Yes, delete tksurfer.new.tcl.
We stopped using tksurfer.new.tcl a while before that release and removed
it from the distribution, but unfortunately, our upgrade script did not
erase it. So you probably upgraded an old installation with the 2004
version, and it didn't remove the old tksurfer.new.tcl. tksurfer is
hardcoded to first look for and use tksurfer.new.tcl, then tksurfer.tcl.
This is for 'historical reasons'.
On Sat, 9 Jul 2005 [EMAIL PROTECTED] wrote:
Hi,
I just opened up freesurfer and did some stuff and I got the
following in the logs:
surfer: using interface
/opt/freesurfer_alpha/lib/tcl/tksurfer.new.tcl
The /opt/freesurfer_alpha is correct, but I'm not sure what
the tksurfer.new.tcl is. Inside freesurfer_alpha/lib I've got
a tcl and tcl.new directory. Iniside those folders I've got:
tcl.new/tksurfer.new.tcl
tcl.new/tksurfer.tcl
tcl/tksurfer.new.tcl.020617 tcl/tksurfer.tcl.020318
tcl/tksurfer.tcl tcl/tksurfer.tcl.040219
tcl/tksurfer.new.tcl tcl/tksurfer.tcl.020107
tcl/tksurfer.tcl.120400
But I don't know which of these I should be using. Is there a
way I can check which of these is the correct one? Also, in
which preference file to I tell Freesurfer to look at the
correct tksurfer.tcl file? Thanks very much.
Xander
---- Original message ----
Date: Fri, 8 Jul 2005 17:35:18 -0400 (EDT)
From: Kevin Teich <[EMAIL PROTECTED]>
Subject: Re: [Freesurfer] Problem filling labels
To: Xander Meadow <[EMAIL PROTECTED]>
Actually, I just veried that those are the correct versions
to be used
together.
The only other thing I can think of is that the binary is
finding a
different version of the script. When you run tksurfer, look
for a line of
output that looks like:
surfer: using interface .../tksurfer.tcl
and make sure the .../ part is $FREESURFER_HOME/lib/tcl. Then
make sure
that 'which tksurfer' is pointing to the same $FREESURFER_HOME
installation.
On Fri, 8 Jul 2005, Xander Meadow wrote:
I'm not entirely sure where we got our current version
from. If the easiest
thing to do would be just e-mail me the new script then I
am definitely in
favor of that. I have other machines with freesurfer on
them, and it's
likely they all have this problem, would the easiest thing
to do, be to just
download a new fresh copy of freesurfer from the freesurfer
website? But,
please if it's not too much trouble, send me the new script
so I can install
that and start drawing. Thank you again so much for
helping me with this.
Xander
On Jul 8, 2005, at 3:39 PM, Kevin Teich wrote:
Yes, that version is from 2004, while the script file
you're using is from
2003. Did you get a new version from us at some point? If
so, you should've
gotten a corresponding tksurfer.tcl file. If not, I can
give you one.
On Fri, 8 Jul 2005, Xander Meadow wrote:
freesurfer_alpha/bin/tksurfer --all-info
ProgramName: tksurfer ProgramArguments: --all-info
ProgramVersion: $Name:
$ TimeStamp: 05/07/08-20:36:58-GMT CVS: $Id: tksurfer.c,v
1.61 2004/01/05
20:36:23 fischl Exp $ User: xmeadow Machine: andrew
Platform: Linux
PlatformVersion: 2.6.9-11.ELsmp CompilerName: GCC
CompilerVersion: 29600
Xander
On Jul 8, 2005, at 3:26 PM, Kevin Teich wrote:
Ah, I think the version of tksurfer you are using is
much newer than the
one that should be associated with the script. What do
you get if you
try:
tksurfer --all-info
On Sat, 9 Jul 2005 [EMAIL PROTECTED] wrote:
Hi,
It used to work in the past, but I don't know what
might have
changed. The machines run uptodate each night to stay
current
with Redhat patches, but I'm not sure what might have been
updated right before this stopped working. As for tksurfer
--version
freesurfer_alpha/bin/Linux/tksurfer --version
$
I'm not sure what the means though, as it's not a
number, just
the dollar sign. Does this give you any clues? Thanks so
much for helping me out with this.
Xander
---- Original message ----
Date: Fri, 8 Jul 2005 13:17:45 -0400 (EDT)
From: Kevin Teich <[EMAIL PROTECTED]>
Subject: Re: [Freesurfer] Problem filling labels
To: [EMAIL PROTECTED]
I can't duplicate this at all. Has this ever worked
for you,
or did it
stop working?
Can you give me the output of
tksurfer --version
On Fri, 8 Jul 2005 [EMAIL PROTECTED] wrote:
In the Fill box the one I am trying to use is "Up to and
including boundaries" by itself, but I've also tried
the other
possible combinations in a hope that it would work.
Also,
this error always happens regardless of whatever else
I've
done.
Xander
---- Original message ----
Date: Thu, 7 Jul 2005 17:27:20 -0400 (EDT)
From: Kevin Teich <[EMAIL PROTECTED]>
Subject: Re: [Freesurfer] Problem filling labels
To: Xander Meadow <[EMAIL PROTECTED]>
Cc: freesurfer@nmr.mgh.harvard.edu
What were your settings in the Fill dialog box? Does
this
always happen,
or only with a specific combination of options?
On Thu, 7 Jul 2005, Xander Meadow wrote:
Hi,
I was trying to make an ROI on an inflated surface.
Specifically I can
recreate the error if I:
Mark a bunch of vertices
Create fill boundary
clear all marked vertices
mark a vertex within the filled boundary
then try to fill it.
I did all this via the GUI.
Does this help? Is there anything else I can tell
you that
might help?
Xander
On Jul 7, 2005, at 3:43 PM, Kevin Teich wrote:
Here is the file you requested:
Hm, that appears to be OK. What action were you
performing
when you got the
error?
Can you send me the file:
$FREESURFER_HOME/lib/tcl/tksurfer.tcl
On Thu, 7 Jul 2005 [EMAIL PROTECTED] wrote:
Hi,
I'm having trouble filling labels using
Freesurfer version
0.9(33y). I'm running RedHat Enterprise WS v.4.
I looked
through the mail archives and found that this
problem has
happened in the past, the post is here:
http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg00042.html
I get the same error:
Error: Wrong # args: fill_flood_from_cursor
dont_cross_boundary dont_cross_label dont_cross_cmid
dont_cross_fthresh use_multiple_seeds action
argument
I have a .xdebug_tkmedit if it would help debug this
issue.
Does anyone know what I can do to fix this?
Thank you
very much.
--
Kevin Teich
--
Kevin Teich
--
Kevin Teich
--
Kevin Teich
--
Kevin Teich
--
Kevin Teich
--
Kevin Teich
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