[Bio] Post-meeting thoughts and NIR probe

Otute Akiti oakiti at gmail.com
Wed Apr 13 16:43:05 PDT 2011


Hey Rikke,

Did you ever get a chance to pick up the aquarium silicone?

-Otute

On Wed, Apr 6, 2011 at 10:28 PM, Rolf <rolfvw at gmail.com> wrote:

> Hey Sean,
> I just took a quick look at these.
> Such devices are mostly meant for an "on or off" kind of detection,
> you know, like, is the metal tab in the slot or not.
>
> It's possible it could be adapted, who knows?
> And it is cool that it already sets up a fixed gap.
> But, I think for the NIR probe, it is better to pick an
> emitter and detector that is matched for the IR frequencies we want.
> We get more specs in those datasheets too :-)
> Cheers,
> -rolf
>
> On Wed, Apr 6, 2011 at 10:35 AM, Sean Cusack <sean.p.cusack at gmail.com>
> wrote:
> > Hey kids!
> >
> > So, I was taking a peek through Jameco today to see what kinds of
> > phototransistors could be used for the DO sensor, and came across these
> cool
> > dillios:
> >
> >
> https://www.jameco.com/webapp/wcs/stores/servlet/Product_10001_10001_1872986_-1
> >
> > Essentially, we've got an IR LED with a phototransistor all in one
> package.
> > Its designed to do solid object sensing, but wouldn't it be possible to
> use
> > this as our spectrophotometer? I think using this guy could solve a lot
> of
> > problems - the mount is already designed, the gap spacing is well
> > characterized, and everything already lines up.
> >
> > Do people have experience using these kinds of things, or should I go
> ahead
> > and order a couple?
> >
> > Sean
> >
> > On Tue, Apr 5, 2011 at 11:56 PM, Rikke Rasmussen
> > <rikke.c.rasmussen at gmail.com> wrote:
> >>
> >> Hey all,
> >>
> >> Thanks for a great meeting yesterday, pleasant and very informative in
> >> spite of weekend-wear and happy KDE people at Noiseybridge!
> >>
> >> Rolf, the OP506B looks just perfect - 100% relative response at 850nm,
> and
> >> schematics so simple even I can follow them - brilliant! Ihave just been
> >> reading through the attached .pdf on the wonders of single-colour NIR
> for
> >> biomass measurements, published by one of Optek's competitors, mainly
> for
> >> calibration equations + curves. Also a nice basic intro to
> >> spectrometry, should anyone else be curious.
> >>
> >> Charlie, thanks so much for the blog post - was on my way to give a
> >> somewhat wishy-washy update, and there was this brilliant, high-level
> >> discussion of thermocouples and thermistors with pics and all! Check it
> out,
> >> everyone!
> >> In other news, there will be both destillation and kombucha brewing and
> >> bottling to have fun with tomorrow night at Noisebridge, approx. 7pm -
> come
> >> hang out, help out...or both!
> >> /Rikke
> >>
> >> On Wed, Apr 6, 2011 at 12:18 AM, Rolf <rolfvw at gmail.com> wrote:
> >>>
> >>> Hi Folks!
> >>> It was good to see everyone yesterday, and get updated on what people
> >>> are working on.
> >>> Too bad it got so noisy at Noiseybridge!
> >>>
> >>> I went ahead and ordered some parts today (will expense with Rikke
> >>> soon) for the
> >>> pH amplifier.  It's going to be quite an effort.
> >>> I also will get some phototransistors for the NIR probe.
> >>>
> >>> I found some parts that are well matched for the 850nm IR LEDs that I
> >>> brought in
> >>> yesterday.  It's the Optek OP506B.  They cost 80 cents each.
> >>> A very simple circuit is required around it, and it might even work
> >>> with a couple
> >>> resistors.
> >>> I think the probe will require 3 wires:  +5v power, signal output, and
> >>> GND (hopefully shielded).
> >>>
> >>> If these parts work, then the mechanicals should be straightforward.
> >>> The LED and the detector are both 3mm LED-like packages.
> >>> This should make it easier to design a probe around it.
> >>>
> >>> Cheers,
> >>> -rolf
> >>>
> >>>
> >>> On Sun, Apr 3, 2011 at 1:37 AM, Rikke Rasmussen
> >>> <rikke.c.rasmussen at gmail.com> wrote:
> >>> > Hey all,
> >>> > Welcome to the Biobridge mailing list! By way of introduction, here's
> a
> >>> > quick update on present status and future plans for the BioBridge
> >>> > group.
> >>> > Our current project, the BioBoard, one of the entries in the Great
> >>> > Global
> >>> > Hackerspace Challenge, is coming along really nicely. For any
> >>> > subscribers
> >>> > unfamiliar with the project, we're basically building a bunch of
> >>> > different
> >>> > sensors (temp., pH, dissolved oxygen, NIR spectrometer), hooking them
> >>> > up to
> >>> > a microcontroller and transmitting the sensor data to a server
> >>> > somewhere
> >>> > with a web app that plots a nice graph for you so you can monitor
> your
> >>> > microbial culture in real time from the comfort of your couch.
> >>> > What we've got so far:
> >>> > Sensors
> >>> > - thermometer: 2 different set-ups (one-wire digital thermometer,
> >>> > thermistor), both functional (yay!) - Charlie's the man here
> >>> > - pH: several leads, and at least two good brains chippin' away at
> the
> >>> > problem  - Rolf and Otute are the dudes on the job
> >>> > - dO: solvent sandwiched in a cheap and beautiful mylar/vinyl
> bilayer,
> >>> > catalyst to arrive on Thursday - Sean's got it down
> >>> > - NIR: have a fairly decent plan for the LED/photosensor part, but
> need
> >>> > help
> >>> > regarding circuitry and wiring - Rikke's fumbling with this one
> >>> > Microcontroller
> >>> > - Arduino board + ethernet shield have been successfully delivered to
> >>> > Marc
> >>> > (I hope?)
> >>> > - alternative suggestions have come up, we'll go through the pros and
> >>> > cons
> >>> > of each on Monday
> >>> > Software
> >>> > - we've been given an Arduino sketch for above assembly
> >>> > Project group meetings are on Mondays at 7:30pm at Noisebridge, (new)
> >>> > deadline is March 3rd. Current plan is another 2 weeks of sensor
> >>> > building,
> >>> > then a week of assembling and testing and a final week of fine tuning
> >>> > the
> >>> > final product. All of this ends in a big finale at Maker Faire (where
> >>> > Biobridge will hopefully also be represented at the Noisebridge table
> >>> > at
> >>> > least some of the time), May 21st-22nd.
> >>> > Once Maker Faire is over, it is my hope that we can start hosting
> >>> > regular
> >>> > classes at Noisebridge - both theoretical (intro to general
> >>> > microbiology,
> >>> > specific aspects of bacteriology/mycology/phycology as relevant,
> >>> > biochemistry/molecular biology/genetics, ecology & evolution) and
> >>> > practical
> >>> > (aerobic/anaerobic fermentation, bacterial/algal cultivation,
> mushroom
> >>> > growing, selection/mutagenesis/mating group experiments, basic
> >>> > transformation, whatever else we think of or find someone to teach)
> >>> > ...in
> >>> > short, all the fun we can have with microbes. We might well use the
> >>> > wiki to
> >>> > plan this - all input is valued!
> >>> >  Thoughts, ideas, comments?
> >>> > /Rikke
> >>> > _______________________________________________
> >>> > Bio mailing list
> >>> > Bio at lists.noisebridge.net
> >>> > https://www.noisebridge.net/mailman/listinfo/bio
> >>> >
> >>> >
> >>> _______________________________________________
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> >>
> >>
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