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The EvoGrid and ChemoGrid:
          Genesis Engines
Driving toward a New Origin of Life
    Bruce Damer, DigitalSpace and Biota.org

 CONTACT 2012-SETI Institute, Mountain View, CA
                 03 30 2012
ET
  How many (if any) are out there?
    How many are on the move?
How did they figure out how to do that?
      And can we do the same?
The Drake Equation (for ETs of the “I Love Lucy” detectable kind)



        where:

         N = the number of civilizations in our galaxy with which communication
        might be possible;

        and

          R* = the average rate of star formation per year in our galaxy
          fp = the fraction of those stars that have planets
          ne = the average number of planets that can potentially support life per star
        that has planets
          fℓ = the fraction of the above that actually go on to develop life at some
        point
          fi = the fraction of the above that actually go on to develop intelligent life
          fc = the fraction of civilizations that develop a technology that releases
        detectable signs of their existence into space
          L = the length of time such civilizations release detectable signals into
        space.[2]
Damer’s extensions to the Drake Equation
         (for ETs of the “boldly go where no ET has gone before” kind)




    where:
         N = the number of civilizations in our galaxy which got up the gumption
      to boldly go out and find the others (ie: In Real Life);

       and
          fv = the fraction of civilizations who sport “visionary geeks”, wacky
       individuals or collectives not solely committed to mundane productivity
       but instead hooked on this “boldly go” escapade
          f$ = the fraction of those civilizations whose visionary geeks are not only
       out of the closet but able to get funding support
          f(t+n) = the fraction of those civilizations who are willing to fund
       visionary geeks for indeterminately long periods of time
          fT = the fraction of the above civilizations that are willing to pay for large
       scale versions of the geeks’ products for a very long time
          fm = the fraction of the above that are able to remember what it was all
       about and handle the end results (or lack of them) in a “mature” way (ie:
       not killing off all the visionary geeks and burning the fleet)
So how do these ET visionary geeks accomplish the
                      Boldly Go Thing?

I postulate that it can and must be done in these seven easy steps…

They have to understand the concept of abstraction (math) as all
good geeks do and that they have to learn how to adapt their brains
and/or build machines to render these abstractions into a simulation
(computing conceptual worlds at many scales)

They have to have acquired understanding of their own evolution
and that ET civilization and innovation can be vastly advanced over
mere tinker-toy fiddling by tapping the power of evolution

They have to then marry the mechanisms of evolution with the tool
of simulation and play around with primordial soups for a while,
proving they can make this work before their grants run out

They then have to decide to apply this magic combination to the
challenge of evolving a viable biota (bio-plasmic or machine or both)
to take them or their replacements out into the universe
They obviously have to have a good working knowledge of the bits
of the universe where they expect to send their “Bio-Universal-
Machine” (BUM) selves

Time to put it all together for our visionary geek ETs: get your BUMs
in simulated gear, fabricate them in atoms and dispatch them to boldly
go forth and multiply

Some (not small) time later… in a parking orbit above Earth, the
ETs honk and wave “yo down there, got anyone crazy enough to be
working on what we just did, if so, send em up!”

    And our visionary geek ETs will have answered the key
                  question of the Universe:
         Are there are other BUMs like us out there?
Now back to SETI
  which is…



       =
Now enter… the EvoGrid
Which is kind of like SETI…
…but turned…
…on its head!
In that the EvoGrid first creates the haystack
          (an origin of life simulation)
           then hopes that a needle
         spontaneously appears in it…




   …and that the needle is found!
Roll tape!
But is this realistic?
    Freeman Dyson: “the simulation
    should be truly ‘messy’, ie: nature is
    not clean and neat as you are showing
    in the movie, cells are more like dirty
    water surrounded by garbage bags”

    -Professor, Institute for Advanced Study
    Princeton, NJNJ
Building life… the hard way
Chemically Recreating the Origins of Life:
           Miller-Urey, 1953
Radically new chemical life cycles
Complex chemical models
Your chemical origins of life computing equipment
But how easy is this going to be?
Penny Boston: “The simulation
must model abstract universes and
not attempt a high fidelity
chemistry model, all that counts is
if you can demonstrate a method
for supporting ever increasing
levels of emergent complexity”

-Associate Professor of Cave and Karst Science
Director, Cave and Karst Studies
Dept of Earth & Environmental Science
New Mexico Tech, Socorro, NM
Boston: “You need this…. to originate and evolve
         complex life (and civilization)”
Model for a minimal cell
How do we get…

From here…   to here?
Protocells must form on their own through
   successive “ratchets” of complexity




           Ref Pierre-Alain Monnard, FLinT
So how to map this computer onto this one?
The EvoGrid: a large central artificial chemistry
 simulation operated upon by analysis clients
The Challenge of Computational Origins of Life Endeavours




Historical antecedents informing the challenge and design of the digital
     simulation of evolution: Barricelli’s numerical symbioorganisms
     (Barricelli, 1953).
EvoGrid Optimization




  Concept of Search
   (fitness function)
    implementing a
Stochastic hill-climbing
  algorithm utilizing
analysis, feedback and
temporal backtracking
Hardware configuration for EvoGrid, first and second small
grids: DigiBarn (2010) and U.C. San Diego (2011)




    Grid1: 2 months operation
        (4 cores average)
Grid2: approx 5 months operation
   (15-30 cores, distribution of
             daemons)
The EvoGrid First Prototype Experiments and Analysis
(teleological end goals)




  Meta-experiment:
  Lots of molecules
  (directed search)




  Meta-experiment:
  Large molecules
  (directed search)
Sample results by “molecular” products




      Experiment #1 (max=60)              Experiment #6 (max=141)


    WebGL 3D viewer depicting snapshot of simulations with current virtual
    molecular products (yields).
Comparison of key experiments and analysis




 Experiment #1: plateau maximum of 60 molecules
 Experiment #6: surmounts serial maxima, eventual plateau at 141 molecules
 (189 at termination of experiment)
Conclusion of EvoGrid Experiments and
Next Steps: the ChemoGrid

•   Stochastic Hill Climbing through the simulation of dissipative
    systems (molecules) can be used to traverse vectors to
    higher complexity more rapidly toward teleological end
    goals
•   Computers are decades from having the capacity to
    simulate chemical volumes in large enough numbers or for
    long enough times to carry out qualified origin of life
    experiments

•   Next Steps: The ChemoGrid, using chemicals to simulate
    themselves in a hybrid between combinatorial chemistry
    and computer and robotically driven search and selection
    and reseeding of small volume chemical experiments
ChemoGrid Concept “Genesis Engine” (physical)
ChemoGrid Concept “Genesis Engine” (physical)
ChemoGrid (logical)
ChemoGrid Prototype (Damer, Summer 2011)
Production ChemoGrid (Deamer-UC Santa Cruz)
The power of (primordial) soups!
PhD Thesis!




Completed after 25 years of on and off work
University College Dublin, 2011
Book derived from Thesis!




Damer, Seckbach and Gordon, eds. (2013)
Actively seeking contributing authors
Back to ET
Brewing up aliens in the EvoGrid, but are they alien?
EvoGrid as a new kind of SETI telescope: where in
the universe might life arise, and what kind?
Or… what alternative universes (physics) would be
conducive to life (is there a continuum?)
Would the EvoGrid be our means to communicate
with ET? A signal lock? If we talk to them via adaptive
virtual creatures will they spare us the bulldozers
building the intergalactic bypass?
If we build the EvoGrid out of quantum computers will
we be able to control the critters’ spread, turn on the
universe?
Ode to a Genesis Engine
Oh Genesis Engine, you great Rube Goldberg machine of the
21st Century, resplendent with all your pumps piping chemical
soups around, your computer eyes scanning for signs of
competing lines of polymer-infused vesicles, and your purring
grids of silicon modeling yields then selecting experiments to be
robotically re-seeded. And inside of you one day, perhaps
decades hence, an alarm will sound in one lone experiment
within your millions of distributed ChemoGrids. A sample will be
rushed for analysis and scientists will emerge breathlessly
declaring that a second genesis has occurred, or rather is in the
course of occurring if time (and budgets) permitted running you
for another thousand years. You will leave us all wondering
what it all means, but it will mark a major moment for our
species, as powerful as when our Earth was first photographed
from space, for thanks to you we will know that we are most
certainly not alone in the Universe, and in some sense, we will
have made CONTACT.
Acknowledgements and Resources




• DigitalSpace EvoGrid Team: www.evogrid.org
• NASA Ames Research Center and other NASA
  Centers and contractor colleagues
• UC San Diego Calit2
• University College Dublin/SMARTLab
• Elixir Technologies Corporation
• Getting in touch: Bruce@Damer.com
Closing Thought

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Bruce Damer's talk at the CONTACT2012 conference (March 30, 2012)

  • 1. The EvoGrid and ChemoGrid: Genesis Engines Driving toward a New Origin of Life Bruce Damer, DigitalSpace and Biota.org CONTACT 2012-SETI Institute, Mountain View, CA 03 30 2012
  • 2. ET How many (if any) are out there? How many are on the move? How did they figure out how to do that? And can we do the same?
  • 3. The Drake Equation (for ETs of the “I Love Lucy” detectable kind) where: N = the number of civilizations in our galaxy with which communication might be possible; and R* = the average rate of star formation per year in our galaxy fp = the fraction of those stars that have planets ne = the average number of planets that can potentially support life per star that has planets fℓ = the fraction of the above that actually go on to develop life at some point fi = the fraction of the above that actually go on to develop intelligent life fc = the fraction of civilizations that develop a technology that releases detectable signs of their existence into space L = the length of time such civilizations release detectable signals into space.[2]
  • 4. Damer’s extensions to the Drake Equation (for ETs of the “boldly go where no ET has gone before” kind) where: N = the number of civilizations in our galaxy which got up the gumption to boldly go out and find the others (ie: In Real Life); and fv = the fraction of civilizations who sport “visionary geeks”, wacky individuals or collectives not solely committed to mundane productivity but instead hooked on this “boldly go” escapade f$ = the fraction of those civilizations whose visionary geeks are not only out of the closet but able to get funding support f(t+n) = the fraction of those civilizations who are willing to fund visionary geeks for indeterminately long periods of time fT = the fraction of the above civilizations that are willing to pay for large scale versions of the geeks’ products for a very long time fm = the fraction of the above that are able to remember what it was all about and handle the end results (or lack of them) in a “mature” way (ie: not killing off all the visionary geeks and burning the fleet)
  • 5. So how do these ET visionary geeks accomplish the Boldly Go Thing? I postulate that it can and must be done in these seven easy steps… They have to understand the concept of abstraction (math) as all good geeks do and that they have to learn how to adapt their brains and/or build machines to render these abstractions into a simulation (computing conceptual worlds at many scales) They have to have acquired understanding of their own evolution and that ET civilization and innovation can be vastly advanced over mere tinker-toy fiddling by tapping the power of evolution They have to then marry the mechanisms of evolution with the tool of simulation and play around with primordial soups for a while, proving they can make this work before their grants run out They then have to decide to apply this magic combination to the challenge of evolving a viable biota (bio-plasmic or machine or both) to take them or their replacements out into the universe
  • 6. They obviously have to have a good working knowledge of the bits of the universe where they expect to send their “Bio-Universal- Machine” (BUM) selves Time to put it all together for our visionary geek ETs: get your BUMs in simulated gear, fabricate them in atoms and dispatch them to boldly go forth and multiply Some (not small) time later… in a parking orbit above Earth, the ETs honk and wave “yo down there, got anyone crazy enough to be working on what we just did, if so, send em up!” And our visionary geek ETs will have answered the key question of the Universe: Are there are other BUMs like us out there?
  • 7. Now back to SETI which is… =
  • 9. Which is kind of like SETI…
  • 12. In that the EvoGrid first creates the haystack (an origin of life simulation) then hopes that a needle spontaneously appears in it… …and that the needle is found!
  • 14.
  • 15. But is this realistic? Freeman Dyson: “the simulation should be truly ‘messy’, ie: nature is not clean and neat as you are showing in the movie, cells are more like dirty water surrounded by garbage bags” -Professor, Institute for Advanced Study Princeton, NJNJ
  • 17.
  • 18. Chemically Recreating the Origins of Life: Miller-Urey, 1953
  • 19. Radically new chemical life cycles
  • 21. Your chemical origins of life computing equipment
  • 22. But how easy is this going to be?
  • 23. Penny Boston: “The simulation must model abstract universes and not attempt a high fidelity chemistry model, all that counts is if you can demonstrate a method for supporting ever increasing levels of emergent complexity” -Associate Professor of Cave and Karst Science Director, Cave and Karst Studies Dept of Earth & Environmental Science New Mexico Tech, Socorro, NM
  • 24. Boston: “You need this…. to originate and evolve complex life (and civilization)”
  • 25. Model for a minimal cell
  • 26. How do we get… From here… to here?
  • 27. Protocells must form on their own through successive “ratchets” of complexity Ref Pierre-Alain Monnard, FLinT
  • 28. So how to map this computer onto this one?
  • 29. The EvoGrid: a large central artificial chemistry simulation operated upon by analysis clients
  • 30. The Challenge of Computational Origins of Life Endeavours Historical antecedents informing the challenge and design of the digital simulation of evolution: Barricelli’s numerical symbioorganisms (Barricelli, 1953).
  • 31. EvoGrid Optimization Concept of Search (fitness function) implementing a Stochastic hill-climbing algorithm utilizing analysis, feedback and temporal backtracking
  • 32. Hardware configuration for EvoGrid, first and second small grids: DigiBarn (2010) and U.C. San Diego (2011) Grid1: 2 months operation (4 cores average) Grid2: approx 5 months operation (15-30 cores, distribution of daemons)
  • 33. The EvoGrid First Prototype Experiments and Analysis (teleological end goals) Meta-experiment: Lots of molecules (directed search) Meta-experiment: Large molecules (directed search)
  • 34. Sample results by “molecular” products Experiment #1 (max=60) Experiment #6 (max=141) WebGL 3D viewer depicting snapshot of simulations with current virtual molecular products (yields).
  • 35. Comparison of key experiments and analysis Experiment #1: plateau maximum of 60 molecules Experiment #6: surmounts serial maxima, eventual plateau at 141 molecules (189 at termination of experiment)
  • 36. Conclusion of EvoGrid Experiments and Next Steps: the ChemoGrid • Stochastic Hill Climbing through the simulation of dissipative systems (molecules) can be used to traverse vectors to higher complexity more rapidly toward teleological end goals • Computers are decades from having the capacity to simulate chemical volumes in large enough numbers or for long enough times to carry out qualified origin of life experiments • Next Steps: The ChemoGrid, using chemicals to simulate themselves in a hybrid between combinatorial chemistry and computer and robotically driven search and selection and reseeding of small volume chemical experiments
  • 37. ChemoGrid Concept “Genesis Engine” (physical)
  • 38. ChemoGrid Concept “Genesis Engine” (physical)
  • 42. The power of (primordial) soups!
  • 43. PhD Thesis! Completed after 25 years of on and off work University College Dublin, 2011
  • 44. Book derived from Thesis! Damer, Seckbach and Gordon, eds. (2013) Actively seeking contributing authors
  • 45. Back to ET Brewing up aliens in the EvoGrid, but are they alien? EvoGrid as a new kind of SETI telescope: where in the universe might life arise, and what kind? Or… what alternative universes (physics) would be conducive to life (is there a continuum?) Would the EvoGrid be our means to communicate with ET? A signal lock? If we talk to them via adaptive virtual creatures will they spare us the bulldozers building the intergalactic bypass? If we build the EvoGrid out of quantum computers will we be able to control the critters’ spread, turn on the universe?
  • 46. Ode to a Genesis Engine Oh Genesis Engine, you great Rube Goldberg machine of the 21st Century, resplendent with all your pumps piping chemical soups around, your computer eyes scanning for signs of competing lines of polymer-infused vesicles, and your purring grids of silicon modeling yields then selecting experiments to be robotically re-seeded. And inside of you one day, perhaps decades hence, an alarm will sound in one lone experiment within your millions of distributed ChemoGrids. A sample will be rushed for analysis and scientists will emerge breathlessly declaring that a second genesis has occurred, or rather is in the course of occurring if time (and budgets) permitted running you for another thousand years. You will leave us all wondering what it all means, but it will mark a major moment for our species, as powerful as when our Earth was first photographed from space, for thanks to you we will know that we are most certainly not alone in the Universe, and in some sense, we will have made CONTACT.
  • 47. Acknowledgements and Resources • DigitalSpace EvoGrid Team: www.evogrid.org • NASA Ames Research Center and other NASA Centers and contractor colleagues • UC San Diego Calit2 • University College Dublin/SMARTLab • Elixir Technologies Corporation • Getting in touch: Bruce@Damer.com