2013-07-06.log

--- Log opened Sat Jul 06 00:00:17 2013
@kanzureParahSail1n: it says you closed it?00:14
ParahSail1nreopened00:14
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@kanzurek cool. i'm off duty. will get to this in a few hours.00:18
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@fennthat urea factory email has 12,000 lines of 0 px css styling. i get a lot of unsolicited chinese product offers, i always figured it was some user data leak in alibaba's interface07:08
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jonathan___paperbot are you there09:27
jonathan___paperbot http://scitation.aip.org/qab_login.jsp?purchasable=true&d=137312803631009:27
jonathan___oh, poor paperbot09:27
yashgarothnah he's just sprinting to russia and back09:30
ParaSa1linno you have to tip better09:33
yashgaroth.bottip $509:33
ParaSa1linthe issue is that page you linked has no navigable path to a pdf09:35
ParaSa1linits a pure login page09:36
ParaSa1lingive it the abstract page09:37
brownies.meow09:39
yoleauxhttp://moar.edgecats.net/cats/tumblr_m7xj9rIz8v1rows1to1_500.gif09:39
paperbotTypeError: unicode() argument 2 must be string, not None (file "/usr/local/lib/python2.7/dist-packages/requests/models.py", line 825, in text)09:39
browniesgood to know the important robot functionality is still working.09:39
jonathan___paperbot http://tpt.aapt.org/resource/1/phteah/v38/i4/p238_s1?isAuthorized=no09:41
paperbothttp://diyhpl.us/~bryan/papers2/paperbot/6303c7e4b164f359ae7adce4642858a6.txt09:41
jonathan___nooooooooo09:42
jonathan___paperbot http://scitation.aip.org/getpdf/servlet/GetPDFServlet?filetype=pdf&id=PHTEAH000038000004000238000001&idtype=cvips&doi=10.1119/1.880516&prog=normal09:42
jonathan___poor little automation agent09:43
ParaSa1linthat ones not gonna work until kanzure pulls recent changes09:43
jonathan___"Why We MUST Tell Young Women Math Is Cool ....  Women account for only 20% of the Bachelor’s degrees in engineering, computer science, and physics."   forbes  http://www.forbes.com/sites/netapp/2013/05/10/math-is-cool/09:48
jonathan___addendum:  tell the cute girls repeatedly09:49
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ParaSa1linits because of your dogmatism against froms in import statements09:51
ParaSa1lini hope you're happy09:51
jonathan___oh yes, I am very content with myself09:53
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@kanzureParahSai1in: could you put back in some of paperbot's debugging output? i feel like that shouldn't have happened.09:56
@kanzurejonathan___: 20% is way higher than i thought09:56
jonathan___there's a lot of girl math majors.   I believe this is because it's a useless major and they pick useless topics by default.09:57
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jonathan___also to specifically get away from yucky engineering guys09:57
jonathan___max max max09:58
jonathan___will you be at lab on sunday09:59
delinquentmeok soooo09:59
delinquentmeneed data based awesome idea to pitch to a bunch of kids interested in hacking on humans09:59
delinquentmewhat can we start working w right now?09:59
jonathan___define hacking09:59
jonathan___you can get an axe, they are good at hacking09:59
yashgarothyeah I'll be there tomorrow10:00
jonathan___the obvious answer is have them collect biometrics10:00
@kanzurehere are things i need you to do: dna synthesis, transcranial ultrasound, organ perfusion, hplc things, taq production, wearable computer, diy afm10:00
ParaSa1linkanzure, that error was because i dont pass the scihub cookie to download_url10:01
ParaSa1lini just put a commit to my repo on that10:01
jonathan___run the kids thru tabata drills against a control group and publish the results.10:01
jonathan___yashgaroth: what time10:02
yashgaroth1 I guess? I'm flexible10:02
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jonathan___I take it you don't go to noon mass at church on sundays.10:02
yashgaroththey're doing mass on sundays now?10:03
jonathan___uh you know the day of rest?10:03
jonathan___the sabbath?10:03
yashgarothyou mean saturday, surely10:03
jonathan___sabbath as in black sabbath? ozzy?10:04
ParaSa1linkanzure, new pull request10:04
@kanzurekk10:04
jonathan___it's interesting that source collaboration still requires out-of-band communication to tell collaborators to pull and push.  how come that isn't inside the system.10:05
@kanzureit is inside the system10:05
@kanzurehe just doesn't know that10:05
jonathan___notifications?10:05
@kanzureyes. it's all based on email.10:05
jonathan___ah see, that's out-of-band10:06
jonathan___git itself should do it10:06
jonathan___$ git notify me when changed10:06
ParaSa1linyeah im pretty sure it doesnt require out of band10:12
ParaSa1lindoesnt it send emails or something whenever i sent pull request?10:13
ParaSa1lini guess email is technically out of band10:13
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* ParaSa1lin still has a google reader window open from before10:16
ParaSa1linstill works10:16
@kanzureParahSai1in: you can probably retrieve it from your cache10:16
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gnushahttps://secure.diyhpl.us/cgit/paperbot/commit/?id=64a0ae87 U-ACORNSYS\pwang: Env variable10:19
gnushahttps://secure.diyhpl.us/cgit/paperbot/commit/?id=27b25bee U-ACORNSYS\pwang: lxml etree instead of silly things10:19
gnushahttps://secure.diyhpl.us/cgit/paperbot/commit/?id=d58853b9 U-ACORNSYS\pwang: delete more cruft10:19
gnushahttps://secure.diyhpl.us/cgit/paperbot/commit/?id=ec225d68 U-ACORNSYS\pwang: oops, added back predicates10:19
gnushahttps://secure.diyhpl.us/cgit/paperbot/commit/?id=aab9aa3f U-ACORNSYS\pwang: Better integration with download_url10:19
gnushahttps://secure.diyhpl.us/cgit/paperbot/commit/?id=3fccd5df Bryan Bishop: Merge pull request #20 from rcallahan/master10:19
gnushapaperbot: reload papers10:19
paperbotgnusha: <module 'papers' from '/srv/ikiwiki/paperbot/modules/papers.py'> (version: 2013-07-06 17:19:09)10:19
ParaSa1linpaperbot, http://dx.doi.org/10.1119/1.88051610:20
paperbotAttributeError: 'module' object has no attribute 'defcookie' (file "/srv/ikiwiki/paperbot/modules/papers.py", line 143, in download)10:20
@kanzurepaperbot: reload papers10:20
paperbotkanzure: <module 'papers' from '/srv/ikiwiki/paperbot/modules/papers.py'> (version: 2013-07-06 17:19:09)10:20
@kanzurepaperbot: http://dx.doi.org/10.1119/1.88051610:20
paperbotAttributeError: 'module' object has no attribute 'defcookie' (file "/srv/ikiwiki/paperbot/modules/papers.py", line 143, in download)10:20
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@kanzuresyntax error10:23
gnushahttps://secure.diyhpl.us/cgit/paperbot/commit/?id=579d533e Bryan Bishop: fix syntax error in modules/scihub.py10:23
gnushapaperbot: reload papers10:23
gnushahttps://secure.diyhpl.us/cgit/paperbot/commit/?id=bc7de60a Bryan Bishop: fix an AttributeError (be less redundant)10:27
gnushapaperbot: reload papers10:27
gnushahttps://secure.diyhpl.us/cgit/paperbot/commit/?id=d990cad0 Bryan Bishop: fix typo (pheny -> phenny)10:28
gnushapaperbot: reload papers10:28
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@kanzureParahSai1in: still doesn't work, though10:29
@kanzurepaperbot: http://dx.doi.org/10.1119/1.88051610:29
paperbothttp://diyhpl.us/~bryan/papers2/paperbot/a156fbffba257d05f61c01773ec0db5e.txt10:29
ParaSa1linpaperbot, http://scitation.aip.org/getpdf/servlet/GetPDFServlet?filetype=pdf&id=PHTEAH000038000004000238000001&idtype=cvips&doi=10.1119/1.880516&prog=normal10:30
paperbothttp://diyhpl.us/~bryan/papers2/paperbot/c6821dc147936475bd1572efa30f5f81.pdf10:30
@kanzureit looks like the "reload papers" command doesn't work anymore because reloading the "papers" module doesn't reload the other modules.10:31
@kanzurei mean, specifically it doesn't reload the scihub include.10:32
@kanzurei think a better way to architecture paperbot would be to have a core library that is another python library, and then phenny would be just a thin wrapper around it.10:32
@kanzureso there would be a phenny command file that would just "import paperbot" and paperbot would be somewhere on the $PATH.10:32
@kanzurei mean, the $PYTHONPATH.10:32
@kanzureit would also be nice to see an html page generated with error reports and diagnostics about each failure, like which methods were tried and what things need to be fixed, instead of spamming ##hplusroadmap with errors and sadness.10:33
jonathan___there's an advertisement on page 1 of the pdf..  what?10:35
@kanzureit seems to be a conference advertisement. i bet it's in-house. something about the journal or AIP.10:35
@kanzureoh god look at that nasty watermark.10:36
@kanzurebut yeah, maybe we need to do ad block for science papers10:36
jonathan___adblock for papers wtf10:39
jonathan___first we pay for it with our tax dollars.  then we have to pay for it again if we want to read it.  then we are subject to advertisements after we paid for it twice?10:39
@kanzurejonathan___: so, a while back i had this idea that i trashed.. the basic concept was to scrape all journals and get an index of all papers. then make a site where we estimate the tax dollars used to make each paper, based on the length of the paper, which journal, the journal's publishing fees, and how many coauthors (salaries). then make it into a tax spectacle.10:43
@kanzure"This paper cost about $41,341. By the way, you can't read it."10:43
@kanzureor rather, "This paper cost you $41,341. By the way, your mom is gonna die from fucking cancer."10:43
jonathan___yea!10:43
jonathan___well that's basically similar to my scripts.  they retreived full indexes of all papers first.   then downloaded them as a batch operation second.10:44
@kanzureyeah, i think the index is critical10:44
@kanzureotherwise how the hell do you know if you're complete or not10:44
jonathan___coauthor salaries, that's hitting hard in the gut eh10:44
@kanzurewell, on the one hand people might be surprised to learn that scientists are poor as dirt, but whatever..10:45
jonathan___probably could ballpark the costs of "all combined papers" by using NIH yearly budget and assuming some % of grant is the documentation process10:46
gradstudentbotWho the hell stole my pipette?10:46
@kanzuresort of, but i would be more extreme than that10:46
jonathan___yes, drive it home10:46
@kanzurebecause frankly once the projects are gone, the only thing we have are (1) somewhat trained scientists and (2) papers10:46
@kanzurenot like the animal samples are going to be kept around. you *might* get a new plasmid in a repository.10:46
jonathan___..often bad papers with no data10:46
@kanzureand it would cost 2x just to repeat it. and nobody would want to because it would kill their career.10:47
@kanzureor at least, it would kill someone's career, either theirs if they don't manage to repeat (i.e., can't get to the point of even a negative result), or it would kill the original authors' careers a bit, etc.10:47
jonathan___yes and detract from finding something else "novel"10:48
@kanzurehaha10:48
jonathan___the quest for novelty is what kills the urge to optimize science10:49
jonathan___"why do we need to automate this, we only do it once"   gaaah10:49
@kanzureyou can get a lot more bang-per-buck by picking better projects.10:49
delinquentmeso yeah im at this10:50
delinquentmehttp://humanapisf.eventbrite.com/10:50
paperbothttp://diyhpl.us/~bryan/papers2/paperbot/51663d713b71dffeed05b77c6f17e1f6.txt10:50
delinquentmetldr they want us to dev for their api hahah10:50
delinquentmeHMMMMMM is this marketing?10:50
@kanzureyes, this is a common hackathon scam10:50
@kanzurea company sets up a hackathon, gets programmers to show up10:50
@kanzureand then all projects must use their api10:50
@kanzureand it's some boring old shit10:50
@kanzureand by the way you probably don't own your work10:50
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delinquentmeNERTWERKING10:52
delinquentmekanz whatchoo doin10:53
@kanzurehiring gullible children to do my bidding for me10:53
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jonathan___the interesting thing about medical or health or wellness data online is that there is all this technology to get it done and at the end of the day the business guys say "yea but how do we monetize this?"10:58
jonathan___they say "so we could use this as a service model for recurring revenue?"10:58
jonathan___no dudes you could save people's lives10:58
jonathan___they say "so if we could get, say, $10 to $15 dollars per month for this..."10:59
jonathan___(facepalm)10:59
@kanzureParahSai1in: i think paperbot is scanning all links now. which is how http://diyhpl.us/~bryan/papers2/paperbot/51663d713b71dffeed05b77c6f17e1f6.txt happened..11:09
@kanzurehttp://diyhpl.us/~bryan/papers2/paperbot/51663d713b71dffeed05b77c6f17e1f6.txt11:09
paperbothttp://diyhpl.us/~bryan/papers2/paperbot/d95dac9d40a304758f99f367735bf1c3.txt11:09
@kanzureyeah..11:09
@kanzurethat's not good11:10
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delinquentmekanz.11:11
delinquentmei feel used.11:11
delinquentmelol11:11
@kanzurehrm?11:12
@kanzureoh, hackathon11:12
delinquentmemuh butt hurtsz11:12
delinquentmeyou're out on the 15th??11:12
@kanzurehuh?11:13
@kanzurehttp://genofond.org/ libgen11:22
paperbothttp://diyhpl.us/~bryan/papers2/paperbot/189b1380d6aa46f29b630a7196ae0357.txt11:22
@kanzuregrr paperbot, go away11:22
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heathnmz787_: you helped with j5?11:25
@kanzurehttp://genofond.org/viewtopic.php?f=9&t=645211:30
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@kanzurehttp://alibabahost.com/100tb-offshore-servers.html11:35
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nmz787_heath: nah, did other stuff at jbei12:05
yashgarothoh hey nmz787_ yes I do check the logs for my name12:06
heathyashgaroth == nmz787_12:11
nmz787_hey12:12
nmz787_ok12:12
nmz787_yashgaroth: i don't see anything new12:14
yashgarothI replied about the gfp in nails yesterday if that's what you mean12:14
nmz787_yeah12:14
nmz787_no12:14
nmz787_never saw an article on gfp silkworms12:14
nmz787_gfp or caffeine could be proof-of-concept12:15
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yashgarotherm like synthesizing caffeine in the body?12:15
nmz787_but i'd be crazy if i could bite my nails and eat some high value medicine12:15
@fenni saw the gfp silk article (in c&e news i think)12:15
nmz787_yeah but just in the nail/hair, and such that it didn't leak back into the blood12:16
@fennthey had other colors too, not just green12:16
nmz787_so you'd have to eat/smoke/extract it12:16
yashgarothsynthesizing caffeine in mammalian cells in hard enough, I'm sure localizing it is trivial in comparison12:16
nmz787_like i said, caffeine would be proof-of-concept, i actually don't want caffeine12:16
yashgarothalso it's got a pretty high ED5012:16
yashgarothoh well it's no harder than any other small molecule not made in mammals12:17
@fennwhy bother making caffeine? there's plenty of it already12:17
nmz787_anyway, gfp would be a fine proof12:17
nmz787_fenn: right12:17
nmz787_fenn: was an example that i thought wouldn't cause much stir12:17
nmz787_i was wrong :(12:17
nmz787_i actually want them to make mind-bending drugs12:17
nmz787_left hand meth, right hand diazapam12:18
@fennbromo dragonfly12:18
nmz787_morning and night hand12:18
yashgarothyou could do DMT that's about it really12:18
nmz787_that could come from my ear hair cells12:18
nmz787_yashgaroth: yeah12:18
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nmz787_yashgaroth: that's simple12:18
@fennDMT is also already commonly available12:19
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nmz787_i cut my hair/beard and think that if only it was a high-value drug, it would be worth something12:19
@fennbtw what are we talking about? why mammalian cells?12:19
nmz787_fenn: not really in a nice form tho12:19
nmz787_fenn: my hair and nail cells are mamallian12:19
yashgarothit's schedule I but you have a point, still it's only a proof of concept12:20
nmz787_er mammalian12:20
@fennthere's no such thing as a "hair cell"12:20
nmz787_there must be12:20
nmz787_something becomes/makes hair12:20
@fennsure, follicle cells12:20
nmz787_afaik it was a mix of dead cells and proitein12:20
nmz787_fenn: so i was asking yashgaroth how easy it would be to transform them12:20
nmz787_since he's all knowing about skin electroporation12:21
nmz787_seems like an easier target than muscle even12:21
yashgarothhigher turnover in skin, shorter halflife for plasmids12:21
yashgarothmany more immune cells12:21
@fennthis is just a human transformation demo? GFP should do fine then12:22
nmz787_you're saying you might risk transforming the WBCs?12:22
yashgarothno I'm saying you risk exposing the gfp-transformed cells to the immune system whereupon the transformed cells will be destroyed12:23
nmz787_fenn: no, like i said, i want high-value drugs in my nails and hair, different patches/fingers would be different drugs12:23
@fennum, there's the obvious problem where you're high on drugs constantly12:24
nmz787_no12:24
nmz787_read the logs12:24
nmz787_12:16 < nmz787_> yeah but just in the nail/hair, and such that it didn't leak12:24
nmz787_                 back into the blood12:24
@fennwhat day/channel was that?12:24
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nmz787_8 mins ago12:25
nmz787_9 now12:25
nmz787_this onee12:25
@fennokay.12:25
@fennthanks for humoring me12:25
nmz787_:D12:26
@fennyou could transform the follicle cells outside of the body and then implant them12:26
@fenni still think you'd be high on whatever drug as long as the cells are in your body12:27
nmz787_anyway, it would certainly be difficult, but it would be damn sweet and potentially life saving (one fingernail could have a single dose of epinephrine or some other crap)12:27
nmz787_fenn: well, no12:27
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@kanzurewhy wouldn't you just use fingerpaints instead?12:27
nmz787_fenn: that's specifically not a goal12:27
@kanzurethen you can just have epinephrine fingerpaint, and adrenaline fingerpaint, etc.12:28
nmz787_kanzure: because my fingers don't synthesize paint either12:28
nmz787_i want to depend less on anything but my body12:28
nmz787_my nails don't serve enough functions12:28
@fennhow about inserting genes for vitamin C synthesis12:28
nmz787_i hadn't thought about it til now, but the extra chems in the nail could weaken it12:29
nmz787_but i guess certain drugs that are not too flexible could strengthen or not change it much12:29
nmz787_i don't know about nail structure much on the molecular level12:29
nmz787_or hair12:29
@fennhow about incorporating metalloprotein complexes such as wear-resistant carpenter ant jaw tips12:29
nmz787_that would be functional, sure12:30
nmz787_have a pinky nail that's extra hard/sharp/wear-resistant12:30
@fennthen you could become a professional backscratcher12:30
nmz787_'you have to cut your nail to come on the airplane, sir'12:30
nmz787_2-part suicide bomber fingernails, blow up when brought into contact12:31
@fennorganic LED fingernails12:31
nmz787_i knew a beekeeper that always had a long pinky nail12:31
nmz787_so he could scrape out stingers12:32
nmz787_yashgaroth: can you prevent MHC presentation?12:33
yashgarothviruses try that12:33
yashgarothgenerally a cell that doesn't present MHC is killed, and you can't block a specific protein from being presented12:34
nmz787_well just for a certain 1 protein12:35
nmz787_there must be some bigger protein that would bind the MHC:GFP complex as it was translocating, and stop it12:36
nmz787_s/would/could/12:36
yashgaroththere would be a number of gfp peptides attached to TAP and you would need a 'bigger protein' specific for each of those, as well as an even bigger protein for all the peptides from your original bigger proteins12:37
@fennhttp://io9.com/5839156/what-can-this-glow+in+the+dark-kitten-teach-scientists-about-aids12:37
@fenni've never seen a GFP cat before12:37
nmz787_hmm, is there a way to preven peptidase from chewing up and making GFP big->small12:39
nmz787_?12:39
yashgarothno12:40
@fennwoah sweet i want this http://miqel.com/new_information/image_2008/gfp_in_bones.jpg12:41
nmz787_yashgaroth: so what about modding my unfertilized kids nails/hair?12:44
yashgarothoh yeah way easier12:44
nmz787_the not leaking into the blood thing seems like it'd be the major hurdle12:44
nmz787_i dunno if nails are composed of cells12:45
nmz787_or just keratin12:45
gradstudentbotOkay, someone really needs to do the lab dishes.12:45
nmz787_if the latter, the chem would need to be exported12:45
nmz787_but only in one direction, and then i wonder what the rate of diffusion in nail is12:45
nmz787_not too wet, but it could lead to fenn's concern of being high all the time12:46
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@fennkanzure: have you seen magzdb.org?12:58
delinquentmewhat areas of the body have pretty exposed capillary beds?12:59
delinquentmewrist...12:59
delinquentmemouth and those things ... I'm wondering where we can grab MEANINGFUL data from13:00
delinquentmedo we always need a blood sample?13:00
delinquentmehas anyone developed a pesistent vein breach to take continuous blood samples from?13:00
@fennchemotherapy patients often get a silicone "port" installed near their collarbone..13:01
@fennseems kinda invasive though13:02
delinquentmeCOOOL13:02
delinquentmepics?13:02
@fennreminder to self, don't get cancer13:05
nmz787_i've heard all ports have biofilm and contam problems13:06
nmz787_maybe you could scarify some kind of lesion13:07
nmz787_delinquentme: http://en.wikipedia.org/wiki/William_Beaumont#Experiments_with_St._Martin13:08
nmz787_natural port13:08
delinquentmeoh sure and we do this with cows13:09
delinquentmeim just wondering about how its implemented13:09
@fennthe chemo port isn't a window, it's a membrane you can repeatedly jab with a needle and not collapse the vein13:10
@fennanyway it's an infection risk13:11
nmz787_delinquentme: best to go ask some cow people13:12
nmz787_delinquentme: a sphincter would work13:12
nmz787_graft your asshole to your neck, just use a colostomy bag13:13
delinquentmehahahaha13:14
delinquentmeOHHHHH13:14
delinquentmewhat membrane made otu of13:14
delinquentmethe portion you're jabbing through13:14
@fennsilicone rubber13:14
gradstudentbotThe gel is streaking.13:16
gradstudentbotWhen is he back from sabbatical?13:17
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@kanzurefenn: not that i recall13:23
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EnLilaSkoIs there a way to get this? http://www.ncbi.nlm.nih.gov/pubmed/572318615:00
EnLilaSkoNo paperbot?15:06
ParahSailindid i kill paperbot15:15
EnLilaSkohttp://link.springer.com/content/pdf/10.1007%2FBF00401343.pdf - dowant15:16
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@kanzuresomeone should remind me to fix http://gnusha.org/logs/2013-07-05.log15:33
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@kanzureEnLilaSko: i have paperbot offline for a while because i didn't have time to fix it15:34
@kanzureEnLilaSko: it was downloading all links and spamming up the channel15:34
EnLilaSkoah, ok15:34
@kanzureParahSailin: not entirely your fault. well, mostly your fault. but since i can't explain how it is your fault, you get to escape blame.15:34
EnLilaSkoI posted on reddit anyway, I'll get the paper15:34
EnLilaSkobut great work with the bot15:34
@kanzureEnLilaSko: http://diyhpl.us/wiki/articles15:34
ParahSailindownloading everything eh15:35
@kanzurewell, it was always downloading everything, but it shouldn't tell me that it is doing that15:35
@kanzurei.e., if i post a random link to a youtube video, it shouldn't post the html of that page15:35
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@kanzureokay fine quit while you're ahead15:35
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delinquentmehttp://www.extremetech.com/extreme/160458-how-to-write-with-single-atoms-on-the-cheap << these are all false color images right? who applies these colors to these images?17:04
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Burninatethere's a distinction between 'colorspace mapped' false color as in things like astrophotography, and 'hand-colorized' false color17:36
BurninateIs all electron microscopy the latter?17:37
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nmz787_delinquentme: http://diyhpl.us/~nmz787/pdf/atomic_calligraphy__the_direct_writing_of_n_anoscale_structures_using_a_microelectrochemical_system.pdf18:51
nmz787_delinquentme: http://diyhpl.us/~nmz787/pdf/atomic_calligraphy__the_direct_writing_of_nanoscale_structures_using_a_microelectrochemical_system.pdf18:52
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gradstudentbotShould I be doing this in the fume hood?18:52
* brownies pokes gradstudentbot 18:53
gradstudentbotSorry for wasting your time.18:53
browniesheh.18:53
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artaoaha20:04
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@kanzuregone :(20:08
@kanzurehttp://nocash.emubase.de/pandocs.htm20:08
@kanzureoops20:08
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delinquentmehttp://news.discovery.com/tech/biotechnology/first-human-liver-stem-cells-130705.htm20:16
delinquentmewhy brain?20:16
delinquentmewhy transplant liver into a brain?20:16
nmz787_delinquentme: find the original paper20:22
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nmz787_delinquentme: maybe to prevent rejection? blood brain barrier yashgaroth ?20:25
nmz787_delinquentme: this was last year too http://www.nature.com/news/rudimentary-liver-grown-in-vitro-1.1084820:26
yashgarothyeah that's a reasonable explanation20:26
yashgaroth"replacement glass skull" oh hell yeah that sounds boss20:27
delinquentme^20:27
delinquentmethats what i said!20:27
nmz787_delinquentme: http://diyhpl.us/~nmz787/pdf/Vascularized_and_functional_human_liver_from_an_iPSC-derived_organ_bud_transplant.pdf20:28
delinquentmethis is kinda sexy I've not learned how the brain is perfused before20:28
@kanzurehmm20:29
@kanzurehttps://github.com/virtualopensystems/linux-kvm-arm/commits/kvm-arm-master20:29
gradstudentbotI'm so doing industry.20:29
@kanzure"Showcased at ARM TechCon 2012, this is a demonstration of two Guests (Android and Ubuntu), being fully virtualized with KVM-on-ARM on Versatile Express development hardware. It is meant as a proof of concept, to establish the feasibility and near-native performance of KVM on the v7 ARM architecture."20:31
nmz787_"Haemodynamic stimulation is essential for liver-bud maturation12. To test whether human iPSC-LBs were capable of generating completely functional liver, we used a cranial window model because of the optical access13"20:31
@kanzure"This KVM demo by Virtual Open Systems demonstrates a Multi-Persona Android Virtualization with KVM on ARM Cortex A15, of interest for smartphones and tablets. The demo runs on ARM's Versatile Express with a Cortex-A15 dual core processor running at 1 GHz with 2 GB of RAM. Android Guest benchmark exhibits near native CPU performance."20:31
nmz787_here's citation 13 http://diyhpl.us/~nmz787/pdf/Tissue_engineering_Creation_of_long-lasting_blood_vessels.pdf20:34
delinquentmeSO20:35
delinquentmeBBB... filtering of large particles ... keeps certain hormones ...20:35
nmz787_hmm, it doesn't seem to mention anything about a brain window in that20:36
delinquentmebut if these are developing correctly ... thats something to keep in mind for growing organs20:36
delinquentmenmz787_, yeh theres another post from a few days back20:37
delinquentmehttp://www.guardian.co.uk/science/2013/jul/03/human-liver-stem-cell-treatment20:37
@kanzurehuh, the nexus 4 has a qualcomm snapdragon s4 which is armv7.. seems to have virtualization extensions.20:37
delinquentmeim guessing they're using immunodeficient mice?20:38
delinquentmethe paper talks about connecting them up in mouse20:38
delinquentme... the human livers20:38
delinquentmealso I was reading earlier about the gal gene?20:39
delinquentmehas to do with horse porn20:39
delinquentmeerm . inter species organ immuno reactions20:39
nmz787_http://www.ncbi.nlm.nih.gov/pubmed/1113153720:42
nmz787_.title20:43
yoleauxMolecular and cellular mechanisms in imm... [Novartis Found Symp. 2000] - PubMed - NCBI20:43
nmz787_" Rejection of neural xenografts is expected to be of a cellular nature, like neural allograft rejection, but may also display unique features, and cannot be dealt with using conventional immunosuppressive therapies."20:43
nmz787_:/20:43
nmz787_sounds reasonable line of thinking I guess, but I'm no expert20:43
delinquentmeThe liver tissue made so far used human cells from a number of different people, and any patient who received a transplant would need to take drugs to prevent rejection, as with any other organ transplant. As technology advances, though, it may become possible to make liver tissue from a patient's own cells, which would not be rejected.20:44
@kanzurehttp://translatedcode.wordpress.com/2013/03/08/qemu-kvm-on-armv7-support-is-upstream/ "This week the QEMU support patches for KVM on ARM were accepted into upstream. Since the kernel KVM on ARM patchset was accepted for the 3.9 kernel, this means that there is now enough support in purely upstream kernel and QEMU for basic working KVM on ARMv7 cores with the Virtualization Extensions (specifically, Cortex-A15). There are still a number of ...20:45
delinquentmeI dont understand the part where we're iPScing things and its someone elses cells..20:45
@kanzure... features left to be implemented but nonetheless I feel this is an important milestone."20:45
@kanzure"KVM ARM will only work for ARMv7a processors with virtualization extensions." cool20:46
klafka_paperbot: http://onlinelibrary.wiley.com/doi/10.1111/cns.12063/abstract20:47
klafka_aww20:47
@kanzurepaperbot is gone because it is spamming the channel because of a bug20:49
klafka_aaah20:50
@kanzurefeel free to investigate a fix :P https://github.com/kanzure/paperbot20:50
@kanzure"Krait has been upgraded to support the new virtualization instructions added in Cortex A15"20:51
@kanzurei think this means my phone can run osx20:51
@kanzureoh wait, no, only other arm operating systems20:52
@kanzureso, debian-armv7 i guess. which isn't that bad.20:52
@kanzure"Krait implements v7-A with virtualization and physical address extension as well as fma; same ISA as A15."20:52
delinquentmeomg.20:54
delinquentmehttp://www.nature.com/nature/journal/vaop/ncurrent/full/nature12271.html20:54
delinquentmeneed20:54
@kanzure.title20:54
yoleauxVascularized and functional human liver from an iPSC-derived organ bud transplant : Nature : Nature Publishing Group20:54
nmz787_posted the link to the pdf 30 mins ago http://diyhpl.us/~nmz787/pdf/Vascularized_and_functional_human_liver_from_an_iPSC-derived_organ_bud_transplant.pdf20:58
nmz787_see logs20:59
nmz787_230:2820:59
nmz787_20:2820:59
@kanzureoh weird, the APQ8064 is 32-bit.21:05
@kanzureweird, the APQ8064 datasheets are "confidential and proprietary" and not available to the public. that's crazy.21:08
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delinquentmeOnce the liver buds were about 4 or 5 millimeters, the team implanted 12 liver buds into either the brain or abdomen of each mouse—sites chosen for their ease of access.21:33
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jonathan_"just use arduino"  baaaahhh22:24
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rigelits really great when you spend a couple hours on a problem and figure out how to solve it22:59
rigeli was dreading wading back into my web scraping project23:00
rigelbut it's working now. i need to comment my code in a more structured way, but just commenting in the first place is amazingly helpful23:00
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-!- ParahSail1n [~parahsail@99-25-202-211.lightspeed.hstntx.sbcglobal.net] has quit [Changing host]23:44
-!- ParahSail1n [~parahsail@unaffiliated/parahsailin] has joined ##hplusroadmap23:44
-!- rigel_ is now known as rigel23:45
-!- ParaSa1lin [~parahsail@unaffiliated/parahsailin] has quit [Ping timeout: 276 seconds]23:48
-!- Netsplit over, joins: delinquentme23:50
-!- Viper168 [~Viper@unaffiliated/viper168] has quit [Ping timeout: 264 seconds]23:55
-!- Viper168 [~Viper@unaffiliated/viper168] has joined ##hplusroadmap23:58
--- Log closed Sun Jul 07 00:00:18 2013

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