hi all, @bruce : I've just given a try your own binaries in
~fischl/dev/freesurfer/bin/ and it worked fine. It looks like a bug has been fixed since the last stable release. Alex On Tue, Apr 24, 2012 at 10:44 PM, Andrew C Yourich <ayour...@uab.edu> wrote: > Sadly, I haven't been able to determine the problem yet. I have tested the > exact command that was suggested in both the Mac 5.1.0 version as well as the > Windows/Ubuntu 5.1.0 virtual machine version, and neither have seemed to > expand correctly when viewed in freeview. I won't have access to a machine > running Linux natively until tomorrow. A colleague who runs Freesurfer 5.0 > and 5.1.0 on a Linux machine is going to work with me to test if he has this > issue as well. > > Do you know if there have been any changes to the code of the mris_expand > binary since 4.0.2? If not, we may try using the mris_expand from that > version on the recon-all results from a 5.1.0 segmentation to see if the > issue truly is the expand binary or not. > > Any other suggestions you all have would be appreciated. > > Thanks, > Andrew > ________________________________________ > From: Alexandre Gramfort [gramf...@nmr.mgh.harvard.edu] > Sent: Tuesday, April 24, 2012 3:24 PM > To: Andrew C Yourich > Subject: Fwd: Fwd: Freesurfer Digest, Vol 98, Issue 29 > > hi, > > have you fixed your problem? I still don't manage to make it work… > > thanks > Alex > > ---------- Forwarded message ---------- > From: Alexandre Gramfort <gramf...@nmr.mgh.harvard.edu> > Date: Mon, Apr 23, 2012 at 7:10 PM > Subject: Re: Fwd: Freesurfer Digest, Vol 98, Issue 29 > To: Bruce Fischl <fis...@nmr.mgh.harvard.edu> > Cc: Nick Schmansky <ni...@nmr.mgh.harvard.edu>, ayour...@uab.edu, > Krish Subramaniam <kr...@nmr.mgh.harvard.edu>, Ruopeng Wang > <rpw...@nmr.mgh.harvard.edu> > > >> not sure about the mac, I'll cc Nick, Krish and Ruopeng so that they can >> answer. > > could be due to my update of XCode this morning but things work fine > with freeview -f lh.white -v ../mri/T1.mgz > on my mac with lion. sorry for the noise > >> I built my own in ~fischl/dev/freesurfer/bin/freeview. Sure, put the >> surfaces somewhere I can look at them and I'll take a look > > see the files in : > > /homes/6/gramfort/cluster/work/data/MNE-sample-data/subjects/fsaverage/surf/lh.white.expanded > > that's the sample data we use for MNE. > > the log: > > $ mris_expand -thickness lh.white 0.5 lh.white.expanded > using distance as a % of thickness > expanding surface lh.white by 50.0% of thickness and writing it to > lh.white.expanded > reading thickness... > ending sse = 4485.856144 > nrounds = 6 > writing expanded surface to lh.white.expanded... > writing group avg surface area 822 cm^2 into surface file > surface expansion took 27 minutes and 15 seconds. > > Alex > > > 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
