Hi all,
First, I'd like to take this opportunity to thank you for making such
useful tools freely available.
Now, for my problem -- I have spatially normalized 60 volumes like so:
bet 1421 1421_bet -f 0.5 -g 0
flirt -in avg152T1_brain_lpi -ref 1421_bet -omat avg152_to_1421 -bins
256 -cost corratio -searchrx -90 90 -searchry -90 90 -searchrz -90 90
-dof 12 -interp trilinear
[steps for inverting matrix and applying to volume snipped]
For the two volumes in this gzipped tar archive, however, flirt core
dumps during the flirt step:
[log in to unmask]" target="_blank">http://pub:[log in to unmask]
login pub
password download
The avg152T1_brain_lpi also is included and is just a x-flipped version
of fsl/etc/standard/avg152T1_brain.hdr.
Here is output from gdb, if it proves helpful:
GNU gdb Red Hat Linux (6.3.0.0-0.30.1rh)
Copyright 2004 Free Software Foundation, Inc.
GDB is free software, covered by the GNU General Public License, and you are
welcome to change it and/or distribute copies of it under certain
conditions.
Type "show copying" to see the conditions.
There is absolutely no warranty for GDB. Type "show warranty" for details.
This GDB was configured as "i386-redhat-linux-gnu"...Using host
libthread_db library "/lib/tls/libthread_db.so.1".
Core was generated by `flirt -in avg152T1_brain_lpi -ref 1421_bet -omat
avg152_to_1421 -bins 256 -cost'.
Program terminated with signal 11, Segmentation fault.
Reading symbols from /usr/lib/libstdc++-libc6.2-2.so.3...done.
Loaded symbols for /usr/lib/libstdc++-libc6.2-2.so.3
Reading symbols from /lib/tls/libm.so.6...done.
Loaded symbols for /lib/tls/libm.so.6
Reading symbols from /lib/tls/libc.so.6...done.
Loaded symbols for /lib/tls/libc.so.6
Reading symbols from /lib/libgcc_s.so.1...done.
Loaded symbols for /lib/libgcc_s.so.1
Reading symbols from /lib/ld-linux.so.2...done.
Loaded symbols for /lib/ld-linux.so.2
#0 0x082c4bfd in NEWIMAGE::p_corr_ratio_smoothed ()
(gdb) where
#0 0x082c4bfd in NEWIMAGE::p_corr_ratio_smoothed ()
#1 0x082cfe8c in NEWIMAGE::Costfn::corr_ratio_smoothed ()
#2 0x082c30ac in NEWIMAGE::Costfn::cost ()
#3 0x08093642 in costfn ()
#4 0x08096091 in costfn ()
#5 0x082dc3b9 in MISCMATHS::optimise1d ()
#6 0x082dc860 in MISCMATHS::optimise ()
#7 0x0808ec08 in optimise ()
#8 0x081468bc in optimise_strategy1 ()
#9 0x081bd0eb in usroptimise ()
#10 0x081ddbb2 in interpretcommand ()
#11 0x08208b19 in main ()
(gdb) quit
I'm running Red Hat Enterprise Linux AS release 3 (Taroon Update 5),
2.4.21-32.0.1.ELsmp, on a Dell Precision 450n.
Any ideas for what I might try? This looks like it might be similar to
this problem:
http://www.jiscmail.ac.uk/cgi-bin/webadmin?A2=ind0505&L=FSL&P=R14178&I=-3
Thanks much,
Donna Hanlon
Van Essen Lab
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