DIY turbidity meters / OD measurements

[Marc Dusseiller]

hello fellow bio-tinkerers, hi sebastian,

the topic of cheap turbidity meters popped up again in another discussion.

https://groups.google.com/forum/#!msg/diybio/ShsFX3OnN8U/ldByXNQ6ffoJ

i have been developing simple laser-cut shields for arduinos. or also stand-alone units to measure light-absorbtion through the standarized cuvettes:

http://www.thingiverse.com/thing:74415

sorry for the lousy docu sofar...

http://hackteria.org/wiki/index.php/DIY_spectrophotometer#BabyTurbiduino_aka_Daphna-2-MIDI_Converter

laser cutting seems to me more useful for this application. good precision and much faster production. the cut sides of the wood is nice black and light absorbin/non-reflecting. and the device can be assembled layer by layer, embedding the LED and sensors into an optical channel.

at the moment we are using something like a digistump clone, we call it babygnusbuino, based on attiny85 and compatible to arduino ide. it can send/receive data as a midi-device and costs less than 5$. but we have been thinking of additionally communicating to the device using an audio-protocol, meaning we could use the line-in of a smart phone to read the data.

more soon,

marc

[John Griessen]

On 09/07/2013 05:17 AM, Marc Dusseiller wrote:
> at the moment we are using something like a digistump clone, we call it babygnusbuino, based on attiny85 and compatible to arduino
> ide. it can send/receive data as a midi-device and costs less than 5$.

Not sure why MIDI or analog audio would be good for instrument data sending to a smartphone...

an MSP430 for this app could be one of the under $1 ones and not need many parts on a pc board,
so you could use the extra $3 on the bill of materials to buy a bluetooth dongle for it to
send data to your PC/tablet/smartphone with...

[Brian Degger]

Midi is good for a number of visual programming softwares like max/msp and pd/gem.
Nothing stops you going the msp route...if you want ;)
The babysguino is a nice platform cos it uses the arduino ide, but is super cheap.
5v logic is also a bit more robust than the 3.3v of pi or msp.

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[Marc Dusseiller]

hoied mitenand,

it's a good question, why to use MIDI? i am aiming at an ultra-low cost device, with all parts available in the local electronics store in a tropical jungle. 

additionally the MIDI devices are not using any drivers anymore these days. but of course it's very limited bandwidth. good enough for a bunch of sensor data from an turbidity measurement. and as brian already mentioned, there is loads of creative media arts people and sound artists that might wanna use such a device and they are using their own tools, synths, max/msp etc...

i made a new prototype yesterday:

http://hackteria.org/wiki/index.php/DIY_spectrophotometer#Daphnia-2-MIDI_device

only had a green LED laying around...

tested the device to midify/sonify the movement of small waterbugs/plankton in the cuvette and tested various densities of baker's yeast cultures overnight. the device gave me a difference of apporx 1000mV in 12 hours (sedimentation is neglected, always stirred up the culture before the measurements).

but again, this sound interface to a smart phone seems to me interesting. check these examples:

http://www.kickstarter.com/projects/lumulabs/lumu-bringing-light-meter-to-the-21st-century

http://www.trendhunter.com/trends/smartphone-wind-meter

the nice thing is, that we could have a browser interface for accessing the sensors, it's easy to access the line-in, but not other attached hardware via internet-browser. same for the smartphone. so the measurements could be recorded on-site without using a laptop.

i will try to callibrate my prototype soon, testing it in parallel with a standard OD meter from a biolab.

stay tuned,

marc

PS: that's the commercial turbidity meter sensor:

http://ch.mouser.com/ProductDetail/GE-MC-Thermometrics/TSW-10/?qs=tktsEd1V4BlbFxHNdxJfvA==

On Saturday, September 7, 2013 9:41:52 PM UTC+2, DrBrian wrote:

Midi is good for a number of visual programming softwares like max/msp and pd/gem.
Nothing stops you going the msp route...if you want ;)
The babysguino is a nice platform cos it uses the arduino ide, but is super cheap.
5v logic is also a bit more robust than the 3.3v of pi or msp.

On 7 Sep 2013 15:29, "John Griessen" <jo...@industromatic.com> wrote:

On 09/07/2013 05:17 AM, Marc Dusseiller wrote:

at the moment we are using something like a digistump clone, we call it babygnusbuino, based on attiny85 and compatible to arduino
ide. it can send/receive data as a midi-device and costs less than 5$.

Not sure why MIDI or analog audio would be good for instrument data sending to a smartphone...

an MSP430 for this app could be one of the under $1 ones and not need many parts on a pc board,
so you could use the extra $3 on the bill of materials to buy a bluetooth dongle for it to
send data to your PC/tablet/smartphone with...

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[Nathan McCorkle]

Are you using a side-arm flask?

> https://groups.google.com/d/msgid/diybio/1b8ca1f5-1e5b-43dc-872f-3fd91561dc3c%40googlegroups.com.

>
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[Marc Dusseiller]

yes, i have been using those weird cuvettes with the side arms. just
had them lying around and they fit very nice and reproducably into my
device. but the laser cutting design can easily be adapted to normal
cuvettes.

best,
m

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[Josiah Zayner]

Open Tricorder Spectrophotometer

http://www.tricorderproject.org/blog/?p=206

[Marc Dusseiller]

nice tricoder project! sadly it also seems to be only in the VIS-spectrum 400-700nm. would be much more interesting to hav UV-VIS...

i guess people on this list also know about the publiclab spectro stuff...

http://publiclab.org/wiki/spectrometer-curriculum

http://publiclab.org/notes/dusjagr/04-29-2013/redesign-of-the-foldable-mini-spectro-to-hold-a-cuvette

http://publiclab.org/notes/homechemist/08-30-2013/homemade-spectometer-for-sample-absorstion-analysys-and-a-type-of-ramman-spectroscopy

generally, i always want to stress, it's much more useful to "look" through a sample, than just at different qualities of light sources.

best,

m

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[Jonathan Cline]

Why not use this brand new FOSS, more powerful, similarly priced board instead. 

  https://mchck.org/about/  MC HCK (pronounced: “McHack” [mæk hæk])

Generating audio would also be easy, as either modem (FSK) or tones (DTMF).  The bit rate for data is very low so DTMF would be fine.

This board (Freescale, 32-bit) would be more capable than the MSP430 (TI, 16-bit).  Either way, there is no flash room for usb-host stack of a USB bluetooth dongle so that is not in scope.  A dedicated radio chip (non-USB) would be very interesting, there are details on the mc hck site. 

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[John Griessen]

On 09/17/2013 07:06 PM, Jonathan Cline wrote:
> Why not use this brand new FOSS, more powerful, similarly priced board instead.
>
> https://mchck.org/about/ MC HCK (pronounced: “McHack” [mæk hæk])

Thanks for pointing this out Jonathan.

It's fun that you get near zero cost to develop since one can program another, $5
or $10 per PCB depending on volume, and a fine range of 32 bit machines with
good peripherals from ST, and there will be more
brands of chips added as things go along. The ARM IP monopoly is starting out super cheap!

Wonder what the bio equivalent of ARM cores will be?