Indeed, I am still using Gromacs-4.5.5, downloaded from gromacs.org on Debian GNU/Linux 6.0.5 (48-core AMD64) with kernel 3.1.1 and patched do_dssp manually as has been done for the newer releases. Works fine with the new dssp-2.0.4 release.
raf On Thu, 2012-06-14 at 13:39 +0200, Erik Marklund wrote: > This issue has been resolved so the next official release of gromacs > will be capacle of using the newer versions of dssp. > > > Erik > > 14 jun 2012 kl. 12.57 skrev Denis Kazakiewicz: > > > Wow, just did that. > > In Debian have to use 4.5.5-2 version of Gromacs from sid > > repository. > > Still have to use the oldest dssp > > http://swift.cmbi.ru.nl/gv/dssp/HTML/dsspcmbi > > > > It was simply Gromacs issue with no ways around. > > And it woks:) > > > > Just wondering, > > What are other efficient ways of analyzing secondary structure > > instead of dssp? (novice question) > > Good luck to everybody > > > > > > On 14.06.2012 11:59, Denis Kazakiewicz wrote: > > > Hello > > > Dear Gromacs users. > > > This is many times discussed issue, however nothing seems to work > > > so far > > > > > > do_dssp returns "Segmentation fault" > > > > > > It is the oldest version of dssp: dsspcmbi > > > Gromacs 4.5.5 on Debian i386 > > > I did use export DSSP=/path to dssp > > > > > > 1. What is possibly could be? > > > 2. Any other efficient ways of analyzing secondary structure > > > without do_dssp (with VMD, may be)? > > > > > > THANKS in advance > > > > -- > > 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 > > > > ----------------------------------------------- > Erik Marklund, PhD > Dept. of Cell and Molecular Biology, Uppsala University. > Husargatan 3, Box 596, 75124 Uppsala, Sweden > phone: +46 18 471 6688 fax: +46 18 511 755 > er...@xray.bmc.uu.se > http://www2.icm.uu.se/molbio/elflab/index.html > > -- 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