HI, What version of gromacs is this? DSSP changed its syntax a while back and we had to adjust do_dssp accordingly. You may have a mismatch between gromacs and dssp versions.
Erik On 7 Jun 2013, at 08:42, Nur Syafiqah Abdul Ghani <pqah...@gmail.com> wrote: > Hi All, > > I already done the MD production so I want to analyse the helical > structure of my protein by using do_dssp program.The command is like > below : > > do_dssp -s md_water50.tpr -f md_water50.trr -n mainchain.ndx -sc > dssp_scount.xvg -a dssp_area.xvg -ta dssp_totarea.xvg -aa > dssp_averarea.xvg > > but after i run the command the result show like : > > Reading file md_water50.tpr, VERSION 4.5.5 (double precision) > Reading file md_water50.tpr, VERSION 4.5.5 (double precision) > Segmentation fault (core dumped) > > > I already install the dssp program from > ftp://ftp.cmbi.ru.nl/pub/software/dssp/ and follow the instruction as > shown there but it seems that nothing happened..I already gedit the > .bashrc for dssp. > > -- > Best Regards, > > Nur Syafiqah Abdul Ghani, > Theoretical and Computational Chemistry Laboratory, > Department of Chemistry, > Faculty of Science, > Universiti Putra Malaysia, > 43400 Serdang, > Selangor. > alternative email : syafiqahabdulgh...@gmail.com @ gs33...@mutiara.upm.edu.my > -- > 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/Support/Mailing_Lists/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/Support/Mailing_Lists -- 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/Support/Mailing_Lists/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/Support/Mailing_Lists
