Science

Citizen Scientists,

I have a question: From what I can tell, no one has used bacteriophage
filtration protocol on fungi. However fungi have there own viruses,
mycoviruses.

Is there a reason why there are so little/no publications on soil
collection to syringe filtration on mycoviruses to infect fungi?

Curious Regards,
Louis

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Hi Ryan.
How much does your system cost? I have a little bit of money left from a small project at the moment.
Regards

--Mathieu

On 03/31/2014 05:17 PM, Tom Hodder wrote:
I think it shall be my next weekend project to install that somewhere ... :-)

My recommendation was researched, i.e. 2nd hand... I may be able to collaborate on that. I'd like to know more about ROS myself.

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It lives here:
http://onlinelibrary.wiley.com/doi/10.1002/adhm.201300641/abstract

I may be able to get it when I get home.

On Mon, Mar 31, 2014 at 2:23 PM, John Griessen <john@industromatic.com> wrote:
> Know where to find full article on this nano cellulose?
>
> "Nano-paper filter removes viruses" published in the Advanced Healthcare
> Materials journal on March 31, 2014.
>
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-Nathan

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On 03/31/2014 02:21 PM, Cathal Garvey wrote:
> def something(arg1, arg2): #{
> arg1 += arg2 #;
> return arg1 #;
> # }


Hmmm.... what emoticons do those translate to? #{ # } #;

;-|

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On 03/31/2014 02:17 PM, Tom Hodder wrote:
> If you are going to have multiple Pis running different things, then it would be cool to have a munin or nagios or webmin style
> centralized command/control web server, which naturally would have to sit on another machine.
ROS (Robot OS) is good for that.

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Know where to find full article on this nano cellulose?

"Nano-paper filter removes viruses" published in the Advanced Healthcare Materials journal on March 31, 2014.

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LOL

On Mon, Mar 31, 2014 at 12:21 PM, Cathal Garvey
<cathalgarvey@cathalgarvey.me> wrote:
> Anyway, that's all nonsense. Python *does* support brackets and
> semicolons if you want to use them:
>
> def something(arg1, arg2): #{
> arg1 += arg2 #;
> return arg1 #;
> # }
>
> On 31/03/14 19:57, Avery louie wrote:
>> I do c and python. I'm tabbing and bracketing and semicoloning and always
>> in the wrong spot :p
>>
>> --A
>> On Mar 31, 2014 2:41 PM, "Josiah Zayner" <josiah.zayner@gmail.com> wrote:
>>
>>> Well, C is overkill and python doesn't use brackets.
>>> And I have been programming in Perl for dare I say > 10 years? Considering
>>> that, I should be much better at Perl than I am.
>>>
>>>
>>>
>>>
>>> On Mon, Mar 31, 2014 at 11:28 AM, Nathan McCorkle <nmz787@gmail.com>wrote:
>>>
>>>> Why perl?
>>>> On Mar 31, 2014 11:19 AM, "Josiah Zayner" <josiah.zayner@gmail.com>
>>>> wrote:
>>>>
>>>>> I have been working on a bunch of code that allows one to plug in a
>>>>> couple Arduinos to a Linux computer running a webserver using Perl. One
>>>>> can communicate with the arduino through a webpage and see the output of
>>>>> the Arudino. So I can say change the temperature on an incubator or control
>>>>> a PCR machine. I saw this thread so I just made a blog post about it:
>>>>> http://doitourselfscience.blogspot.com/2014/03/sending-and-receiving-data-from-arduino.html
>>>>>
>>>>> The code is a little complicated but it all works great. I have the
>>>>> incubator code up on the blog as that is all I have accomplished so far. It
>>>>> controls a fan and some heating element through MOSFETs, which I find are
>>>>> easiest.
>>>>>
>>>>> Anyways, if you have questions or want to hack it to do something else
>>>>> let me know and I can probably help.
>>>>>
>>>>>
>>>>> Thanks,
>>>>> Josiah Zayner
>>>>> http://DoItOurselfScience.blogspot.com
>>>>>
>>>>>
>>>>> On Monday, March 31, 2014 10:22:18 AM UTC-7, Avery wrote:
>>>>>>
>>>>>> I could do it on another machine, or on a PaaS, but right now the
>>>>>> important thing for me is to try it out- what is it like to just let your
>>>>>> cells chill in the lab?
>>>>>>
>>>>>> The other question is in integration of other devices. There is really
>>>>>> no reason to have something like this for regular pcr (maybe for qpcr)
>>>>>> since PCR machines already tell you when they will be done, and store
>>>>>> products at 4c (normally) once they are done. Electrophoresis on the other
>>>>>> hand would be perfect for something like this. Set it up, go get coffee,
>>>>>> watch tv...check you gel. So now the question is how I want to set up the
>>>>>> rest of the tools so I can re-use code to make more machines.
>>>>>>
>>>>>> Basically I need to map computers/device architecture to how they
>>>>>> should be available. I also need to decide if I am building the system to
>>>>>> be portable (in the code sense of transferring the build info) to other
>>>>>> peoples labs.
>>>>>>
>>>>>> --A
>>>>>>
>>>>>>
>>>>>> On Mon, Mar 31, 2014 at 1:13 PM, Cathal Garvey (Phone) <
>>>>>> cathal...@cathalgarvey.me> wrote:
>>>>>>
>>>>>>> Easier I feel to use XMLHttp.Server to host an XML-HTTP API server and
>>>>>>> use the corresponding Client module to pull and process data on another
>>>>>>> machine? Consider installing a secure XML monkeypatch though.
>>>>>>>
>>>>>>>
>>>>>>> On 31 March 2014 17:51:01 GMT+01:00, Nathan McCorkle <nmz...@gmail.com>
>>>>>>> wrote:
>>>>>>>>
>>>>>>>> those requests would be quite small though, so as long as the pi
>>>>>>>> doesn't throw them out, rather queues them, it might take a second or
>>>>>>>> three long but it should be fine... the returned data is just a few
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> bytes of text, and the packet overhead should be 20 bytes (according
>>>>>>>> to a quick google for ipv4). Someone else should probably comment on
>>>>>>>> the best server for the pi, but basically it should have a decent
>>>>>>>> timeout set and the ability to queue requests. I'd give flask a quick
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> try:
>>>>>>>> http://mattrichardson.com/Raspberry-Pi-Flask/
>>>>>>>>
>>>>>>>> If the pi was trying to do the temp control PID loop, well you're
>>>>>>>> already in bad paradigm unless you have a RTOS/realtime kernel
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> running, but if you do just make sure the priority (nice, renice) of
>>>>>>>> the control process is lower (higher priority) than the server... and
>>>>>>>> no harm should be done. Worst case if the server
>>>>>>>> does crap out for a
>>>>>>>> user, it just keeps trying until it gets the good response. I doubt
>>>>>>>> any small-time lab has to worry about this, and maybe even a medium
>>>>>>>> sized one would be fine too without another server (but likely those
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> companies/organization would have another better server, so it would
>>>>>>>> be easy to scale then).
>>>>>>>>
>>>>>>>> On Mon, Mar 31, 2014 at 9:32 AM, Tom Hodder <t...@limepepper.co.uk> wrote:
>>>>>>>>
>>>>>>>>> On 31 March 2014 16:58, Nathan McCorkle <nmz...@gmail.com> wrote:
>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> What about dynDNS for getting past the IP issue?
>>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> I think that solutions that put the pi on the internet as a web server are
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> just kicking down the road, the can containing the issue of scaling.
>>>>>>>>>
>>>>>>>>> Which is basically that for these nice graphs, to get real time updates,
>>>>>>>>> your going to be running a bunch of XMLHTTPRequest() to pull data into a
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> AJAX/jQuery or other nice visualization running in the browser. And these
>>>>>>>>> are all going to be served by the pi. If you have 10 users watching some
>>>>>>>>> experiment in progress, and then they would all be polling the pi
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> continuously. Eventually this is going to compromise the pi's ability as a
>>>>>>>>> controller/sensor.
>>>>>>>>>
>>>>>>>>> For scaling, it would be better just to have the pi batch a bunch of data,
>>>>>>>>> say every 10 seconds, and post it to a dedicated server, with decent
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> resources, which can scale to dishing out lots of updates to web browsers.
>>>>>>>>> Load might bring down the web server, say an AWS virtual, or
>>>>>>>>> https://www.pythonanywhere.com/, but the Pi would go on oblivious.
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> (and you would definitely not lose ssh access to the pi,
>>>>>>>>> during a critical
>>>>>>>>> experiment etc, the important thing that would result in you having to get
>>>>>>>>> out of bed ;-)
>>>>>>>>>
>>>>>>>>> Cheers,
>>>>>>>>> Tom
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
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>
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--
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Anyway, that's all nonsense. Python *does* support brackets and
semicolons if you want to use them:

def something(arg1, arg2): #{
arg1 += arg2 #;
return arg1 #;
# }

On 31/03/14 19:57, Avery louie wrote:
> I do c and python. I'm tabbing and bracketing and semicoloning and always
> in the wrong spot :p
>
> --A
> On Mar 31, 2014 2:41 PM, "Josiah Zayner" <josiah.zayner@gmail.com> wrote:
>
>> Well, C is overkill and python doesn't use brackets.
>> And I have been programming in Perl for dare I say > 10 years? Considering
>> that, I should be much better at Perl than I am.
>>
>>
>>
>>
>> On Mon, Mar 31, 2014 at 11:28 AM, Nathan McCorkle <nmz787@gmail.com>wrote:
>>
>>> Why perl?
>>> On Mar 31, 2014 11:19 AM, "Josiah Zayner" <josiah.zayner@gmail.com>
>>> wrote:
>>>
>>>> I have been working on a bunch of code that allows one to plug in a
>>>> couple Arduinos to a Linux computer running a webserver using Perl. One
>>>> can communicate with the arduino through a webpage and see the output of
>>>> the Arudino. So I can say change the temperature on an incubator or control
>>>> a PCR machine. I saw this thread so I just made a blog post about it:
>>>> http://doitourselfscience.blogspot.com/2014/03/sending-and-receiving-data-from-arduino.html
>>>>
>>>> The code is a little complicated but it all works great. I have the
>>>> incubator code up on the blog as that is all I have accomplished so far. It
>>>> controls a fan and some heating element through MOSFETs, which I find are
>>>> easiest.
>>>>
>>>> Anyways, if you have questions or want to hack it to do something else
>>>> let me know and I can probably help.
>>>>
>>>>
>>>> Thanks,
>>>> Josiah Zayner
>>>> http://DoItOurselfScience.blogspot.com
>>>>
>>>>
>>>> On Monday, March 31, 2014 10:22:18 AM UTC-7, Avery wrote:
>>>>>
>>>>> I could do it on another machine, or on a PaaS, but right now the
>>>>> important thing for me is to try it out- what is it like to just let your
>>>>> cells chill in the lab?
>>>>>
>>>>> The other question is in integration of other devices. There is really
>>>>> no reason to have something like this for regular pcr (maybe for qpcr)
>>>>> since PCR machines already tell you when they will be done, and store
>>>>> products at 4c (normally) once they are done. Electrophoresis on the other
>>>>> hand would be perfect for something like this. Set it up, go get coffee,
>>>>> watch tv...check you gel. So now the question is how I want to set up the
>>>>> rest of the tools so I can re-use code to make more machines.
>>>>>
>>>>> Basically I need to map computers/device architecture to how they
>>>>> should be available. I also need to decide if I am building the system to
>>>>> be portable (in the code sense of transferring the build info) to other
>>>>> peoples labs.
>>>>>
>>>>> --A
>>>>>
>>>>>
>>>>> On Mon, Mar 31, 2014 at 1:13 PM, Cathal Garvey (Phone) <
>>>>> cathal...@cathalgarvey.me> wrote:
>>>>>
>>>>>> Easier I feel to use XMLHttp.Server to host an XML-HTTP API server and
>>>>>> use the corresponding Client module to pull and process data on another
>>>>>> machine? Consider installing a secure XML monkeypatch though.
>>>>>>
>>>>>>
>>>>>> On 31 March 2014 17:51:01 GMT+01:00, Nathan McCorkle <nmz...@gmail.com>
>>>>>> wrote:
>>>>>>>
>>>>>>> those requests would be quite small though, so as long as the pi
>>>>>>> doesn't throw them out, rather queues them, it might take a second or
>>>>>>> three long but it should be fine... the returned data is just a few
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> bytes of text, and the packet overhead should be 20 bytes (according
>>>>>>> to a quick google for ipv4). Someone else should probably comment on
>>>>>>> the best server for the pi, but basically it should have a decent
>>>>>>> timeout set and the ability to queue requests. I'd give flask a quick
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> try:
>>>>>>> http://mattrichardson.com/Raspberry-Pi-Flask/
>>>>>>>
>>>>>>> If the pi was trying to do the temp control PID loop, well you're
>>>>>>> already in bad paradigm unless you have a RTOS/realtime kernel
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> running, but if you do just make sure the priority (nice, renice) of
>>>>>>> the control process is lower (higher priority) than the server... and
>>>>>>> no harm should be done. Worst case if the server
>>>>>>> does crap out for a
>>>>>>> user, it just keeps trying until it gets the good response. I doubt
>>>>>>> any small-time lab has to worry about this, and maybe even a medium
>>>>>>> sized one would be fine too without another server (but likely those
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> companies/organization would have another better server, so it would
>>>>>>> be easy to scale then).
>>>>>>>
>>>>>>> On Mon, Mar 31, 2014 at 9:32 AM, Tom Hodder <t...@limepepper.co.uk> wrote:
>>>>>>>
>>>>>>>> On 31 March 2014 16:58, Nathan McCorkle <nmz...@gmail.com> wrote:
>>>>>>>>
>>>>>>>>>
>>>>>>>>> What about dynDNS for getting past the IP issue?
>>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> I think that solutions that put the pi on the internet as a web server are
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> just kicking down the road, the can containing the issue of scaling.
>>>>>>>>
>>>>>>>> Which is basically that for these nice graphs, to get real time updates,
>>>>>>>> your going to be running a bunch of XMLHTTPRequest() to pull data into a
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> AJAX/jQuery or other nice visualization running in the browser. And these
>>>>>>>> are all going to be served by the pi. If you have 10 users watching some
>>>>>>>> experiment in progress, and then they would all be polling the pi
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> continuously. Eventually this is going to compromise the pi's ability as a
>>>>>>>> controller/sensor.
>>>>>>>>
>>>>>>>> For scaling, it would be better just to have the pi batch a bunch of data,
>>>>>>>> say every 10 seconds, and post it to a dedicated server, with decent
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> resources, which can scale to dishing out lots of updates to web browsers.
>>>>>>>> Load might bring down the web server, say an AWS virtual, or
>>>>>>>> https://www.pythonanywhere.com/, but the Pi would go on oblivious.
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> (and you would definitely not lose ssh access to the pi,
>>>>>>>> during a critical
>>>>>>>> experiment etc, the important thing that would result in you having to get
>>>>>>>> out of bed ;-)
>>>>>>>>
>>>>>>>> Cheers,
>>>>>>>> Tom
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> --
>>>>>>>> -- You received this message because you are subscribed to the Google Groups
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> DIYbio group. To post to this group, send email to diy...@googlegroups.com.
>>>>>>>> To unsubscribe from this group, send email to
>>>>>>>> diybio+un...@googlegroups.com. For more options, visit this group at
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> https://groups.google.com/d/forum/diybio?hl=en
>>>>>>>> Learn more at www.diybio.org
>>>>>>>>
>>>>>>>>
>>>>>>>> ---
>>>>>>>>
>>>>>>>> You received this message because you are subscribed to the Google Groups
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>>>>>>>> To unsubscribe from this group and stop receiving emails from it, send an
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>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> To post to this group, send email todiy...@googlegroups.com.
>>>>>>>> Visit this group at http://groups.google.com/group/diybio.
>>>>>>>>
>>>>>>>> To view this discussion on the web visit
>>>>>>>> https://groups.google.com/d/msgid/diybio/CAB%2BzPJAvpkXqVae9zMdq%2BsYDvgaRqXZou-3y4dOLa-dQ2Byr_Q%40mail.gmail.com.
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> For more options, visit https://groups.google.com/d/optout.
>>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>> --
>>>>>> Sent from my Android device with K-9 Mail. Please excuse my brevity.
>>>>>>
>>>>>> --
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>>>>>> Visit this group at http://groups.google.com/group/diybio.
>>>>>> To view this discussion on the web visit https://groups.google.com/d/
>>>>>> msgid/diybio/1159c3ea-7e68-4cbf-b355-8f26c0fc3305%40email.android.com<https://groups.google.com/d/msgid/diybio/1159c3ea-7e68-4cbf-b355-8f26c0fc3305%40email.android.com?utm_medium=email&utm_source=footer>
>>>>>> .
>>>>>>
>>>>>> For more options, visit https://groups.google.com/d/optout.
>>>>>>
>>>>>
>>>>> --
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>>>> To post to this group, send email to diybio@googlegroups.com.
>>>> Visit this group at http://groups.google.com/group/diybio.
>>>> To view this discussion on the web visit
>>>> https://groups.google.com/d/msgid/diybio/75b1f685-4e00-4482-a842-283f451e5617%40googlegroups.com<https://groups.google.com/d/msgid/diybio/75b1f685-4e00-4482-a842-283f451e5617%40googlegroups.com?utm_medium=email&utm_source=footer>
>>>> .
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>>>>
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>>> .
>>>
>>> For more options, visit https://groups.google.com/d/optout.
>>>
>>
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T: @onetruecathal, @IndieBBDNA
P: +353876363185
W: http://indiebiotech.com

I do c and python.  I'm tabbing and bracketing and semicoloning and always in the wrong spot :p

--A