--- Log opened Sat Aug 23 00:00:43 2014
00:00 < nmz787> juri_: do you have to be anoxic to prevent it from turning into alumina? (II would think the next layer wouldn't bind very well if it already had an oxide skin)
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00:56 < nmz787> http://upload.wikimedia.org/wikipedia/commons/6/6f/Photon_Mean_Free_Path.png
00:56 < nmz787> 'Mean free path for photons in energy range from 1 keV to 20 MeV for Elements Z = 1 to 100. Based on data from.[5] The discontinuities are due to low density of gas elements. Six bands correspond to neighborhoods of six noble gases'
00:56 < nmz787> so that's why they make lases with those gasses
00:56 < nmz787> :)
00:56 < nmz787> lasers
00:57 < nmz787> .wik mean free path
00:57 < yoleaux> "In physics, the mean free path is the average distance travelled by a moving particle (such as an atom, a molecule, a photon) between successive impacts (collisions),  which modify its direction or energy or other particle properties." — http://en.wikipedia.org/wiki/Mean_free_path
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01:35 < nmz787> .wik mcbj
01:36 < yoleaux> "A break junction is an electronic device which consists of two metal wires separated by a very thin gap, on the order of the inter-atomic spacing (less than a nanometer). This can be done by physically pulling the wires apart or through chemical etching or electromigration." — http://en.wikipedia.org/wiki/Break_junction
01:36 < nmz787> paperbot: http://www.nature.com/srep/2012/120710/srep00501/full/srep00501.html
01:36 < paperbot> http://libgen.org/scimag/get.php?doi=10.1038%2Fsrep00501
01:36 < nmz787> (that may be open)
01:36 < nmz787> .title
01:36 < nmz787> .title http://www.nature.com/srep/2012/120710/srep00501/full/srep00501.html
01:36 < yoleaux> Single-Molecule Electrical Random Resequencing of DNA and RNA
01:36 < yoleaux> nmz787: Sorry, that command (.title) crashed.
01:37 < nmz787> "Single base molecules on a DNA molecule in a solution are identified via a tunnelling current that passes between nanoelectrodes. Nanogaps of 0.8 nm were fabricated using a nano-MCBJ. A constant DC voltage of 0.4 V was applied between the nanoelectrodes, and electrical signals were measured at a sampling rate of 10 KHz."
01:37 < nmz787> daaaannnnnnnggggg
01:39 < ebowden_> Oh, heard of that a few months ago, I think.
01:40 < nmz787> "The fabrication procedures for MCBJs are described elsewhere.29 First, we coated a phosphor bronze substrate with a thin polyimide layer for electrical insulation. A gold nanojunction was then fabricated using electron beam lithography and a subsequent lift-off process. The junction was then exposed to isotropic reactive ion etching using CF4/O2 gas to remove the underlying polyimide and obtain a free-standing gold nanobridge. The MCBJ sample ...
01:40 < nmz787> ... was mounted in a three-point bend configuration. The substrate was then bent and the junction broken mechanically to form a pair of gold nanoelectrodes. The junction conductance was monitored using a Keithley 6487 picoammeter (Keithley) under a DC bias voltage of 0.1 V. A 10-k resistor was connected in series during this process to protect the junction from overcurrent-induced electromigration failure. Special care was taken while adjusting ...
01:41 < nmz787> ... the electrode gap size by a self-breaking technique."
01:41 < nmz787> that actually doesn't sound terribly hard
01:42 < nmz787> heh, I was just reading about femtoampere design last night
01:44 < ebowden_> So, how fast can this take the measurements?
01:45 < nmz787> huh http://www.quantumbiosystems.com/get/index.html?lang=en
01:46 < nmz787> "Raw quantum sequencing data are freely available for scientific and research use, allowing you, for example, to develop your own algorithms and software for quantum sequencing."
01:46 < nmz787> All data in this site belong to Quantum Biosystems. These pre-publication data are preliminary and may contain errors. The goal of our policy is that early release should enable the progress of science. The data is published under a Creative Commons licence Attribution-NonCommercial 3.0 (CC-BY-NC 3.0)
01:46 < nmz787> ebowden_: probably very fast
01:47 < ebowden_> Do they make any claims on speed in this paper?
01:48 < ebowden_> (Sequencing speed)
01:48 < nmz787> looks like the use the term ms
01:48 < nmz787> but i am tired
01:49 < nmz787> i think they're saying at least 2 ms per base
01:49 < nmz787> but the junction is only 0.8nm wide, so you can parallelize the hell out of this, assuming you come up with a good fab technique
01:50 < nmz787> 'the characteristic dwell time for single bases was 0.8 ms, as shown in Fig. 2e'
01:51 < nmz787> supplement http://www.nature.com/srep/2012/120710/srep00501/extref/srep00501-s1.doc
01:52 < nmz787> whoa bunnie is on their team
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01:55 < ebowden_> Who's bunnie?
01:56 < catern> a well known hardware hacker
01:56 < catern> http://en.wikipedia.org/wiki/Andrew_Huang
01:56 < ebowden_> Huh.
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01:57 < ebowden_> Was this sequencer the first to work in that manner?
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02:05 < nmz787> ebowden_: probably not
02:05 < nmz787> nano-whatever has been all the rage for years now
02:06 < nmz787> the fab technique for that was pretty cool is all I thought
02:06 < nmz787> nothing like the protein pores some use
02:06 < nmz787> or annealing-based porous silicon filter things
02:07 < nmz787> sorta like TEM grids
02:08 < nmz787> (i may have just thought TEM grid like things would be good for separating proteins from DNA, I mightn't of seen it in a paper)
02:08 < nmz787> prob some that use carbon nanotubes or something
02:08 < nmz787> just look at some of the reference names on that paper
02:08 < altersid> well, now its nano no mo', quantum here I cum
02:10 < altersid> nice for bunnie, they look like they have some serious brainpower
02:10 < nmz787> huh, so with ParahSailin's 2 billion 18mer human genome fragment comment earlier
02:10 < nmz787> 2000000000 milliseconds to days is 23.1481
02:11 < nmz787> so parallelizing would be pretty quick
02:11 < nmz787> even if it was macro scale
02:11 < nmz787> parallelizing
02:11 < nmz787> i.e. that fab just replicated on an assembly line
02:11 < nmz787> rather than on-chip density scaling
02:11 < nmz787> or per-chip
02:14  * nmz787 sleeps
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02:34 < dpk> paperbot: http://ieeexplore.ieee.org/xpl/articleDetails.jsp?arnumber=4976463
02:34 < paperbot> http://libgen.org/scimag/get.php?doi=10.1109%2FDCC.2009.42
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06:58 < kanzure> https://www.crowdsupply.com/xipiter/usbcondom
07:09 < ParahSailin> also 547233228 unique 15mers, so about 50% of the space
07:15 < kanzure> "Also the big problem for BSD with original advertising clause is that legally they had to list a dozen authors for some of the drivers, back when people would contribute under license terms that said "Use or marketing of this software must include the statement: "Driver written by Jonathan Cline jcline@ieee.org". That is one reason they added the "no advertising" clause to BSD later."
07:37 < abetusk> kanzure, online as in this room or somewhere else?
07:38 < kanzure> email
07:38 < abetusk> I emailed him yesterday
07:39 < kanzure> he didn't reply? what a slacker
07:39 < kanzure> he replied to something i sent him last nght
07:39 < kanzure> *night
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11:16 < juri_> nmz787: this is casting, not printing. ;)
11:26 < jrayhawk> .title http://www.youtube.com/watch?v=yOon17suyaI
11:26 < yoleaux> Resistance Training, Brain Structure, and Brain Function
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12:32 < pi-> paperbot: http://www.ncbi.nlm.nih.gov/pubmed/12395110
12:40 < nmz787> pi-: thanks! now where's that bottle of ashwaganda i bought years ago?
12:41 < pi-> :)
12:42 < kanzure> .title
12:42 < yoleaux> Axon- or dendrite-predominant outgrowth induced ... [Neuroreport. 2002]
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13:04 < nmz787> first part of a 3-part series... very very good... http://edn.com/design/analog/4368681/Design-femtoampere-circuits-with-low-leakage-part-one
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13:58 < nmz787> http://jeb.biologists.org/content/217/11/1833.1
13:58 < nmz787> .title
13:58 < yoleaux> Parasitic fig wasps bore with zinc-tipped drill bit
13:58 < nmz787> video here http://www.popularmechanics.com/science/environment/found-the-first-metal-plated-syringe-in-a-living-creature-16838120?click=pm_latest
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13:59 < kanzure> "Plastic bag was bore with zinc trapped yelling bit"
13:59 < kanzure> "what?"
14:00 < kanzure> "how did they know my brain wallet passphrase?"
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14:03 < nmz787> http://www.popularmechanics.com/science/environment/the-first-gear-discovered-in-nature-15916433
14:04 < kanzure> cc gene_hacker
14:04 < nmz787> .title http://www.sciencemag.org/content/341/6151/1254
14:04 < yoleaux> Interacting Gears Synchronize Propulsive Leg Movements in a Jumping Insect
14:04 < nmz787> 'Even stranger is that the issus doesn't keep these gears throughout its life cycle. As the adolescent insect grows, it molts half a dozen times, upgrading its exoskeleton (gears included) for larger and larger versions. But after its final molt into adulthood—poof, the gears are gone. The adult syncs its legs by friction like all the other planthoppers. "I'm gobsmacked," says Sutton. "We have a hypothesis as to why this is the case, but ...
14:05 < nmz787> ... we can't tell you for sure." Their idea: If one of the gear teeth were to slip and break in an adult (the researchers observed this in adolescent bugs), its jumping ability would be hindered forever. With no more molts, it would have no chance to grow more gears. And with every bound, "the whole system might slip, accelerating damage to the rest of the gear teeth," Sutton says. "Just like if your car has a gear train missing a tooth. Every ...
14:05 < nmz787> ... time you get to that missing tooth, the gear train jerks."'
14:19 < nsh> wow
14:19 < nsh> neat
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16:57 < nsh> paperbot, http://link.springer.com/content/pdf/10.1007%2F978-3-642-31912-9_16.pdf
16:57 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/8988e3727afbb40b32e0bc01c09db62f.txt
16:58 < nsh> paperbot, http://link.springer.com/chapter/10.1007/978-3-642-31912-9_16
16:58 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/53662cbd47d8822c90cf548181ad2810.txt
17:15 < kanzure> http://nordicapis.com/legos-api-strategy-resourcing-developers-building-business-case/
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19:20 < nmz787> pfft, fiction
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19:22 < kanzure> gene_hacker: insect gear thing http://www.sciencemag.org/content/341/6151/1254
19:22 < gene_hacker> seen it already
19:23 < gene_hacker> be interesting to see if it's actually superior to the involute profile as far as wear goes
19:24 < gene_hacker> hey do you know someone made a universal constructor?(for a universe consisting of plastic blocks)
19:25 < kanzure> minecraft?
19:25 < gene_hacker> http://www.sciencedirect.com/science/article/pii/S0921889013001462
19:25 < kanzure> .title
19:25 < yoleaux> An architecture for universal construction via modular robotic components
19:25 < gene_hacker> wait did someone do it in minecraft now too?
19:25 < kanzure> probably?
19:25 < gene_hacker> no real life
19:26 < kanzure> nsh_: ping?
19:26 < kanzure> or maybe jrayhawk would be better for that q
19:26 < kanzure> paperbot: http://www.sciencedirect.com/science/article/pii/S0921889013001462
19:26 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/8af183b63698e909c84b816158831deb.txt
19:26 < gene_hacker> unfortunately, it's not viable
19:26 < gene_hacker> it makes too many errors for unassisted replication
19:27 < jrayhawk> i doubt it
19:27 < jrayhawk> at least, not without a lot of cheat mods
19:27 < gene_hacker> you can just email the author of the paper...
19:27 < gene_hacker> I think they have components up on github too
19:27 < kanzure> usually paperbot works :(
19:28 < gene_hacker> https://github.com/mattmoses/MJMCS
19:28 < gene_hacker> here's components
19:29 < gene_hacker> errr... nothing appears to be there
19:29 < gene_hacker> recently talked with one of the authors
19:30 < kanzure> i was introduced to matt by tihamer toth-fejel
19:30 < kanzure> i think tihamer worked at nanorex (nanoengineer)
19:32 < gene_hacker> nah one of the other guys
19:32 < gene_hacker> apparently progress is slow because everyone wants to fund human co-robots
19:33 < kanzure> gross
19:33 < kanzure> btw what was the conference?
19:33 < gene_hacker> UC wasn't shown though
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20:32 < nmz787> http://diyhpl.us/~nmz787/pdf/An_architecture_for_universal_construction_via_modular_robotic_components.pdf
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21:15 < kanzure> http://grabcad.com/library/shock-free-high-speed-intermittent-gearing-1
21:20 < kanzure> dpk: ping
21:20 < nmz787> dpk: https://github.com/kanzure/paperbot/blob/master/modules/papers.py#L108
21:20 < nmz787> or thereabouts
21:21 < nmz787> seems like DRY is being violated, and it could be wrapped in a for loop
21:21 < kanzure> DRY is most definitely being violated
21:21 < nmz787> so we could put the URL into some proxy URL as a substring
21:21 < nmz787> if successful paper download fails
21:24 < kanzure> you would probably do this: requests.get("http://sciencedirect.com/", proxies={"http": "http://localhost:84841"}) and localhost:84841 would be responsible for doing ezproxy things
21:25 < kanzure> if you feel like deleting huge chunks of paperbot code go right ahead
21:27 < nmz787> http://docs.python-requests.org/en/latest/user/advanced/#proxies
21:27 < nmz787> doesn't seem like you can give that a list though
21:27 < nmz787> so you'd still need a for loop
21:28 < nmz787> starting with http:http (or proxies=None)
21:28 < nmz787> whatever the correct API is
21:29 < kanzure> localhost:84841 would have the list itself
21:29 < kanzure> because you only have access to one ezproxy server or whatever
21:29 < kanzure> instead of trying that entire list where 99% are inaccessible
21:32 < nmz787> i commonly use 3
21:32 < nmz787> but i may not be the only proxy host on there
21:32 < nmz787> what if some other person wants to be a proxy, not having a list means it isn't a one-line addition to the list file
21:33 < nmz787> or maybe if not a list, a dict with a priority associated with each proxy URL
21:34 < nmz787> would my proxy need a callback too, in case the returned pdf_url failed?
21:35 < nmz787> since my proxy would itself have multiple urls to try
21:35 < kanzure> if they want to add one it can be an extra file in a directory that gets scanned for configs
21:35 < kanzure> proxy should just proxy http requests and return back the content from the remote server
21:36 < kanzure> paperbot is responsible for parsing or saving pdf
21:36 < kanzure> *parsing html or saving pdf
21:36 < nmz787> but often a proxy i have creds to fails
21:36 < nmz787> and i need to try the next
21:36 < nmz787> so would I have a separate socket for each?
21:37 < nmz787> and thus paperbot's list of proxies would have 3 listings for me
21:37 < nmz787> (since I have 3 proxies)
21:37 < kanzure> proxy server can return an integer as an http header to paperbot in the http response
21:37 < kanzure> paperbot will look at the http header and then determine whether or not to send another request
21:37 < kanzure> the next request can include an incoming http header that says to try the next one
21:37 < kanzure> proxy looks at incoming http request header and thinks real hard about it
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21:38 < nmz787> ok
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21:47 < nmz787> kanzure: this example look OK? http://mitmproxy.org/doc/scripting/libmproxy.html
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21:52 < kanzure> yup
21:52 < kanzure> that's what i've used in the past
21:53 < kanzure> i was using libmproxy to do http caching
21:53 < kanzure> with some rather deep http request/response modification because i wasn't thinking straight at the time..
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22:42 < kanzure> .tell fenn http://en.wikipedia.org/wiki/Project_Habakkuk
22:42 < yoleaux> kanzure: I'll pass your message to fenn.
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--- Log closed Sun Aug 24 00:00:44 2014