Hi,
Mac OS X 10.4.10, bash shell
Two installation of GROMACS one using binaries from the gromacs site
(installed in "/usr/local/gromacs") and the other by fink (installed
in "/sw/bin" and other subdirectories of "/sw") give the same result
but here illustrated by the fink installation:
1. GROMACS' programs execute in "/sw/bin" with ./program
2. or in other directories with "/sw/bin/program"
3. otherwise one gets a segmentation fault if only "program" is used
PATH contains ":.:" and ":/sw/bin:" as well as other directories.
/etc/profile also sources "GMXRC.bash" installing "GMX*" stuff in the
environment.
I have experimented with "PATH" deleting, rearranging, or changing
directories always keeping necessary files for GROMACS. The most
consistent predictor of whether a GROMACS' program will execute
without its full path name is the length of the PATH variable-a
little over 500 bytes.
I have looked at system calls with "ktrace" and "kdump" for "luck"
and "x2top" with similar results for both up to SIGSEGV. I have also
compared lines up to SIGSEGV for "luck" with and without the full
path name. The last few lines for the "luck" comparison follow:
as "luck"
1197 luck CALL open(0x3a7b34,0,0x1b6)
1197 luck NAMI "/sw/share/gromacs/top/gurgle.dat"
1197 luck RET open 3
1197 luck CALL close(0x3)
1197 luck RET close 0
1197 luck PSIG SIGSEGV SIG_DFL
as "/sw/bin/luck"
3991 luck CALL open(0x3a8b34,0,0x1b6)
3991 luck NAMI "/sw/share/gromacs/top/gurgle.dat"
3991 luck RET open 3
3991 luck CALL fstat(0x3,0xbfffe6a8)
3991 luck RET fstat 0
3991 luck CALL read(0x3,0x1800800,0x1000)
3991 luck GIO fd 3 read 4096 bytes
.
.
.
continues with a normal exit
Is it possible that "PATH" is stored in some hard coded variable that
fixes its length?
Thanks,
-John Mercer
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