Hi Dusan, I just remembered that this is probably due to SIP being enabled on your mac, which blocks libraries stored in /usr. I would suggest disabling SIP and rerunning to see if that fixes things: http://osxdaily.com/2015/10/05/disable-rootless-system-integrity-protection-mac-os-x/
best, Andrew On February 12, 2018 at 10:28:09 AM, Hoopes, Andrew (ahoo...@mgh.harvard.edu<mailto:ahoo...@mgh.harvard.edu>) wrote: Hi Dusan, I’ll take a look at this and get back to you soon. I think this issue is related to the matlab version. best Andrew On February 10, 2018 at 4:27:11 PM, Dusan Hirjak (dusanhir...@hotmail.com<mailto:dusanhir...@hotmail.com>) wrote: Dear Freesurfer Experts, I am currently trying to run LGI. I have the 2017b Matlab version, Mac OS Sierra and I already set up the freesurfer PATH in Matlab. However, I am getting the following error after starting recon all -s localGI : Dusans-MacBook-Pro:NSS_Analysis_01 dusan$ recon-all -s SP002 -localGI Subject Stamp: freesurfer-Darwin-OSX-stable-pub-v6.0.0-2beb96c Current Stamp: freesurfer-Darwin-OSX-stable-pub-v6.0.0-2beb96c INFO: SUBJECTS_DIR is /Applications/freesurfer/subjects/NSS_Analysis_01 Actual FREESURFER_HOME /Applications/freesurfer -rw-rw-r-- 1 dusan wheel 508655 Jul 29 2017 /Applications/freesurfer/subjects/NSS_Analysis_01/SP002/scripts/recon-all.log Darwin Dusans-MBP 16.7.0 Darwin Kernel Version 16.7.0: Thu Jun 15 17:36:27 PDT 2017; root:xnu-3789.70.16~2/RELEASE_X86_64 x86_64 /Applications/freesurfer/subjects/NSS_Analysis_01/SP002/surf #-------------------------------------------- #@# Local Gyrification Index lh Sat Feb 10 21:59:13 CET 2018 \n mris_compute_lgi --i lh.pial \n ================= rm -Rf /Applications/freesurfer/subjects/NSS_Analysis_01/SP002/surf/tmp-mris_compute_lgi-lh.pial ================= ================= mkdir -p /Applications/freesurfer/subjects/NSS_Analysis_01/SP002/surf/tmp-mris_compute_lgi-lh.pial ================= ================= mris_fill -c -r 1 lh.pial /Applications/freesurfer/subjects/NSS_Analysis_01/SP002/surf/tmp-mris_compute_lgi-lh.pial/lh.pial.filled.mgz ================= reading surface from lh.pial... dyld: lazy symbol binding failed: Symbol not found: ___emutls_get_address Referenced from: /Applications/freesurfer/bin/../lib/gcc/lib/libgomp.1.dylib Expected in: /usr/lib/libSystem.B.dylib dyld: Symbol not found: ___emutls_get_address Referenced from: /Applications/freesurfer/bin/../lib/gcc/lib/libgomp.1.dylib Expected in: /usr/lib/libSystem.B.dylib Abort ERROR: mris_fill -c -r 1 lh.pial /Applications/freesurfer/subjects/NSS_Analysis_01/SP002/surf/tmp-mris_compute_lgi-lh.pial/lh.pial.filled.mgz failed! Darwin Dusans-MBP 16.7.0 Darwin Kernel Version 16.7.0: Thu Jun 15 17:36:27 PDT 2017; root:xnu-3789.70.16~2/RELEASE_X86_64 x86_64 Any help would be greatly appreciated! Many thanks, Dusan _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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