But don't you just save the FDR correction to a file then load that in freeview? I imagine the problem has to do with MATLAB changing the way it works on OSX. It doesn't use X11 anymore, unlike on linux (this is supposition). I would say the best bet would be to do the FDR correction in MATLAB, then save it to a file that you can load in Freeview.
hth d On Tue, Sep 15, 2015 at 12:58 PM, Knut Jørgen Bjuland <[email protected]> wrote: > It works from the terminal windows. I start from within Matlab, to get FDR > correction as Freeview do not have it. And I use an FDR correction that uses > data from both hemisphere. I have managed to get it working under Ubuntu > 14.04.3. > > > > On 15 Sep 2015, at 18:49, dgw <[email protected]> wrote: > > Starting Freeview from MATLAB is an odd thing to do. What happens if > you just start freeview normally? > > hth > D > > On Tue, Sep 15, 2015 at 12:21 PM, Knut Jørgen Bjuland > <[email protected]> wrote: > > When I load Freeview developmental version from Freesurver developmental > version from Matlab 2015b. > I used this command to load freeview. > > fdrthresh=sprintf('%s,%s',num2str(lowerfdr),num2str(upperfdr)); > > commandline=sprintf('freeview -f > %s/%s/surf/%s.%s:annot=aparc.annot:annot_outline=1:overlay=%s:overlay_threshold=%s > &',SUBJECTS_DIR,template,hemi,surface,overlayfile,fdrthresh); > > system(commandline) > > > > > I get this error.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 Tue Sep 15 18:16:13 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 > [0]PETSC ERROR: > ------------------------------------------------------------------------ > [0]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation, > probably memory access out of range > [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 Tue Sep 15 18:16:13 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 > > _______________________________________________ > Freesurfer mailing list > [email protected] > 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. 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