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. -- 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
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