Dear Serdar,
you can find the option for reading every nth frame in VMD (default is zero, meaning every frame), when loading the xtc-file into the molecule. If you want to analyse the trajectory and the tool runs out of memory, there is also the possibility to analyze the whole file part by part. Therefore the options -b and -e is included in every gromacs tools set the first and last point in time for analysis, respectively. So you can analyze long trajectories without any problems. Best Regards Flo serdar durdagi wrote: > Dear Florian, > > I want to analyze, trajectory files. So, I need all frames. > > by the way, in VMD is there any option to use every 10th or 20th frame? > > Thanks > > Serdar > > */Florian Dommert <[EMAIL PROTECTED]>/* schrieb: > > > serdar durdagi wrote: > > > Dear all, > > > > I made a simulation with 2.5 ns (with 12500 frames), when I want to > > open this *.xtc file in VMD, it fails. it can read around 50% of > > frames and than complains low virtual memory (actually I am > using a PC > > that has 1GB RAM). > Hello, > > if you just want to watch the movie using vmd, don't use every frame, > when opening the xtc-file. Perhaps every 10th or 20th is enough > and you > won't get out of memory. > > Best Regards > > Flo > > > > > > > Thus, I would like to cut my *.xtc file to small subtrajectory > files. > > In gromacs manual, it says it is possible with trjconv option > together > > with sub. But it's not clear how can I give a command let's say to > > divide my whole trajectory file to 5 subtrajectories. > > > > Thank you very much in advance for your comments. > > > > > > Serdar > > > > > > > > > > > ------------------------------------------------------------------------ > > Nicht vergessen! Am Sonntag, den 11. Mai ist *Muttertag > > * > > Geschenkideen, Gedichte & mehr: www.yahoo.de/muttertag > > . > > > ------------------------------------------------------------------------ > > > > _______________________________________________ > > gmx-users mailing list gmx-users@gromacs.org > > http://www.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 [EMAIL PROTECTED] > > Can't post? Read http://www.gromacs.org/mailing_lists/users.php > > > -- > Florian Dommert > Dipl.-Phys. > > Computational and Theoretical Softmatter & Biophysics group > > Frankfurt Institute for Advanced Studies > Johann-Wolfgang-Goethe University > > Ruth-Moufang-Str. 1 > 60438 Frankfurt am Main > > Phone: +49(0)69 / 798 - 47522 > Fax: +49(0)69 / 798 - 47611 > > EMail: [EMAIL PROTECTED] > Home: http://fias.uni-frankfurt.de/~simbio/Florian_Dommert > > > _______________________________________________ > gmx-users mailing list gmx-users@gromacs.org > http://www.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 [EMAIL PROTECTED] > Can't post? Read http://www.gromacs.org/mailing_lists/users.php > > > ------------------------------------------------------------------------ > Nicht vergessen! Am Sonntag, den 11. Mai ist *Muttertag > <http://www.yahoo.de/muttertag>* > Geschenkideen, Gedichte & mehr: www.yahoo.de/muttertag > <http://www.yahoo.de/muttertag>. > ------------------------------------------------------------------------ > > _______________________________________________ > gmx-users mailing list gmx-users@gromacs.org > http://www.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 [EMAIL PROTECTED] > Can't post? Read http://www.gromacs.org/mailing_lists/users.php -- Florian Dommert Dipl.-Phys. Computational and Theoretical Softmatter & Biophysics group Frankfurt Institute for Advanced Studies Johann-Wolfgang-Goethe University Ruth-Moufang-Str. 1 60438 Frankfurt am Main Phone: +49(0)69 / 798 - 47522 Fax: +49(0)69 / 798 - 47611 EMail: [EMAIL PROTECTED] Home: http://fias.uni-frankfurt.de/~simbio/Florian_Dommert
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