[gmx-developers] glibc + test set failure problems

[Chris Snook]

I am using openSUSE 10.3 and have installed v3.3.2 of gromacs on a P4 system.

On running the test suite using the command "make tests" I get a "glibc
detected" error (see below) followed by the failure of 1 simple test (RP1) and
2 complex tests (acetontrilRF and dec+water). I checked the archives of both
gmx-users and developers mailing lists and found one similar thread in November
2007. The final advice appeared to be reinstall the OS - no further posts. I
reinstalled the OS and reinstalled the program (and fftw3) and got the same
errors. I have been using su level only for the "make install" command.

Does anyone have any advice to deal with this problem(s)?

Thanks in advance

Chris

ERRORS:
make tests
(if test -d "gmxtest"; then cd "gmxtest"; ./gmxtest.pl all; cd ..; \
        else echo "No gmxtest directory found. Please download and unpack it
here.";\
        fi)
*** glibc detected *** mdrun: realloc(): invalid next size: 0x0828b2f8 ***
======= Backtrace: =========
/lib/libc.so.6[0x401614b6]
/lib/libc.so.6[0x401647ed]
/lib/libc.so.6(realloc+0x10a)[0x401651aa]
mdrun[0x812f9fd]
======= Memory map: ========
08048000-0826b000 r-xp 00000000 08:05 1217099    /usr/local/gromacs/bin/mdrun
0826b000-0826c000 r-xp 00222000 08:05 1217099    /usr/local/gromacs/bin/mdrun
0826c000-08272000 rwxp 00223000 08:05 1217099    /usr/local/gromacs/bin/mdrun
08272000-08299000 rwxp 08272000 00:00 0          [heap]
40000000-4001a000 r-xp 00000000 08:05 215263     /lib/ld-2.6.1.so
4001a000-4001c000 rwxp 0001a000 08:05 215263     /lib/ld-2.6.1.so
4001c000-4001e000 rwxp 4001c000 00:00 0
4001e000-40028000 r-xp 00000000 08:05 213501     /lib/libgcc_s.so.1
40028000-4002a000 rwxp 00009000 08:05 213501     /lib/libgcc_s.so.1
4002d000-40040000 r-xp 00000000 08:05 213431     /lib/libnsl-2.6.1.so
40040000-40042000 rwxp 00012000 08:05 213431     /lib/libnsl-2.6.1.so
40042000-40044000 rwxp 40042000 00:00 0
40044000-400d1000 r-xp 00000000 08:05 790306     /usr/lib/libfftw3f.so.3.1.2
400d1000-400d4000 r-xp 0008c000 08:05 790306     /usr/lib/libfftw3f.so.3.1.2
400d4000-400d6000 rwxp 0008f000 08:05 790306     /usr/lib/libfftw3f.so.3.1.2
400d6000-400f9000 r-xp 00000000 08:05 213428     /lib/libm-2.6.1.so
400f9000-400fb000 rwxp 00022000 08:05 213428     /lib/libm-2.6.1.so
400fb000-40228000 r-xp 00000000 08:05 213420     /lib/libc-2.6.1.so
40228000-40229000 r-xp 0012c000 08:05 213420     /lib/libc-2.6.1.so
40229000-4022b000 rwxp 0012d000 08:05 213420     /lib/libc-2.6.1.so
4022b000-4022e000 rwxp 4022b000 00:00 0
4022e000-40241000 r-xp 00000000 08:05 213446     /lib/libpthread-2.6.1.so
40241000-40243000 rwxp 00013000 08:05 213446     /lib/libpthread-2.6.1.so
40243000-40247000 rwxp 40243000 00:00 0
40300000-40321000 rwxp 40300000 00:00 0
40321000-40400000 ---p 40321000 00:00 0
bfebb000-bfed0000 rwxp bfebb000 00:00 0          [stack]
ffffe000-fffff000 r-xp 00000000 00:00 0          [vdso]
sh: line 1:  4592 Aborted                 mdrun > mdrun.out 2>&1
FAILED. Check files in rb1
1 out of 16 simple tests FAILED
FAILED. Check files in acetonitrilRF
FAILED. Check files in dec+water
2 out of 14 complex tests FAILED
All 63 kernel tests PASSED
All 45 pdb2gmx tests PASSED