[gmx-users] Re: Anomaly in Temperature Behavior

2013-02-04 Thread Andrey Frolov
S. Alireza B wrote > It appears that my solid phase completely melts after 700 ps. Please see > the video below. > http://www.youtube.com/watch?v=6iidpiivVRI&feature=youtu.be > Can I conclude that my solid phase is not really far from the equilibrium > as it does not suddenly melt/collapse? Yes,

[gmx-users] Re: Anomaly in Temperature Behavior

2013-01-23 Thread Andrey Frolov
S. Alireza B wrote > My concern is that at the end of my 0.5 ns NVT run the T is ~300K; > however, > at the first step of my NVE, when no forces has exerted on unfrozen > molecules yet, the T appears to be ~185K! Your explanation of this issue given in the first post sounds very meaningful. From g

[gmx-users] Re: Anomaly in Temperature Behavior

2013-01-22 Thread Andrey Frolov
S. Alireza B wrote > During this run we freeze the solid phase in > all three dimensions. We then take the final configuration of this run, > unfreeze the solid phase, and subject it to a long NVE simulation to study > the dissociation of the solid phase... > > ... the temperature keeps increasing