VMD-L Mailing List

From: Prithwish Nandi (nandi.prithwish_at_gmail.com)
Date: Fri Aug 13 2021 - 07:59:36 CDT

Hi Ashar,
Thanks for your reply.
Yes, I need this one.
So, this looks like that I need to

In my case, I am using Big Sur version of Mac. How to set it up manually?
Not enough instructions are given in the GitHub link.
Regards,
Prithwish

On Fri, Aug 13, 2021 at 1:21 PM Ashar Malik <asharjm_at_gmail.com> wrote:

> Not all things come pre-packed with VMD.
> Some you have to manually set up.
>
> Is this what you are looking for?
>
> https://urldefense.com/v3/__https://github.com/limresgrp/FMAP_v1__;!!DZ3fjg!ucQU-dGBD9v4j41FeUUzN6qGDAXFzs6zl_o1N0tljX3aeAyPyuzi6uWc32JxS7p1EQ$
>
>
> On Fri, 13 Aug 2021 at 7:43 PM, Prithwish Nandi <nandi.prithwish_at_gmail.com>
> wrote:
>
>> Hi,
>> I have seen a paper and youtube tutorial that describes how to model
>> funnel metadynamics using VMD.
>> Links are here: https://urldefense.com/v3/__https://www.nature.com/articles/s41596-020-0342-4.pdf__;!!DZ3fjg!ucQU-dGBD9v4j41FeUUzN6qGDAXFzs6zl_o1N0tljX3aeAyPyuzi6uWc32I-cNKWmg$
>> <https://urldefense.com/v3/__https://www.nature.com/articles/s41596-020-0342-4.pdf__;!!DZ3fjg!psj6AnfYyjXgd-a5dMzXZMS5zzSQv446klzpbw5u63OMxOJt13K6FpNxcl1mXBtaFQ$>
>>
>> https://urldefense.com/v3/__https://www.youtube.com/watch?v=usalRn6jNQo__;!!DZ3fjg!ucQU-dGBD9v4j41FeUUzN6qGDAXFzs6zl_o1N0tljX3aeAyPyuzi6uWc32IODtxMxw$
>> <https://urldefense.com/v3/__https://www.youtube.com/watch?v=usalRn6jNQo__;!!DZ3fjg!psj6AnfYyjXgd-a5dMzXZMS5zzSQv446klzpbw5u63OMxOJt13K6FpNxcl25KhER_Q$>
>>
>>
>> I am using VMD 1.9.4a in Mac.
>> I couldn't find any such plugin or the video/funnel.tcl script as shown
>> in this youtube video.
>> Has anyone of you ever used funnel metadynamics using VMD?
>>
>> Thanks,
>> Prithwish
>>
>>