From my experience, Chimera does not seem to be suited for large system analysis, be it a trajectory or just a static structure (pdb, gro) with 100k+ atoms. Try to set the default representation to "wire" in preferences and use trjconv to make the trajectory smaller by skipping every tenth frame or so. Maybe even omit a part of the system (solvent, lipid) if that is feasible. However, these workarounds do not really address the underlying issue, which is that MD analysis does not seem to be exactly Chimera's strong suit (yet?). Therefore, I would suggest you use VMD (Visual Molecular Dynamics), which is a better tool for visualizing large MD trajectories.
Best, Matej ------------------------------------------------------ Dr. Matej Repic Ecole Polytechnique Fédérale de Lausanne Laboratory of Computational Chemistry and Biochemistry SB - ISIC LCBC BCH 4108 CH - 1015 Lausanne ------------------------------------------------------ On 6/10/15, 06:41, "MPI" <mpi566@gmail.com> wrote:
Dear Users,
I use the lastest version of Chimera to read trajectory (.xtc) files output from Gromacs ver 4.6.5. When a .xtc file size larger than 2GB in most cases and 1GB in some cases, Chimera gets choked and crashed. When a .xtc file size < 1GB, Chimera works very well.
I wonder if this is a limitation for reading Gromacs trajectory files. Is there a solution ?
Thank you. Dewey _______________________________________________ Chimera-users mailing list Chimera-users@cgl.ucsf.edu http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users