hi, I now use gentoo linux with gcc 4.3.4, which has FORTIFY_SOURCE feature.
When I built gromacs 4.0.5 with this gcc, every command, like grompp, pdb2gmx and so on, makes buffer overflow and stoppes immediately. I saw the archives of this mailing list and found this situation was quite similar to the report by Adam on July 6, 2009. Simply summarized like; 1: In some case, commands including gromacs make buffer overflow on Fedora 10. 2: Even in such a case, commands running on gdb seems no problems on Fedora 10. I found these two additional troubles; 3: Commands including gromacs make no problems when I appoint it by absolute path, for example /usr/bin/grompp (in my gentoo box), however in this case, just typing command only "grompp" makes buffer overflow. 4: Super user has no problems to use gromacs in my gentoo box. As it happened I re-build gromacs with the environmental variable CFLAGS="-U_FORTIFY_SOURCE" to turn off the FORTIFY_SOURCE feature, all problems mentioned above seem clear. Can I ask you I should turn off the FORTIFY_SOURCE feature to build and use gromacs with such a gcc version or I can find the other way? Thanks, Yasuyuki Araki _______________________________________________ gmx-users mailing list gmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users Please search the archive at http://www.gromacs.org/search before posting! Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. Can't post? Read http://www.gromacs.org/mailing_lists/users.php
