Hi Doug, I am using V6.0.0 (x86_64) on Ubuntu. Should I not be getting these errors so often?
Best, Emily ________________________________________ From: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve [gr...@nmr.mgh.harvard.edu] Sent: Wednesday, February 21, 2018 2:18 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Surface Errors btw, what verions of FS are you using? On 02/21/2018 01:25 PM, Emily Schwartz wrote: > Got it, thank you so much! > > Best, > > Emily > ________________________________________ > From: freesurfer-boun...@nmr.mgh.harvard.edu > [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Bruce Fischl > [fis...@nmr.mgh.harvard.edu] > Sent: Wednesday, February 21, 2018 10:23 AM > To: Freesurfer support list > Subject: Re: [Freesurfer] Surface Errors > > Hi Emily > > it is a segmentation error, but it's a pretty small one. It will mess up > the thickness in a region a few mm^2. You could fix it by editing the > wm.mgz if you really care about that spot > > cheers > Bruce > > > On Wed, 21 Feb 2018, Emily Schwartz wrote: > >> Hi Doug, >> >> Thank you for getting back to me. I've attached two images (Slice165 and >> Slice166) with an arrow pointing to the location. I am new at this, so maybe >> I am wrong and it is not a segmentation error. >> >> I've also attached an additional image (Slice185) of what I think is a type >> of topological error that I often see multiple times in a subject. Is this a >> topological defect? If so, if it is only over 3 slices does it need to be >> corrected? >> >> Thanks again, >> >> Emily >> ________________________________ >> From: freesurfer-boun...@nmr.mgh.harvard.edu >> [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve >> [gr...@nmr.mgh.harvard.edu] >> Sent: Tuesday, February 20, 2018 4:59 PM >> To: freesurfer@nmr.mgh.harvard.edu >> Subject: Re: [Freesurfer] Surface Errors >> >> sorry, what kind of errors? I could not really tell from the images what >> the problem was >> >> >> On 02/20/2018 10:22 AM, Emily Schwartz wrote: >>> Hi FreeSurfer community, >>> >>> I am working on elderly subjects and have had this kind of surface error >>> quite often in different locations. Usually, it's over about 3-4 slices (in >>> one view) and can be fixed, but I am finding multiple in almost every >>> subject and therefore taking a lot of time to edit (and then once >>> reprocessed new ones sometimes come up in different locations). I was >>> wondering if these are normal to have, minor surface errors that do not >>> necessarily need to be fixed. I have added images of an example below. Here >>> are some of the values I get from aparc.stats for caudal middle frontal lh >>> after manually editing: >>> >>> Surface area: >>> Original - 2500 mm^2 >>> Edited - 2532 mm^2 >>> >>> Grey volume: >>> Original - 1710 mm^3 >>> Edited - 1727 mm^3 >>> >>> Thickness avg >>> Original - 4455 mm std: 2.371 >>> Edited - 4445 mm std: 2.365 >>> >>> Although the thickness values only differ by 10 mm, we are a little >>> concerned because the difference is not within the standard deviation. >>> >>> Please let me know if all of these errors should be edited or if it may be >>> okay to keep the smaller segmentation/topological errors as they are. >>> >>> Thank you, >>> >>> Emily >>> >>> >>> >>> >>> _______________________________________________ >>> Freesurfer mailing list >>> 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 >> >> >> 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 > > _______________________________________________ > Freesurfer mailing list > 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 _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
