Thank you Doug and Louis!! was stuck in something else in the past few days. I will try the new version and let you know if I still have problems viewing the results.
Thanks again! Really appreciate your help!
On Thu, Jul 10, 2014 at 10:57 AM, Louis Nicholas Vinke < vinke@nmr.mgh.harvard.edu> wrote:
Hi Qijing, Under the 'Freeview dev build' section on this wiki page you can download an updated version of freeview.
http://freesurfer.net/fswiki/Download
-Louis
On Mon, 7 Jul 2014, Qijing Yu wrote:
Hi Doug,
By new version, do you mean v5.3.0?
Qijing
On Mon, Jul 7, 2014 at 11:31 AM, Douglas N Greve <
greve@nmr.mgh.harvard.edu>
wrote:
Yea, that is actually a feature in the new version On 07/02/2014 02:17 PM, Joshua S wrote: > Hi all, > I was following the group analysis tutorial when I got an error when > trying to view the uncorrected significance map with freeview. I used > the command "freeview -f$SUBJECTS_DIR/fsaverage/surf/lh.inflated:annot=aparc.annot:overlay=lh.gende r_age.glmdir/lh-Avg-thickness-age-Cor/sig.mgh:overlay_threshold=4,5 > -viewport 3d". I removed the annot_outline=1, because it gave an > error. Sig.mgh would not load, and I would get the attached image. I > tried to manually add sig.mgh through add surface, but the program > immediatley closed, and I got the message in the attached error.log. > Text below. > > Thank you for any help, > Josh > Did not find any volume geometry information in the surface > ???Tgreading colortable from annotation file... > colortable with 36 entries read (originally
/autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan _killiany.txt) > colortable with 36 entries read (originally
/autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan _killiany.txt) > Did not find color table in track volume. > [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#Si
gnal[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 linux-gnu namedfarklemt.nmr.mgh.harvard.edu http://farklemt.nmr.mgh.harvard.edu
by
dc325 Wed Jul 2 11:35:56 2014 [0]PETSC ERROR: Libraries linked from
/autofs/space/lyon_006/pubsw/Linux2-2.3-x86_64/packages/petsc/2.3.3-p13/src /petsc-2.3.3-p13/lib/linux-gnu-c-opt
[0]PETSC ERROR: Configure run at Tue Aug 10 15:01:59 2010 [0]PETSC ERROR: Configure options --with-debugging=no --with-cc=gcc --with-fc=g77 --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
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