2014-07-04.log

--- Log opened Fri Jul 04 00:00:54 2014
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nmz787https://www.takeitapart.com/guide/9404:07
nmz787.title04:07
yoleauxApplied Biosystems (ABI) 391 DNA Synthesizer PCR-MATE Guide04:08
nmz787kanzure: ^04:08
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kanzure"Hello Bryan, Joe Silva is a very longtime and dear friend of mine. He worked at Applied Biosciences at the time your synthesizer was produced. Perhaps he could provide some insights to you regarding its operation."08:16
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kanzurehttp://blog.erratasec.com/2014/07/jamming-xkeyscore_4.html09:16
kanzurecourtesy of eleitl09:16
ParahSailinXR stimulants are the dumbest thing ever09:20
eudoxia>A character like < or ' might cause various problems in rendering on an HTML page or generating SQL queries.09:20
eudoxiaho ho ho boy let's see who's in which watchlist09:21
kanzureParahSailin: they work pretty well for me, if i check the manufacturer before the pharmacy sells me it09:21
ParahSailinyou prefer the xr?09:21
kanzurei take both09:22
ParahSailinall xr seems to do is insomnia09:22
ParahSailinthese ones say barr09:24
kanzureonly manufacture i've had problems with is actavis09:25
ParahSailinits works all right if i chew the little balls09:26
kanzurei think that defeats the point09:26
kanzure.py import requests; response = requests.get("http://httpbin.org/get"); print response.json()09:27
yoleauxImportError: No module named requests09:27
kanzuredpk: notgood09:27
ParahSailinkanzure: precisely09:27
dpki don't run .py09:27
dpk.py json.loads(get('http://httpbin.org/get'))09:28
yoleaux{u'origin': u'107.178.200.50', u'headers': {u'X-Request-Id': u'bef033b4-d3d4-49c6-9989-8faae5913a55', u'Connection': u'close', u'Host': u'httpbin.org', u'Accept-Encoding': u'gzip', u'User-Agent': u'Python-urllib/1.17 AppEngine-Google; (+http://code.google.com/appengine; appid: tumbolia)'}, u'args': {}, u'url': u'http://httpbin.org/get'}09:28
kanzure.py import lxml09:29
yoleauxImportError: No module named lxml09:29
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kanzurehttp://diyhpl.us/~bryan/papers2/DNA/abi391/takeitapart/reasonable-size/09:38
kanzurei suppose this is what i should be looking at: http://diyhpl.us/~bryan/papers2/DNA/abi391/takeitapart/HtTrJYL_large.jpg09:40
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kanzurewhat's in image 25?10:02
kanzurein https://www.takeitapart.com/guide/9410:02
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kanzurehmm netflix paid for a tsutomu nihei anime thing10:41
kanzurehas the right look10:43
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eudoxia>I don’t know where else I’d have an opportunity to discuss nanotechnology, additive manufacturing, Haskell[2], and medicine all in the same day.11:22
eudoxiahttp://metamodern.com/2014/07/03/keynote-at-tvc-2014/11:22
eudoxiai didn't know drexler was a haskeller11:23
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kanzurehe's lying, i'm sure he knows many other mediums for that sort of discussion11:24
eudoxiai don't think he knows this channel11:25
kanzurethere are still other places11:26
kanzurei somehow doubt he would be interested in irc11:26
eudoxiathe ExI ML that is somehow still operating11:26
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kanzurewell, no.. not that one.11:37
kanzurehm.11:37
FourFirekanzure, #lesswrong, though the focus is more on other weirdness there11:38
kanzurethat's also irc though11:40
kanzureand in general they are unskilled11:40
kanzureuh, in nanotech stuff in particular11:40
FourFirekanzure, and you are?11:42
kanzurewell, i'd like to pretend i have relevant experience because of maintaining nanoengineer11:43
FourFireI have to go, but I'd like to discuss this again sometime11:44
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eudoxiai should write something like a library for turning the mmp format into something more11:44
eudoxiauh, agnostic11:44
kanzureeudoxia, i have been thinking about nanoengineer battle plans lately11:44
eudoxiai'm listening11:45
kanzurein particular, the core models should be transitioned to inherit a base class like Model from https://github.com/kanzure/modelo11:45
kanzurethe gui components should be stripped from there- it would be nice to get it to work in the same gui eventually, but i don't think that's a priority11:45
kanzureman i'm so confused why is there a nanoengineer/cad/src/libpython23.a.gz and nanoengineer/cad/src/libpython24.a.gz11:47
kanzurei thought i stripped those from the repository11:47
kanzureto reduce the size11:47
eudoxiaright, the gui should probably be rewritten from scratch. i have no experience with OpenGL but don't think it will be extraordinarily hard to make something like the current GUI11:47
eudoxiaas for the models, it might be possible (and desirable) to move them off to C++11:48
kanzurei would rather use c instead of c++11:48
eudoxiawhy do we need a custom internal representation of atoms when we have ObMol, ObAtom etc from OpenBabel?11:48
kanzurebecause that's the only thing this does other than a gui11:49
eudoxiakanzure: why? i definitely appreciate the simplicity of C but i don't like writing containers all the time11:49
kanzurein general the name mangling always comes back to bite me when i do c++ things11:49
eudoxiahm11:49
kanzurelike downstream consumption of the library11:50
kanzurea very simple cleanup task is to replace all the stupid print statements with python logging11:50
kanzurei agree that openbabel things should be used11:51
kanzurehttp://openbabel.org/docs/current/UseTheLibrary/Python_Pybel.html11:52
eudoxiado you know where the linear/rotary motor stuff gets translates to GROMACS stuff?11:54
kanzurenot really11:55
eudoxiaugh what was the name of the custom MM simulator NE used12:00
eudoxiananosomething, not nanohive12:00
kanzurenanodynamics, nanohive, pick your poison12:00
eudoxiananodynamics, that's it12:00
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||0_-_0||paperbot http://pubs.acs.org/doi/abs/10.1021/la500492913:10
paperbothttp://libgen.org/scimag/get.php?doi=10.1021%2Fla500492913:10
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nmz787_aKanzure you shouldn't want those scraped images, they're cropped to something like 2k pixels per side13:34
nmz787_aThough the images straight from the camera are not well sorted or cropped nicely13:35
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kanzurethe _large.jpg ones are cropped?13:37
nmz787_aYa13:37
nmz787_aPretty sure13:37
nmz787_aI think the camera is 8mpix native or so13:38
nmz787_aI was shooting jpegs but the imgs were about 3mb each13:39
nmz787_aAlso if you didn't actually use the website , you missed out on my comments and hover-notes13:40
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kanzurehi gene_hacker13:42
nmz787_aThose pics may be sufficient though, i guess as long as you can read the chip labels13:43
kanzuregene_hacker: https://www.takeitapart.com/guide/9413:43
gene_hackersaw it13:43
nmz787_aThis doesn't seem good for us like-to-think http://news.sciencemag.org/brain-behavior/2014/07/people-would-rather-be-electrically-shocked-left-alone-their-thoughts13:47
nmz787_aGene_hacker ever been to the Oregon country fair?13:53
gene_hackerno13:53
gene_hackerwhen where?13:53
nmz787_aNext weekend13:53
nmz787_aWest of eugene13:53
gene_hackerwill food prepared with unhealthy levels of transfats be available?13:54
kanzurei'm afraid that if you two meet that it will cause the space-time mobious strip to implode13:54
nmz787_aNo trans fats13:54
gene_hackerthat's ok kanzure there are indications that when qunatum mechanics is taken into account that causality violations are possible13:55
nmz787_aAs I recall anything I ate last year was very tasty13:55
nmz787_aJrayhawk are Washington fireworks better than local ones?13:56
jrayhawk_Yes.13:57
||0_-_0||transfats ain't unhealthy so long as you move around enough14:01
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jrayhawk_haha what14:04
||0_-_0||move enough to burn them14:04
jrayhawk_yes, with all that cellular infrastructure we've evolved in the past three generations14:06
||0_-_0||your body isn't some fragile sacrosanct temple with a metabolism that falls down at the faintest insult14:07
kanzurei don't see you guzzling formaldehyde14:08
||0_-_0||so transfats == formaldehyde here?14:09
||0_-_0||I don't see your point14:09
kanzure"faintest insult"14:09
||0_-_0||what does formaldehyde have to do with your metabolism here? it's an acute cellular toxin14:09
jrayhawk_humans are likened to ferraris in that regard, actually, but even less metabolically fragile animal models don't do well with oxidatively unstable and unmanagable evolutionarily novel fatty acids14:10
paskyahh, i should try to put "guzzle" in my active vocabulary14:10
kanzurepasky: guzzard is also fun14:10
kanzure.ud guzzard14:10
kanzure.u guzzard14:10
yoleauxNo characters found14:10
kanzurewhat14:10
kanzurethen ud should have worked14:10
jrayhawk_even cis fatty acids with different chirality cause problems14:10
paskylol14:11
||0_-_0||jrayhawk_ I don't see how human metabolic robustness can be compared to a Ferrari as the diversity of the human diet is about on par with that of rats and pigs14:12
jrayhawk_Not really; humans have largely lost the capacity to produce or recycle adequate levels of higher-food-chain stuff like carnatine, DHA, mk4, iodine, etc.14:15
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jrayhawk_While I agree that the average western diet looks remarkably like that of a pig, I wouldn't say chronic disease rates over fifty percent is actually an indication that this is a good idea.14:17
gene_hackerdammit I still need to find a place to legally detonate recreational explosivies14:18
jrayhawk_Well, that of a CAFO pig.14:18
jrayhawk_We're sortof halfway through losing the ability to create retinol; carotinoid conversion has a lot of genetic variance.14:20
kanzurewe could probably put those back in if you cared enough14:22
kanzureor dump it into some gut bacteria14:22
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kanzurejrayhawk_: what hypothetical gut bacteria would be most useful to you14:27
kanzureactually, i wonder if some could be stolen from other animals safely14:37
jrayhawk_this is an awkward question because the unknowns are so huge; folks doing disease correlation studies still refer to most of the floral species as "operational taxonomic units"14:40
jrayhawk_broadly speaking, soil-based bacteria seem to be pretty fragile and pretty beneficial14:40
jrayhawk_e.g. throwing the intestines into an inflammatory state or tossing antibiotics/antiseptics down tend to kill them off pretty easily14:41
jrayhawk_if the question is about me specifically, i am doing fine. i can eat large quantities of prebiotics without adverse symptomology.14:42
kanzurenot you specifically, except inasmuch as you are more likely to be someone who can fathom what i am asking as opposed to not14:42
kanzurewhat about vitamin production though14:43
jrayhawk_Oh. Hmm. Phytase activity is a handy thing for the gut biome to have, but I haven't actually run across (or looked for) much else in terms of nutrient extraction/production.14:45
jrayhawk_like, i can buy my way into good micronutrition, so the gut angle isn't that interesting to me. I can see where vegans would really *really* need phytase activity and something to convert cyanocobalamin.14:47
jrayhawk_how do vegans even deal with the taxonomy of "animal" in lower species14:49
jrayhawk_i guess the rule of thumb is "anything with a face"14:50
jrayhawk_shellfish would be fine, then, which would instantly solve most of their nutritional problems14:51
nmz787_aNo animalicules.14:52
nmz787_aAnimalecules14:52
nmz787_aAnimolecules14:52
nmz787_aWhatever that dead dude called them14:52
nmz787_aJrayhawk are mussels or clams better?14:53
nmz787_aI could remember when I was at the coast last... Like since I don't eat licet14:53
nmz787_aLiver14:53
kanzureanimacules14:54
nmz787_ajrayhawk_ ^14:56
nmz787_awanna carpool to Washington to light fireworks?14:57
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jrayhawk_Nah, I'm heading out to the hills south of Hillsborough (ha ha ha) to watch the entire valley light up.14:59
jrayhawk_re: mussels or clams: whatever you'll eat. shellfish are all pretty amazing nutritionally.15:01
nmz787_aAh ok15:02
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nmz787_aNothing seems to be open today15:30
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juri_home depot is.15:38
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kanzurehttps://github.com/nelhage/reptyr "reptyr is a utility for taking an existing running program and attaching it to a new terminal. Started a long-running process over ssh, but have to leave and don't want to interrupt it? Just start a screen, use reptyr to grab it, and then kill the ssh session and head on home."16:41
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ParahSailinoysters are the best16:46
kanzurenot amused https://github.com/marook/tagfs16:46
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kanzuredoesn't feel right: echo movie >> items/Ted/.tag16:47
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||0_-_0||paperbot http://www.sciencemag.org/content/288/5466/66917:27
paperbothttp://libgen.org/scimag/get.php?doi=10.1126%2Fscience.288.5466.66917:27
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kanzurehttp://www.ribbonfarm.com/2012/05/09/welcome-to-the-future-nauseous/18:24
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nmz787paperbot: http://onlinelibrary.wiley.com/doi/10.1002/hbm.22562/pdf19:08
paperbothttp://diyhpl.us/~bryan/papers2/paperbot/89a216dd93565846da9ee7d8517b5060.txt19:08
nmz787paperbot: http://onlinelibrary.wiley.com/store/10.1002/hbm.22562/asset/hbm22562.pdf?v=1&t=hx8alsjx&s=17f40af115dddd6a4b3cb34dec604cc3a411c4a119:09
paperbothttp://diyhpl.us/~bryan/papers2/paperbot/79b3a714c4247152abf49bbd6e404295.pdf19:09
nmz787"Enhanced Repertoire of Brain Dynamical States During the Psychedelic Experience"19:09
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--- Log closed Sat Jul 05 00:00:55 2014

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