2013-03-07.log

--- Log opened Thu Mar 07 00:00:20 2013
@kanzurearchels: he claims work/kids.00:00
archels##hplusroadmap is a bit of both--perfect, not? :)00:01
@kanzureyeah i don't see his problem :p00:01
@kanzurebut i meant, he claimed his own work/his own kids were demanding his attention heh00:02
archelsjrayhawk, fenn: alright, thanks for your replies on calcium00:03
* archels wonders if this "refurbishing" of multielectrode arrays is a feasible option00:04
@kanzurewhat part of them requires refurbishing?00:05
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archelsthe contact points degrade due to chemical/redox reactions00:07
archelsmostly oxidation I suppose; I'm by no means an expert on this00:07
@kanzureand labs throw them out?00:07
archelsThe electrodes are embedded in a carrier material, usually glass. Standard tracks made of titanium00:08
archels(Ti) or indium tin oxide (ITO) are electrically isolated with silicon nitride (SiN). Standard contact00:08
archelspads are made of titanium nitride (TiN) or indium tin oxide (ITO). ITO contact pads and tracks00:08
archelsare transparent, for a perfect view of the specimen under the microscope.00:08
archelsyes00:08
archelsI might be able to score a few for eleitl, not sure if that will be at all useful for him00:08
archelscan't imagine refurbished ones to hold up for very much longer00:09
@kanzurehe says he is leaving for work00:11
@kanzureso he wont be on i guess00:11
archelsI'll ask my labmate when I see him again on Monday00:12
archelsoh, now I remember the brainwave I had about this just before I went to sleep00:13
archelswhat could potentially be interesting for a low-cost version, is to simply get it made as a printed circuit board (flexboard)00:14
archelsthe smallest pitch on those should be about 100 um00:14
archelsI guess I should just type all of this up and reply to that thread on diybio...00:15
@kanzureagreed, i'm not going to play messenger for you heh00:15
archelswhere do you chat with him outside of IRC?00:16
@kanzurejabber00:17
@kanzurehe uses the gmail xmpp server as eleitl@gmail.com00:18
@kanzurearchels: so are you definitely going to be doing work for hbp?00:19
archelserr, I'm going to be working for the dude who heads the HBP in The Netherlands00:21
archelsbut the content of the project is rather ill-defined at this point00:22
archels(not the HBP; my project :) )00:22
archelsI'm hoping I can spend some time building hierarchical artificial neural networks00:23
@kanzurepaperbot: http://www.jneurosci.org/content/33/7/3131.short00:25
paperboterror: HTTP 500 http://diyhpl.us/~bryan/papers2/paperbot/Patch-Clamp%20Recordings%20from%20Lateral%20Line%20Neuromast%20Hair%20Cells%20of%20the%20Living%20Zebrafish.pdf00:25
archelsYour post has been sent for review and will appear after it has been approved.00:37
archelskanzure: is this a Google Groups thing or a DIYbio-group thing?00:37
@kanzureunfortunately google groups does not provide reasonable spam controls, so the only practical option is for a moderator to choose to moderate first-time posts00:38
archelsfair enough00:38
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eleitlmoin moin01:10
eleitlis archels in da house?01:11
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@kanzurearchels: ping01:16
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eleitlhi kanzure01:16
eleitlI'll idle here for about 35 min, after which I'll be off to a meeting01:16
archelsoh hey eleitl01:27
archelsnot sure whether my message on diybio got through yet?01:27
archelslooks like a negative. kanzure, I kinda tacitly assumed you were a moderator for the diybio group :)01:28
eleitlHi archels01:28
eleitlkanzure dropped me a couple lines from you01:29
eleitlwhat kind of MEAs are you working with?01:29
eleitlnotice that my current plans are very, very modest: just record 2-4 channels, in a qualitative test01:30
eleitlthe experimental assembly has to survive cycling from RT to -150 and then back01:30
@kanzurearchels: i am not a diybio moderator01:31
@kanzurearchels: the diybio moderators are always on the verge of banning me, i think01:31
archelshah01:31
archelseleitl: what are the rough dimensions of these ganglions?01:31
archelsabout a millimeter?01:31
eleitlthe whole assembly is ~1 cm across01:31
eleitlsize bar is 1 mm01:32
eleitlhttp://upload.wikimedia.org/wikipedia/commons/5/58/Lymnaea_stagnalis_central_ring_ganglia.jpg01:32
archelsah, alright. Conveniently large indeed.01:32
eleitlyeah, that's one of the reasons why the snail is so great01:32
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eleitlsame complexity of aplysia, but conveniently concentrated in a manageable volume01:33
eleitlplus, unlike Aplysia, it's probably going to deal with chilling injury a lot better01:33
archelsHmm, would it be an option to obtain the thinnest needles you can find, coat everything but the very tip with isolating material, and maybe make a little holder so you can make a 3x3 array?01:34
archelsfixation might be a problem with that approach01:34
archelshttp://en.wikipedia.org/wiki/Needle_gauge_comparison_chart01:35
eleitlI was thinking about that. I can use electrothinning e.g. on tungsten wire or stainless, or platinum01:35
archelsgoes down to 0.2mm outer diameter01:35
eleitlI can electrothin down to submicron01:36
archelsah01:36
eleitlcan you recommend a good recording rig?01:36
eleitlI'm ready to solder something, if it can be done easily enough01:36
eleitlsomething which can run on a 9 V battery, and then pass on to USB A/D01:37
eleitlI don't need to record more than 1 kHz, right?01:37
archelshehe. From my experience, these scientific data capture devices are ridiculously overpriced.01:37
eleitlmy point precisely01:37
archelsyou could quite possible use the OpenEEG frontend, or something similar.01:37
@kanzurethere was an open source hardware recording rig that was released01:37
eleitlkanzure, in which context?01:37
@kanzurehttp://code.google.com/p/neurorighter/01:38
archels1 kHz is cutting it very close if you want to see spikes01:38
@kanzure"Data Acquisition System for Multi-electrode Recordings"01:38
@kanzure"NeuroRighter is an open-source electrophysiology platform for conducting closed-loop, multichannel neural recording and stimulation experiments."01:38
eleitlhttp://openeeg.sourceforge.net/doc/hw/01:38
eleitlhttps://code.google.com/p/neurorighter/ ?01:38
@kanzureyes01:38
@kanzurei just linked to that :P01:38
eleitlthanks01:38
eleitlthat looks doable01:39
@kanzurepcbs: https://sites.google.com/site/neurorighter/download-neurorighter-pcbs01:39
@kanzurehttps://sites.google.com/site/neurorighter/download-neurorighter-pcbs/NeuroRighter_PCBs_InVitro.zip?attredirects=0&d=101:40
eleitlfor just recording qualitative activity (did it survive vitrification?) something much simpler will do01:40
@kanzurehttps://sites.google.com/site/neurorighter/download-neurorighter-pcbs/NeuroRighter_PCBs_InVivo.zip?attredirects=0&d=101:40
@kanzurepaperbot: http://iopscience.iop.org/1741-2552/1/1/00601:40
paperbothttp://diyhpl.us/~bryan/papers2/paperbot/A%20versatile%20all-channel%20stimulator%20for%20electrode%20arrays%2C%20with%20real-time%20control.pdf01:40
@kanzurethat's their paper for describing this system.01:40
eleitlthank you, you both are very helpful01:41
archels. o O {Does L. stagnalis even have spiking neurons?}01:41
eleitlas far as I know, it does01:42
eleitlunlike C. elegans01:42
archelsinteresting01:42
eleitlit's the system suggested by Peter Passaro, of the Foundation Volunteers01:42
eleitlhe worked with it a lot, and he will likely work with it again01:42
eleitlif the openworm guys deliver, this will be a good next target01:44
eleitlthese are big neurons, so connectome should be feasible01:44
eleitlarchels, two questions:01:45
eleitlis this a tolerable dissection microscope: http://www.amazon.de/Bresser-Researcher-20x-80x-Mikroskop-Vergrößerung/dp/B0017J1UC0/01:45
eleitlis this a tolerabe experimental microscope for the snail: http://www.amazon.de/Bresser-Science-Mikroskop-100x-400x-Vergr%C3%B6%C3%9Ferung/dp/B001CIW4IK/01:46
eleitlof course LED illumination strictly, no halogens01:46
archelssorry dude, I'm not really an experimentalist. couldn't tell one way or the other without doing a bunch of reading up myself01:47
@kanzurenmz787: maybe you have some opinions about which microscope?01:47
eleitlthanks, gotta run to the meeting. will check the scroll later for info.01:48
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@kanzureOn Thu, Mar 7, 2013 at 4:02 AM, nah sivar <nahsivar@gmail.com> wrote:02:06
@kanzure> Hi Kanzure,02:06
@kanzure>02:06
@kanzure> I came across your repository of ez-proxy urls on github. Could you tell me02:06
@kanzure> the usefulness of it ? Have gone a full round from finding many posted02:06
@kanzure> ezproxy hacks (username/password leaks etc.,)02:06
@kanzure> to plugins etc., for facilitating journal access (if one has proper02:07
@kanzure> credentials). Would be glad to know the motivation behind the urls file and02:07
@kanzure> any source that would enable one to use ém !02:07
@kanzurehmmm.02:07
@kanzureDear Nahsivar, I am part of a secret cabal of ezproxy users that... ?02:07
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archels"The goal of this handout is to help you avoid taking notes during the lecture."03:58
archelsthat's... doing it wrong.03:59
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eleitlarchels, what do you think about http://www.multichannelsystems.com/products/stimulus-generators04:55
eleitlPeter was the reviewer on the open hardware paper actually04:55
eleitlA versatile all-channel stimulator for electrode arrays, with real-time control one.04:56
archelseleitl: What's the pricing on those?05:24
eleitlPeter recommended them to me. I've sent a request to sales.05:25
eleitl8-channel should do plenty.05:25
eleitl"May be easier to just buy one of these if you have the money and want to avoid the custom dev time though...05:26
eleitlEven though they only have 8 channel stim, they provide a fast switching amplifier that can be programmed to stim any number of channels, i.e. up to the 256 MEA channels you can get on their more expensive hardware.05:26
eleitlFrom previous experience though, hold off on making any decisions on stimulation until you get your recording platform established."05:26
eleitlBTW from your previous message, avoid the MED64 system as I've heard of lots of quality problems with their equipment05:27
eleitl"05:27
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archelsyes, it's always going to be a tradeoff between time and money05:34
archelsyou could always get a generic USB digital-to-analog converter and make your own differential output stage05:35
archelsthat contains a limited amount of effort and potential for bugs05:35
archelsalso http://www.circuitsathome.com/mcu/usb/usb-isolator and a 9V battery :)05:37
archelsit will be el-cheapo in that it is a voltage-controlled source with no current feedback05:40
eleitlthat sound ideal for starters05:42
eleitldo you think this circuit might do: http://backyardbrains.com/products/spikerbox ?05:47
eleitlhttp://backyardbrains.com/products/files/SpikerBox.v.1.3c.Annotated.Schematics.pdf05:47
eleitlit seems enough for a qualitative test of survivability during vitrification05:50
eleitlit seems just 99 USD and a smartphone to record05:53
eleitlthese look pricey: http://www.multichannelsystems.com/products/usb-mea256-systems05:55
archelshehe it's funny how audio gear has specs that are such a lot better than those data acquisition/stimulation systems05:57
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archelsstuff like 24 bit/96 kHz05:57
eleitlyeah, why not use it. The SpikeBox even is in PLOS http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.003083705:58
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eleitlthat looks quite good: http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.003083706:02
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eleitlwow, that thing is comparable to a SRS56006:04
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eleitlquite a bit cheaper though https://orders.thinksrs.com/OnlineOrders2003/html/AddToCart.asp?EPrdGroup=SR56006:05
ThomasEgiarchels, the soundcard input for connecting it to the device eleitl linked?06:05
* eleitl will use smartphones06:05
eleitlcheap enough, one amplifier, one smartphone per channel06:05
eleitlrecord directly to flash06:05
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eleitlhope it melts outside soon, got to catch some snails06:06
eleitlwe've got an aquarium recently, so I can observe the critters for a while06:07
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archelsThomasEgi: I was thinking along those lines. Maybe with a phonograph or microphone preamplifier.06:08
archels< eleitl> hope it melts outside soon, got to catch some snails06:08
archelslol06:08
eleitlwe have L. stagnalis in our garden pond06:09
eleitlplus the bright red snail, trumpet something06:09
ThomasEgiarchels, just a a small warning. unless you shield the crap out of your circuit with massive metal and high quality wires, there's no need for a 24bit adc. 16bit will do just fine.06:10
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eleitlMost neurons of the L. stagnalis CNS are large in size (diameter: up to ~100 μm), thus allowing electrophysiological dissection of neuronal networks that has yielded profound insights in the working mechanisms of neuronal networks controlling relatively simple behaviors such as feeding [1,2], respiration [3,4], locomotion [5], and reproduction [6,7].06:13
eleitlThat sounds great.06:13
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eleitl12 GBytes, browser unresponsive. I'm so tired of your shit, browser.06:21
ThomasEgilynx06:21
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eleitloh, great. all instances of chrome are now fucked.06:24
eleitl"close all windows" doesn't work, because windows can't deal with focus follows mouse06:26
eleitl"Its only a couple electrodes, but should be enough to get some basic recording experience. Should probably try and make some small cross section flat circle electrodes to stick on the end of those leads, preferably platinum coated.06:30
eleitlSnails are definitely good for that equipment - some of the potentials coming out of the buccal ganglia are huge, so you shouldn't have any problem there if you position it correctly. Essentially you will just need to align the ganglia correctly and then use gentle pressure (I used a thin glass coverslip on the opposite side of the ganglia) to make sure you get good contact to the electrode."06:30
ThomasEgieleitl, that spikebox has room for improvements, the circuit is almost fine, could use a few blocking capacitors near the op-amps tho. the bigger problem is, there's no shielding case. this circuit should go into an all metallic box. with a coax cable to the electrodes,06:30
eleitlSounds good, ThomasEgi.06:31
eleitlThis is for preliminary experiments anyway.06:31
nshso's your face.06:36
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eleitlhi eudoxia07:12
eudoxiahi eleitl07:14
eleitlhow's things?07:16
eudoxiaoh, just fine, how about you?07:17
eleitlbusy. happy, since we've got a little funding.07:18
eudoxiai heard you're making a MEA for the snail upload?07:18
eleitleventually, right now a few SpikerBox kits would do07:18
eudoxiais that like EEG for small brains?07:19
eudoxiaoh the backyard brains thing hahahaha07:19
eleitlyeah, it's a 99 USD kit which has a rather good preamp, and you can use a smartphone audio input for recording07:19
eudoxiaand make RC insects07:20
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eleitlsee http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0030837 for a paper describing the kit07:20
eudoxiai was going to paperbot it but then i noticed07:22
eleitlI need to see whether the vitrification will kill the ganglia, or not07:22
eleitlso just a couple channels would do07:23
eleitlfirst step would be chilling the prep, then rewarming, then chilling, and diffusion-perfusion, then flush out then rewarming, then the whole enchilada07:23
eleitlchances are, M22 alone will kill the thing. then, maybe not.07:24
eleitlthey say cortical slices survive it and vitrification fine07:24
eudoxiai thought you were using CI-VM-1?07:40
eudoxia(derp xchat didn't mark me as being away)07:40
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eleitlwe've made some VM-1 for internal use07:56
eleitlit's interesting because it vitrifies so very robustly07:57
eleitlwe're going to study is as well, because CI uses it07:57
eleitlit doesn't work for full-body, and nobody does yet quite know what it does to the brain07:58
eudoxiawhat do you mean it doesn't work for full body? i thought they only vitrified heads to cut costs07:58
eleitlCI doesn't do head-only07:59
eleitlthey perfuse whole body, but they do ligate some vessels afaik07:59
eudoxiai know07:59
eleitlI'm really clueless about their protocol07:59
eudoxiabut only the brain is vitrified, i think Darwin said that07:59
eleitlyeah, whole body would give you massive edema08:00
eleitlso you can't do VM-1, and CI is doing effectively neuro, but stores everything08:00
eleitldoesn't really make sense, other than for PR reasons08:00
eudoxiathat's what i meant08:00
eleitlso, VM-1 might or might be useful.08:01
eleitlA good comparison would be VM-1 vs. M22 on the same system.08:01
eleitlIf VM-1 is significantly more toxic, there's an incentive not to use it08:02
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eudoxiaCI always had what i thought was an almost visceral fear of neuro, which makes me wonder08:02
eudoxiaif they are storing Margaret Bradshaw and Jerry White in the dewar with the dead cats08:02
eleitla lot of former CI principals were not very rational08:02
eleitlI don't know who's running CI at the moment, and I don't really care08:03
eleitlfrom a remote point of view both are patient storage abstractions08:03
eleitloh, and it seems active shutdown is legal in Switzerland08:03
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eudoxiayes they are but i doubt they care much about the pet dewar or think neuros are recoverable08:11
eudoxiawhich might lead to irresponsible behaviour on their part08:12
eleitlI think I will only be happy if we have our own storage08:12
eleitlif it happens, it will be in Switzerland.08:12
eudoxiai assumed active shutdown meant euthanasia but i'm not sure08:14
eleitleuthanasia is correct, but it's not "good death" since you're not killing your patients08:15
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eleitlyou're using a usual prediction scale, and perfuse life patients to not have a peri-arrest phase08:15
eleitlethically problemathic as fuck, so forget you ever read it08:16
eudoxiabeginning the process while they are still alive?08:16
eleitlyes, when the prediction scale indicate they're going down soon08:16
eleitlor, if a patient insists the time is now. which is even more problematic.08:17
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eleitlit is a serious complication, which I wish wasn't necessary08:18
eudoxiapumping living humans full of cytotoxic chemicals might be bad PR, yes08:19
eleitlindeedly08:19
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eleitlthere's additonal angle: in Germany, death pronouncement criteria are extremely conservative08:24
eleitlas a cryonicist, you don't want to die on German soil08:24
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eudoxiaconservative? as in they won't pronounce you dead after hours of ischemia?08:28
eleitlyes, or longer08:29
eleitllividity, rigor mortis, petechia, the whole shebang08:29
eleitlthese are the signs by which they make sure that you are dead, for sure08:30
eleitlhttp://upload.wikimedia.org/wikipedia/commons/3/3e/%D0%9F%D1%8F%D1%82%D0%BD%D0%B0_%D1%82%D1%80%D1%83%D0%BF%D0%BD%D1%8B%D0%B5.jpg <-- do not looks good, this patient08:32
eleitlbut, CI wouldn't give a shit08:32
eudoxiamost doctors would just poke you in the foot and get over it08:33
eleitlin much of the world, yes08:33
eleitlin Germany, no08:33
yashgarothcan't they just do an EEG08:33
eleitlvee must make shure he is tot!08:33
eleitlEEG is flat after 20-30 sec of stopped blood flow, so it's no good08:34
eudoxiapeople have woken up from long periods of electrocerebral silence08:34
yashgarothhmm, didn't know that08:34
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eleitlthere are many causes when the brain is electrically silent08:34
rigeleudoxia: {{citation needed}}08:35
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eleitle.g. in deep hypothermia these lacunes can be many hours long08:35
eleitlrigel: I've seen it quite a few times in person.08:35
eleitl{{this article may contain original research}}08:35
rigelthe plural of anecdote is not data08:35
eleitl;[08:35
eleitl;p08:36
rigelhow do you know the probes were placed correctly08:36
eleitlrigel, ask your medical student08:36
eleitlit's basic knowledge08:36
rigelthere are any number of possible explanations, including that you are correct08:36
eleitlrigel, is your google broken today?08:36
rigelwhy would you use google to research that?08:37
eleitlbecause it will give you the reply in seconds, without you having to lift the chair08:37
eudoxiahttp://www.ncbi.nlm.nih.gov/pubmed/2056802208:37
eudoxia[haven't read the abstract]08:38
rigeleleitl: i was commenting more on the use of google versus something more canonical, like pubmed08:38
rigeleudoxia: case reports mean fuckall08:39
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eudoxialol google took me to pubmed08:39
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eleitlgoogle (scholar) index everything, and it ranks things, so you will get you the answer quicker08:39
* eleitl is surprised he has to explain that08:39
eleitlin other news, the sky has clouds!08:39
rigelquicker?08:40
eleitl{{weather satellite feed missing}}08:40
rigelmore cluttered with irrelevant stuff is my experience08:40
rigeldoes google use MeSH terms?08:40
rigelDIDNT THINK SO08:40
eleitltime to sushi08:50
eleitlbyes, see you later08:53
eudoxiabai08:53
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nmz787kanzure: so should I look into using phonegap to make this uploader, or just use native android?09:15
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@kanzurenmz787: phonegap will work fine for file uploads, because you can always offload the file uploading to native android things if necessary.09:52
nmz787all i really care about is multi-image selectrion09:52
nmz787can I just pass each file to the webkit browser, once they're selected?09:53
nmz787since the webpage already has an uploader09:53
@kanzureprobably, but if you can't, then you can make a plugin for phonegap that can be given the files09:58
@kanzureeleitl: humanity+ is closing :rainbows:09:59
eudoxiait is?09:59
eudoxia[citation needed]10:00
@kanzurestraight from central command.10:00
eudoxiathat might be bullshit but i believe it10:00
eudoxiaany reason why?10:02
@kanzurebecause it's useless, broken, terrible and awful?10:04
eudoxiabut i didn't think they realized that10:04
yashgaroththey've managed to overcome that for years10:04
@kanzureughhh "NeoHumanitas is a recently launched Swiss Think Tank that promotes critical discussion and reflection about some socio-ethical issues concerning the use of emerging and future technologies on human beings"10:06
nsh(definitely an illuminati front)10:07
@kanzurehttp://blogs.nature.com/news/2013/02/award-mints-millionaire-biologists.html10:07
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@kanzure"The inaugural awards, however, went to a bumper crop: 11 pioneers who will help to select winners in subsequent years.  This year’s winners include those working in genomics (David Botstein and Eric Lander), cancer (Lew Cantley, Hans Clevers, Napoleone Ferrara, Charles Sawyers, Bert Vogelstein and Robert Weinberg), telomeres (Titia de Lange), stem cells (Shinya Yamanaka) and neurobiology (Cori Bargmann). "10:08
@kanzurezuckerberg got around to awarding yamanaka before the nobel prize committee did.. not a big surprise i guess.10:08
@kanzureoh wait no, he got the 2012 nobel prize10:08
@kanzure"Yamanaka received the Wolf Prize in Medicine in 2011 with Rudolf Jaenisch;[6] the Millennium Technology Prize in 2012 together with Linus Torvalds."10:09
@kanzureso.... he's rolling with linus.10:09
@kanzurewho the hell is ethan kurzweil10:12
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nmz787paperbot: http://link.springer.com/article/10.1007%2FBF02830159?LI=true10:51
paperboterror: HTTP 500 http://diyhpl.us/~bryan/papers2/paperbot/6aa77bdb491c654dcd7be4299d7130fd.txt10:51
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@kanzurehmm i'm not sure who is responsible for this document11:37
@kanzurebut it looks like a spreadsheet that is trying to do an open hardware specification thing11:38
@kanzurehttps://docs.google.com/spreadsheet/ccc?key=0AkNG-lv1ELQvdHViNEdtVHp4dHRWOU8tcDNSbXROY3c&usp=sharing#gid=211:38
@kanzurehttp://www.opensourcewarehouse.org/problem-statement/11:38
@kanzure"There’s no simple way to remix and mashup hardware. We propose a modular approach to open source hardware documentation that would facilitate remix, mashup and branching"11:38
@kanzurei don't see their actual proposal. vaporware?11:38
@kanzure"entity relationship diagram" https://docs.google.com/drawings/d/1ZNT1_rhLgRAqDk_8qyQ3eRGgANCs7-HV5oA37o10M44/edit11:39
@kanzureoh god that is disgusting11:39
@kanzure"Due to practical matters, the number of participants will be limited, so please let us know by March 18 if you would like to join us."11:40
@kanzure"New York City, April 26-28"11:40
@kanzurehmmm.11:40
@kanzurei am not convinced by any of this. the fact that they think an "entity relationship diagram" is useful is very telling.11:42
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nshit could just mean they went to college, and stupidly took notes, kanzure. there wouldn't be many people left to hold out hope for if we dismiss everyone that went to college.11:50
@kanzure"entity relationship diagram" is not a packaging format11:51
@kanzurei don't care if you went to college or not. that will win no favor with me.11:51
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@kanzureisn't it usually bad when a standards body is formed before a standard is actually proposed? they don't seem to be aware of my own proposals, or any of the others.11:54
nmz787hmm11:54
nmz787i dunno11:54
nmz787DIYbio was formed as a 'body' before we talked about standards11:54
@kanzurewhat standards11:54
eudoxiaon that note, kanzure, wouldn't it help the development of skdb to move away from CAD and make the program basically just a package manager? leave the "send these files to the reprap/CNC mill" part to build scripts in a scripts.yaml file11:54
@kanzureeudoxia: i'd be happy to look at any proof of concept11:55
eudoxiaokay11:55
nmz787does skdb exist at all?11:55
@kanzurethere is source code and packages11:55
nmz787in code?11:55
nmz787ahh11:55
@kanzureand cad integration with pythonocc11:55
nmz787what file formats can you shove into it?11:55
@kanzureyou make a git repository and add some yaml files11:56
eudoxiait's more abstract than that11:56
@kanzurethen you point to the files in the yaml11:56
eudoxiathe package is a git repo that can have anything you want + metadata.yaml + package.yaml, IIRC11:56
eudoxiaand in package.yaml there might be a section like: "cad: ['cad/main.dwg','cad/screw.dwg']"11:57
eudoxiaplease don't kill me for using dwg i don't know anything else11:57
@kanzurethat doesn't sound right11:57
@kanzurehttp://gnusha.org/skdb/package_spec.html11:58
@kanzureanyway, the two big problems we encountered were that one, nobody wanted to review the specification or suggest reasonable alternatives (except for smari, except he went off and made tangiblebit and then stopped that; he had an allergic reaction to python which was not helpful)11:58
@kanzuresecond, was the cad integration issues.11:58
eudoxiathanks kanz now i'm gonna get droned for visiting riseup.net11:59
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@kanzurehttps://github.com/OpenDesign-WorkingGroup/Open-Design-Definition12:11
@kanzurehttp://lists.okfn.org/mailman/listinfo/opendesign12:11
@kanzurehttp://lists.okfn.org/pipermail/opendesign/12:11
@kanzurehttp://groups.google.com/group/openmanufacturing/t/7912e3349732430112:17
@kanzurehttp://groups.google.com/group/openmanufacturing/t/d12235679cb57cb712:17
@kanzurehttp://groups.google.com/group/openmanufacturing/t/fc222ad4b6affc3d12:17
@kanzurehttp://groups.google.com/group/openmanufacturing/t/78aea87f8629a4f512:17
@kanzurejust some discussion about open source hardware things from the people who organized open source hardware summit12:18
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@kanzurepaperbot: http://www.frontiersin.org/Neural_Circuits/10.3389/fncir.2012.00098/full12:59
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paperbotno translator available, raw dump: http://diyhpl.us/~bryan/papers2/paperbot/Closed-Loop%2C%20Multichannel%20Experimentation%20Using%20the%20Open-Source%20NeuroRighter%20Electrophysiology%20Platform.pdf12:59
@kanzure"NeuroRighter allows 64 channels of stimulation and recording for around US $10,000, along with the ability to integrate with other software and hardware."13:01
@kanzurethat's.. a bit much?13:01
@kanzurei wonder if that's the chinese pcb production cost13:03
@kanzurein fact, if these systems are usually that expensive, then it sounds like a chinese-cheap version would be in high demand?13:04
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@kanzureheh stimitless.com13:06
nmz787damn, I guess my feedback time is 3 years13:13
nmz787i just responded to a 3 year old diybio thread, i finally did the experiment yesterday13:13
nmz787does that mean i'm an inertial, kanzure ?13:13
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@kanzurenmz787: it means you are a time traveler13:22
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@kanzure"SciPy John Hunter Excellence in Plotting Contest"... excellence in plotting.. revenge?13:25
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@kanzureplur: welcome back13:34
@kanzureoh wait. barriers.13:35
@kanzurei see.13:35
plurowo13:35
plurwe make this confusing13:35
pluras complexity has been stripped from many other areas of our lives13:36
plurbut thanks13:36
@kanzureum, what?13:36
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@kanzureOn Thu, Mar 7, 2013 at 4:39 PM, Javier Serrano <Javier.Serrano@cern.ch> wrote:15:00
@kanzure> On 03/07/2013 11:25 PM, Bryan Bishop wrote:15:00
@kanzure>> On Thu, Mar 7, 2013 at 3:58 PM, Javier Serrano <Javier.Serrano@cern.ch> wrote:15:00
@kanzure>>> What we are focusing our OSHW effort on these days is design tools. We15:00
@kanzure>>> are contributing to Icarus Verilog and Kicad [1]. I think this is the15:00
@kanzure>>15:00
@kanzure>> I am curious, does that mean CERN has someone specifically allocated15:00
@kanzure>> to verilog and kicad? That would be really exciting news.15:00
@kanzure>15:00
@kanzure> So far we have only contributed by asking companies to do development.15:00
@kanzure> You can grep the iverilog and Kicad sources for CERN copyright notices15:00
@kanzure> to see where we have contributed. And this year we had the opportunity15:00
@kanzure> to bring a student using CERN's technical student program. He has only15:00
@kanzure> been with us for a week, and he's planned to work full time on Kicad15:00
@kanzure> this year.15:00
@kanzureneat.15:00
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@kanzureone of the members of tc184-sc4 dropped an ISO 10303 bombshell in that conversation: http://groups.google.com/group/openmanufacturing/msg/99362921bbe7622215:11
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superkuhpaperbot: http://apl.aip.org/resource/1/applab/v102/i8/p082601_s116:21
paperboterror: HTTP 500 http://diyhpl.us/~bryan/papers2/paperbot/Macroscale%20refrigeration%20by%20nanoscale%20electron%20transport.pdf16:21
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@kanzure"At Tuesday's open house a few of you saw my latest project, a raster image to SVG conversion app I wrote to make designs to etch with the laser cutter. I got a lot of questions about it, so I decided to send it out to the list."18:48
@kanzurehttp://svg.hipokrit.com/18:48
@kanzurehttp://svg.hipokrit.com/handler.py/display?img=ATX_Hackerspace_logo.svg18:48
@kanzurehttp://svg.hipokrit.com/handler.py/fullsize?img=grumpcat.svg18:48
@kanzurehttps://github.com/mattprintz/derasterizer18:48
@kanzure"Converts a raster image to a SVG image by converting blocks of pixels to an SVG circle with a radius based upon the average pixel values of the block."18:49
@kanzurewell that's not really taking advantage of svg objects is it.. but i guess it works for cases where you don't need exact shapes.18:50
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@kanzureseems to work alright with qr codes.. for whatever that's worth. http://svg.hipokrit.com/handler.py/fullsize?img=download.svg19:07
nshreminds me of a 'fun' evolutionary algorithm that reduced/replicated an image to/with a series of overlapping translucent blobs19:13
nshpossibly circles, i forget the details19:13
@kanzuretrivial details like circles and squares are for toddlers! damn them all.19:13
@kanzurethis makes laser etching a qr code on to things more practical though.19:13
nshonce you've squared one circle, they're all largely the same19:13
@kanzureinstead of engraving a name into the back of your laptop, you can engrave a qr code with details like your email address, a url, phone numbers, etc.19:14
@kanzurensh: amen19:14
@kanzureyou could probably also place/pick colonies to a qr code pattern (for whatever that's worth, again)19:14
nshi was just thinking about a crop-circle kinda thing19:15
nshbut with colouring agents19:15
@kanzurewait, i think vector cutting a qr code on a laser cutter takes longer than cutting the actual data you want to communicate (maybe)19:18
nsh.g entropy of QR codes19:18
yoleauxhttps://bitcointalk.org/index.php?topic=117054.10;wap219:18
nshlolk19:18
@kanzurei get lots of results for 'entropy cryogenics' which does not sound like an outfit i'd want to store any bodies with19:19
nshhah19:20
nsh"We're preserve you in the strictest thermodynamic sense."19:20
nsh*We'll19:20
nshone of my results (from startpage.com) is entitled "I am Anna Skryabina: What is entropy and how to fight with it?"19:21
@kanzurei think it is better with We're19:21
nshagreed19:21
* nsh kinda wants to join battle with Anna Skryabina against the forces of entropy19:22
nshshe seems the resolute kind, able and determined, but with an intuitive, almost mystical aspect19:22
nmz787i fight entropy everyday19:22
nmz787sometimes I tire of it19:22
nmz787why would someone want to take a raster to SVG anyway?19:23
@kanzurelaser cutting19:23
nshi mostly flirt with entropy in the hopes that in a moment of weakness we will someday copulate19:23
nmz787using an algorithm like that anyway19:23
@kanzuremostly images19:23
@kanzureprobably photos19:23
@kanzure"laser etch a photo of your anus to the back of your laptop!" or whatever the hell the trend is19:23
@kanzure"QR_STENCILER, a free, fully-automated utility which converts QR codes into vector-based stencil patterns suitable for laser-cutting."19:25
JayDuggerTool-marking?19:25
@kanzurei see. i guess that's more efficient anyway... just directly generate the qr code with vector lines/edges in the first place. that would be much faster than cutting circles.19:26
JayDuggerQR-codes aren't human readable.19:26
JayDugger(Ignore me. Below the two cups to consciousness threshold.)19:26
@kanzure"As Fred Trotter has pointed out, QR codes contain stencil islands in unpredictable configurations. QR_STENCILER automatically detects and bridges these islands, using thin lines that are minimally disruptive to the highly robust QR algorithm. It does so through the use of two basic image processing techniques: connected component labeling (sometimes called blob detection) and 8-connected chain coding (sometimes called contour tracing)."19:27
@kanzurewelp nevermind. that's going to be way more efficient.19:27
nmz787kanzure: you could be raking in $$$ http://en.wikipedia.org/wiki/Pwn2Own19:27
nmz787geohot made $70k by pwning Adobe Reader19:28
nmz787today19:28
nmz787"And I'm 70k richer, Adobe Reader 0-day landed first try, on a cute little slim acer which I now own. Wouldn't have been able to do it without my 410, 411, and PPP skills. Cost of tuition justified."19:28
@kanzureis that because adobe paid out the $70k?19:29
@kanzureoh i see. you can only exploit things on the target laptop.19:30
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@kanzure"Web browsers Google Chrome, Internet Explorer and Firefox along with Windows 8 and Java have been exploited.[50]" that seems like cheating since java has had a number of vulnerabilities for the past few months.19:33
@kanzurevery well known vulnerabilities, i might add.19:34
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nmz787http://phys.org/news/2013-03-russia-bacteria-antarctic-lake.html19:36
nmz787kanzure: google sponsored it this year19:37
nmz787kanzure: with the requirement all exploits be fully divulged (at least to google)19:37
nmz787(not sure)19:37
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@kanzurenice overview of the mpeg patent pool and vp8 http://news.ycombinator.com/item?id=534185020:17
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@kanzurepaperbot: http://www.springerlink.com/content/l467218g107h8013/20:33
paperbotno translator available, raw dump: http://diyhpl.us/~bryan/papers2/paperbot/64f4f85846d33a20dfd117b4dd21fef0.txt20:33
ParahSail1nthats cool http://privat.bahnhof.se/wb907234/killuav.htm20:36
ParahSail1npaperbot: http://privat.bahnhof.se/wb907234/killuav.htm20:37
paperbotno translator available, raw dump: http://diyhpl.us/~bryan/papers2/paperbot/2b6a92b18c3987b21078f982a8f33164.txt20:37
@kanzureit would be pretty costly to replace all of the radio communication equipment that is deployed20:41
@kanzureso that will remain a vulnerability for quite a while i think20:42
ParahSail1nyeah, it sucks having to launch new satellites to fix hardware vulns20:43
@kanzurei've always wondered who gets to do satellite pen testing20:44
ParahSail1ni knew a guy who did some high security clearance work on the gps constellation, something about the guidance software20:46
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nmz787hey some EE help here21:33
nmz787i have two relays21:33
nmz787I want to one , when triggered, to also send power to the other relay21:34
nmz787relay's output21:34
nmz787(it's a heater and a fan, that used to be connected to the same switch)21:35
nmz787(i want the heater circuit to ALWAYS turn on the fan, but the fan be switchable on it's own too)21:35
nmz787so I was thinking I could add a diode21:35
nmz787so the output of relay 0 would power relay 1's output, but relay 1 wouldn't power relay 0's output when it was switched21:36
nmz787but how big of a diode do I need21:36
nmz787?21:36
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