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Hi there,
I am having problem reading the final_CVSmorph_toS131032017_Supine.m3z transform as output of the mri_cvs_register function. I used mri_convert final_CVSmorph_toS131032017_Supine.m3z final_CVSmorph_toS131032017_Supine.nii.gz to convert the transform file to nifti format but what I get it's just a map of zeros.
I have checked any different source of error:
* mri_convert: it works because if I convert /transforms/talairach.m3z to nifti the conversion is successful; * mri_cvs_register: it works because the two images are aligned very well and correspond perfectly; * final_CVSmorph_toS131032017_Supine: it is not empty because if I run mri_convert -at final_CVSmorph_toS131032017_Supine.m3z firstScan/mri/T1.mgz secondScan/mri/T1mine.mgz the result is morphed correctly. So the transform final_CVSmorph_toS131032017_Supine is actually not populated with zeros.
So it could be a problem of type of data: the transform should be indeed populated with very small values, since the difference between the scans even if noticeable, it is very small.
I don't know what to try anymore: I was wondering if you have any suggestion? In summary, the call to mri_cvs_register is successful giving me as output a transform in .m3z format which is not zero. When I try to convert it to nifti file, the transformation results full of zeros.
1) FreeSurfer version: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c 2) Platform: Ubuntu 18.04.3 LTS 3) uname -a: Linux zappst-Q170M-C 5.0.0-29-generic #31~18.04.1-Ubuntu SMP Thu Sep 12 18:29:21 UTC 2019 x86_64 x86_64 x86_64 GNU/LinuxThu Aug 13 22:55:16 UTC 2015 x86_64 x86_64 x86_64 GNU/Linux 4) recon-all.log for only one of the two images registered: see attached 5) mri_cvs_register.log: see attached
Many thanks, Stefano.
Stefano Zappalá Stefano Zappalá PhD Student Myfyrwraig PhD School of Computer Science & Informatics Yr Ysgol Cyfrifiadureg a Gwybodeg Cardiff University Prifysgol Caerdydd 5 The Parade 5 The Parade Cardiff Caerdydd CF24 3AA CF24 3AA Tel: +44 (0)7tel:+44%2029%202087%206070943096049 Ffôn: +44 (0)79tel:+44%2029%202087%20607043096049