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Re: [ESPResSo-users] Suddenly energy increases alot

From: roya moghaddasi
Subject: Re: [ESPResSo-users] Suddenly energy increases alot
Date: Tue, 18 Mar 2014 10:29:02 -0700 (PDT)

Dear peter,
Thank you for your answer, I have a question, what do you mean by different warm_up procedure, can you introduce me a source to read more about it and about different method to generate initial state, as well.
Thank you,

On Tuesday, 18 March 2014, 20:50, Peter Košovan <address@hidden> wrote:
Dear Roya,

one possible answer is: simply make your warmup longer. You need to increase the capping gradually until all overlaps settle down to reasonable values. Then your energy should be of a comparable order of magnitude with the number of particles. Your polymers are rather long, so the warmup may take long as well. How quickly it evolves depends on your initial state and on the polymer length.

You could also consider a different warmup procedure, or a more different method to generate your initial state, such that you avoid overlaps.

With regards,


2014-03-18 18:09 GMT+01:00 roya moghaddasi <address@hidden>:
Hello every body,
In my system, there is a cylinder constraint, I assumed a circular ring in the middle of this cylinder, then I put one end of 40 polyelectrolytes on this ring (their distances are equal between each two end of the nearest polymers in the ring), the radius of this ring is 25 and the length of each polymer is 100, the problem is that suddenly the energy of the system extraordinary increases (8e40) and it is mostly because of the lj interactions between polyelectrolytes with each other and between polyelectrolytes and the constraint, after warm_up this energy decreases to(5.7e27), but it is still very high and makes my simulation unphysical, I don't know how to control this high energy and make it lower.
I would appreciate if anyone can help me?

Dr. Peter Košovan

Departmtent of Physical and Macromolecular Chemistry
Faculty of Science, Charles University in Prague, Czech Republic

Katedra fyzikální a makromolekulární chemie
Přírodovědecká fakulta Univerzity Karlovy v Praze
Tel. +420221951290
Fax +420224919752

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