Hi. Try to load in a .gro file of your system first. After that, use the "load data into molecule" option to load in the .xtc.
-----Ursprüngliche Nachricht----- Von: [email protected] [mailto:[email protected]] Im Auftrag von shch406 Gesendet: Mittwoch, 21. November 2012 17:47 An: [email protected] Betreff: [gmx-users] Vizualization with VMD: no image appears Dear Gromacs users To visualize my trajectory with VMD I applied trjconv to .xtc trajectory file to eliminate water molecules and velocities remaining protein coordinates only. However, when I load this reduced file to VMD no image on screen appears, nevertheless VMD have identified the file as a "Gromacs compress trajectory file". What may be the cause of this? The corresponding command is as follows: trjconv -f MT.xtc -o MT.PnoH.xtc skip 1 -n defau.ndx -pbc nojump -novel where MT.xtc contains ~10 frames, defau.ndx is default groups index file. Group 2 (Protein-H) was chosen handling dialog. Merci pour votre collaboration, Igor Shchechkin -- View this message in context: http://gromacs.5086.n6.nabble.com/Vizualization-with-VMD-no-image-appears-tp5003167.html Sent from the GROMACS Users Forum mailing list archive at Nabble.com. -- gmx-users mailing list [email protected] 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 [email protected]. * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists -- gmx-users mailing list [email protected] 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 [email protected]. * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
