Try using mris_apply_reg. The command line is simpler (but otherwise gives the same result).
On 12/06/2018 11:44 AM, Sanfelici, Rachele wrote:
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Dear FreeSurfer experts,
I am encountering a problem when trying to downsample to fsaverage6 with FreeSurfer v.6.(see below):
mri_surf2surf --srcsubject MRI_sMRI_fs_reconall_fs_reconall_gcv6s --srchemi lh --srcsurfreg fsaverage6.sphere.reg --trgsubject fsaverage6 --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.70069/MRI_sMRI_fs_reconall_fs_reconall_gcv6s.1.mgh --sval /Data/48/MRI_sMRI_fs_reconall_fs_reconall_gcv6s/surf/lh.pial_lgi --sfmt curv --noreshape --cortex
srcsubject = MRI_sMRI_fs_reconall_fs_reconall_gcv6s srcval =/Data/48/MRI_sMRI_fs_reconall_fs_reconall_gcv6s/surf/lh.pial_lgi srctype = curv trgsubject = fsaverage6 trgval = ./tmp.mris_preproc.70069/MRI_sMRI_fs_reconall_fs_reconall_gcv6s.1.mgh trgtype = srcsurfreg = fsaverage6.sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /Data/48/MRI_sMRI_fs_reconall_fs_reconall_gcv6s/surf/lh.fsaverage6.sphere.reg No such file or directory
I guess it's because the naming of the sphere file is now different compared to v.5.3 (it was sufficient to run recon-all with the additional -qcache -target fsaverage6 flag), so it can't be found by mri_surf2surf. I tried to run mris_preproc instead of recon-all but I still get the same error. Could you please help me with the right command?
Thank you very much in advance!
Best Rachele
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