On Fri, 2011-04-15 at 15:15 +1000, Mark Abraham wrote: > On 15/04/2011 3:08 PM, bharat gupta wrote: > > Reduicng no. of frames means breaking the simulation into smaller > > frames ... will it affect the result ?? > > You can use trjconv -dt to reduce the number of frames per unit time, > not just chopping into segments. Whether it affects your result is > something only you can answer, because only you know what you are > trying to do. > > Mark >
And if you want to play a little bit around, you can also tell VMD if you want read every step of the xtc file. In the frame section of the molecule file browser, there is an option stride. Increase this number and VMD will read just every n-th step and you can avoid using trjconv for many many times. /Flo > > > > On Thu, Apr 14, 2011 at 10:06 PM, Mark Abraham > > <mark.abra...@anu.edu.au> wrote: > > On 15/04/2011 2:49 PM, bharat gupta wrote: > > Hi, > > > > I have done a simulation of 10ns but while viewing > > the trajectory in VMD I am getting some problems. > > After loading the .gro and .xtc file VMD stops > > working .. I used trjconv to compress the file but > > VMD doesnot read frames from tat file... How can I > > visualize the trajectories?? > > > > > > How do you mean "does not read frames from that file"? Can > > you read an .xtc of one frame? > > > > Maybe VMD is running out of memory. Use trjconv to reduce > > the number of frames and try again. > > > > Mark > > -- > > 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 > > > > > > > > -- > > Bharat > > Ph.D. Candidate > > Room No. : 7202A, 2nd Floor > > Biomolecular Engineering Laboratory > > Division of Chemical Engineering and Polymer Science > > Pusan National University > > Busan -609735 > > South Korea > > Lab phone no. - +82-51-510-3680, +82-51-583-8343 > > Mobile no. - 010-5818-3680 > > E-mail : monu46...@yahoo.com > > > > -- > 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 -- Florian Dommert Dipl. - Phys. Institute for Computational Physics University Stuttgart Pfaffenwaldring 27 70569 Stuttgart EMail: domm...@icp.uni-stuttgart.de Homepage: http://www.icp.uni-stuttgart.de/~icp/Florian_Dommert Tel.: +49 - (0)711 - 68563613 Fax.: +49 - (0)711 - 68563658
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