Re: [gmx-users] converted topology from amber to gromacs

Thank you very much Justin On Saturday, February 20, 2016 10:53 PM, Justin Lemkul wrote: On 2/20/16 8:49 AM, mohammad r wrote: > Hi Justin, > > Thank you for your answer, I used grompp and it didn't give me error. I've > attached a topology file of my systems. Can

Re: [gmx-users] converted topology from amber to gromacs

On 2/20/16 8:49 AM, mohammad r wrote: Hi Justin, Thank you for your answer, I used grompp and it didn't give me error. I've attached a topology file of my systems. Can you please take a look at this and tell me your opinion? You mean that it doesn't make any problem when after conversion

Re: [gmx-users] converted topology from amber to gromacs

On 2/19/16 3:26 AM, mohammad r wrote: I don't know whether the problem is with the converting process (gromacs topology file doesn't refer to any force filed) or the the process of generating files in amber tools is wrong. Are you getting some specific problem in GROMACS? ParmEd should

[gmx-users] converted topology from amber to gromacs

Hi gromacs users, I've generatedinitial structure of my system by using ambertools (topology andcoordinate files) and converted it to gromacs format (.gro and .top)by parmed, but in topology file it doesn't refer to any forcefield.Does it make any problem in the results or it is ok? Because