There are significant changes in the most recent OSX release El Capitan and this is one consequence of them (https://en.wikipedia.org/wiki/OS_X_El_Capitan#System_Integrity_Protection). We are currently exploring solutions but as of right now, freesurfer is not fully functional on OS X 10.11
On 10/30/2015 04:45 AM, Knut Jørgen Bjuland wrote: > > Hi > > > When I start freeview form command line on Mac OS X 11.10 it crash with > this error message. Do I miss a file? > > > > freeview -f fsaverage/surf/lh.inflated fsaverage/surf/rh.inflated > > dyld: lazy symbol binding failed: Symbol not found: ___emutls_get_address > > Referenced from: > /Applications/freesurfer/Freeview.app/Contents/MacOS/../Frameworks/libgomp.1.dylib > > Expected in: /usr/lib/libSystem.B.dylib > > > dyld: Symbol not found: ___emutls_get_address > > Referenced from: > /Applications/freesurfer/Freeview.app/Contents/MacOS/../Frameworks/libgomp.1.dylib > > Expected in: /usr/lib/libSystem.B.dylib > > > [0]PETSC ERROR: > ------------------------------------------------------------------------ > > [0]PETSC ERROR: Caught signal number 5 TRAP > > [0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger > > [0]PETSC ERROR: or see > http://www.mcs.anl.gov/petsc/petsc-as/documentation/troubleshooting.html#Signal[0]PETSC > ERROR: or try http://valgrind.org on linux or man libgmalloc on Apple to > find memory corruption errors > > [0]PETSC ERROR: configure using --with-debugging=yes, recompile, link, > and run > > [0]PETSC ERROR: to get more information on the crash. > > [0]PETSC ERROR: --------------------- Error Message > ------------------------------------ > > [0]PETSC ERROR: Signal received! > > [0]PETSC ERROR: > ------------------------------------------------------------------------ > > [0]PETSC ERROR: Petsc Release Version 2.3.3, Patch 13, Thu May 15 > 17:29:26 CDT 2008 HG revision: 4466c6289a0922df26e20626fd4a0b4dd03c8124 > > [0]PETSC ERROR: See docs/changes/index.html for recent updates. > > [0]PETSC ERROR: See docs/faq.html for hints about trouble shooting. > > [0]PETSC ERROR: See docs/index.html for manual pages. > > [0]PETSC ERROR: > ------------------------------------------------------------------------ > > [0]PETSC ERROR: Unknown Name on a darwin12. named > Knuts-MacBook-Pro.local by knutjorgenbjulan Fri Oct 30 09:42:53 2015 > > [0]PETSC ERROR: Libraries linked from > /usr/pubsw/packages/petsc/2.3.3-p13-64b/src/petsc-2.3.3-p13/lib/darwin12.2.0-c-opt > > [0]PETSC ERROR: Configure run at Mon Dec 17 15:29:35 2012 > > [0]PETSC ERROR: Configure options --with-debugging=no --with-cc=gcc > --with-fc=0 --download-f-blas-lapack=0 --download-mpich=1 --with-mpi=1 > --with-x=0 --with-gnu-copyright-code=0 --with-shared=0 COPTFLAGS=-O3 > CXXOPTFLAGS=-O3 FOPTFLAGS=-O3 > > [0]PETSC ERROR: > ------------------------------------------------------------------------ > > [0]PETSC ERROR: User provided function() line 0 in unknown directory > unknown file > > [unset]: aborting job: > > application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0 > > > Knut Jørgen Bjuland > NTNU > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > _______________________________________________ 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.
