Wow! I haven't thought about that but it's possible since we had a few study coordinators along the way. So it could be the case that the study coordinator didn't know the subject who came at follow-up. Hopefully it will be just a DICOM mismatch. Will see how it goes.. :)
On Thu, Mar 31, 2016 at 10:38 AM, Martin Reuter <mreu...@nmr.mgh.harvard.edu > wrote: > I have seen cases where annonymization messed up ID's and individual time > points came from a different subject. That could mess things up quite bad. > (Also if the person sends their sibling or friend, because they don't have > time to come to the follow up themselves, has also happened - not to me > though ). > > Best, Martin > > > On 03/31/2016 10:21 AM, Mihaela Stefan wrote: > > Hi Martin, > > We ran this subject twice but we got the same error. The norm is not > aligned. They almost look like two different brains. I double checked the > exam numbers to make sure that these three exams belong to the same person. > They indeed seem to belong to the same person but I will re-run recon cross > from scratch for MRI3 just to make sure that I started with the right > DICOMs. I will let you know how it worked. > > Thanks! > Mihaela > > On Wed, Mar 30, 2016 at 4:12 PM, Martin Reuter < > mreu...@nmr.mgh.harvard.edu> wrote: > >> Hi Mihaela, >> >> does the cross sectional run of that time point, and the base look OK? >> Also check if this time point is aligned correctly to the base (e.g. open >> norm.mgz from the long and the base, they should be aligned). If all this >> is OK, then I would recommend to re-run this long run again, but make sure >> you are removing the longitudinal directory first so that it re-runs from >> scratch. If that does not fix it, we would need to get the data for >> debugging. >> >> Thanks, Martin >> >> >> On 03/30/2016 03:19 PM, Mihaela Stefan wrote: >> >> Dear FreeSurfers, >> >> We are doing a longitudinal analysis with three time points (MRI1, MRI2, >> MRI3). All the subjects were processed well except for one. The MRI3.long >> of that subject has very bad surfaces (see attachment - I am also attaching >> the log file). The cross, the template and the first two long runs were >> reconned well, though. We can't figure out why this third run is so bad. >> >> As a note, we processed all the cross runs on an Ubuntu machine but we >> ran the longitudinal pipeline on a computer cluster (both with freesurfer >> v5.3). We ran the long twice for that subject thinking that the pipeline >> crashed somehow the first time. However, the results were the same. >> >> Any help would be appreciated. >> >> Thanks! >> Mihaela >> >> >> _______________________________________________ >> Freesurfer mailing >> listfreesur...@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> -- >> Martin Reuter, PhD >> Assistant Professor of Radiology, Harvard Medical School >> Assistant Professor of Neurology, Harvard Medical School >> A.A.Martinos Center for Biomedical Imaging >> Massachusetts General Hospital >> Research Affiliate, CSAIL, MIT >> Phone: +1-617-724-5652 >> Web : http://reuter.mit.edu >> >> >> _______________________________________________ >> 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 > listfreesur...@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > -- > Martin Reuter, PhD > Assistant Professor of Radiology, Harvard Medical School > Assistant Professor of Neurology, Harvard Medical School > A.A.Martinos Center for Biomedical Imaging > Massachusetts General Hospital > Research Affiliate, CSAIL, MIT > Phone: +1-617-724-5652 > Web : http://reuter.mit.edu > > > _______________________________________________ > 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. > >
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