[Open_electroporator] promoting culture shock progress

[Mitchell Altschuler]

I was able to copy over the files(see attached)
Does it look right?
All i did was drag the files over to the PYVFLASH folder
any files missing?

I was going to reboot if it looks good


I did have  an issue with clicking to this URL
https://cibolo.us/pipermail/open_electroporator/2017-April/000500.html

it says its not private and doesn't give me an option to ignore it.

I think I need to review what was done in the past and why before I can
understand what to expect.  It sounds like its hard to detect if the EP has
discharged ...



thanks
Mitchell

On Tue, Jul 11, 2017 at 9:08 PM, Nathan McCorkle <nmz787 at gmail.com> wrote:

> On Tue, Jul 11, 2017 at 6:49 PM, Mitchell Altschuler
> <mitchellalt at gmail.com> wrote:
> > Nathan,
> >
> > Thanks for your input !  I just want to confirm the following.  As an
> FYI I'm using a mac and can see the board when the USB is plugged in as
> >  Pybflash....
> >
> > So I can copy over the files however you mentioned in this last email
> that without the modifications to the end of the file  I might need to keep
> the computer connected for the EP to work
>
> Right, if you don't modify it, you'll then need to connect to the
> board (which in addition to micropython showing up as a storage
> device, it also shows up simultaneously as a COM port, serial port,
> tty, etc...). So you need a terminal program to connect to it, and you
> often need to specify the baud rate. I found these MAC instructions,
> they seem to lack baud rate options, so maybe the default is correct
> (or MAC is somehow smart enough to understand the correct baud):
> http://docs.micropython.org/en/v1.8.4/pyboard/pyboard/
> tutorial/repl.html#mac-os-x
>
> > or was that  i need to do those code modifications to be able vary the
> EP attributes (variables) when testing ?
>
> the pulse() and a(...) functions are available in the file I
> mentioned, or from the interactive terminal. From the terminal, to
> start, you can just try calling pulse() and it should fire. If you
> have an oscilloscope, you can check the GPIO pins on the
> microcontroller sub-board to see them toggling at low voltage. I have
> a 40kV arc rated 1 GigaOhm resistor that I used to connect the HV side
> of the cuvette holder to my oscilloscope. I believe John has a
> professional HV probe to do essentially the same thing.
>
> >
> > In any event I'm going to start without modifying the file, then if I
> can't see anything working make those modifications.
> >
> > I assume I can use textrangler to update the code then reload that to
> the board
>
> Sounds good! Just use whatever text editor to open the "USB drive" and
> edit the files in-place. Save, then hit CTRL-D (or MAC-D I guess for
> you???)  to 'refresh' the filesystem and soft reboot the
> microcontroller.
>
> >
> > To get the signal traces I have seen I assume that was done with an
> oscilloscope?  I think I heard something about using a resistors when
> testing ?
>
> Yeah, see above.
>
> >
> > It also seems that the old EP process was changed from what was done in
> the past I assume because of the cost and safety issues ... some of those
> capacitors seemed extremely dangerous if the charge was not discharged ....
>
> It was hard and expensive to find the required capacitors... they were
> also very large in general, and not being adjustable means they would
> be overkill if a given user needed much less voltage than normal, say
> for microfluidic experiments. At least not without changing the
> capacitors, or getting a capacitor extension box (which they
> commercially do sell). Programmability opens up all sorts of
> experimental possibility, even outside electroporation.
>
> >
> > Since I am new to this project it would be useful to know why we think
> these new parameters will still work?  Is that documented anywhere?
>
> There are some links in the archives of this mailing list, here's
> something recent:
> https://cibolo.us/pipermail/open_electroporator/2017-April/000500.html
>
> Best,
> -Nathan
> _______________________________________________
> open_electroporator mailing list
> open_electroporator at cibolo.us
> https://cibolo.us/mailman/listinfo/open_electroporator
>



-- 
Mitchell Altschuler
925 212 2296
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