to use some things that Martin Reuter and Christian Wachinger > are working on. How did the refinement work? We've only run it on a handful > of cases, so it's pretty bleeding edge and I'm interested in feedback. > > cheers > Bruce > > > On Fri, 24 May 2013, Popescu, Veronica > wrote: > >> Dear all, >> I am running FreeSurfer 5.3 with FLAIR refinement. I do not have FSL >> installed. I do get results but there's an >> error message in the log file (attached) about the FSL installation missing. >> >> How bad is it? Do I have to rerun everything with FSL installed? And if so, >> is there any version that is >> preferable? >> Thank you very much in advance! >> Best wishes, >> Veronica >> >> >> > > > 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
