[MINC-users] minctracc glibc error detected

[Mishkin Derakhshan]

Aloha,

For reasons I won't get into here, I am using an older version of minctracc

mni-autoreg version 0.99.2
$ minctracc -version
The program <minctracc> was built from:
Package mni_autoreg 0.99.2, compiled by rotor at romeo (i686-pc-linux-gnu) on
Mon May  8 23:16:34 EDT 2006

minc version 1.4
$ mincinfo -version
program: 1.4
libminc: 1.4
netcdf : 3.6.1 of May 11 2015 21:32:07 $


The problem is that *sometimes* I get core dumps, i.e., on some subjects
but not all. From what I can google from the error, I'm guessing it is an
array out of bounds issue, and I'm also going to guess this was fixed in a
later release of mni-autoreg or minc. Can anyone point me in the right
direction. I'm hoping that maybe I can apply a small patch to minctracc in
0.99.2, recompile it, and then still have a version of minctracc that
produces the same results as 0.99.2 in the cases where it doesn't fail.

Mahalo,
mishkin

Here is a sample command line:
minctracc stx_brain.mnc.gz stx.mnc.gz -model_mask stx_brain_mask.mnc.gz
-transformation stx_analyze2minc_res.xfm -measure stx_brain_xfm_eval.txt
-clobber

Here is the default error/output:
*** glibc detected *** free(): invalid next size (normal): 0x080e0808 ***

Here is the debugging output:
*** glibc detected *** minctracc: free(): invalid next size (normal):
0x08e9e560 ***
======= Backtrace: =========
/lib/libc.so.6(+0x70c91)[0x55657c91]
/lib/libc.so.6(+0x736f1)[0x5565a6f1]
minctracc[0x80a3ea8]
minctracc[0x80501af]
minctracc[0x8051461]
minctracc[0x8053e8c]
minctracc[0x804c06a]
/lib/libc.so.6(__libc_start_main+0xe6)[0x555fdd26]
minctracc[0x8049881]
======= Memory map: ========
08048000-080d5000 r-xp 00000000 00:13 52030078
minctracc
080d5000-080d8000 rw-p 0008d000 00:13 52030078
 minctracc
080d8000-080da000 rw-p 00000000 00:00 0
08e96000-08eee000 rw-p 00000000 00:00 0
 [heap]
55555000-55573000 r-xp 00000000 fd:01 18326
 /lib/ld-2.12.so
55573000-55574000 r--p 0001e000 fd:01 18326
 /lib/ld-2.12.so
55574000-55575000 rw-p 0001f000 fd:01 18326
 /lib/ld-2.12.so
55575000-55576000 r-xp 00000000 00:00 0
 [vdso]
55576000-55577000 rw-p 00000000 00:00 0
55577000-555ab000 r-xp 00000000 00:13 51884124
libnetcdf.so.3.6.1
555ab000-555ac000 rw-p 00034000 00:13 51884124
libnetcdf.so.3.6.1
555ac000-555af000 rw-p 00000000 00:00 0
555bd000-555e5000 r-xp 00000000 fd:01 15234
 /lib/libm-2.12.so
555e5000-555e6000 r--p 00027000 fd:01 15234
 /lib/libm-2.12.so
555e6000-555e7000 rw-p 00028000 fd:01 15234
 /lib/libm-2.12.so
555e7000-55778000 r-xp 00000000 fd:01 3460
/lib/libc-2.12.so
55778000-55779000 ---p 00191000 fd:01 3460
/lib/libc-2.12.so
55779000-5577b000 r--p 00191000 fd:01 3460
/lib/libc-2.12.so
5577b000-5577c000 rw-p 00193000 fd:01 3460
/lib/libc-2.12.so
5577c000-56e45000 rw-p 00000000 00:00 0
56e55000-56e72000 r-xp 00000000 fd:01 12959
 /lib/libgcc_s-4.4.7-20120601.so.1
56e72000-56e73000 rw-p 0001d000 fd:01 12959
 /lib/libgcc_s-4.4.7-20120601.so.1
56f00000-56f21000 rw-p 00000000 00:00 0
56f21000-57000000 ---p 00000000 00:00 0
ffbfd000-ffc13000 rw-p 00000000 00:00 0
 [stack]
Abort (core dumped)