Are they "Unknown" or "ctx-?h-unknown" ? On 07/13/2015 07:22 PM, joseph veliz wrote: > Hello, > > Just checking if this email thread was still being tracked. > > Thanks so much > > Joseph > ---------- Forwarded message ---------- > From: *joseph veliz* <josephveli...@gmail.com > <mailto:josephveli...@gmail.com>> > Date: Thu, Jul 9, 2015 at 10:41 AM > Subject: Re: [Freesurfer] [FreeSurfer] aparc+aseg.mgz unkown voxels > To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu > <mailto:freesurfer@nmr.mgh.harvard.edu>> > > > I have updated our macbook 10.9 with the latest freesurfer from; > > ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/dev/freesurfer-Darwin-lion-dev.tar.gz > > > The same results are produced; ' unknown voxels ' on the aparc+aseg.mgz. > > I am not sure how to proceed, are there any suggestions? > > thank you so much > > joseph > > > > > On Thu, Jul 2, 2015 at 12:45 PM, joseph veliz <josephveli...@gmail.com > <mailto:josephveli...@gmail.com>> wrote: > > We have quite a large data set we have processed in this study on > v5.1.0 and have been previously advised to not switch versions > in-between processing data sets. > > I do have a macbook pro running v5.3, I will attempt to recon on > this subject. > > But are there any other options on v5.1? > > Why is it that voxels in aparc+aseg.mgz can not just be filled in > with corresponding color from the lut? > > > > On Thu, Jul 2, 2015 at 6:04 AM, Douglas N Greve > <gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>> wrote: > > I think that might have been fixed in 5.3. Can you try 5.3 on > that one > subject to see? Thanks for the kudos. > doug > > On 07/01/2015 08:23 PM, joseph veliz wrote: > > leopard i686 stable pub v5.1.0 > > > > As an aside I watched your introductory videos and found you > to be > > very knowledgeable, well-spoken and very helpful in > understanding some > > of the amazing things you guys are doing for analysis. > Really cool to > > be emailing you and getting help from the pros. > > > > Thanks > > > > Joe > > > > On Wed, Jul 1, 2015 at 1:12 PM, Bruce Fischl > > <fis...@nmr.mgh.harvard.edu > <mailto:fis...@nmr.mgh.harvard.edu> > <mailto:fis...@nmr.mgh.harvard.edu > <mailto:fis...@nmr.mgh.harvard.edu>>> wrote: > > > > Hi Joe > > > > what FS version are you using? That certainly looks like > a bug, > > but maybe > > it's one we've fixed already? > > > > Bruce > > > > > > On Wed, 1 Jul 2015, joseph veliz wrote: > > > > > Hello Freesrufers, > > > > > > There are voxels in random areas of the aparc+aseg.mgz > that are > > categorized > > > as 'unknown'. > > > > > > I read an earlier email stating that aparc+aseg.mgz > should not > > be directly > > > edited by filling in voxels. Correct? > > > > > > A specific example of this is shown on the attatched > images. > > > > > > aseg.mgz categorizes this area as cortex, yet the > aparc+aseg.mgz > > does not > > > even though it is within pial boundary and is adjacent > to other > > > (categorized) cortical and sub cortical regions. > > > > > > How could we go about correcting this? > > > > > > Thank so much > > > > > > Joe > > > > > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > <mailto:Freesurfer@nmr.mgh.harvard.edu> > <mailto:Freesurfer@nmr.mgh.harvard.edu > <mailto:Freesurfer@nmr.mgh.harvard.edu>> > >https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > > 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 > <mailto: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 <mailto:gr...@nmr.mgh.harvard.edu> > Phone Number: 617-724-2358 <tel:617-724-2358> > Fax: 617-726-7422 <tel:617-726-7422> > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> > FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 > www.nmr.mgh.harvard.edu/facility/filedrop/index.html > <http://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 > <mailto: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
