User:Jonathan Cline/Notebook/Sensomatic/20130323

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Let's perform a cell culturing experiment and isolate some bacteria for bioengineering targets!
Let's perform a cell culturing experiment and isolate some bacteria for bioengineering targets!
* Cory Tobin 2012-2013 (LA Biohackers ; Cal Tech)
* Cory Tobin 2012-2013 (LA Biohackers ; Cal Tech)
-
** Nitrogenase Directed Evolution
+
** [http://wiki.biohackers.la/Nitrogenase_Directed_Evolution Nitrogenase Directed Evolution]
*** Plants need nitrogen in the form of ammonia, nitrates or nitrites (artificially via 'ammonium nitrate fertilizers')
*** Plants need nitrogen in the form of ammonia, nitrates or nitrites (artificially via 'ammonium nitrate fertilizers')
***  "The directed evolution of a thermophilic nitrogenase ... so that productivity of farmland crops would not be dependent on a non-renewable resource whose price can fluctuate drastically due to speculation, weather or global conflicts."
***  "The directed evolution of a thermophilic nitrogenase ... so that productivity of farmland crops would not be dependent on a non-renewable resource whose price can fluctuate drastically due to speculation, weather or global conflicts."
Line 57: Line 57:
''Sounds great!''
''Sounds great!''
-
http://wiki.biohackers.la/files/thumb/2/2b/N2-ase.png/500px-N2-ase.png
+
http://wiki.biohackers.la/files/thumb/2/2b/N2-ase.png/500px-N2-ase.png [http://wiki.biohackers.la/Nitrogenase_Directed_Evolution Link]
</div>
</div>
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Sense and Control:
Sense and Control:
 +
* Heater element
* Temperature
* Temperature
* CO2
* CO2
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http://88proof.com/synthetic_biology/blog/wp-content/uploads/2009/03/img_0012sm.jpg
http://88proof.com/synthetic_biology/blog/wp-content/uploads/2009/03/img_0012sm.jpg
 +
http://88proof.com/synthetic_biology/blog/wp-content/uploads/2013/03/mq5-sensor.jpg
 +
http://88proof.com/synthetic_biology/blog/wp-content/uploads/2013/03/LM35.jpg
 +
http://88proof.com/synthetic_biology/blog/wp-content/uploads/2013/03/ssr-10636-01_i_ma.jpg
* Low cost electronics
* Low cost electronics
-
* Industry standard
+
* Industry standard, available in volume
-
* Open source design, available in volume
+
* Open source design
* Replaceable components
* Replaceable components
-
 
+
* '''Multiple functions on one device'''
-
http://88proof.com/synthetic_biology/blog/wp-content/uploads/2009/03/mq5-sensor.jpg
+
Line 363: Line 366:
</div>
</div>
-
 
-
<div class="slide">
 
-
=Engineered Biology - Data Format - Environmental data=
 
-
 
-
 
-
*Each device has environment data associated with operating it.
 
-
** Points in space
 
-
** Containers
 
-
** Solids, liquids, gases
 
-
*Storing that data in an easily readable and editable format is very important for software re-use.
 
-
* YAML Format is Human readable, Human editable and Computer Readable
 
   
   
-
<pre class="incremental">
 
-
  %YAML 1.1
 
-
  ---
 
-
  version: 2009-09-04
 
-
  tecan:
 
-
    genesis:
 
-
      points:
 
-
        roma0:
 
-
          magnet-hover: '14056,1850,980,1800'
 
-
          magnet-place: '14056,1850,687,1800'
 
-
          sampletray-hover: '14057,2828,980,1800'
 
-
          sampletray-place: '14057,2828,582,1800'
 
-
          shaker-hover: '1780,3569,1535,1800'
 
-
          shaker-put: '1780,3569,865,1800'
 
-
          shaker-take: '1780,3569,865,1800'
 
-
          shakerlock-1: '1762,1177,1535,900'
 
-
          shakerlock-2: '1762,1177,815,900'
 
-
          shakerlock-3: '1191,1177,808,900'
 
-
          shakerlock-4: '1762,1177,815,900'
 
-
          shakerlock-5: '1762,1177,1535,900'
 
-
          shakerlock-6: '1780,3569,1535,1800'
 
-
          shakerlock-hover: '1780,3569,1535,1800'
 
-
          HOME1: '11165,2525,980,1800'
 
-
  ...
 
-
</pre>
 
-
 
-
</div>
 
-
 
-
<div class="slide">
 
-
=Engineered Biology - What's Running Now=
 
-
 
-
* General purpose software to control FIAlab syringe pump and 10-way valve
 
-
* General purpose software to control part of the Tecan arm
 
-
* Network operation of the Tecan; run a bio-protocol from your desk
 
-
** Get the current operational status in real time for current experiment
 
-
*'''Solid foundation; much more to be done'''
 
-
* ''Lab Automation'' mailing lists have already responded with high interest
 
-
* 2 releases already made to the public internet software archive for Perl (CPAN)
 
-
 
-
The end user writes a simple Perl application to control all devices and robotics.
 
-
* Perl is '''the #1 bioinformatics language.'''
 
-
 
-
<pre class="incremental">
 
-
 
-
  sub Main {
 
-
      $hw = Robotics::Tecan->new(
 
-
          connection => 'network,Robotics::Tecan::Genesis,genesis0',
 
-
          token => 'M1',
 
-
          serveraddr => 'heavybio.dyndns.org:8088',
 
-
          password => $ENV{'TECANPASSWORD'});
 
-
 
-
      $hw->attach("o");
 
-
      $_ = $hw->status();
 
-
      exit -2 if !/IDLE/i;
 
-
 
-
      # Load worktable
 
-
      $hw->configure("client-traymove1test.yaml"); 
 
-
 
-
      my @path = (
 
-
          "shakerlock-hover",
 
-
          "shakerlock-1",
 
-
          "shakerlock-2",
 
-
          "shakerlock-3",
 
-
          "shakerlock-4",
 
-
          "shakerlock-5",
 
-
          "shakerlock-hover"
 
-
          );
 
-
      checkok $hw->move_path("roma0", @path);
 
-
 
-
      checkok $hw->move("roma0", "shaker-take");
 
-
      checkok $hw->grip("roma0");
 
-
      checkok $hw->move("roma0", "shaker-hover");
 
-
 
-
      checkok $hw->move("roma0", "sampletray-hover");
 
-
      checkok $hw->move("roma0", "sampletray-place");
 
-
      checkok $hw->grip("roma0", 'o', 120);
 
-
      checkok $hw->move("roma0", "sampletray-hover");
 
-
      checkok $hw->park("roma0");
 
-
 
-
      checkok $hw->park("liha");
 
-
 
-
 
-
</pre>
 
   
   
-
 
-
</div>
 
-
 
-
<div class="slide">
 
-
=Engineered Biology - What's Running in "Upcoming Weeks"=
 
-
 
-
* General purpose software to control FIAlab
 
-
* General purpose software to control Tecan arm & Tecan liquid handler & Tecan peripherals
 
-
* Network operation of all of the above; run a bio-protocol ''entire flow'' from your desk
 
-
** And get the data results back from MATLAB in '''real time'''
 
-
* Advanced error handling for Tecan bio-protocol problems: automatic re-trying
 
-
* Complete suggested bio-protocol as initial high-throughput run
 
-
 
-
Medium Term Goal
 
-
 
-
* Prove system across multiple & varied bio-protocols
 
-
** Swap out the existing devices for upgraded or custom versions.
 
-
** Use simple language to control the bio-protocol
 
-
* Improve maintainability of both software applications & hardware designs
 
-
* Allow remote users to access local hardware (as a lab service)
 
-
** A new Robot Scientist is born
 
-
 
-
Long Term Goal
 
-
 
-
* Run a complete bio-protocol ''using the English language''
 
-
** '''Clarification: limited bio-latin-english'''
 
-
 
-
</div>
 
-
 
-
 
-
<div class="slide">
 
-
=Engineered Biology - Benefits=
 
-
 
-
*Write scripts into the framework to build up scale and reuse; rather than typical stand-alone scripts which are 1-time throw-away
 
-
*Allows many devices to be controlled from the same user program ("hardware integration")
 
-
*Allows device operations not supported by the vendor
 
-
** This includes much better error handling & re-trying
 
-
*Allows abstraction of the devices: swap out one device for another
 
-
**Removes vendor lock-in, creating more competitive forces to drive innovation among various devices
 
-
*Plug in '''new custom devices,''' can quickly operate with same user program
 
-
*Pipe data to/from MATLAB, the web, the wiki, .csv, others  ("data integration")
 
-
*Network operation
 
-
**The controller PC will miss fewer commands since vendor application does not take CPU time
 
-
**The user PC doesn't have to be Windows to run a device (many benefits there)
 
-
**The user can access device status and device output from anywhere (lab or home)
 
-
**Built-in network security
 
-
*The user can program complex algorithms using multiple devices, creating a control system with feedback to optimize a protocol or make arbitrary decisions
 
-
**The "Robot Scientist" was claimed to have identified new targets "on it's own" - using data feedback and prediction; smart algorithms should be possible
 
-
</div>
 
-
 
-
 
-
<div class="slide">
 
-
=Engineered Biology - Benefits=
 
-
 
-
Example devices insertable into the Robotics 'flow'
 
-
 
-
* Inkjet piezo-heads - pL or nL droplets, gradients, etc
 
-
* Alternative substrates vs. well plates - CDs, other?
 
-
* Millifluidics (Peter)
 
-
* Physical handling (repetitive tasks) - stuff with motors for plate fetch & store
 
-
* other?
 
-
 
-
</div>
 
-
 
-
 
-
 
-
<div class="slide">
 
-
=Engineered Biology - Protolexer=
 
-
 
-
Let's Do Something "Simple" : Revisited
 
-
 
-
'''Just Use English.'''
 
-
 
-
* Feed the protocol directly to the computer.
 
-
** Computers ''are'' smart enough.
 
-
* The software knows what devices are attached or available on the network.
 
-
* '''Integrate''' the devices together into a long chain of bio-operations.
 
-
** Complain if bio-protocol requires device that is not available (Dependency checking.)
 
-
* Bio-protocols have fairly standardized formats and standardized language.
 
-
** Or can be, with human editing of the English, and a human quickly verifying the "compiled" result before robotics operation.
 
-
 
-
If the computer can't understand a bio-protocol, '''then the bio-protocol is ambiguous and should be re-written anyway'''
 
-
 
-
http://biosx.com/88proof/synthetic_biology/blog/wp-content/uploads/2009/06/protolexer1.png
 
-
 
-
</div>
 
-
 
-
 
-
<div class="slide">
 
-
=Engineered Biology - Data Format - Bio-protocols=
 
-
 
-
<pre >
 
-
 
-
  %YAML 1.1
 
-
  ---
 
-
  protocol: Mate-Paired Library Preparation for Sequencing
 
-
  methods:
 
-
  - &standard-purify purify with column:
 
-
          - &cp1 Add 3 volumes of Buffer QG and 1 volume of isopropyl alcohol to the sheared
 
-
            DNA. If the color of the mixture is orange or violet, add 10uL of 3M sodium
 
-
            acetate, pH5.5 and mix. The color turns yellow. The pH required for efficient
 
-
            adsorption of the DNA to the membrane is <= 7.5.
 
-
         
 
-
          - &cp2 Apply 750uL of sheared DNA in Buffer QG to the column(s). The maximum
 
-
            amount of DNA that can be applied to a QIAquick column is 10ug. Use more
 
-
            columns if necessary.
 
-
           
 
-
          - &cp3 Let the column(s) stand for 2 minutes at room temperature.
 
-
         
 
-
          - &cp4 Centrifuge the column(s) at >= 10,000g (13,000 rpm) for 1 minute, then discard
 
-
            the flow-through.
 
-
           
 
-
          - &cp5 Repeat steps 2 and 4 until the entire sample has been loaded onto the column(s).
 
-
            Place the QIAquick column(s) back into the same collection tube(s).
 
-
           
 
-
          - &cp6 Add 750uL of Buffer PE to wash the column(s).
 
-
         
 
-
          - &cp7 Centrifuge the column(s) at >= 10,000g (13,000 rpm) for 2 minutes, then discard
 
-
            the flow-through. Repeat to remove residual wash buffer.
 
-
           
 
-
          - &cp8 Air-dry the column(s) for 2 minutes to evaporate any residual alcohol. Transfer
 
-
            the column(s) to clean 1.5-mL LoBind tube(s).
 
-
           
 
-
          - &cp9 Add 30uL of Buffer EB to the column(s) to elute the DNA and let the column(s)
 
-
            stand for 2minutes.
 
-
           
 
-
          - &cp10 Centrifuge the column(s) at >= 10,000g (13,000 rpm) for 1 minute.
 
-
         
 
-
          - &cp11 Repeat steps 9 and 10.
 
-
         
 
-
          - &cp12 If necessary, pool the eluted DNA.
 
-
         
 
-
  - &bead-purify purify with magbeads:
 
-
          - &bp1 Add 100uL of DNA to 95uL of magbeads.
 
-
         
 
-
          - &bp2 Vortex at 1,000RPM for 1 minute.
 
-
         
 
-
          - &bp3 Incubate on magnets for 300 seconds at room temperature to allow DNA to
 
-
                bind to beads and beads to settle.
 
-
         
 
-
          - &bp4 Remove supernatant while beads are magnetized.
 
-
         
 
-
          - &bp5 Elute while beads are magnetized using 100uL of EtOH. 
 
-
                Pause for 90 seconds during each wash to allow beads to settle. 
 
-
                Allow EtOH to evaporate until beads are dry and
 
-
                cracks are visible in the bead surface.
 
-
         
 
-
          - &bp6 Resuspend with 15 uL Buffer xx to resuspend beads.
 
-
         
 
-
          - &bp7 Vortex at 1,000RPM for 20 seconds.
 
-
         
 
-
          - &bp8 Incubate for 200 seconds on magnets at room temperature.
 
-
         
 
-
          - &bp9 Save the eluted DNA.
 
-
</pre>
 
-
 
-
* Easy to edit (it's text with indenting)
 
-
* Easy to read (no crazy formatting words)
 
-
* Very easy to share
 
-
** Standardized format
 
-
** Self-contained, no extra files needed
 
-
* Mostly easy to learn
 
-
* Easy for computers to read, process, write, share
 
-
* Defined in YAML
 
-
</div>
 
-
 
-
 
-
 
-
<div class="slide">
 
-
=Engineered Biology - Competing Method/Prior Art: BioStream (MIT)=
 
-
 
-
"Towards a High-Level Programming Language for Standardizing and Automating Biology Protocols"
 
-
 
-
*"Abstraction Layers for Scalable Microfluidic Biocomputers", William Thies , John Paul Urbanski , Todd Thorsen , and Saman Amarasinghe, Computer Science and Artificial Intelligence Laboratory, Hatsopoulos Microfluids Laboratory, Massachusetts Institute of Technology
 
-
 
-
* Defines "high level" (like Java/C++) language for describing protocols
 
-
* Can take some standardized English protocols as input
 
-
* Can automatically generate the "high level language" for the computer
 
-
* Can output a human-readable clean English bio-protocol
 
-
** This is a "Validated-clean" version of original bio-protocol
 
-
</div>
 
-
 
-
 
-
<div class="slide">
 
-
=Engineered Biology - Competing Method/Prior Art: BioStream (MIT)=
 
-
 
-
BioStream "clean English output" for '''[http://openwetware.org/wiki/DNA_extraction_from_tissue '''DNA extraction from tissue protocol]'''
 
-
 
-
http://88proof.com/biotech/img/Biostream-DNA%20extraction%20from%20tissue%20protocol-English-Output.png
 
-
 
-
</div>
 
<div class="slide">
<div class="slide">
-
=Robotics - Competing Method: BioStream (MIT)=
+
=Engineered Biology - Competing Method/Prior Art: BioBoard (Noisebridge)=
-
"Towards a High-Level Programming Language for Standardizing and Automating Biology Protocols"
+
[https://www.noisebridge.net/wiki/BioBoard BioBoard]
-
BioStream "high level language" for '''[http://openwetware.org/wiki/DNA_extraction_from_tissue '''DNA extraction from tissue protocol]'''
+
"an Arduino-controlled sensor package that allow users to monitor a range of physiochemical factors related to microbiological processes"
-
http://88proof.com/biotech/img/Biostream-DNA%20extraction%20from%20tissue%20protocol-Source-Output.png
+
http://88proof.com/synthetic_biology/blog/wp-content/uploads/2013/03/noisebridge-bioboard-450px-NIRprobe6.jpg
 +
http://88proof.com/synthetic_biology/blog/wp-content/uploads/2013/03/BioBoardAppNewProject.png
</div>
</div>

Current revision



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Microbiology Sensor/Controller Board: The Sensomatic

Jonathan Cline

jcline@ieee.org

© 2013

JCLINE-BUSINESS-CARD-320.png


Engineered Biology - Let's Do Something "Simple"

  • Make biology easier to engineer
  • Make biology more reliable to engineer

by:

  • Methods: Improving the means and methods for bio/synthetic design;
  • Predictability: Improving repeatability and trust of experimental results and procedure;
  • Reusability: Engineering biological components and biological tools to be reusable across designs or across experiments.

for:

  • Increased productivity
    • Less busywork, more Design time
    • Less human interaction means less human error
  • Decreased financial cost
    • More experiments possible per day per person per lab

(Contrary to popular belief, lab techs & their time are not "free")

Engineered Biology - Let's Do Something "Simple"

Let's perform a cell culturing experiment and isolate some bacteria for bioengineering targets!

  • Cory Tobin 2012-2013 (LA Biohackers ; Cal Tech)
    • Nitrogenase Directed Evolution
      • Plants need nitrogen in the form of ammonia, nitrates or nitrites (artificially via 'ammonium nitrate fertilizers')
      • "The directed evolution of a thermophilic nitrogenase ... so that productivity of farmland crops would not be dependent on a non-renewable resource whose price can fluctuate drastically due to speculation, weather or global conflicts."

Sounds great!

500px-N2-ase.png Link

Engineered Biology - Let's Do Something "Simple"

Assuming we've got a potential soil sample which might contain the desired bacterial strain..

  • Problem - Culture specific soil samples which might grow something.
  • Problem - Identify if something grows.
  • Problem - Isolate the bacteria which grows.
  • Problem - Identify if the bacteria is the desired strain.
  • Problem - Lather, rinse, repeat until the sequence matches.

Then finally begin the real experiment with the target bacteria!


These are lab automation and scalability problems.

  • Also known as Bring-Up Issues (industry slang).


Engineered Biology - Let's Do Something "Simple"

Let's Automate this as a bio-protocol and remove the busy-work!

Cory's First Solution (Image Copyright 2012 Cory Tobin)

  • Small scale bioreactor with valves
  • Arduino breadboarded with various electronics and hand-wired connections.

Cory_Tobin_Nitrogenase_Directed_Evolution_1.png

"Found out the arduino has all these limitations and does not work here."

Spent months.. to bring up an environment to do the real experiment.

Engineered Biology - Let's Do Something "Simple"

Cory's Second Solution (Image Copyright 2012 Cory Tobin)

  • Cheap Wal-mart insulated cooler.
  • Give up on electronics and do everything by hand.
    • Measure and adjust temperature multiple times per day.
    • Refill reagents every other day.

"Finally successful, one time through. Same amount of effort to run through again."

  • High maintenance.
  • Human error.

Cory_Tobin_Nitrogenase_Directed_Evolution_2.png



Engineered Biology - Let's Do Something "Simple"

Jonathan Cline's version: The Sensomatic

  • Use industrial-grade, low cost electronics; not Arduino
  • Simple programmability, set up by any computer
Achieve simplicity, integration of function, and low cost
Solve a specific problem

Sense and Control:

  • Heater element
  • Temperature
  • CO2
  • OD
  • Shaker
  • Pump
  • 120VAC outlet



Engineered Biology - Let's Do Something "Simple"

Jonathan Cline's version: The Sensomatic

img_0012sm.jpg mq5-sensor.jpg LM35.jpg ssr-10636-01_i_ma.jpg

  • Low cost electronics
  • Industry standard, available in volume
  • Open source design
  • Replaceable components
  • Multiple functions on one device




Engineered Biology - User/Software/Hardware Model

Prior Art (non-integrated, single function devices)

Biolab-languages1.png

Industry-standard robotic automation systems (like Tecan or Beckman) use proprietary, high-level script commands (shown) and proprietary low level device operations unique to each device.


Engineered Biology - User/Software/Hardware Model

Biolab-interconnect-model.png

  • Today's usage for devices is monolithic: each device is programmed separately
    • Each device has it's own programming method
    • Difficult to re-use software written for one device, on another device
  • Biologist has to work harder; each experiment has unique elements



Engineered Biology - User/Software/Hardware Model

Biolab-interconnect-model2.png

  • Bio-protocol application can be re-used
  • Robotics software framework abstracts "hardware operations" from real devices or network devices

Device data is stored in the database

  • Each device has operational data and environmental data
  • One-time setup that is YAML and sharable
  • Standardization of environment is one of the most important aspects of automation

Engineered Biology - Data Format

Data storage formats are very important:

  • Make the data usable today
  • Make the data editable today
  • Make the data survive into the future; no obtuse or ridiculously hard to learn format
  • Make the data sharable

Watch out -

  • Computer scientists love inventing data formats
    • Leading to the problem of... too much complexity
  • Vendors love inventing data formats
    • Leading to the problem of... patent / proprietary lockup
  • Open formats are important for innovation and scalability over long term


Engineered Biology - Data Format

  • Need to represent robotic environment and bio-protocol actions
    • Computer Scientist response: "Oh, but we can simplify that with XML"
  <?xml version="1.0"?>
  <Experiment Name="JCSG Erbeta+Org1+Org2">
    <ID>351</ID>
    <User>Valerie</User>
    <Container>Corning pZero 3550</Container>
    <DatePrepared>2007-10-04T11:05:38.5170000+02:00</DatePrepared>
    <SetupTemperature>20</SetupTemperature>
    <IncubationTemperature>20</IncubationTemperature>
    <ExperimentPlates>
      <ExperimentPlate PlateNumber="1">
        <ID>406</ID>
        <DateDispensed>10/4/2007 12:45:40 PM</DateDispensed>
        <Wells>
          <Well WellNumber="15">
            <WellVolume>75</WellVolume>
            <WaterVolume>37.5</WaterVolume>
            <Drops>
              <Drop DropNumber="3" ProteinFormulation="Erbeta+Org2" ProteinVolume=
  "0.25" WellVolume="0.25" />
              <Drop DropNumber="2" ProteinFormulation="BufferC" ProteinVolume="0.2
  5" WellVolume="0.25" />
              <Drop DropNumber="1" ProteinFormulation="Erbeta+Org1" ProteinVolume=
  "0.25" WellVolume="0.25" />

Just say No to XML

  • Much too difficult to edit this
  • Much too difficult to read this
  • Much too difficult to learn this
  • Now needs extra files to describe the custom format
    • XML, HTML, anything that ugly, is a Bad Idea


Engineered Biology - Data Format - Device data

  • Each device has control commands (a dozen or several hundred).
  • Storing that data in an easily readable and editable format is very important for software re-use.
  • YAML Format is Human readable, Human editable and Computer Readable
  • YAML allows references to prior definitions and either simple or complex assignments


  %YAML 1.1
  --- # Fialab-Microsia
  address:
      syringe: A
      valve: C
      peristaltic: D
      external: B
  valve:
      send: # delay after cmds 100ms - 1 sec
          NP_SET:
              desc: set number of physical ports
              opcode: NP
              args:
                  - 1
                  - numport:4-12
              redundancy: 2 # send cmd twice
              delay: 100 # ms
              recv:
                  ok: ~
                  err: ~
          NP_GET:
              desc: get number of physical ports
              opcode: NP
              args:
                  - 0
              redundancy: 2 # send cmd twice
              delay: 100 # ms
              recv:
                  ok: ~
                  err: ~
  peristaltic:
      send: # delay after cmds 100ms - 1 sec
          SET_SPEED:
              desc: set pump speed
              opcode: G
              args:
                  - 1
                  - speed:0-100
              delay: 100
              recv:
                  ok: ~
                  err: ~       
          SET_DIRECTION:
              desc: set pump direction, direction:1=counterclockwise or 2=clockwise
              opcode: W
              args:
                  - 1
                  - direction:1-2:default=1
              delay: 5000
              recv:
                  ok: ~
                  err: ~        
  syringe:
      send: # delay after cmds 100ms - 1 sec
          INIT_ALL:
              desc: init all (both) pumps
              opcode: _Z0R
              args:
                  - 0
              delay: 100
              recv:
                  ok: ~
                  err: ~       
          SET_INPUT:
              desc: position valve in for given pump
              opcode: /$1IR
              args:
                  - 1
                  - pumpnum:1-2:default=1
              delay: 100
              recv:
                  ok: ~
                  err: ~
  • Made to be readable and editable
  • Made to be scalable
  • Contains all definitions of a device's operation
  • YAML is Best current practice for readable data format




Engineered Biology - Competing Method/Prior Art: BioBoard (Noisebridge)

BioBoard

"an Arduino-controlled sensor package that allow users to monitor a range of physiochemical factors related to microbiological processes"

noisebridge-bioboard-450px-NIRprobe6.jpg BioBoardAppNewProject.png


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