thanks - dynamical systemscds.caltech.edu/~doyle/wiki/images/7/76/1_doylesagelec1_may7_20… ·...
TRANSCRIPT
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Universal laws and architecture 1:
Theoretical foundations for complex networks relevant to biology, medicine, and
neuroscience?
John Doyle
John G Braun Professor
Control and Dynamical Systems, EE, BE
Caltech
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Outline
• Human complexity, robustness, fragility • Neuro motivation • Laws, tradeoffs, constraints, hard limits • Human evolution • Organized vs disorganized complexity • Emergulent chaocritiplexity
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Thanks
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Lectures
1) Concrete motivation
2-3) Universal laws and architectures*
4) A teensy bit of math
*have you ever heard of anything more pretentious?
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Seriously?
1) Irresponsible speculation
(Feedback from audience)
2-3) Slightly less speculative?
4) A teensy bit of math?
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Fast,
Limited
scope
Slow,
Broad
scope
Com
ms
Dis
turb
a
nce
Plant
Remote
Sensor
Sensor
Actuator
Interface
Existing design frameworks
• Sophisticated components
• Poor integration
• Limited theoretical framework
Fix?
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Lectures
1) Concrete motivation
2-3) Universal laws and architectures
4) A teensy bit of math
A rant
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“Universal laws and architectures?”
• Theoretical foundations for complex systems
• Universal “conservation laws” (constraints)
• Universal architectures (constraints that deconstrain)
• Mention recent papers*
• Focus on broader context not in papers
• Lots of case studies for motivation
*try to get you to read them?
A rant
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This paper aims to bridge progress in neuroscience involving
sophisticated quantitative analysis of behavior, including the use
of robust control, with other relevant conceptual and theoretical
frameworks from systems engineering, systems biology, and
mathematics.
Doyle and Csete, Proc Nat Acad Sci USA, JULY 25 2011
Very accessible No math
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Robust Fragile
Human complexity
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Robust Fragile
Human complexity
Metabolism
Regeneration & repair
Healing wound /infect
Obesity, diabetes
Cancer
AutoImmune/Inflame
Start with physiology
Lots of triage
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Robust
Benefits
Metabolism
Regeneration & repair
Healing wound /infect
Efficient
Mobility
Survive uncertain food supply
Recover from moderate trauma
and infection
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Robust Fragile
Mechanism?
Metabolism
Regeneration & repair
Healing wound /infect
Fat accumulation
Insulin resistance
Proliferation
Inflammation
Obesity, diabetes
Cancer
AutoImmune/Inflame
Fat accumulation
Insulin resistance
Proliferation
Inflammation
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Robust Fragile
What’s the difference?
Metabolism
Regeneration & repair
Healing wound /infect
Obesity, diabetes
Cancer
AutoImmune/Inflame
Fat accumulation
Insulin resistance
Proliferation
Inflammation
Controlled
Dynamic
Uncontrolled
Chronic
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Controlled
Dynamic
Low mean
High variability
Fat accumulation
Insulin resistance
Proliferation
Inflammation
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Controlled
Dynamic
Uncontrolled
Chronic
Low mean
High variability
High mean
Low variability
Fat accumulation
Insulin resistance
Proliferation
Inflammation
Death
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Robust Fragile
Restoring robustness?
Metabolism
Regeneration & repair
Healing wound /infect
Obesity, diabetes
Cancer
AutoImmune/Inflame
Fat accumulation
Insulin resistance
Proliferation
Inflammation
Controlled
Dynamic
Uncontrolled
Chronic
Low mean
High variability
High mean
Low variability
Fat accumulation
Insulin resistance
Proliferation
Inflammation
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Robust Yet Fragile
Human complexity
Metabolism
Regeneration & repair
Immune/inflammation
Microbe symbionts
Neuro-endocrine
Complex societies
Advanced technologies
Risk “management”
Obesity, diabetes
Cancer
AutoImmune/Inflame
Parasites, infection
Addiction, psychosis,…
Epidemics, war,…
Disasters, global &!%$#
Obfuscate, amplify,…
Accident or necessity?
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Robust Fragile Metabolism
Regeneration & repair
Healing wound /infect
Obesity, diabetes
Cancer
AutoImmune/Inflame Fat accumulation
Insulin resistance
Proliferation
Inflammation
• Fragility Hijacking, side effects, unintended…
• Of mechanisms evolved for robustness
• Complexity control, robust/fragile tradeoffs
• Math: robust/fragile constraints (“conservation laws”)
Accident or necessity?
Both
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fragile
robust
Some features robust to some perturbations
Other features or other
perturbations
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fragile
robust
Some features robust to some perturbations
Other features or other
perturbations
Increased complexity?
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xor
Robust
Modular
Simple
Plastic
Evolvable
Fragile
Distributed
Complex
Frozen
Frozen
and
tradeoffs
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weak
fragile
slow
strong
robust
fast
Human evolution
Apes
How is this progress?
hands feet skeleton muscle skin gut long helpless childhood
All very different.
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essential: 230
nonessential: 2373
unknown: 1804
total: 4407
http://www.shigen.nig.ac.jp/ecoli/pec
Gene networks?
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Brakes
Airbags
Seatbelts
Mirrors Wipers
Headlights
Steering
GPS Radio
Shifting Traction control
Anti-skid
Electronic ignition
Electronic fuel injection
Temperature control
Cruise control
Bumpers Fenders
Suspension (control)
Seats
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Brakes
Airbags
Seatbelts
Mirrors Wipers
Headlights
Steering
GPS Radio
Shifting Traction control
Anti-skid
Electronic ignition
Electronic fuel injection
Temperature control
Cruise control
Bumpers Fenders
Suspension (control)
Seats
Knockouts often lose robustness,
not minimal functionality
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• Lots from cell biology – glycolytic oscillations for hard limits
– bacterial layering for architecture
• Networking and “clean slate” architectures – wireless end systems
– info or content centric application layer
– integrate routing, control, scheduling, coding,
caching
– control of cyber-physical
– PC, OS, VLSI, antennas, etc (IT components)
my case
studies
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• Cell biology
• Networking &“clean slate” architectures
• Neuroscience
• Medical physiology
• Smartgrid, cyber-phys
• Wildfire ecology • Earthquakes
• Lots of aerospace
• Physics:
– turbulence,
– stat mech (QM?)
• “Toy”:
– Lego,
– clothing,
– buildings, …
my case
studies
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Feathers
and
flapping? Or lift, drag, propulsion,
and control?
The dangers of
naïve biomemetics
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Getting it (W)right, 1901
• “We know how to construct airplanes...” (lift and drag)
• “… also know how to build engines.” (propulsion)
• “When... balance and steer[ing]... has been worked
out, the age of flying will have arrived, for all other
difficulties are of minor importance.” (control)
Wilbur Wright on Control, 1901 (First powered flight, 1903)
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Feathers
and
flapping?
Lift, drag, propulsion,
and control?
Universals?
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• Complexity control, robust/fragile tradeoffs
• Fragility Hijacking, side effects, unintended…
• Of mechanisms evolved for robustness
• Math: robust/fragile constraints (“conservation laws”)
Accident or necessity?
Both
Universals?
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Meta-layers
Fast,
Limited
scope
Slow,
Broad
scope
Which blue line is longer?
“Seeing is dreaming?”
“Seeing is believing?”
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sense
move Spine
delay=death
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Vestibulo-
ocular
reflex
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Fast
Slow
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Act
Ac
Fast
Slow
Sense Act
Sense
Move
head
Move
hand
Slow
Fast?
Same actuators
Delay is limiting
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Act
Ac
Fast
Slow
Sense Act
Sense
Move
head
Move
hand
Slow Fast?
Same actuators
Delay is limiting
Versus standing on one leg
• Eyes open vs closed
• Contrast
− young surfers
− old football players
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sense
move Spine
delay=death
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sense
move Spine
Reflex
Reflect
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sense
move Spine
Reflex
Reflect
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sense
move Spine
Reflect
Reflex
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move
Reflect
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sense
move Spine
Reflect
Reflex
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Physiology
Organs
Layered architectures (cartoon)
Cells
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sen
se
mo
ve
Spin
e
Ref
lect
Ref
lex
Prediction
Goals
Actions
errors
Actions
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Physiology
Organs
Meta-layers cartoon
Prediction
Goals
Actions
errors
Actions Co
rte
x
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Visual
Cortex Visual
Thalamus
10x
?
There are 10x
feedback neurons
Why?
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Visual
Cortex Visual
Thalamus
?
There are 10x
feedback neurons
Physiology
Organs
Prediction
Goals
Actions
errors
Actions
Prediction
Goals
Conscious
perception
10x
Why?
What are the consequences?
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3D +time
Simulation
Seeing is dreaming
Conscious perception
Conscious perception Zzzzzz…..
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Same size?
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Same size
![Page 58: Thanks - Dynamical Systemscds.caltech.edu/~doyle/wiki/images/7/76/1_DoyleSageLec1_May7_20… · resilient responsive reusable safety scalable seamless self-sustainable serviceable](https://reader033.vdocuments.us/reader033/viewer/2022060500/5f1aa876f6f7e4429702388a/html5/thumbnails/58.jpg)
Same size
![Page 59: Thanks - Dynamical Systemscds.caltech.edu/~doyle/wiki/images/7/76/1_DoyleSageLec1_May7_20… · resilient responsive reusable safety scalable seamless self-sustainable serviceable](https://reader033.vdocuments.us/reader033/viewer/2022060500/5f1aa876f6f7e4429702388a/html5/thumbnails/59.jpg)
Same size
Even when you “know” they are
the same, they appear different
Toggle between this slide and
the ones before and after
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Same size?
Vision: evolved for complex
simulation and control, not
2d static pictures
Even when you “know” they are
the same, they appear different
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3D +time
Simulation
+ complex
models
(“priors”)
Seeing is dreaming
Conscious perception
Conscious perception
Zzzzzz…..
![Page 62: Thanks - Dynamical Systemscds.caltech.edu/~doyle/wiki/images/7/76/1_DoyleSageLec1_May7_20… · resilient responsive reusable safety scalable seamless self-sustainable serviceable](https://reader033.vdocuments.us/reader033/viewer/2022060500/5f1aa876f6f7e4429702388a/html5/thumbnails/62.jpg)
3D +time
Simulation
+ complex
models
(“priors”)
Seeing is dreaming
Conscious perception
Conscio
us
pe
rce
ptio
n
Prediction
errors
![Page 63: Thanks - Dynamical Systemscds.caltech.edu/~doyle/wiki/images/7/76/1_DoyleSageLec1_May7_20… · resilient responsive reusable safety scalable seamless self-sustainable serviceable](https://reader033.vdocuments.us/reader033/viewer/2022060500/5f1aa876f6f7e4429702388a/html5/thumbnails/63.jpg)
3D +time
Simulation
+ complex
models
(“priors”)
Seeing is dreaming
Conscious perception
Conscio
us
pe
rce
ptio
n
Prediction
errors
Seeing is believing
![Page 64: Thanks - Dynamical Systemscds.caltech.edu/~doyle/wiki/images/7/76/1_DoyleSageLec1_May7_20… · resilient responsive reusable safety scalable seamless self-sustainable serviceable](https://reader033.vdocuments.us/reader033/viewer/2022060500/5f1aa876f6f7e4429702388a/html5/thumbnails/64.jpg)
3D +time
Simulation
+ complex
models
(“priors”)
Seeing is dreaming
Conscious perception
Conscio
us
pe
rce
ptio
n
Prediction
errors
Seeing is believing
Our most
integrated
perception
of the
world
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Which blue line is longer?
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Which blue line is longer?
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Which blue line is longer?
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Which blue line is longer?
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Which blue line is longer?
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Which blue line is longer?
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Which blue line is longer?
With social
pressure, this one.
Standard social psychology experiment.
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Chess experts
• can reconstruct entire
chessboard with < ~ 5s
inspection
• can recognize 1e5 distinct
patterns
• can play multiple games
blindfolded and simultaneous
• are no better on random
boards
(Simon and Gilmartin, de Groot)
www.psywww.com/intropsych/ch07_cognition/expertise_and_domain_specific_knowledge.html
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When needed, even wasps can do it.
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• Polistes fuscatus can differentiate among normal wasp
face images more rapidly and accurately than nonface
images or manipulated faces.
• Polistes metricus is a close relative lacking facial
recognition and specialized face learning.
• Similar specializations for face learning are found in
primates and other mammals, although P. fuscatus
represents an independent evolution of specialization.
• Convergence toward face specialization in distant taxa
as well as divergence among closely related taxa with
different recognition behavior suggests that specialized
cognition is surprisingly labile and may be adaptively
shaped by species-specific selective pressures such as
face recognition.
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Fig. 1 Images used for training wasps.
M J Sheehan, E A Tibbetts Science 2011;334:1272-1275
Published by AAAS
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Meta-layers
Fast,
Limited
scope
Slow,
Broad
scope
Unfortunately, we’re not
sure how this all works.
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3D +time
Simulation
+ complex
models
(“priors”)
Seeing is dreaming
Conscious perception
Conscious perception
Zzzzzz…..
![Page 81: Thanks - Dynamical Systemscds.caltech.edu/~doyle/wiki/images/7/76/1_DoyleSageLec1_May7_20… · resilient responsive reusable safety scalable seamless self-sustainable serviceable](https://reader033.vdocuments.us/reader033/viewer/2022060500/5f1aa876f6f7e4429702388a/html5/thumbnails/81.jpg)
3D +time
Simulation
+ complex
models
(“priors”)
Seeing is dreaming
Conscious perception
Conscio
us
pe
rce
ptio
n
Prediction
errors
Seeing is believing
Our most
integrated
perception
of the world
![Page 82: Thanks - Dynamical Systemscds.caltech.edu/~doyle/wiki/images/7/76/1_DoyleSageLec1_May7_20… · resilient responsive reusable safety scalable seamless self-sustainable serviceable](https://reader033.vdocuments.us/reader033/viewer/2022060500/5f1aa876f6f7e4429702388a/html5/thumbnails/82.jpg)
Physiology
Organs
Prediction
Goals
Actions
errors
Actions
Conscious perception
Prediction
Goals
Conscious perception
But ultimately, only actions matter.
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wasteful
fragile
efficient
robust
Want to understand the space of systems/architectures
Want robust and efficient systems and architectures
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Where we are going
• Human’s have huge capacity for flexibility, to
learn and adapt
• High skill is highly automated but less flexible
• Mammalian NS seems highly organized to
reduce delays in motor control
• Tradeoff between flexibility and delay
• Building on Turing and recent results in control
theory to understand the speed/flexibility tradeoff
and the mind/brain architecture
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• Acquire
• Translate/
integrate
• Automate
Sensory Motor
Prefrontal
Striatum
Slow
Flexible Learning
Ashby & Crossley
Thanks to
Bassett & Grafton
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• Acquire
• Translate/
integrate
• Automate
Sensory Motor
Prefrontal
Striatum
Fast
Inflexible
Ashby & Crossley
Slow
Flexible
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• Acquire
• Translate/
integrate
• Automate
Sensory Motor
Prefrontal
Striatum
Fast
Inflexible
Build on Turing to show what is
necessary to make this work.
Reflex
Slow
Flexible
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• Acquire
• Translate/
integrate
• Automate Reflex
Wolpert, Grafton, etc
Brain as optimal controller
robust
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What I’m not going to talk about
• Connections between robustness and risk
sensitivity
• Asymmetry between false positives and
negatives
• Risk aversion and risk seeking
• Uncertainty is more in models than in
probabilities
• Life is not like a casino
All very important but triaged because of time
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Going beyond black box: control is
decentralized with internal delays.
Huge theory progress in last
decade, year, mo., …
4 lecture(after break) - Andy Lamperski
- Nikolai Matni
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Sensory Motor
Prefrontal
Striatum Slow
Flexible
Going beyond black box: control is
decentralized with internal delays.
Reflex
Fast
Inflexible
Mammal NS
seems organized
to reduce delays
in motor control
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accessible accountable accurate adaptable administrable affordable auditable autonomy available credible process
capable compatible composable configurable correctness customizable debugable degradable determinable demonstrable
dependable deployable discoverable distributable durable effective efficient evolvable extensible failure transparent fault-tolerant fidelity flexible inspectable installable Integrity interchangeable interoperable learnable maintainable
manageable mobile modifiable modular nomadic operable orthogonality portable precision predictable producible provable recoverable relevant reliable repeatable reproducible resilient responsive reusable robust
safety scalable seamless self-sustainable serviceable supportable securable simplicity stable standards
compliant survivable sustainable tailorable testable timely traceable ubiquitous understandable upgradable usable
Requirements on systems and architectures
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accessible accountable accurate adaptable administrable affordable auditable autonomy available credible process
capable compatible composable configurable correctness customizable debugable degradable determinable demonstrable
dependable deployable discoverable distributable durable effective efficient evolvable extensible failure transparent fault-tolerant fidelity flexible inspectable installable Integrity interchangeable interoperable learnable maintainable
manageable mobile modifiable modular nomadic operable orthogonality portable precision predictable producible provable recoverable relevant reliable repeatable reproducible resilient responsive reusable robust
safety scalable seamless self-sustainable serviceable supportable securable simple stable standards
compliant survivable sustainable tailorable testable timely traceable ubiquitous understandable upgradable usable
Simplified, minimal requirements
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accessible accountable accurate adaptable administrable affordable auditable autonomy available credible process
capable compatible composable configurable correctness customizable debugable degradable determinable demonstrable
dependable deployable discoverable distributable durable effective
evolvable extensible failure transparent fault-tolerant fidelity flexible inspectable installable Integrity interchangeable interoperable learnable maintainable
manageable mobile modifiable modular nomadic operable orthogonality portable precision predictable producible provable recoverable relevant reliable repeatable reproducible resilient responsive reusable
safety scalable seamless self-sustainable serviceable supportable securable
stable standards
compliant survivable
tailorable testable timely traceable ubiquitous understandable upgradable usable
Requirements on systems and architectures
efficient
robust
simple
sustainable
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Requirements on systems and architectures
efficient
robust
sustainable
simple
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Requirements on systems and architectures
efficient
robust
sustainable
simple
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Requirements on systems and architectures
efficient
robust
simple
sustainable fragile
wasteful
complex
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Requirements on systems and architectures
efficient
robust simple
sustainable
fragile
wasteful
complex
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wasteful
fragile
efficient
robust
Want to understand the space of systems/architectures
Case studies?
Strategies?
Architectures? Want robust and efficient systems and architectures
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Amory B. Lovins,
Reinventing Fire
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Very accessible No math
I’m interested in fire…
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Accessible ecology UG math
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Wildfire ecosystem as ideal example
• Cycles on years to decades timescale
• Regime shifts: grass vs shrub vs tree
• Fire= keystone “specie” – Metabolism: consumes vegetation
– Doesn’t (co-)evolve
– Simplifies co-evolution spirals and metabolisms
• 4 ecosystems globally with convergent evo – So Cal, Australia, S Africa, E Mediterranean
– Similar vegetation mix
– Invasive species
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wasteful efficient
Today 2050
“Physics”
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Future evolution of the “smart” grid?
efficient
robust
fragile
wasteful
Now
Future?
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wasteful
fragile
robust
efficient
At best we
get one
Current
Technology?
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wasteful
fragile
robust
efficient
Often
neither
???
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Bad
theory?
???
?
?
Bad
architectures?
wasteful
fragile
gap?
robust
efficient
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wasteful
fragile
robust
efficient
Universal law?
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.1%
1%
10%
100%
http://phe.rockefeller.edu/Daedalus/Elektron/
F Efficiency
Exponential improvement
in efficiency F
log F
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.1%
1%
10%
100%
http://phe.rockefeller.edu/Daedalus/Elektron/
F Efficiency
When will lamps be 200% efficient?
Exponential
improvement
Note: this
is real data!
Solving all
energy
problems?
log F
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.1%
1%
10%
50%
http://phe.rockefeller.edu/Daedalus/Elektron/
1
F
F
F Efficiency
Oops… never.
Note: need to
plot it right.
When will lamps be 200% efficient?
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.1%
1%
10%
100%
http://phe.rockefeller.edu/Daedalus/Elektron/
F Efficiency
Doyle’s law?
Exponential
improvement
log F
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.1%
1%
10%
100%
F Efficiency
Universal law
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wasteful efficient
Universal law?
100%
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fragile
robust
Some features robust to some perturbations
Other features or other
perturbations
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Case studies
wasteful
fragile
Sharpen hard bounds
laws and
architectures?
efficient
robust
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Control, OR Comms
Compute Physics
Shannon Bode
Turing
Godel
Einstein
Heisenberg
Carnot
Boltzmann
Theory? Deep, but fragmented, incoherent, incomplete
Nash
Von Neumann
Kalman
Pontryagin
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Control Comms
Compute Physics
Shannon Bode
Turing
Godel
Einstein
Heisenberg
Carnot
Boltzmann
wasteful?
fragile?
slow?
?
• Each theory one dimension
• Tradeoffs across dimensions
• Assume architectures a priori
• Progress is encouraging, but…
• Stovepipes are an obstacle…
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Compute
Turing (1912-1954)
• Turing 100th birthday in 2012
• Turing
− machine (math, CS)
− test (AI, neuroscience)
− pattern (biology)
• Arguably greatest*
− all time math/engineering combination
− WW2 hero
− “invented” software
*Also world-class runner.
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Key papers/results
• Theory (1936): Turing machine (TM), computability, (un)decidability, universal machine (UTM)
• Practical design (early 1940s): code-breaking, including the design of code-breaking machines
• Practical design (late 1940s): general purpose digital computers and software, layered architecture
• Theory (1950): Turing test for machine intelligence
• Theory (1952): Reaction diffusion model of morphogenesis, plus practical use of digital computers to simulate biochemical reactions
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Cyberphysical theories
Cyber (digital)
• Turing computation (time)
• Shannon compression
(space)
• Content centric nets (time,
space, location)
Physical (analog)
• Bode (latency)
• Shannon (channels)
• Networked control (AndyL)
• Redo StatMech and
efficiency
Layering as optimization?
Lots of challenges not yet addressed
(e.g. Smartgrid, biology, neuro,..)
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Turing’s 3 step research: 0. Virtual (TM) machines 1. hard limits, (un)decidability
using standard model (TM) 2. Universal architecture
achieving hard limits (UTM) 3. Practical implementation in
digital electronics (biology?)
Essentials: 0. Model 1. Universal laws 2. Universal architecture 3. Practical implementation
Software
Hardware
Digital
Analog
Turing as “new”
starting point?
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Control Comms
Compute Physics
Shannon Bode
Turing
Godel
Einstein
Heisenberg
Carnot
Boltzmann
wasteful?
fragile?
slow?
?
• Each theory one dimension
• Tradeoffs across dimensions
• Assume architectures a priori
• Progress is encouraging, but…
• Stovepipes are an obstacle…
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Case studies
wasteful
fragile
Sharpen
hard bounds
laws and
architectures?
efficient
robust
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Csete and Doyle
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Chandra, Buzi, and Doyle
UG biochem, math, control theory
Most important paper so far.
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K Nielsen, PG Sorensen, F Hynne, H-G Busse. Sustained oscillations in glycolysis: an experimental and theoretical study of chaotic and complex periodic behavior and of quenching of simple oscillations. Biophys Chem 72:49-62 (1998).
Experiments
CSTR, yeast extracts
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Figure S4. Simulation of two state model (S7.1) qualitatively recapitulates experimental observation from CSTR studies [5] and [12]. As the flow of material in/out of the system is increased, the system enters a limit cycle and then stabilizes again. For this simulation, we take q=a=Vm=1, k=0.2, g=1, u=0.01, h=2.5.
0 20 40 60 80 100 120 140 160 180 200 0
1
2
3
4
v=0.03
0 20 40 60 80 100 120 140 160 180 200 0
0.5
1
1.5
2
v=0.1
0 20 40 60 80 100 120 140 160 180 200 0.2
0.4
0.6
0.8
1
v=0.2
“Standard” Simulation
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Figure S4. Simulation of two state model (S7.1) qualitatively recapitulates experimental observation from CSTR studies [5] and [12]. As the flow of material in/out of the system is increased, the system enters a limit cycle and then stabilizes again. For this simulation, we take q=a=Vm=1, k=0.2, g=1, u=0.01, h=2.5.
0 20 40 60 80 100 120 140 160 180 200 0
1
2
3
4
v=0.03
0 20 40 60 80 100 120 140 160 180 200 0
0.5
1
1.5
2
v=0.1
0 20 40 60 80 100 120 140 160 180 200 0.2
0.4
0.6
0.8
1
v=0.2
Simulation Experiments Why?
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Why?
Levels of explanation:
1. Possible
2. Plausible
3. Actual
4. Mechanistic
5. Necessary
Science
Engineering Medicine
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Glycolytic “circuit” and oscillations
• Most studied, persistent mystery in cell dynamics
• End of an old story (why oscillations) – side effect of hard robustness/efficiency tradeoffs
– no purpose per se
– just needed a theorem
• Beginning of a new one
– robustness/efficiency tradeoffs
– complexity and architecture
– need more theorems and applications
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simple enzyme
Fragility
Enzyme amount
complex enzyme
lnz p
z p
2 2
0
1ln ln
z z pS j d
z z p
Theorem!
z and p functions of enzyme complexity
and amount
Savageaumics
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simple tech
complex tech
How general is this picture?
wasteful
fragile
efficient
robust
Implications for human evolution? Cognition? Technology? Basic sciences?
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Evolution and architecture
Nothing in biology makes sense except in the light of evolution
Theodosius Dobzhansky
(see also de Chardin)
Nothing in evolution makes sense except in the light of biology
?????
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natural selection + genetic drift + mutation + gene flow
++ architecture
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Gerhart and Kirschner Facilitated variation Architecture = Constraints that deconstrain
• Weak linkage • Exploratory mechanisms • Compartmentalization
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Unfortunately, not intelligent design
Ouch.
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Why? Building humans from fish parts.
Fish parts
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It could be worse.
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weak
fragile
slow
strong
robust
fast
Human evolution
Apes
How is this progress?
hands feet skeleton muscle skin gut long helpless childhood
All very different.
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inefficient
wasteful
weak
fragile
efficient
(slow)
strong
robust
hands feet skeleton muscle skin gut This much seems pretty
consistent among experts regarding circa 1.5-2Mya
Homo Erectus? Roughly modern
So how did H. Erectus survive and expand globally?
Very fragile
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inefficient
wasteful
weak
fragile
efficient
(slow)
strong
robust
(fast)
Apes
speed & strength
endurance
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inefficient
wasteful
weak
fragile
(slow)
efficient
(slow)
strong
robust
(fast)
Human evolution Apes
hands feet skeleton muscle skin gut
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inefficient
wasteful
weak
fragile
efficient
(slow)
strong
robust
Hard tradeoffs?
Apes
Architecture? Evolvable?
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weak
fragile
efficient
(slow)
strong
robust
+ sticks stones
fire teams
From weak prey to invincible
predator?
Speculation? There is only evidence for crude stone tools.
But sticks, fire, teams might not leave a record?
endurance
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weak
fragile
efficient
(slow)
strong
robust
+ sticks stones
fire teams
From weak prey to invincible predator
Before much brain expansion?
Speculation? With only evidence for crude stone tools. But sticks and fire might not leave a record?
Plausible but speculation?
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Today 2Mya
Cranial capacity
Gap?
Before much brain expansion?
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weak
fragile
efficient
(slow)
strong
robust
hands feet skeleton muscle skin gut
+ sticks stones
fire
From weak prey to invincible
predator
Before much brain expansion?
Key point: Our physiology,
technology, and brains
have co-evolved
Huge implications.
Probably true no matter what
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Today 2Mya
Cranial capacity
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weak
fragile
efficient
(slow)
strong
robust
hands feet skeleton muscle skin gut
+ sticks stones
fire
From weak prey to invincible
predator
Before much brain expansion?
Key point needing more discussion: The evolutionary
challenge of big brains is homeostasis, not
basal metabolic load.
Huge implications.
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inefficient
wasteful
weak
fragile
efficient
(slow)
strong
robust
+ sticks stones
fire
Architecture?
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weak
fragile
efficient
(slow)
strong
robust
hands feet skeleton muscle skin gut
+ sticks stones
fire
From weak prey to invincible
predator
Before much brain expansion?
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inefficient
wasteful
weak
fragile
efficient
(slow)
strong
robust
+ sticks stones
fire
Architecture?
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sticks stones fire
Human
complexity?
wasteful
fragile
efficient
robust
Consequences of our evolutionary
history?
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wasteful
fragile
efficient
robust Hard tradeoffs?
Constraints
(that deconstrain)
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TCP IP
Physical
MAC
Switch
MAC MAC
Pt to Pt Pt to Pt
Diverse applications
Layered architectures
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Proceedings of the IEEE, Jan 2007
Chang, Low, Calderbank, Doyle
OR
optimization
What’s
next?
A rant
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OS
Deconstrained
(Hardware)
Deconstrained
(Applications)
Layered architectures
Constrained Control, share, virtualize,
and manage resources
Processing
Memory
I/O
Few global variables
Don’t cross layers
Essentials
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Cat
abo
lism
AA
Ribosome
RNA
RNAp
transl.
Proteins
xRNA transc.
Pre
curs
ors
DNA
DNAp
Repl. Gene
ATP
ATP
Enzymes
Building Blocks
Shared
protocols
Deconstrained
(diverse)
Environments
Deconstrained (diverse)
Genomes
Bacterial
biosphere
Architecture
=
Constraints
that
Deconstrain
Layered architectures
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Cat
abo
lism
AA
Ribosome
RNA RNAp
transl. Proteins
xRNA transc.
Pre
curs
ors
DNA DNAp
Repl. Gene
ATP
ATP
Enzymes
Building
Blocks
Crosslayer
autocatalysis
Macro-layers
Inside every cell
almost
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Cat
abo
lism
AA
Ribosome
RNA
RNAp
transl.
Proteins
xRNA transc.
Pre
curs
ors
DNA
DNAp
Repl. Gene
ATP
ATP
Enzymes
Building Blocks
Core conserved
constraints facilitate
tradeoffs
Deconstrained
phenotype
Deconstrained genome
What makes the bacterial
biosphere so adaptable?
Active control of
the genome
(facilitated
variation)
Environment
Action
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How general is this picture? Very! Constraints! i.e. hard limits and architecture
simple tech
complex tech
wasteful
fragile
efficient
robust
Cat
abo
lism
AA
Ribosome
RNA
RNAp
transl.
Proteins
xRNA transc.
Pre
curs
ors
DNA
DNAp
Repl. Gene
ATP
ATP
Enzymes
Building Blocks
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Bad
theory?
???
?
?
Bad
architectures?
wasteful
fragile
gap?
robust
efficient
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Case studies
wasteful
fragile
Sharpen
hard bounds
bad Find and
fix bugs Bad
architectures?
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“New sciences” of “complexity” and “networks”? worse
• Edge of chaos • Self-organized criticality • Scale-free “networks” • Creation “science” • Intelligent design • Financial engineering • Risk management • “Merchants of doubt” • …
Science as • Pure fashion • Ideology • Political • Evangelical • Nontech trumps tech
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simple enzyme
Fragility
Enzyme amount
complex enzyme
lnz p
z p
2 2
0
1ln ln
z z pS j d
z z p
Theorem!
z and p functions of enzyme complexity
and amount
Savageaumics
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Fragility hard limits
simple
Overhead, waste
complex
• General • Rigorous • First principle
• Domain specific • Ad hoc • Phenomenological
Plugging in domain details
?
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Control Comms
Physics
Wiener
Bode
Kalman
Heisenberg
Carnot
Boltzmann
robust control
• Fundamental multiscale physics • Foundations, origins of
– noise – dissipation – amplification – catalysis
• General • Rigorous • First principle
?
Shannon
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What I’m not going to talk much about
• It’s true that most “really smart scientists” think
almost everything in these talks is nonsense
• Why they think this
• Why they are wrong
• Time (not space) is our problem, as usual
• Don’t have enough time for what is true, so have
to limit discussion of what isn’t
• No one ever changes a made up mind (almost)
• But here’s the overall landscape
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Stat physics
Complex networks
Physics Heisenberg
Carnot
Boltzmann
Control Comms
Compute
“New sciences” of complexity and networks edge of chaos, self-organized
criticality, scale-free,…
Wildly “successful”
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D. Alderson, NPS 173
Popular but wrong
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Complex systems?
Fragile
• Scale
• Dynamics
• Nonlinearity
• Nonequlibrium
• Open
• Feedback
• Adaptation
• Intractability
• Emergence
• …
Even small
amounts can
create
bewildering
complexity
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Complex systems?
Fragile
• Scale
• Dynamics
• Nonlinearity
• Nonequlibrium
• Open
• Feedback
• Adaptation
• Intractability
• Emergence
• …
• Scale
• Dynamics
• Nonlinearity
• Nonequlibrium
• Open
• Feedback
• Adaptation
• Intractability
• Emergence
• …
Robust
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Complex systems?
• Resources
• Controlled
• Organized
• Structured
• Extreme
• Architected
• …
Robust complexity
• Scale
• Dynamics
• Nonlinearity
• Nonequlibrium
• Open
• Feedback
• Adaptation
• Intractability
• Emergence
• …
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• These words have lost much
of their original meaning, and
have become essentially
meaningless synonyms
• e.g. nonlinear ≠ not linear
• Can we recover these words?
• Idea: make up a new word to
mean “I’m confused but don’t
want to say that”
• Then hopefully we can take
these words back (e.g.
nonlinear = not linear)
• Scale
• Dynamics
• Nonlinearity
• Nonequlibrium
• Open
• Feedback
• Adaptation
• Intractability
• Emergence
• …
Fragile
complexity
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New
words Fragile
complexity
Emergulent
Emergulence
at the edge of
chaocritiplexity
• Scale
• Dynamics
• Nonlinearity
• Nonequlibrium
• Open
• Feedback
• Adaptation
• Intractability
• Emergence
• …
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doesn’t work
Stat physics
Complex networks
Alderson & Doyle,
Contrasting Views of
Complexity and Their
Implications for
Network-Centric
Infrastructure,
IEEE TRANS ON
SMC,
JULY 2010
“New sciences” of complexity and networks edge of chaos, self-organized
criticality, scale-free,…
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Stat physics
Complex networks
Physics Heisenberg
Carnot
Boltzmann
Control Comms
Compute
Complex systems?
Jean Carlson, UCSB Physics
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Stat physics
Complex networks
Physics Heisenberg
Carnot
Boltzmann
Control
Alderson &Doyle, Contrasting
Views of Complexity and Their
Implications for Network-Centric
Infrastructure,
IEEE TRANS ON SMC,
JULY 2010
Sandberg, Delvenne,
& Doyle, On Lossless
Approximations, the Fluctuation-
Dissipation Theorem, and
Limitations of Measurement,
IEEE TRANS ON AC,
FEBRUARY, 2011
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Stat physics,
Complex networks
Physics Heisenberg
Carnot
Boltzmann
fluids, QM
“orthophysics” From prediction
to mechanism to control
Sandberg, Delvenne,
& Doyle, On Lossless
Approximations, the Fluctuation-
Dissipation Theorem, and
Limitations of Measurement,
IEEE TRANS ON AC,
FEBRUARY, 2011
“The last 70 years of the 20th century will be viewed as the dark ages of theoretical physics.” (Carver Mead)
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J. Fluid Mech (2010)
Streamlined
Laminar Flow
Turbulent Flow
Turbulence and drag?
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Physics of Fluids (2011)
Dennice Gayme, Beverley McKeon, Bassam Bamieh (UCSB ME), Antonis Papachristodoulou, John Doyle
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Physics of Fluids (2011)
wU
z x
y
uz
x
y Flow
upflow high-speed
region
downflow low speed
streak
Blunted turbulent velocity profile
Laminar
Turbulent
wU3D coupling
Coherent structures and turbulent drag
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wasteful
fragile Laminar
Turbulent
efficient
robust
Laminar
Turbulent
wU
?
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Fast,
Limited
scope
Slow,
Broad
scope
Com
ms
Dis
turb
a
nce
Plant
Remote
Sensor
Sensor
Actuator
Interface
Existing design frameworks
• Sophisticated components
• Poor integration
• Limited theoretical framework
Fix?