I have been working on running the pipelines on a new computer which runs on ubuntu18 and when running Freesurfer5.3HCP it crashes like described in this post
https://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/2016-May/045407.html which seems to be a known incompatibility with freesurfer5.3 involving newer versions of perl playing badly with version 5.3 and which has been fixed in version 6.0 (I assume it has because 6.0 seems to work)…..According to Perlbrew this version of Ubuntu can install back to perlv5.4 and I spent several hours trying to force install various versions of perl which predate the glitch (5.0.1, 5.0.3 etc) and none of them are functional on the new ubuntu and this does not fix the problem Freesurfer 6.0 runs basically fine through the system with some basic editing of the freesurferpipeline.sh except for the obvious compatibility problem with mri_make_surfaces in the high res white part which you guys are aware of…obviously I can push this through by editing the high res steps out but this causes a chain effect with making myelin maps, and then steps which require that step for fMRI processing etc Is there a solution for this which doesn’t involve changing operating systems…do versions of the highres white and highres pial scripts exist which will work with V6.0 (even if not perfect) Sent from Mail for Windows 10 _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
