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 > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
