External Email - Use Caution
Dear experts,
I was running mri2mesh command and I got this error:
mris_convert /Users/davidemomi/Desktop/DAVE/sim_fem/fs_subj60/surf/rh.white
/Users/davidemomi/Desktop/DAVE/sim_fem/m2m_subj60/tmp/wm.rh.stl
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
So I've tried to source Freesurfer and run
sudo -E fs_update
But I got another error
rsync -zbrlv --progress --suffix=.1531384527_bak rsync://
surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/patches/freesurfer-Darwin-OSX-stable-pub-v6.0.0-2beb96c/*
/Applications/freesurfer
rsync: failed to connect to surfer.nmr.mgh.harvard.edu: Operation timed out
(60)
rsync error: error in socket IO (code 10) at
/BuildRoot/Library/Caches/com.apple.xbs/Sources/rsync/rsync-52/rsync/clientserver.c(106)
[receiver=2.6.9]
Could you please help me with both errors?
Thanks in advance
Davide
Title: mri2mesh report
==============================
==> mri2mesh started Mon Jul 9 12:40:02 CEST 2018 ...
==============================
command line options: --all subj60 T1w.nii.gz
==============================
==> --brain/--brainf: Preparing GM and WM surfaces ...
==============================
==============================
==> running FreeSurfer recon-all on T1fs! ...
==============================
fslreorient2std T1w.nii.gz /Users/davidemomi/Desktop/DAVE/sim_fem/m2m_subj60/T1fs.nii.gz
flirt -in /usr/local/fsl/data/standard/MNI152_T1_1mm.nii.gz -ref /Users/davidemomi/Desktop/DAVE/sim_fem/m2m_subj60/T1fs.nii.gz -out /Users/davidemomi/Desktop/DAVE/sim_fem/m2m_subj60/tmp/MNIfs_reg
fslroi /Users/davidemomi/Desktop/DAVE/sim_fem/m2m_subj60/T1fs.nii.gz /Users/davidemomi/Desktop/DAVE/sim_fem/m2m_subj60/T1fs_roi 0 256 0 256 0 166
recon-all -i /Users/davidemomi/Desktop/DAVE/sim_fem/m2m_subj60/T1fs_roi.nii.gz -s /Users/davidemomi/Desktop/DAVE/sim_fem/fs_subj60
recon-all -s /Users/davidemomi/Desktop/DAVE/sim_fem/fs_subj60 -all -3T -cubic
==============================
==> Convert WM and GM hemispheres to STL ...
==============================
mris_convert /Users/davidemomi/Desktop/DAVE/sim_fem/fs_subj60/surf/rh.white /Users/davidemomi/Desktop/DAVE/sim_fem/m2m_subj60/tmp/wm.rh.stl
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
error code 134
exiting mri2mesh
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.
