Xander and Alex,
The special rh9 dev release is available now to download at:
http://surfer.nmr.mgh.harvard.edu/pub/dist/
Look for the file:
freesurfer-Linux-rh9-dev20050901.tar.gz
The installation readme is:
freesurfer-Linux-rh9-dev20050901.README.txt
You will also need the MINC tools if you don't already have them:
mni-Linux2-2.3-i386.tar.gz
and its readme is:
mni-Linux2-README.txt
Nick
On Fri, 2005-09-02 at 03:33 +0700, xmeadow@uchicago.edu wrote:
Hi,
I downloaded what hopefully is the correct version of blt, and after that ran your script and said everything was fine in terms of libraries. However, I did have to create two soft links. The first one was a softlink from libtix8.1.8.3 to libtix8.1.8.4 in /usr/lib. The second was a softlink from tixwish8.1.8.3 to tixwish8.1.8.4 in /usr/bin. After making both of these changes I was able to run csurf, but when I tried to view an inflated brain the brain image would come up, but then freesurfer freezes and I can't do anything. In the logs I get the following errors:
can't read "glMenuGroups(mg_FieldSignLoaded)": no such varialble surfer: Error sending tcl command tkm_SetMenuItemGroupStatus mg_FieldMaskLoaded 0:
can't read "glMenuGroups(mg_FieldMaskLoaded)": no such variable tksurfer: run tcl script: /tmp/TmpTclSurf.13311
Unfortunately these error messages mean nothing to me, so I was wondering if anyone else had seen them before. Thanks very much.
Xander
---- Original message ----
Date: Thu, 01 Sep 2005 11:08:52 -0400 From: Nick Schmansky nicks@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Lib prob? To: xmeadow@uchicago.edu, "Fornito, Alexander"
Cc: Freesurfer Mailing List freesurfer@nmr.mgh.harvard.edu
Alex and Xander,
From reading the error messages in your emails, it appears that
freesurfer is not able to find the tcl/tk, and tix libraries
on your
platform.
We have been working on trying to provide a seamless solution
to the
problem of freesurfer finding the external libraries upon
which it
depends, on the varied platforms that it supports.
To help, later today, a new 'dev' build for rh9 that includes
many of
the necessary libraries will be posted for download. This is
not a
'stable' release (which is still undergoing testing), but a 'development' (dev) build, so it is still possible to have
installation
problems, but hopefully it will install and work for you. I
will email
you again when it is ready, and your patience is appreciated.
In the meantime, I've attached a script, called
'fs_lib_check', which
will check your system for the libraries that freesurfer
requires. I'm
curious to know the results of its output for your systems.
Just type
'fs_lib_check' to run it, and 'fs_lib_check --help' for help
text.
Nick
On Thu, 2005-09-01 at 17:06 +1000, Fornito, Alexander wrote:
Hi, We've recently installed the
freesurfer-Linux-rh9-dev20050729.tar.gz distribution along with fs_supportlibs.tar.gz.
csurf works ok, but if i try to run tksurfer, I get the
error message below. We'd appreciate any help as we've been stuck for a while.
Thanks!
tksurfer 1000027 rh white surfer: current subjects dir:
/data/flanders/work/alex/freesurfer/subjects
surfer: not in "scripts" dir ==> using cwd for session root surfer: session root data dir ($session) set to: surfer: /data/flanders/work/alex/freesurfer/subjects surfer: Reading header info from
/data/flanders/work/alex/freesurfer/subjects/1000027/mri/T1/COR-.info
INFO: Volume /tmp/mritotal_17663/orig_8_dxyz.mnc cannot be
found.
INFO: Volume /tmp/mritotal_17663/orig_8_dxyz.mnc cannot be
found.
surfer: vertices=152190, faces=304376 surfer: single buffered window Xlib: extension "XFree86-DRI" missing on display ":0.0". Tix_Init failed: version conflict for package "Tcl": have
8.3, need 8.4
surfer: using interface
/usr/local/freesurfer-linux9/lib/tcl/tksurfer.tcl
Reading /usr/local/freesurfer-linux9/lib/tcl/tkm_common.tcl Reading /usr/local/freesurfer-linux9/lib/tcl/tkm_wrappers.tcl Reading /usr/local/freesurfer-linux9/lib/tcl/fsgdfPlot.tcl couldn't load file "/usr/lib/libtix8.1.8.4.so":
/usr/lib/libtix8.1.8.4.so: cannot open shared object file: No such file or directorysurfer: Error sending tcl command UpdateUndoItemLabel "Nothing to Undo":
invalid command name "UpdateUndoItemLabel" surfer: Error sending tcl command
tkm_SetMenuItemGroupStatus mg_OriginalVSetLoaded 1:
can't read "glMenuGroups(mg_OriginalVSetLoaded)": no such
variable
surfer: Error sending tcl command
tkm_SetMenuItemGroupStatus mg_InflatedVSetLoaded 0:
can't read "glMenuGroups(mg_InflatedVSetLoaded)": no such
variable
surfer: Error sending tcl command
tkm_SetMenuItemGroupStatus mg_WhiteVSetLoaded 0:
can't read "glMenuGroups(mg_WhiteVSetLoaded)": no such
variable
surfer: Error sending tcl command
tkm_SetMenuItemGroupStatus mg_PialVSetLoaded 0:
can't read "glMenuGroups(mg_PialVSetLoaded)": no such variable surfer: Error sending tcl command
tkm_SetMenuItemGroupStatus mg_TimeCourseLoaded 0:
can't read "glMenuGroups(mg_TimeCourseLoaded)": no such
variable
surfer: Error sending tcl command
tkm_SetMenuItemGroupStatus mg_OverlayLoaded 0:
can't read "glMenuGroups(mg_OverlayLoaded)": no such variable surfer: Error sending tcl command
tkm_SetMenuItemGroupStatus mg_CurvatureLoaded 0:
can't read "glMenuGroups(mg_CurvatureLoaded)": no such
variable
surfer: Error sending tcl command
tkm_SetMenuItemGroupStatus mg_LabelLoaded 0:
can't read "glMenuGroups(mg_LabelLoaded)": no such variable surfer: Error sending tcl command
tkm_SetMenuItemGroupStatus mg_FieldSignLoaded 0:
can't read "glMenuGroups(mg_FieldSignLoaded)": no such
variable
surfer: Error sending tcl command
tkm_SetMenuItemGroupStatus mg_FieldMaskLoaded 0:
can't read "glMenuGroups(mg_FieldMaskLoaded)": no such
variable
% surfer: Error sending tcl command MoveToolWindow 663 670: invalid command name "MoveToolWindow" surfer: Error sending tcl command MoveToolWindow 663 670: invalid command name "MoveToolWindow" surfer: Error sending tcl command MoveToolWindow 663 670: invalid command name "MoveToolWindow"
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fs_lib_check (4k bytes)