[CP2K:7698] Setting up QMMM simulation (much slower than QM part only)
teodor... at gmail.com
Thu Apr 21 04:14:31 UTC 2016
How can you expect that a QM simulation box of 25x25x25 gives the same time of a QMMM simulation where the QM box is 40x40x40?
> On 20 Apr 2016, at 14:18, jonas.va... at uantwerpen.be wrote:
> Hi everybody!
> I am learning to use CP2K and I'm having some troubles with the set-up of my QM/MM simulations. My goal is to simulate the reactions of OH radicals with the central part of cytoglobin (metalloprotein). The central heme-group of the protein, together with an OH radical, make the QM part, whereas the rest of the protein (together with some surrounding water molecules) make the MM part. I first thermalized the structure (MM), and then (as a test) I performed some QM simulations (of only the central heme part + OH radical). I added the input file of this simulation in attachment (qm.inp). Now, I wanted to perform the real QM/MM simulations. However, these simulations run much slower (based on the output .ener file, the time per step increase from ~20s to ~120s) than the previous QM simulations. [I added this input file also in attachment (qmmm.inp).] In both cases I used CP2K version 2.5.1 and used 80 cores.
> I thought the idea of a QMMM simulation was that the speed of the entire simulation was determined by the QM part, so I don't understand what is slowing down my QMMM simulations. I tried a few things (e.g. changing embedding scheme from electrostatic to mechanical embedding), but none of the things I tried seemed to work.
> I hope one of you can tell me what I'm doing wrong, or can guide me to a possible solution.
> Thanks in advance!
> Best wishes,
> Jonas Van der Paal
> University of Antwerp (Belgium)
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