Re: [AMBER] Introducing the exciting next step in MD software development

From: Adrian Roitberg <roitberg.ufl.edu>
Date: Fri, 1 Apr 2016 07:31:02 -0400

On behalf of the Amber developers, I want to come clean about a set of
experiments gone wrong.

We never thought it would go this far, but it is obvious we must stop this.

Dr. Jason Swails is in fact a bot, that started form some early coding
Chris Schafmeister did as a graduate student, written in CLasp. You can
trace this program all the way to the current Google/AI incarnations.

That Jason Swails is not purely human should have been obvious to
everyone. Do you really believed a single human could have written
Parmed AND answer every email to the amber list within 2 minutes. His
name is in fact an anagram, check it out.

Anyways, the story continues when a research group in southern NY state
learned how to incorporate the AI into stem cells, creating a red-headed
embodiment of the program.

As it turns out, the program was so good that it in fact has added
gravity to Amber and its force fields, and indeed, Gomacs is amazing
(yes, there is app for that).

Please contact Dr. Swails directly, he will respond immediately.

Adrian


On 4/1/16 6:32 AM, Jason Swails wrote:
> Hi everyone,
>
> I'm excited to announce the next generation of molecular dynamics software
> suites, which is the result of a complete rewrite of all core routines.
> The impetus behind this effort is Google's new, highly concurrent
> programming language called Go. Sporting lightweight coroutines
> (affectionately called goroutines in the language) with resizeable stacks
> starting at ~2 KB, there is virtually no limit to the parallelism attained
> with this new technology.
>
> Unlike traditional threading models--like POSIX threads (pthreads) and
> OpenMP--goroutines take up little space in memory, meaning that this
> rewrite will be necessary to take advantage of the new CPU architecture
> coming from chip manufacturers that will put hundreds of thousands of CPU
> cores in a single commodity workstation.
>
> Originally rolled out for the Apple operating system and hardware, we are
> calling this new software GoMacs. Gomacs will lead our field into the
> future of computational molecular modeling, allowing us to run simulations
> on the millisecond timescale within just a few days.
>
> Future plans for Gomacs include a Windows port that will make it possible
> to study entire viruses at an unprecedented level of detail.
>
> Wishing you all success in your upcoming research, and an enjoyable weekend,
> Jason
>

-- 
Dr. Adrian E. Roitberg
Professor.
Department of Chemistry
University of Florida
roitberg.ufl.edu
352-392-6972
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Received on Fri Apr 01 2016 - 05:00:04 PDT
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