On Tue, 2009-09-08 at 21:11 +0900, Yasuyuki Araki wrote: > 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.
The Fedora packages of GROMACS have been compiled with the default Fedora build flags which include -Wp,-D_FORTIFY_SOURCE=2 and no such problems have been encountered. This is both in Fedora 10 and 11, and in RHEL 4 and 5. Maybe your Gentoo is just broken? -- ------------------------------------------------------ Jussi Lehtola, FM, Tohtorikoulutettava Fysiikan laitos, Helsingin Yliopisto jussi.leht...@helsinki.fi, p. 191 50632 ------------------------------------------------------ Mr. Jussi Lehtola, M. Sc., Doctoral Student Department of Physics, University of Helsinki, Finland jussi.leht...@helsinki.fi ------------------------------------------------------ _______________________________________________ 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
