Hello FreeSurfer Developers,
I'm attempting to apply the CVS output transformation "final_CVSmorph_toSynthF.m3z" to an image different to the one that was used for its estimation. I followed the steps reported at the bottom of the page https://surfer.nmr.mgh.harvard.edu/fswiki/mri_cvs_register, adjusting the lines for the output files that I obtained from mri_cvs_register. So I called for
createMorph --out fullCVSmorph.tm3d --template MniNick.mgz --subject w_MniNick.mgz --in gcam final_CVSmorph_toSynthF.m3z morph el_reg_toSynthF.mgz and applyMorph --template MniNick.mgz --transform fullCVSmorph.tm3d vol w_MniNick.mgz outputvol.nii trilinear
but I encountered the following output when running createMorph:
setting orig areas to linear transform determinant scaled 1.00 atlas geometry = 256 , 256 , 256 image geometry = 256 , 256 , 256 vox 2 ras atlas = -1.00000 0.00000 0.00000 127.00000; 0.00000 0.00000 1.00000 -145.00000; 0.00000 -1.00000 0.00000 147.00000; 0.00000 0.00000 0.00000 1.00000; ras 2 vox image = -1.00000 -0.00000 -0.00000 90.00000; -0.00000 1.00000 -0.00000 126.00000; -0.00000 -0.00000 1.00000 72.00000; -0.00000 -0.00000 -0.00000 1.00000; product = 1.00000 0.00000 0.00000 -37.00000; 0.00000 0.00000 1.00000 -19.00000; 0.00000 -1.00000 0.00000 219.00000; 0.00000 0.00000 0.00000 1.00000;
transform at origin -37.00000; -19.00000; 219.00000; 1.00000; invalid voxel count = 0 extension = mgz terminate called after throwing an instance of 'std::bad_alloc' what(): std::bad_alloc Aborted (core dumped)
I've searched the mailing list and no similar errors have been reported. The recon-all and mri_cvs_register calls seemed to have correctly terminated. Does anyone have any thoughts on how to trouble-shoot this one?
1) FreeSurfer version: freesurfer-Linux-centos6_x86_64-dev-20161130-24fa2c9 2) Platform: ubuntu 16.04 LTS 3) In the attachment: 3.1) log files of the mri_cvs_register execution; 3.2) log file of the recon-all executions on the moving and fixed images.
Thank you for your consideration.
Stefano.