Hi John,
I have tried unlimiting the coredumpsize from a tcsh shell (as I was
indeed using a bash shell and the coredumpsize was limited to 0 kbytes)
but, for some reasons, even if caret crashes no core file gets written out.
All the display functions that I have tried out (rendering surfaces,
overlaying metric maps and so on) seem to work fine. But I couldn't tell
whether the problem is really limited to opening volumes, as I haven't
tried out many other things.
I will try to upgrade the graphic card drivers!
Thanks!
Marco
John Harwell wrote:
Marco,
The creation of a core file may be inhibited. So, make sure you are
running one of the c-shell variances (enter the command /bin/csh or
/bin/tcsh. Enter the command limit. If coredumpsize is anything
but unlimited, do the following:
* Enter the command unlimit coredumpsize.
* Enter limit to verify that coredumpsize is unlimited.
* Run caret by typing ./caret5 but do not use gdb.
* Import the volume to get Caret to crash.
* Relogin.
* Enter the command gdb ./caret5 core.
* Type where at the gdb prompt and send me the output.
Are your able to load a surface into Caret5?
Have you tried updating your graphics card drivers?
John
On Dec 5, 2006, at 10:24 AM, marco tettamanti wrote:
Hi John,
I have downloaded caret5_exe_linux_debug and ran it, but strange things
happened... :-|
1) First, I ran the debug executable as caret5 -notext as you
suggested: I selected File Import, and, wow! caret opened the file. I
did the same
with File Open and it worked. Solved, I thought: must be the freetype
library. So I clicked on the upper right corner to quit Caret and,
whoops, the X session crashed.
2) Second, I started X again, and wanted to replicate this behavior. I
launched the debug caret5 -notext, choose File Import... Well, this time
the X session crashed at this point already.
3) Third, I followed your suggestion and typed gdb ./caret5 (the debug
version), choose File Import and the X session crashed. Unfortunately,
at rebooting there was no core file in the directory from where I
launched caret.
4) I have tried to re-download caret5_exe_linux_debug to check whether
something had gone corrupted during 1), but Caret continued to crash
right after a File Import command.
Thank you again!
Marco
John Harwell wrote:
Hi Marco,
We had a problem similar to this that had to do with the freetype
library that is used to render the stereotaxic coordinates on the
volume display window. I have built a new version of Caret5 for
linux that has an option, -notext, that will prevent Caret5 from
trying to draw any text characters.
* Go to http://brainmap.wustl.edu/pub/john/marco/;. Use the
username pub and the password download to access the website.
* Download the file caret5_exe_linux_debug.zip. This is a big file
since it contains debugging information. If it takes too long to
download, download caret5_exe_linux.zip instead.
* Unzip this file which will produce the caret5 executable. In the
directory where you place the caret5 executable, start it with the
command ./caret5 -notext. Load a volume into Caret and see if
Caret crashes. If Caret does not crash after loading a volume, it
probably means there is a problem with the freetype library on your
computer (perhaps google freetype server crash.
* If Caret still crashes with the -notext option and you downloaded
the debug zip file do the following: Run the command gdb
./caret5. After about 15-30 seconds there will be a gdb prompt and
enter the command run. Load a volume into Caret. When Caret
crashes enter the command where at the gdb and send me the output.
If your X session crashes, log back in, and, in the same directory,
see if there is a file named core. If there is a file named core,
enter the command gdb ./caret5 core. At the gdb prompt, enter the
command where and send me the output.
Good Luck.
--
John Harwell
[EMAIL PROTECTED]
314-362-3467
Department of Anatomy and Neurobiology
Washington University School of Medicine
660 S. Euclid Ave.Box 8108
St. Louis, MO 63110 USA
On Dec 1, 2006, at 8:42 AM, marco tettamanti wrote:
Hi Donna,
I have tried to use File: Open Volume Anatomy and Open Volume
Functional on:
image.hdr
image.HEAD
image.nii
as you suggested, but unfortunately they all cause the X session to
crash.
Thank you for you help!
Best,
Marco
Donna Dierker wrote:
Marco,
Does the problem occur when you use File: Open Volume Anatomy (or
functional) File to open the same file?
If so, does it occur if you convert the file to NIfTI and/or AFNI?
I'm guessing it will (e.g., suggesting a display issue, rather than
a file I/O issue), but it helps to be sure. If you have trouble
converting to another file format, then upload the file here, and
I'll provide you the converted version:
http://pulvinar.wustl.edu/cgi-bin/upload.cgi
On 11/30/2006 04:08 AM, marco tettamanti wrote:
Hi John and Donna,
