Hello Bruce, I am still getting this error after re-running autorecon1 in the newest version of FS. Can I upload two brains and see what is the issue? I'm a bit stumped on this one.
Anthony On 5/26/15 12:21 PM, Bruce Fischl wrote: > Hi Anthony > > sorry, I know you've posted this before. What version are you running? > And what type is your labeled data? That is, are they uchar? int? At some > point this used to not work with non-uchar data, but I think I fixed it a > while ago. YOu might try downloading a beta of V6 and see if it fixes your > problem > > cheers > Bruce > > > On Tue, 26 > May 2015, Anthony Dick wrote: > >> Hello, >> >> I have been stumped by this error I keep getting using the >> rebuild_gca_atlas.csh script. I am trying to build a cerebellar atlas, >> so I am wondering if the problem is with the brains we parcellated, or >> with my installation etc. The brains consist of manually segmented >> cerebellums from the original T1. The T1 is run through Freesurfer, and >> the ROIs are made in Freeview. The edited file is called seg_edited.mgz. >> Things run smoothly up until this error: >> >> using MR volume /<path>/subjects/4/mri/brain.mgz to mask input volume... >> reading 23 input volumes... >> logging results to talairach_one.log >> reading 'subjects/average/RB_one_2015-05-14.gca'... >> gcaAllocMax: node dims 32 32 32 >> gcaAllocMax: prior dims 128 128 128 >> gcaAllocMax: max_labels 0 >> average std = 8.4 using min determinant for regularization = 7.1 >> 0 singular and 119 ill-conditioned covariance matrices regularized >> reading '/<path>/subjects/4/mri/nu.mgz'... >> reading '/<path>/subjects/average/RB_one_2015-05-14.gca'... >> gcaAllocMax: node dims 32 32 32 >> gcaAllocMax: prior dims 128 128 128 >> gcaAllocMax: max_labels 0 >> reading frame -1 of gca >> MRIcopyFrame: src and dst must be same type >> reading '/<path>/subjects/4/mri/transforms/talairach_one.lta'... >> mri_read(): couldn't determine type of file >> /<path>/subjects/4/mri/transforms/talairach_one.lta >> mri_em_register: could not open input volume >> /<path>/subjects/4/mri/transforms/talairach_one.lta. >> >> > _______________________________________________ > 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. > -- Anthony Steven Dick, Ph.D. Assistant Professor Director, Cognitive Neuroscience Program and Graduate Certificate in Cognitive Neuroscience Department of Psychology Florida International University Modesto A. Maidique Campus AHC4 454 11200 S.W. 8th Street Miami, FL 33199 Ph: 305-348-4202; Lab Ph: 305-348-9055; Fx: 305-348-3879 Email: ad...@fiu.edu Webpage: faculty.fiu.edu/~adick; Lab Webpage: http://dcn.fiu.edu Join the Society for the Study of Human Development: http://www.sshdonline.org _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
