No. It was a new feature added to Amber 12.
On 7/9/13 1:07 AM, "#YIP YEW MUN#" <YIPY0005.e.ntu.edu.sg> wrote:
>But besides AMBER12, do other versions of AMBER accept the aMD input file?
>
>On Tue, Jul 9, 2013 at 7:55 AM, Romelia Salomon <romelia.caltech.edu>
>wrote:
>
>> Hi!!
>> You can run aMD with any AMBER executable (sander, pmemd or pmemd.cuda).
>> You just need to include in your input file the lines specifying the aMD
>> parameters you want to use
>>
>> iamd type of aMD calculation
>> EthreshD threshold energy for the dihedral energy
>> alphaD strength of dihedral boost
>> EthreshP threshold energy for the total potential energy
>> alphaP strength of total potential boost
>>
>>
>> and that is it! Well, you need to run a short regular (no aMD) MD to
>> determine the value for the parameters mentioned above, but that is all
>> (check the manual).
>>
>>
>>
>>
>> > Hi,
>> >
>> > I wish to run a aMD simulation with amber. How can I go about doing
>>it?
>> >
>> > With regards,
>> > Yew Mun
>> >
>> > _______________________________________________
>> > AMBER mailing list
>> > AMBER.ambermd.org
>> > http://lists.ambermd.org/mailman/listinfo/amber
>> >
>>
>>
>> --
>> ****************************************
>> Romelia Salomon
>> Walker Group
>> 398 San Diego Supercomputing Center
>> UC San Diego
>>
>>
>> _______________________________________________
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>> http://lists.ambermd.org/mailman/listinfo/amber
>>
>
>
>
>--
>Regards
>Yip Yew Mun
>Graduate, Masters
>Chemistry and Biological Chemistry
>School of Physical and Mathematical Sciences
>Nanyang Technological University
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Received on Tue Jul 09 2013 - 01:30:04 PDT
