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Hi Darinka,
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<div class="">I cannot confirm your problem, although admittedly I have used different software versions (matlab/fieldtrip/freesurfer) etc.</div>
<div class="">The problem seems to occur in read_surf, which is not maintained by us, but comes from the freesurfer folks. Can you confirm that the version of read_surf that the call to ft_read_headshape ends up using is in external/freesurfer?</div>
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<div class="">best wishes,</div>
<div class="">Jan-Mathijs</div>
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<div class="">On 1 May 2019, at 14:56, Darinka Trübutschek <<a href="mailto:darinkat87@gmail.com" class="">darinkat87@gmail.com</a>> wrote:</div>
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<div class="">Dear fieldtrip community,</div>
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<div class="">Sorry for double-posting - my original message somehow seems to have been cut short...</div>
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<div class="">I am currently trying to import cortical surfaces extracted with freesurfer (version: freesurfer-linux-centos7_x86_64-dev-20190403-dacefd1) into Matlab (version: R2018b) using the fieldtrip function ft_read_headshape (version: 20190329). All of
this is run in an Ubuntu 18.04.2 LTS environment. While all of the extracted surfaces seem fine upon visual inspection in freeview, the import into Matlab fails, throwing the following error message:</div>
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<div class="">pial = ft_read_headshape('freesurfer/surf/lh.pial');<br class="">
Error using fread<br class="">
Invalid size.<br class="">
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Error in read_surf (line 72)<br class="">
vertex_coords = fread(fid, vnum*3, 'float32') ;<br class="">
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Error in ft_read_headshape (line 909)<br class="">
[pos, tri] = read_surf(filename);<br class="">
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<div class="">It is most certainly related to the fact that, both for the number of vertices (vnum) and the number of faces (fnum), the function read_surf returns non-sensible (?) values (i.e., vnum = -1.0263e+09 and fnum = -1.0529e+09). The same code produces
no error when run on the same pial surface extracted with a different version of freesurfer (freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c) in a different Ubuntu environment (Ubuntu 16.04 LTS). </div>
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<div class="">As visual inspection in Freeview of the 2 surfaces from the two different Freesurfer versions reveals no obvious differences, I am therefore at a loss as where exactly to start to fix this problem and would be grateful for any help.</div>
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<div class="">Many thanks!</div>
<div class="">Darinka</div>
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<div dir="ltr" class=""><font face="tahoma, sans-serif" class="">Darinka Trübutschek, PhD</font></div>
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<div class="">Department of Experimental Psychology</div>
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<div class=""><font face="tahoma, sans-serif" class="">website: <a href="https://sites.google.com/site/dtruebutschek/" target="_blank" class="">https://sites.google.com/site/dtruebutschek/</a></font></div>
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