2012-04-21.log

--- Log opened Sat Apr 21 00:00:45 2012
klafka1hahaha my gf just yelled at our annoying roommates for leaving the door open00:01
klafka1that was fairly amusing00:01
bkeroAhh yea00:07
bkerojust got my absinthe set going well00:07
bkeroUsing a 25ml burette to titrate myself a nice glass of absinthe00:08
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JayDuggerGood morning, everyone.00:36
fenn"Written in PHP, so literally anyone can contribute, even if they have no idea how to program."00:44
@kanzure"In fact, we don't even know"00:45
JayDuggerWhat do you two mock by quotation?00:48
fennphabricator00:48
fenni'm pretty impressed by this smart watch, only wondering why it didn't appear 5 years ago: http://www.kickstarter.com/projects/597507018/pebble-e-paper-watch-for-iphone-and-android00:49
JayDugger describing it with glowing terms like "okay" and "mandatory".00:49
fennthe snark level on that page is pretty high00:49
JayDuggerI'll say.00:50
JayDuggerI had nicer and sincere comments about my employer's half-assed home-made issue tracking system when interviewed last week at the annual witch hunt.00:50
JayDuggerAfter all, telling in plain English "rip it out and replace it with Bugzilla" would've counted as shitting in the punch bowl.00:51
fennsometimes the punch needs a little shit in it00:52
JayDuggerAmen.00:52
JayDuggerHow does that pebble watch differ from other Android watches?00:52
fennit's "e-paper"!00:52
JayDuggerThat covers a square on the buzzword bingo card, yes. :)00:53
fennwell, it's sunlight readable, and low power usage (though the 7 day battery life is pretty lame, considering the display doesn't use any power)00:53
fennmy casio f-91W is like 5 _year_ battery life00:54
@kanzurewell clearly your casio isn't parsing javascript00:54
JayDuggerI'll think I'll stick with my casio solar-powered atomic-clock signal receiving five-year old watch.00:55
JayDuggerJavascript or no.00:55
fennyour watch will be useless when the atoms run out00:55
JayDuggerVery true. I should live long enough to have that problem.00:56
JayDuggerAt which time I'll not worry about much, assuming no radical substrate changes. :)00:56
JayDuggerFenn, do you still track your time with accuracy?00:56
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fennyep02:31
fenni'm a bit behind on transcribing from my paper notebook02:31
fenndamn i need to meet this jonathan toomim02:33
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fennmeh http://brainworkshop.net/02:38
fennunfortunately this dual n-back stuff takes a lot of effort02:39
fenneffort i could be using to .. you know,  do stuff02:39
fenninteresting at first glance http://jtoomim.org/creatine_intelligence.pdf02:42
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kristianpaulmoin05:39
delinquentmehey there kristianpaul05:41
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@kanzurebeepity boop07:42
eudoxiabeep boop07:44
@kanzureeudoxia: haven't heard from you in a while07:44
eudoxia"JIT compilation is not that hard, I'll have a prototype in three days"07:45
eudoxia"oh my god it's been three months where am I"07:45
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eudoxiaand school has a different schedule on the other side of the equator07:46
@kanzurecompilers are a daunting beast07:47
@kanzureyou should make a compiler compiler first07:47
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eudoxiaI can't allow my projects to recursively subdivide any further07:47
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eudoxiaso, anyways, any interesting new stuff?07:50
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kanzureeudoxia: yep, you've missed everything07:52
delinquentmei had a baby!07:53
delinquentme( not really )07:53
eudoxiakanzure: I inferred that from the size of the logs07:54
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delinquentmeso whats up with the new mini thermal printers07:55
delinquentmekind cool :D07:55
delinquentmekanzure, u want go microcontroller shooping w me <307:59
delinquentmei lik dis wan http://www.dfrobot.com/index.php?route=product/product&path=35_38&product_id=58908:02
delinquentmeim not sure if its got sufficient IO08:02
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diginetso I had an idea: use e. coli to produce each variety of oligopeptide I need, and then use ligation to connect them to each other09:39
n_benthathat was my idea...09:40
vrshasn't that been done already?09:41
n_benthaprobably09:42
diginetn_bentha, it was? I didn't remember that? cool!09:42
diginetvrs, I'm fairly certain it's in use09:42
n_benthahttp://www.mimotopes.com/customPeptides.asp09:42
diginetI shouldn't say it was "my" idea, I should've said, I might try that or something09:42
diginetsorry n_bentha, I honestly did not remember you saying that, I didn't mean to take credit for your idea or anything :/09:43
n_benthait's cool. i'm sure other ppl thought of it too09:44
diginetanyway, I've been looking over the sequence of the spidroin protein09:46
diginetI noticed some interesting patterns09:46
diginetbesides the obvious ones others have noticed09:46
diginetof the glycine and alanine rich areas, if you treat each module as a "sentence" where the end is the alanine blocks, there's a pattern of two long sentences, and two short sentences that repeats09:47
n_benthaCan you put that into more scientific terms? I'm not quite sure what you mean09:48
n_benthaso like x-x-x-ala-ala-x-x-x-ala-ala-x-x-x-x-x-x-ala-ala-x-x-x-x-x-x-ala-ala ?09:49
n_benthawhere the ala-ala is the alanine block, and the x's are other amino acid's?09:49
n_benthaor would the x's be mostly glycine's09:49
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diginethold on, let me put it in a pastebin09:50
n_benthause the new anon pastebin09:50
* n_bentha just wants to see it09:51
ParahSailin__maybe try bombyx fibroin gene since its all sequenced09:54
diginethttp://www.ncbi.nlm.nih.gov/nuccore/15041677309:54
n_benthaYea but silkworm's silk is triangular whereas spiders' is circular09:54
n_bentha(tubular?)09:55
diginetParahSailin__, the black widow spidroins are fully sequenced as well09:55
ParahSailin__but thats probably a property of the silkworm's asshole rather than intrinsic to the peptide09:55
ParahSailin__put out a request for a bwidow on zaarly09:55
ParahSailin__or craigslist09:55
diginetmight be easier just to pay to have short oligos synthesized09:57
diginetthey're only like 60 bp long09:57
diginetIdeally, I would chemically synthesize all of the oligopeptides, but I don't know if that's possible yet, on a macroscopic scale09:58
n_benthai guess u already saw this one, right?09:58
n_benthahttp://www.ncbi.nlm.nih.gov/pmc/articles/PMC2658765/09:58
diginetn_bentha, yeah, thanks though09:59
n_benthaParahSalin__ have you ever seen an organism with a triangular asshole?10:00
ParahSailin__why do you want to make oligopeptides?10:00
diginetbecause the spidroin in highly modular, it seems it would be easier merely to "stitch" the modules together using chemical ligation10:02
diginetfrom what I've read, getting anything to express the native protein in usable quantities is going to be extremely difficult10:02
n_benthabut they did it in bacteria?10:03
diginetsort of10:03
n_benthawhat do you mean sort of?10:03
diginetthey made a 250 kDa protein, which is about 30% shorter than the real thing10:03
ParahSailin__what chemical ligation...10:03
diginetParahSailin__, native chemical ligation?10:03
ParahSailin__pretty sure that doesnt exist10:04
n_benthadiginet: i thought they were already doing the whole sequence now?10:04
diginetn_bentha, not that I know of10:04
n_benthaok10:04
diginetParahSailin__, this? http://en.wikipedia.org/wiki/Native_chemical_ligation10:04
ParahSailin__dont do that10:05
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diginetwhat's the matter with it?10:05
n_benthahttp://www.mater.upm.es/Directorio/PDI/CU/Llorca_archivos/Silk-Frac.pdf10:06
n_benthacysteines?10:06
diginetall it requires is a cysteine at the end of hte sequence, considering all my sequences end in alanine, isn't it trivial just to desulfurize the cysteine to alanine?10:07
n_benthaok there are only 2 cysteines in the sequence, 1 at the start and 1 at the end10:07
diginetthe spidroin? I know, but cysteine can be converted to alanine rather easily, which is of course higly prevalent in the sequence10:10
n_benthaWell if you want to, go for it. I guess I'm just skeptical and wouldn't want to bother.10:11
n_benthaPlants are more interesting to me.10:11
diginetI dunno, I guess I feel like once the process is developed, this would be easier10:12
diginetbut who knows, if it doesn't work then so be ti10:12
diginetone interesting thing is that catalysing the reactions is as simple as putting it in a microwave over (literally)10:14
diginetit can speed up the process from taking a day to around an hour10:14
n_benthacool10:16
n_benthabut i guess getting your starting material is the hard part10:16
n_benthahow long of a sequence would you start with?10:17
n_benthawould it be easier to just insert the whole sequence into bacteria instead?10:17
diginetI don't think it would work in bacteria10:20
n_benthaok. well why not just get the bacteria that the guys in korea inserted a fragment into?10:20
n_benthau can then use the proteins produced for your ligation?10:21
archelshttp://slashdot.org/pollBooth.pl10:23
n_benthai voted for mind-uploading becuase of the recent advances in the area10:24
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archelsme too10:29
archelsof course uploading implies immortality, but that's probably not what they meant.10:30
eudoxia... you would also need to find out what state they are in currently. And figure out their spiking levels, ...10:32
eudoxiasomebody should write a bot to spot these conversations and PM the WBE Roadmap to everyone involved10:32
kanzurehttp://makerfairecambridge.wordpress.com/2012/04/19/diybio-gfp-at-cambridge-mini-maker-faire/10:36
klafkahey kanzure are there any startupy bioinfo/biotech companies here? or can you give me a list of them10:44
klafkafor like future purposes10:44
klafkaor is there one maintained somewhere10:44
kanzurethat's a long list :|10:49
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klafkawow i need to learn ruby better -_-10:58
kanzureklafka: missing something?10:58
klafkai'm just reading through this source code and i don't know what a lot of stuff means10:59
klafkawhat is @@ in ruby? prefixing a variable?10:59
kanzureask me ask me10:59
klafkaor @10:59
kanzure@ is an instance variable10:59
klafkaas opposed to a global variable?10:59
kanzure@@ is a class variable shared by all instances of a class10:59
klafkaoooh10:59
klafkaok11:00
klafkawow iv'e forgotten so much OO11:00
klafkai wrote some sweet mongo and python and sql last night though11:00
klafkathat was nice11:00
klafka<3 python11:00
klafkai'm glad our analytics person does everythign in python too11:00
kanzurei've been writing this all day:11:01
kanzurehttps://github.com/kanzure/pokecrystal/blob/285b3066a443438b30691be7193e7f7135b9a950/extras/crystal.py11:01
delinquentmeklafka, they work in ruby and python?11:01
klafkaour engineers use ruby / js / jquery11:01
klafkaour analytics uses r / python / sql11:01
delinquentmeGoldenrod PP Speech House11:02
delinquentmeheheh11:02
klafkais this actually for disassembling pokemon crystal11:04
kanzureyes11:04
kanzureit generates asm that compiles into crystal's rom11:04
klafkaLOL11:04
klafkawow i'm slightly terrified11:04
kanzurethen you shuold see pokered...11:04
klafkasee it's when i see stuff like this i know i'm not a developer :P11:04
kanzurepokered: https://bitbucket.org/kanzure/pokered/raw/b57b31748bfc/main.asm11:05
klafkavery cool though11:05
kanzurealso it was on HN: http://news.ycombinator.com/item?id=347311111:05
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delinquentmekanzure, you use both bitbucket and github?11:06
delinquentmeporque11:06
klafkai use both11:06
kanzurebecause pokered is hosted primarily on bitbucket11:06
kanzurehttp://bitbucket.org/iimarckus/pokered11:06
delinquentmeohh its a fork of someone else?11:07
klafkawhat are your guys thoughts on http://javascriptenlightenment.com/ ?11:07
delinquentmeklafka, why 2 repos?11:07
kanzurepokered was started by iimarckus11:07
klafkabitbucket lets you have free private repos11:07
kanzurebut i've contributed the past 1100 commits11:07
delinquentmeits free11:07
delinquentmeim for it11:07
delinquentmethats alot of qork kanzure :D11:07
delinquentmework**11:07
delinquentmeyou could be playing everquest11:07
kanzurethere are two repos because they are different games11:07
kanzuredelinquentme: the number one rule of ##hplusroadmap is Always be coding11:08
klafkalol11:08
klafkai should be writing training material11:08
klafkaand writing about PROCESSS11:08
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delinquentmeklafka, #OnTheClock?11:10
kanzurewhat is #OnTheClock?11:10
kanzurei don't think that channel exists11:10
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delinquentme./lookofdissapproval11:11
delinquentmeim wiring pots11:11
delinquentme( or learning to )11:11
klafka1haha11:11
klafka1delinquentme i'm always #OnTheClock11:11
klafka1a new person in my role starts monday11:11
klafka1so i have to get all this shit written for all the process i've defined11:11
klafka1:(11:11
klafka1ok i do really like anon functions in ruby11:12
klafka1a lot11:12
* klafka1 wishes pythons anonymous functions were a bit better11:12
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audyklafka1 python has anonymous functions?11:15
audygetouttahere11:15
audyoh you mean lambda?11:15
klafka1yes11:15
klafka1lambdas11:15
delinquentmewhich is the superclass of which11:16
delinquentmelambda < proc11:16
eudoxia... of the normal function?11:16
klafka1lambda are anon functions11:16
delinquentmesome derp quizzed me on that and told me I was wrong11:16
delinquentme( in ruby at least )11:16
audyI have to write a paper for metabolic engineering class11:17
delinquentmeOOC is the MO in getting a SV job to just prove how smart you are?11:17
klafka1OOC ?11:17
audyon how to engineer a bacterium to make X. (balance redox, make sure there isn't too little/much ATP)11:17
delinquentmelike I've been hesitant to say much about my hardware hacking and the genomes and shit11:17
delinquentmeout of curiosity11:17
klafka1mm11:17
delinquentmebc i've been turned down for a number of jobs and I cant help but think that I'm missing something11:17
klafka1my MO was to move to san francisco and have a job that pays me more than 14/hr11:17
klafka1really?11:18
klafka1were you qualified for them?11:18
delinquentmeits kinda silly11:18
klafka1did you mention relocation right away?11:18
delinquentmethe last one I interviewed for I was totally qualified for11:18
klafka1personality?11:18
delinquentmeit was front end JS and HTML/CSS for a house that does ror11:18
delinquentmewas I too nice?11:18
klafka1idk11:18
delinquentmeyeah I mentioned relocation right away11:18
klafka1don't11:19
delinquentmeyeah man u got me11:19
delinquentmeoh11:19
klafka1did you get to the interview stage?11:19
klafka1i mean i did ok once i got to the interview stage11:19
delinquentmeyeah i consistently get interviews11:19
delinquentmelots lol11:19
klafka1but getting ot that stage was tough for me11:19
klafka1mm11:19
klafka1are you just trying to get 'any' decent SV job11:19
klafka1or are you targetting very specific stuff?11:19
klafka1like biotech11:19
delinquentmelike I've hit a fairly large array11:20
delinquentmeI've got one that im super qualified for coming up11:20
delinquentmeIDK maybe they're still entrenched in that school system and want to see the piece of paper11:20
delinquentmethis ones is @ newrelic working in busdev on rails and APIs11:20
klafka1ooh do you not have a degree?11:21
klafka1i thought you did11:21
delinquentmeso like I've got the programming and the business exp11:21
delinquentmeyeah11:21
delinquentmetotes11:21
delinquentmeso gotta see whats up with this11:21
klafka1wait11:21
klafka1you're doing biz dev11:21
klafka1are you qualified for a biz dev role?11:21
klafka1you know biz dev isn't like programming11:21
delinquentmedefine qualified?11:21
delinquentmehere ill show u :D11:21
delinquentmehttp://newton.newtonsoftware.com/career/JobIntroduction.action?clientId=4028f88b20d6768d0120f7ae45e50365&id=4028f88b2b2edbff012b305cddb107b4&gnewtonResize=http://newton.newtonsoftware.com/career/GnewtonResize.htm&source=11:22
klafka1oh11:22
klafka1that's not biz dev11:22
delinquentmeRoR Developer - Business Applications11:22
klafka1heh11:22
delinquentmeits some magical place between the two11:22
klafka1hmm11:22
delinquentmebut yeah creative houses ... turning me down *shrugs* IDK11:23
delinquentmeinteresting situation11:23
klafka1have you looked into splunk? they seem kind of cool11:23
klafka1also bloomreach11:23
delinquentmecant say I've interviewd or applied11:23
delinquentmeklafka1, but yeah once im out thereeeee11:24
delinquentmeGRRRRRRRRRRRR!11:24
delinquentmeGON BE AWESHUM11:24
klafka1yeah11:24
klafka1well i'd look into those11:24
klafka1i'm particularly interested in bloomreach11:24
klafka1seems pretty exciting11:24
delinquentmeyeah I've got em marked down11:25
klafka1you could always apply to genentech as a dev :P11:25
delinquentmeyou been hitting any network events there?11:25
klafka1i actually haven't so much11:25
klafka1because i commute a lot and i've sort of just been working non-stop11:25
klafka1as we hire more people and i eventually become less fully customer facing hopefully htat will get better11:26
klafka1though it won't soon since i'm about to start doing phone support =\11:26
delinquentmeI've been wondering if they're checking my twitter to kind of gauge my interests ....11:26
delinquentmetoo tin foil hat?11:26
klafka1idk i completely dissociated myself from my internet presence11:27
klafka1when i applied11:27
delinquentmeyou just didnt mention it? or did you take down your FB?11:27
delinquentmemaybe thats what I should do :D11:27
klafka1i didn't use anything w/ klafka11:27
klafka1and i'm not really findable outside of that11:27
delinquentmeahh11:27
delinquentmemy github is delinquentme11:28
delinquentmeoh well11:28
kanzuredelinquentme: nobody looks me up before they start paying me11:28
kanzureand i'm on various fbi watchlists11:28
kanzure.. or something11:29
delinquentme:P lucky11:29
delinquentmeIDK11:29
delinquentmemaybe i've been too positive and like11:29
delinquentmeass kissey11:29
delinquentmesilly interview process11:30
eudoxiahow do FBI watchlists work anyways11:30
eudoxiado they send you a letter telling you you're now part of a watchlist or what11:30
kanzureeudoxia: you can send a FOIA request11:31
kanzureto see what info they have on you11:31
eudoxiathat is potentially very scary to read11:34
delinquentmeOK all I need to reboot as im getting weirdness going on with my ttyACM0 port .. thing11:39
delinquentmeconnection UBS11:39
delinquentmehole11:39
delinquentmeBRB!11:39
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delinquentmesick11:43
delinquentmehttp://imgur.com/gallery/BkR3V11:43
delinquentmealso:11:43
delinquentmehttp://imgur.com/gallery/ro1nB11:43
klafka1lol11:44
klafka1man have you heard of dev boot camp?11:44
_F7_My sister is doing a research paper on cryogenics11:45
_F7_Her teacher is pushing for her to do a speculative analysis, but she's not sure how to project11:45
delinquentmeklafka1, isnt that where you move to NY11:45
delinquentmeand like its a shitty deal with marketing?11:45
klafka1it's like a 10 week RoR course in san francisco11:46
klafka1seems weird11:46
_F7_I shot her transmetropolitan issue #8 and some alcor material11:46
klafka1http://devbootcamp.com/11:46
klafka1i'm kind of curious but also not11:47
klafka1i mean definitely not enough to do it11:47
delinquentmeohh ici ci11:47
kanzurebrownies was thinking about doing one (with me possibly)11:47
_F7_Any ideas, y'all?11:47
kanzurei mean, running a devbootcamp11:47
kanzurenot attending11:47
delinquentmeZOMG 9500!11:48
delinquentmeWHUT DEAL11:48
delinquentmeehh11:48
_F7_I sent her the paper in kanzure's stash about the role of nanotech in a thawing situation11:48
klafka1oh you found what it cost11:48
klafka1damn 9500 that's like a quarter at a private university11:48
delinquentmethats with all the discounts11:48
delinquentmeincluding being a black female11:48
klafka1cool11:48
delinquentme=/11:48
klafka1you should guestlist me kanzure if you do it11:48
klafka1:P11:49
delinquentmeill do a cameo11:49
delinquentmeshow you how to blow up LEDs11:49
kanzureusually you don't have to pay if you get hired11:49
delinquentme<< total pro @ that11:49
delinquentmenot a bad business model11:49
klafka1lol11:50
klafka1you can put line breaks anywhere pretty much in ruby right?11:50
klafka1for readability11:50
delinquentmeklafka1, correct11:50
delinquentme=begin =end is your block comments as well :D11:50
kanzurelesson one.... always be coding11:51
klafka1like11:51
kanzurelesson two.. never not be coding11:51
klafka1input.each_line{|line| /(.*?)\W+->\W+(.*?)}/.match(line)11:51
klafka1                  => recommender.order_items.add_set(1,[2])11:51
klafka1                }11:51
klafka1we cool?11:51
delinquentmealso!   'asdf,asdf'[/regex/]11:51
delinquentmeyeah you can tab the shit out of that11:51
kanzureklafka1: if it hates that then add a \ to the end of the previous line11:51
brownieshilarious11:51
delinquentmeive been using the SH!T out of that regex command11:51
delinquentmeor if you're in HAML a |11:52
delinquentmebrownies, do tell11:52
browniesshit, i'll give you a 10 week ruby course *right now*11:52
klafka1umm i'm confused is that how you use capture groups in ruby?11:52
browniesread the ruby source code, send me $10000, thanks.11:53
klafka1wow11:55
klafka1'Railsbridge is free if you bring a woman- done on various weekends.'11:55
klafka1wtf11:55
kanzurebrownies: you're an inspiration to us all11:55
klafka1hella misogyn11:55
klafka1misogyny11:55
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klafka1man i wish comcast didn't suck terribly11:56
klafka1or i had better options11:56
delinquentmelololol klafka1 link on that?11:56
klafka1it's in an email thread via that ruby meetup11:56
delinquentmeOOO TIL that transmission on ubuntu automatically defaults to encrypting torrents11:56
klafka1wait delinquentme explain capturing in ruby regex11:57
delinquentmethats really weird like... there were no shortage of cute girls while i was there11:57
delinquentmeklafka1, "\n\r\t Journal Du Awesomeness\n\t\r\r\r\r\r\rt\"[/[\n\t\r]+/]11:58
delinquentmethat will allow you to regex select within that string11:58
kanzureklafka1: i don't think he knows about capture groups in regular expression11:58
kanzure*expressions11:58
klafka1oh11:58
klafka1-_-11:58
klafka1well kanzure tlel me -_ is that ruby code i pasted syntactically incorrect?11:58
delinquentmeO_o11:59
klafka1because i'm getting an error recommendify_example.rb:27: syntax error, unexpected tASSOC, expecting '}'11:59
klafka1                  => recommender.order_items.add_set(1,[2])11:59
klafka1wth11:59
kanzurewell, irst, i don't know about your regex syntax- what's the dangling }11:59
klafka1does that means11:59
kanzuresecond, why do you have a => here?11:59
klafka1idk i was looking at http://www.ruby-doc.org/core-1.9.3/Regexp.html11:59
kanzurefenn: http://forums.reprap.org/read.php?184,66646,112716 re photopolymers for bluray curing12:00
kanzureklafka1: all of the #=> is comments ;P12:01
kanzure=> is used in hash mappings12:01
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kanzurewhat is the final structure of output that you are expecting12:01
brownieskanzure: inspiration costs extra12:02
kanzurebrownies: i only have $25,000 will you accept this?12:02
klafka1oooh12:02
browniesfine, but it better not be in bitcoin12:02
kanzureit's in kanzurecoin12:02
kanzureit's even better than bitcoin12:02
klafka1the output is i want to capture those two groups  /(.*?)\W+->\W+(.*?)}/.match(line) and add the two groups to this instance like recommender.order_items.add_set(r[0],r[1])12:03
kanzurematch_group = /(.*?)\W+->\W+(.*?)}/.match(line);12:03
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kanzurerecommender.order_items.add_set(match_group[0],match_group[1])12:03
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kanzureinput.each_line{|line| match_group = /(.*?)\W+->\W+(.*?)}/.match(line); recommender.order_items.add_set(match_group[0],match_group[1]) }12:04
klafka1can i do that within the context of the code block?12:04
kanzureadd_set probably wants a Set object12:04
kanzuresure.. you can do multiple lines too12:04
klafka1would it be like12:04
klafka1input.each_line{|line| r = /(.*?)\W+->\W+(.*?)}/.match(line);12:04
klafka1              recommender.order_items.add_set(r[0],r[1])12:04
klafka1                }12:04
kanzureyes that should work12:04
klafka1ok cool12:05
kanzureit could even be like: input.each_line do |line|\n  puts "OH SHIT";\n  puts "CRAP";\nend12:05
kanzurewhat the heck is each_line? why not just lines.each do |line| ... end12:05
kanzurepersonally i prefer to use {|x|..} syntax when it's small enough to be on one line12:05
kanzureand "do |x| .. end" syntax for multi-line things, but it doesn't really matter12:06
klafka1idk12:06
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klafka1i just found it via googling12:06
klafka1also wth, if i install a gem shouldn't it just work by going require foo in my script ?12:06
kanzurebtw, i know perfromance is probably not a big issue here, but you might consider defining /(.*?)\W+->\W+(.*?)}/ outside of the loop12:07
kanzure*performance12:07
klafka1mmm12:07
klafka1to pre-compile the regex12:07
klafka1got it12:07
kanzurei'm sure it compiles it just once either way..12:08
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kanzurehttps://github.com/thesprouts/nurbs/blob/master/NurbsSurface.java12:48
kanzurealec again?12:48
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kanzurenot sure if these guys are useful.. something about writing cam algorithms12:59
kanzurehttp://www.freesteel.co.uk/wpblog/faq/12:59
kanzurewell at least they do testing13:01
kanzurehttp://www.freesteel.co.uk/wpblog/2011/11/unit-testing-cam-algorithms-what-could-that-be-about/13:01
ParahSailinhttp://en.wikipedia.org/wiki/Uros seasteading, oldschool13:03
kanzurehuh there's a scraperwiki blog.. http://blog.scraperwiki.com/13:04
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delinquentme_MOAR WORXXX13:17
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audyscumbag springerlink uses a cookie to determine whether or not to put up a paywall so after you've logged in to your university VPN you still can't download the article13:38
audywithout using a privacy window13:39
kanzureyour university might use something called ezproxy13:40
kanzurewhich university?13:40
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audykanzure UF13:41
kanzureufl.edu?13:41
audyIt's not ezproxy13:42
audykanzure yep13:42
audyI believe they're checking my IP13:42
audyfor *.ufl.edu13:42
kanzurewrong13:42
kanzureaudy: login here http://lp.hscl.ufl.edu/login13:42
kanzureand enjoy13:43
audykanzure thanks. I'm not having a problem getting articles. It's just a minor nuisance13:43
kanzureyou should try this if you've never used it13:43
kanzurebtw, "wrong" was to "it's not ezproxy"- i know vpn is not ezproxy- but your university definitely seems to have it there^13:44
Cat4Dwho is at ufl???13:53
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Cat4Dfuk, go over to surflab and chase down jorg peters and the lab kids13:54
Cat4Di'll cover cost of snack on way back13:55
kanzurethat's a pretty solid deal13:55
Cat4Dhttp://cise.ufl.edu/research/SurfLab/info.shtml13:55
Cat4Dwhois *!*@*!*.ufl.edu13:56
Cat4Dugh13:56
Cat4Dhere, bring a picture of lava with you, so they comprehend the basics: http://lavalee.smugmug.com or http://royalgardens.us13:57
Cat4Dwoops royalgardens sensors have no uplink, bad url13:58
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Cat4Dwho wants to visualize 3 exobyte of volcano data? ;)14:20
Cat4D1mm surface over 10 miles14:20
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klafka1ooooh14:23
klafka1that sounds pretty fun14:23
klafka1is it like14:23
klafka1lidar?14:23
klafka1or what kind of data is it?14:23
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Cat4Dno, my volumetric is an advanced field effect system, the surface model is a composite, but we are going to re-deploy with consumer laser pointers and cell fones14:25
Cat4Dwhich is why this mathematical extrapolation is such a problem14:25
Cat4DI was fedex-ing a case of hard drives a day14:26
klafka1hahah nice14:28
Cat4DIve always used a poly spline fitting method, which handles both volumetric and surface (air=volume) bounds14:28
Cat4Dbut this is the opposite of their technique for the gpu14:28
Cat4Dhttp://cise.ufl.edu/research/surflab/bview14:28
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klafka1what is a field effect system?14:28
klafka140314:29
Cat4Dand im concerned that the high accuracy technique using these spherical coordinate poly nurbs cant get passed to parallel without flattening them14:29
Cat4Dhttp://cise.ufl.edu/research/SurfLab/bview/14:30
Cat4Di can see why their csie got shut down...14:30
Cat4Dok14:32
Cat4Daudy14:32
Cat4Dgo find them and send them to ITO Hilo14:32
Cat4D(ufl cise and jorg-peters)14:33
klafka1nice14:33
klafka1well fedexing hdds is still the fastest if lowest latency way to transfer large amts of data14:33
Cat4D400x14:33
kanzureit would be fun to setup a molten-lava-resistant oc192 link through a volcano14:34
Cat4Di've got conduit 60ft under the lava14:34
katsmeow-afki'd have just used radio14:35
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Cat4Dwas supposed to build a fiber circuit through to the i2/southern-cross, but hawaii's organized crime unions, called "rico" got in the way14:35
ParahSailinpigeon sd is faster14:35
Cat4Dkats, the 3gbit horns work, but in the gas and ocean wind environment they are flakey, using 24ghz too14:35
* katsmeow-afk nods14:36
Cat4DParahSailin: is the full-size carrier still overpriced?14:36
Cat4Dbut then satellite dishes look pretty curled up like flowers when the lava comes14:36
katsmeow-afkheh14:37
Cat4Dhttp://www.bigislandvideonews.com/2012/03/04/video-jack-thompson-returns-to-see-home-destroyed-by-lava/14:38
Cat4Dlast month14:38
Cat4Dmy lab is 100ft under new flows, two blocks up from there14:39
klafka1damn14:39
klafka1that's pretty crazy14:39
Cat4Dvery pretty14:40
Cat4Dhttp://hvo.wr.usgs.gov/cams/panorama.php?cam=R2cam14:40
Cat4Dim a little ways above that usgs cam right now14:41
klafka1woah14:42
klafka1very pretty14:42
Cat4Daudy you are sure you can get to them, right?14:42
klafka1what are you doing with your volcano surface data? like what's your objective? flow modeling?14:43
Cat4Dall14:43
Cat4Dmine is volumetric14:43
Cat4Dbut the surface (range scanners, etc) are higly optimized14:43
Cat4Dwe normally do archaeological sites, but kilauea project is intended to demosntrate use of conventional tools14:44
Cat4Dwalmart lazer pointer and cell fone14:44
klafka1mm I see14:44
Cat4Dto do mass scale at extreme resolution14:44
Cat4Dso now its proving that consumer devices can match or beat our research equipment14:44
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klafka1ah got it14:45
Cat4Dsurface color and composition == chemistry, flow speed, etc14:45
Cat4Deven have purple lava14:45
klafka1i see14:46
klafka1interesting14:46
Cat4Dits blue when it cools14:46
klafka1like navy ?14:46
Cat4Dno, usn keeps trying to kill me14:46
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Cat4Dthey also keep jamming my sensor systems... even sent the f22 to isolate and zap the bots once14:48
Cat4Dtheir ambient-awareness and my field-effect systems dont get along14:48
Cat4D(mine cancles their noise)14:48
klafka1ahahaha crazy14:49
Cat4Dso their system automatically fries mine14:49
klafka1that's kind of scary the ability to fry hardware our planes have14:49
Cat4Dwhich, ammusingly, is a plasma core for the signal generator, so it intrinsicly resets14:49
Cat4Dnot the plane14:49
Cat4Dthe us military / nato keep a constant field around the planet14:49
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Cat4Dcan direct all energy to any point for (icbm intercept, etc) signal generation14:50
kanzure...14:50
Cat4Dand as an effect, can see every beeping device, and every particle that moves14:50
klafka1um14:50
kanzure...14:50
Cat4Dbuild your TV's crt beam director using a field modulator14:51
Cat4Dand zap solidworks14:51
yashgaroththis got into haarp pretty quick14:53
Cat4Doh, field-effect similar to "eddy current"14:55
Cat4Daka metal fracture signal differentials14:56
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strangewarpOh, that sucks15:06
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strangewarpI'm sorry, but it's depressing that people should be so interesting, and then after 30 minutes they start talking about UFOs or military energy fields15:10
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Cat4Dunfortionate they zapped me first15:11
Cat4Dcheaters15:12
* Cat4D pets volcano15:12
Cat4Di think catmull running disney right now has a major ethics issue... where is the last 3 decades of spline math?15:15
kanzureyou think spline math stagnation is intentional?15:16
Cat4D?15:18
Cat4Dtriangles in gpus?15:18
ParahSailinanyone have otr set up in irc? i wanna test out my settings15:18
Cat4Dyou think sgi needs get beat down...15:23
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kanzurehttp://fabbaloo.com/blog/2012/4/17/on-demand-3d-printed-robots.html15:42
kanzure"Researchers hope to create a platform that would allow an individual to identify a household problem that needs assistance; then head to a local printing store to select a blueprint, from a library of robotic designs; and then customize an easy-to-use robotic device that could solve the problem."15:43
kanzurehrm..15:43
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Urchinone of the supposed points of singularity is that everything would be designed and built for the task at hand16:32
strangewarpfalse16:33
strangewarpthe point is that even technology-development processes with lossy momentum, with people going off into diversions and whatnot, would become self-sustaining.16:34
Urchinit's a side point16:35
Urchinjust as the steel singularity didn't turn out to have a single point16:36
joshcryerwhat do you guys think of these: http://www.coastal.com/glasses/frames/lucky-stewart-stonewash-olive/prod22262.html?rsView=1&ga=F|M|K16:40
strangewarp"steel singularity"?16:42
strangewarpAre we calling arbitrary technology developments singularities again16:42
strangewarpjoshcryer: Good I guess? Though full-framed glasses don't go with my face so well16:44
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Urchinnot arbitrary, the production of steel historically followed the pattern of the hypothesized technological singularity we're expecting17:07
Urchinit happened that in 1930s more steel was produced than in the entire history up to that point, if you failed to notice that fundamental changes happened on how civilization works...17:08
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* katsmeow-afk bites her tongue17:13
strangewarpUrchin: Wrong. The utility of steel had diminishing returns after its initial development. So while its utility increased after its initial development, the increase was linear.17:13
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strangewarpYou're also claiming "more steel in the 1930s than ever existed" denotes a singularity, when it really means.. steel didn't exist before the 1930s.17:15
katsmeow-afkit's a conditioal statement anyhow, so if you did NOT fail to notice the changes, then the production did NOT follow the pattern17:15
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strangewarpIf you're going to insist on calling that sort of thing a singularity, at least call it a "soft singularity" or something17:17
strangewarpIMO it's entirely silly17:17
kanzure"singularity" in non-graph contexts is supposed to refer to "zoom" from exponential accelerating returns17:18
kanzure*to the "zoom"17:18
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kanzureroksprok: hi17:24
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katsmeow-afkdelinquentme_, i answered your question in the other channel, after you pinged out17:35
delinquentme_about how to match PWM to the capable movement speed of the actuator?17:35
katsmeow-afkno, about how you got bad readings from an adc and pot17:36
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diginetI object to the word singularity if for no other reason than the bastardization of the word itself, ala "organic"18:09
roksprokkanzure: hi18:16
kanzureroksprok: how goes the protocols?18:16
roksproka bit slow....but its progressing18:17
roksprokand i'm learning a lot18:17
roksprokso....i hope this doesn't seem presumptuous of me....18:18
roksprokbut i have been thinking abit about your synthesis machine18:18
roksprokand i was wondering if you would be open to a slight 'pivot' to a gene synthesis machine18:18
roksprokso i am thinking of several 'lab-on-a-chips'18:19
roksprokoligo synthesis, gibson assembly, pcr, various ligating18:19
roksprokloaded into a device connected to a usb port on any old computer18:20
roksprokwith a little app that takes a sequence of dna or a plasmid map and says '3 oligo chips, 2 pcr, and golden gate assembly'18:20
roksprokwhich are then retrieved from the fridge in the case of those requiring enzymes18:21
roksprokand loaded into the machine18:21
roksprokthat would be able to raise the temperature as needed, fire the control valves, and such18:21
kanzurewhat is the pivot?18:21
roksprokfrom oligo synthesis to gene synthesis....a 'PlasmidPrinter' if you will18:22
roksprokhttp://blog.ginkgobioworks.com/2012/01/14/commercial-gene-synthesis/18:23
roksprokginkgo bioworks complaining about commercial gene synthesis18:23
roksprokhttp://j5.jbei.org/index.php/Main_Page program that spits out the oligos to synthesis and steps towards creating the plasmid18:24
roksprokalso for the diy market, i think a printer-like all in one device would be very compelling18:25
roksprokand help foster a community like that which exists for avrs or the arduino or rasberrypi18:25
roksprokand kind of exists for biobricks18:25
kanzureyeah, that's the general plan for sure18:26
kanzureoligo synthesis isn't considered gene synthesis, so you have to assemble shorter oligos into longer and longer fragments18:26
roksprokalso as a 'transhumanism-aid' it would compress the time from specification to production18:26
roksprokyes that would be the pivot18:26
roksprokfrom just oligos that are then stiched together using various methods18:27
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roksprokto gene synthesis....you no longer have to worry 'is gibson assembly good? what about golden gate?18:27
kanzureyeah we've been thinking about oligo ligation18:28
kanzurethere are a few methods in the literature for short oligo ligation18:28
kanzurebut they will require tweaking before they actually work18:28
kanzurehttp://diyhpl.us/~bryan/papers2/DNA/Gene%20synthesis%20by%20assembly%20of%20short%20oligonucleotides%20-%20Horspool%20thesis%20-%202009.pdf18:28
roksprokdidn't jcvi do the tweaking?18:28
kanzurejcvi created gibson assembly18:28
roksprokthey had a what....100kb construct?18:29
kanzurethey don't do short oligo ligation18:29
roksprokbut to assemble stuff for gibson assembly don't you have to fist do short ligation?18:29
kanzureyes, you synthesize 60-100mers and combine them with pcr extension18:29
kanzurebut extension pcr is not usable for short oligo ligation18:30
kanzureby short i mean <10 bp18:30
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roksprokwhy not chemical synthesis?18:31
kanzureyes, you can do chemical synthesis of short oligos18:31
roksprokdoesn't that get you up to 200bp?18:31
kanzurenot really18:31
roksprokor is that 'if you do it 100 times'18:31
kanzurechemical synthesis requires a lot of tweaking to get up to 200 bp without errors18:31
roksprokso its better to do short oligo ligation of <10bp?18:33
kanzurethat will be more reliable, yes18:33
kanzureor the other idea is to just store a few thousand pre-synthesized <10mers18:33
kanzureand then combine those.18:34
roksprokis it reasonable to combine ligation methods so you can get up to the kilobp range?18:34
roksprokby combine do they sequentially using the same machine18:35
roksprokdo them18:35
kanzurethat's an open question, but yes that's the idea18:35
roksprokis that needed? like looking at ginkgobioworks.com it seems like they are working very hard to make things that are not terribly impressive18:36
kanzureis what needed? ligation? yes..18:37
roksprokwhat does synthetic biology need to get it to the stage where it is common place to engineer a new organism18:38
kanzureoh, btw, by "combine those" i meant combine(ligate) the <10mers18:38
kanzureroksprok: cheap genome synthesis18:38
yashgaroth'new' as in total genome synthesis?18:38
kanzureright now the largest cost is synthesis18:39
roksprokyashgaroth: inserting multiple genes to make something pretty unrecognizable18:39
kanzurebringing it down to $1/genome is doable but not with existing synthesizers18:39
kanzureother organisms routinely synthesize genomes for way less than $1/genome18:40
yashgarotherm multiple genes happens pretty regularly18:40
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yashgarothother organisms copy genomes, but yes18:40
roksprokyashgaroth: but isn't it always 'e coli. expressing a protein or two'?18:42
yashgarothusually, but certainly not always18:42
kanzurei'm pretty sure some people have transplanted entire metabolic pathways18:42
roksprokdiginet is planning on it right?18:43
yashgarothno he's pretty much just expressing a protein or two18:43
roksprokis it unreasonable to think of...say...adding engineered cells to the immune system?18:44
roksprokor....what has to happen before that is not unreasonable18:44
yashgarothdendreon does that already18:44
kanzurelots of testing18:45
yashgarothprotocols for hematopoietic cell extraction and transplantation are pretty established18:46
yashgarothadding DNA to them is less established but still done18:46
roksprokso...is it more a policy obstacle then?18:47
yashgarothmostly, yes18:47
roksprokas to why this is only an option for one type of prostate cancer as opposed to having a library of ways to genetically engineer them?18:47
yashgarothcost of r&d18:48
roksprokwould cheap on demand genome synthesis bring it down enough to where it was an option?18:48
roksprokor is it more the manpower / clinical trials cost18:49
yashgarothmmm you're not gonna be using genome synthesis for modifying immune cells18:49
yashgarothclinical trials cost a billion dollars18:49
kanzureannd full genome synthesis is going to run you <$100 mil18:50
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roksprokso what do you think is needed for transhumanism to win18:51
AdrianGnothing18:51
kanzurehigh-resolution transcranial brain stimulation18:51
kanzurecheap genome synthesis18:51
yashgarothmoney, also more money18:51
yashgarothooh a computational solution to the protein folding problem18:52
roksprokyashgaroth: there is already a lot of money....i mean you could argue that all pharma companies are working towards curing disease/aging18:52
AdrianGlol FDA will never approve aging to be considered a disease18:52
yashgarothdiseases maybe, not really aging...at least not explicitly18:52
AdrianGhopefully pharma corps are smart enough to medicalize every symptom of aging18:52
kanzurethe current pharma paradigm for "curing diseases" is all broken anyway18:52
yashgarothany sort of enhancement technology won't really pass the FDA at this point18:52
AdrianGkanzure: do you have better suggestions18:52
AdrianGyashgaroth: it will simply be marketed for "diseases"18:53
AdrianGand rx'd off label, like modafinil18:53
AdrianGand aricept, and tons of other meds18:53
kanzureAdrianG: yeah, in many cases if you ignore patents you can make more treatments18:53
yashgarothaye, but there's a reason biopharma costs hundreds of thousands of $ a year18:54
roksprokyashgaroth: so are you pretty doubtful of the 'we will live for 1000 years'18:54
yashgarothno I'm hopeful18:54
AdrianGwe wont live for 1000 years chillax18:54
yashgarothbut with the current funding and regulatory system, it won't be us living that long18:54
AdrianGits not the regulatory system18:54
AdrianGwe dont have the sciecne.18:54
kanzurei don't think you should assume a company will be the one to develop longevity-related technologies18:54
kanzureAdrianG: that's not entirely true.. we do have the science18:54
AdrianGno we dont18:55
kanzurehaha18:55
yashgaroththe regulatory system is absurdly overzealous against possible harm18:55
AdrianGwe are barely scratching the surface18:55
AdrianGfor fucks sakes, we dont even know what most of trace amines do18:55
AdrianGand you are saying we know how to reverse aging of the brain18:55
kanzureare you saying this because you think my knowledge of longevity research is insufficient?18:55
AdrianGits not your knowledge.18:55
kanzure"reverse aging" isn't really the same as longevity18:55
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AdrianGit is close enough.18:56
kanzurenot really18:56
roksprokyashgaroth: aren't places like russia and china less strict?18:56
kanzuretwo different things there18:56
yashgaroththey are, but their science is shit18:56
AdrianGwe will not be able to improve longevity of the nervous system to 1000 years.18:56
kanzureroksprok: there are many countries where you can just be left alone18:56
AdrianG#1) we dont know how to treat alzheimers/parkinsons18:56
kanzureAdrianG: there's stopping aging, and reversing aging, and other important factors18:56
kanzurewho cares about alzheimer's/parkinsons..18:56
AdrianGkanzure: cancer, alzheimers, parkinsons18:56
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AdrianGthat's the roadblock for any longevity strategy18:56
kanzurenot really, there are other issues at play18:57
AdrianGyes, there are many others, those are jsut the most obviou sones18:57
kanzurei agree that diseases are terrible and need to be fixed18:57
AdrianGgiven enough time, everyone will get cancers18:57
AdrianGand parkinsons18:57
AdrianGnot sure about alzheimers, probably that as well18:57
kanzureare you a researcher?18:57
AdrianGwat18:58
kanzureread everything here a few times http://diyhpl.us/~bryan/papers2/longevity/ before you shit all over me18:58
kanzuredamn18:58
AdrianGok?18:58
kanzureyou think this is all made up ?18:58
AdrianGyou are just overly optimistic.18:58
AdrianGthats all.18:58
AdrianGit will happen, with time18:59
kanzureand you'll die to lethargy18:59
AdrianGi dont think we have enough understanding yet18:59
kanzurei think you don't have enough understanding18:59
kanzurei suspect.18:59
roksprokso kanzure does that mean that you agree with yashgaroth that it is a policy/regulation/'its really hard to commercialize stuff' problem?18:59
AdrianGidk why are you think that ad hominems change anything18:59
kanzurehaha wait, you're already giving me an ad hominem man19:00
AdrianGand what is that?19:00
AdrianGa bunch of studies?19:00
diginetsenescense is not a problem you "fix" just by some miralce drug19:00
kanzureroksprok: longevity?19:00
kanzurediginet: nobody said it was19:00
diginetwell, AdrianG seems to be seriously underestimating the difficulty19:00
roksprokkanzure: longevity/effective treatments19:00
AdrianGi underestimate the difficulty?19:00
yashgarothit's not just that, the science is lacking as well roksprok19:01
AdrianGso its much worse than i think?19:01
kanzureroksprok: you can't get funding for longevity in general; but there are engineering projects that you can complete that would be very useful19:01
kanzureAdrianG: diginet is just overly opinionated and a technophobe19:01
diginetI'm not a technophobe, I'm skeptical of hype and handwaving19:02
kanzureAdrianG: but yes, it's a bunch of research that you should consider and experimentally test19:02
kanzureAdrianG: you shouldn't just assume it doesn't exist19:02
kanzurenobody is promising you magic, just that "under these conditions, hey look, you have stem cell niche renewal hooray"19:02
AdrianGkanzure: i am well of aware the research.19:02
kanzureroksprok: in the case of diseases, i'd say patents are a huge and costly hurdle19:03
kanzure(plus FDA approval on top of that)19:04
diginetI guess I don't see how one solves the biological senescense of cells, considering the only way that has ever happened is by them becoming cancerous, not to mention mechanical degradation19:04
AdrianGkanzure: what is the chance of us, AdrianG and kanzure, surviving to 1000 years old, at the present time?19:05
kanzurediginet: most cells in your body die19:05
kanzurediginet: this is normal and to be expected19:05
diginetI'm aware of that19:05
kanzureAdrianG: chance based on what ??19:05
AdrianGkanzure: current pace of research19:05
kanzurediginet: ok. so the actual senesence of those cells doesn't really matter19:05
kanzureAdrianG: you could do some maths on a tool i helped develop... http://theuncertainfuture.com/19:05
diginetsure, but the ones which don't die and get replaced are kind of important19:05
kanzureit will show you probabilistic answers to your questions19:05
kanzurediginet: do you remember aubrey's plan? "replace all your bone marrow every 10 years"19:06
roksprokyashgaroth: is it an enabling technologies problem (like faster quicker gene synthesis and sequencing and higher resolution imaging and protein folding predication) or a 'we need to characterize these 20000 proteins better'19:06
kanzureroksprok: there are tons of technologies that can help with individual research projects19:06
yashgarothprotein folding would solve 90% of biology19:06
AdrianGyashgaroth: its a hard problem to solve19:06
diginetand that's not a problem which can be "solved"19:07
yashgarothwho said it'd be easy19:07
diginetI didn't19:07
digineterr19:07
diginetno one19:07
kanzurei suspect that none of you are qualified to comment since you haven't written any protein folding algorithms19:07
diginetI'm just saying19:07
AdrianGdiginet: are you saying it is not solvable in principle?19:07
yashgarothhey maybe physics will do something useful and figure it out19:08
diginetI don't have to have: protein folding is like the travelling salesmen problem, it can't be solved efficienctly on a turing machine19:08
kanzureyashgaroth: there's some handy machine learning tricks that could be applied, dunno how much that has been mined19:08
diginetI mean, you can use heuristics to get there faster, but there's no silver bullet19:08
yashgarothI don't care if it's efficient as long as it works19:08
kanzureyeah who cares if it's a silver bullet19:08
diginetI'm talking billion times the age of the universe long19:08
kanzurehave you run the algorithms and shown this ?19:09
AdrianGdiginet: so need we just need to get quantum computer running19:09
kanzurequantum computing would be nice, but you shouldn't assume its general availability19:09
diginetAdrianG, quantum computers are no more capable than turing machines19:09
roksprokyashgaroth, kanzure: is it naive to think that a 'good enough' system would work in conjunction with just making the protein and seeing what it looks like when it folds?19:09
kanzureroksprok: that's doable with crystallography19:10
yashgarothsort of19:10
kanzurethat's basically how ncbi has all those millions of pics of proteins19:10
yashgarothcrystallization of membrane proteins is a big problem, but that'll be doable in <5 years19:11
roksprokso then why is 'the protein folding problem' still a problem that will solve 90% of biology when it is solved19:11
yashgarothbecause you can predict all interactions between proteins, DNA, and their environment19:11
kanzuremany of the algorithms and tools aren't widely known, for one..19:11
kanzure"rational protein design" tools for instance..19:11
AdrianGthats a completely different problem from predicting protein folding19:12
diginetnot completely19:12
kanzureoh, i guess protein design is different from enzymatic characterization19:12
diginetdifferent, but intimately related19:12
roksprokyashgaroth: isn't that more kinematics? or does protein folding encompass it all19:12
diginetjust to be clear19:12
roksprokkanzure: didn't 'rational protein design' kind of lead to a bust?19:12
kanzureroksprok: once you have the final shape of the protein you can compute your standard chemistry simulations on it19:12
diginetthere's no solution to the three body problem19:12
kanzureroksprok: what do you mean a bust ?19:12
digineti.e. modern physics cannot precisely desrcibe the interaction of more than two particles19:13
roksprokas in it didn't lead to many actual drugs that worked?19:13
kanzureroksprok: i don't know what people tried19:13
diginetso when you're talking about things like proteins, consider the difficulty there19:13
AdrianGthat would be more of a n-body problem.19:14
kanzurediginet: please provide a ref that protein simulation or rational protein design requires a solution to the three body problem19:14
diginetsure19:14
AdrianGkanzure: thats kind of like asking for a ref that arithmetics requires addition/substraction19:14
diginetyou can simulate proteins without solving it, but you can't precisely describe their behavior to arbitrary precision19:14
yashgarothhaha guys there's a reason it would solve most of biology...because it'd be incredibly hard without a giant leap in computation and/or physics19:14
kanzureAdrianG: not really19:14
diginetAdrianG, haha, just ask Betrand Russel for that!19:15
kanzureAdrianG: also, that proof is possible (re: math)19:15
diginetkanzure, no, haven't you read Godel?19:15
AdrianGdiginet: i think we should rather ask godel19:15
AdrianGoh here we go19:15
kanzureyes i have redad godel,19:15
kanzureare you a hofstadter brat?19:15
kanzure*read19:15
diginetGodel kind of shit all over the Principia19:15
AdrianGi like this diginet fellow.19:16
diginetAdrianG, well, thank you :)19:16
AdrianGwell, godel or no godel, eventually we would be able to work out protein folding.19:16
diginetare you sure?19:16
AdrianGdiginet: it was an expression of profound hope.19:17
diginetoh right19:17
AdrianGwhat makes you think it is not possible?19:17
diginetI'm not saying it isn't19:17
kanzureyashgaroth: you suck for bringing up protein folding19:18
diginetI'm just saying the possibility isn't guaranteed19:18
yashgarothheh I've been regretting it the past 10 minutes19:18
AdrianGnothing is guaranteed19:18
AdrianGdiginet: my bet is that we will be able to treat it eventually19:19
diginetbut you know, I think people like us, who live in first world countries forget we haven't even solved the most basic problem of all: producing food without extensive manual labour, or even reliably supplying it to a huge percentage of people19:19
AdrianGbut empirically. kind of like we treat everything at first, without fully understanding why it works19:19
joshcryeryashgaroth, I found the statement to be accurate in any event.19:19
AdrianGdiginet: that has been solved to an extent19:19
diginetAdrianG, if I had to guess, I'd probably would say we would, it's just people tend to arrogant assume that we will be able to do anything19:19
AdrianGwhich is why urbanization was made possible19:19
diginetexcept, what happens when everyone is urbanized19:19
diginetwho puts food on our plate?19:20
AdrianG?19:20
kanzuredoom and gloom clan19:20
diginetwho farms?19:20
AdrianGdiginet: a very small amount of farm labour19:20
kanzurerobots.19:20
AdrianGthe staple food production requires very little manual labour these days.19:20
diginethow is it doom and gloom to not gloss over very real problems?19:20
AdrianGid worry about things like drought/fertilizers before labour.19:21
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AdrianGrobots cant yet summon rain.19:21
joshcryerdiginet, you do realize that agriculture is largely automated at this point right?19:21
diginetAdrianG, sure, but not for most people: how do we get auto farmers in the hands of the extremely poor?19:21
joshcryerYou don't feed 7+ billion people without automation.19:21
AdrianGdiginet: the extremely poor own no land.19:21
diginetwell, that's true as well19:21
AdrianGthey cant possibly farm.19:21
AdrianGanyway.19:21
joshcryerThis is verging on politics for any substantitive discussion, to be honest.19:22
AdrianGalso, r u guises aware that a marjorana fermion was possibly detected today?19:22
joshcryerPoor or not, rich or not, developing world or not, we need to take it to the next step with automated vertical lab farming with waste recycling.19:22
diginetI'm just saying, we humans aren't as smart as we tend to think we are, we haven't even solved stupid things19:22
diginetjoshcryer, agreed19:23
kanzurejoshcryer: diginet tends to politicize things immediately19:23
joshcryerI've worked in canning factories, it's 90% automated.19:23
joshcryerThe only part that wasn't was the packaging.19:23
kanzurecanning= making cans and putting things into them?19:23
joshcryerMainly because packages tend to be opened by humans.19:23
diginetpoliticalizing? how19:24
AdrianGpackaging can probably be automated as well19:24
joshcryerkanzure, not necessarily cans but jars too.19:24
kanzureoh man! jars too. jeeze19:24
AdrianGdiginet: some stupid things just dont have enough incentive to solve19:24
AdrianGnobody works for nothing19:24
diginetI mean stupid things that affect us19:24
kanzureAdrianG: some people do work for nothing, you are lying to me19:24
kanzurei question your motives19:25
AdrianGan exception to the general rule.19:25
diginetyou know the "class" of civilizations people reference when referring to aliens, Class 1 etc19:25
joshcryerdiginet, well, I don't want to get into it too much, but basically a comment was made about poor people not having land, and we've seen what happens when land redistribution happens (the specialized farmers are removed and land given to unspecialized people who let the land go to waste, etc, etc). So it's not a question of land, it's a question of technology and knowledge dissemination.19:25
joshcryerBut I don't want to talk politics, to be honest.19:25
diginetjoshcryer, I'm not saying we necessarily should19:25
diginetsorry that's not what I mean, I didn't mean to imply that19:25
joshcryerAdrianG, you can automate packaging if the end user isn't a human being, imo.19:26
diginetI was just saying, how do we get more automization in countries where subsistence farming is still part of people's livelihood19:26
diginetwe aren't even a class 1, we're class 019:26
kanzurediginet: you put the machines there19:26
diginetand if they break?19:26
diginetit's not that simple19:26
kanzureyou are making it more complicated19:26
joshcryerYou recycle them if they break.19:26
AdrianGdiginet: why are concerned about that in the first place19:26
kanzurediginet: machine maintenance is a solved problem, in general19:27
kanzure(or replacements)19:27
diginetthen why is it that we can't even buy cars that aren't expected to break down within 10 years or so?19:27
kanzureyou can- you probably just buy terrible vehicles19:27
diginet? people have the expectation cars will have problems, moreso for expensive cars (people don't buy ferraris because they never go into the shop)19:28
joshcryerWait.19:28
joshcryerDo you realize how freaking ridiculous cars are?19:28
joshcryerThey undergo hundreds millions of cycles!19:29
roksprokpeople still drive model t's around19:29
diginetSure, but saying that machine maitenence is a "solved" problem is patently wrong19:29
joshcryerCars lasting 10 years and going so far as to circle the planet a dozen times is crazy.19:29
AdrianGdiginet: plenty of cars last 10 years with only minor repairs19:30
katsmeow-afkmy truck has 218k miles, the car has 185k miles, neither smoke, the car gets over 30mpg, and it's a turbo19:30
kanzuremachine maintenance is solved- you have highly skilled labor that can repair cars19:32
kanzurekatsmeow-afk: yes but how old ?19:32
katsmeow-afktruck is 1998, car is 198919:33
kanzurenice19:33
kanzureyou don't drive much?19:33
katsmeow-afkso the car is 23 yrs old19:33
katsmeow-afk185,000 miles, nope, i don't drive much19:33
joshcryer15k a year is pretty decent on that truck.19:33
joshcryer40 something miles a day.19:34
kanzurejoshcryer: afaik, tractors drive even less19:34
kanzurefor wheat harvesting you just cover the surface area a few hundred times over each year19:35
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katsmeow-afkthe other car had over 100k miles also, i don't remember how many19:37
katsmeow-afk197919:37
katsmeow-afkstill ran well, but was a unibody type, and whre the suspension connected to the body, the body rusted away19:38
kanzurehttp://www.sintef.no/Projectweb/Geometry-Toolkits/Downloads/19:41
kanzurehttp://www.cs.berkeley.edu/~hling/research/paper/intersection.htm19:41
kanzurefenn: what about sisl?19:41
AdrianGEfficient (that is, polynomial-time) quantum algorithms have been developed for simulating both Bosonic and Fermionic systems[30] and in particular, the simulation of chemical reactions beyond the capabilities of current classical supercomputers requires only a few hundred qubits.[31]19:43
AdrianGkanzure: tractors also experience enormous loads, your truck and car probably never have19:44
AdrianGoff-road driving is also very hard on the machinery19:44
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diginetPeople love to talk about Moore's Law, but there's an actual law that people forget about, that is much more relevant: Amdahl's Law19:56
joshcryerhttp://www.youtube.com/watch?v=wd_qndyw10420:04
joshcryer^- 50 year old tractor20:04
joshcryerbetter video with mrpete (YouTube machinist, fascinating videos, he rocks): http://youtu.be/9qWzSCHjuWM20:05
ParahSailincoke bottles20:06
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kanzurehi louipc21:55
louipchey hey21:55
louipcwhat's up?21:55
kanzurei'm debugging https://github.com/kanzure/pokecrystal/commit/2588ff6255542bcaf8f20a6cafa3e9943cd0d29221:56
louipcwhat's that do?21:56
louipcoh pokemon hehe21:57
kanzureit disassembles an old game into compiling asm21:57
louipcyou seem to have a lot of interests21:57
louipcwhy asm?21:57
kanzurebecause source code!21:57
louipchmmm21:57
louipcyou know I was thinking the other day21:57
kanzurehttps://bitbucket.org/kanzure/pokered/raw/b57b31748bfc/main.asm21:58
louipci bet advanced civilizations won't need to worry about compatibility between OSs21:59
kanzurethey will just have an emulation layer?21:59
louipcprograms will automatically decompile, recompile and fit the host21:59
kanzureemulation sounds easier21:59
louipccomputers will be intelligent enough to automatically port the code22:00
louipcwell, emulation exists now22:00
louipcbut it's another layer, and it's not integrated into the host OS very nicely22:00
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louipckanzure: know of any do it yourselfer nuclear reactor builders?22:04
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Cat4Dits very simple22:05
Cat4Dbut you must eradicate the american problem22:06
diginetlouipc, I do22:06
diginetlook up David Hahn22:06
louipcthe way they police it?22:06
diginetaka "The Nuclear Boyscout"22:06
diginetturned out well for him22:06
louipcI'm not interested in light water, or weaponisation/proliferation22:06
louipcjust the good side of nuclear :P22:07
diginetdiy nuclear reactor is just asking for trouble22:07
diginetI'm definitely not anti-nuclear22:07
diginetbut22:07
louipcyou're right22:07
diginetapart from the whole safety issue, it's also a good way to end up a in federal prison22:07
diginetactually you know what could be fun, but also more safe?22:08
diginet(I was thinking of doing this myself)22:08
louipclet's hear it22:08
diginetGet some sort of radioisotope, like tritium, and mix it with a phosphor like zinc sulfide (can be made yourself), then use a PV cell to harvest the energy, voila, atomic battery!22:09
diginetovviously, efficiency is going to be low, zinc sulfide is a bad scintillator22:09
diginetbut, it's definitely doable22:10
louipcgood for the cloudy days I guess?22:10
diginethaha, yep!22:10
diginetthey actually sell tritium keychains for that very purpose22:10
diginetillegal in US IIRC, but there are sources22:10
louipcintresting22:10
diginetI was looking for a good isotope for this very purpose, but never got around to it22:11
louipcit'll be interesting to see what the indians and chinese can do with thorium though22:12
diginetyou want something which is a pure beta emitter, like tritium22:12
diginetyeah, Thorium is very promising22:12
kanzureuh22:12
kanzurediginet, stop trolling him :P22:12
diginethow am I trolling him?22:13
kanzurelouipc: there's a few others in here more experienced with diy reactors than i am22:13
louipche's sending the feds after me :D22:13
kanzurediginet: i think you're lying, and you haven't built a reactor or understand the nuiances of that community22:13
louipchahah22:13
diginetwhen did I ever say I had built a reactor?22:13
kanzurelouipc: nope, we're friends with the feds in here22:13
delinquentmemini theories :D22:13
diginetand what community?22:13
kanzurediginet: you said it's asking for trouble, like you were offering experience22:13
kanzurediginet: the home reactor community22:14
diginet. . .22:14
diginethome reactor community? god no22:14
louipckanzure: well.... he is quite correct there isn't he?22:14
diginetit's asking for trouble because a) neutron radiation and b) highly illegal22:14
kanzurelouipc: have you built one?22:14
louipcnewp22:14
kanzurediginet: actually, no, it's not highly illegal....22:14
louipcbut there must be regulations22:14
louipcand I hope so22:14
kanzurelet's see what articles i can pull up22:14
kanzurehttp://www.popsci.com/science/article/2010-06/deuterium-diy-man-builds-homemade-nuclear-fusion-reactor-brooklyn22:14
delinquentmeOOC if you're building a reactor ( and doing it correctly )22:15
diginetfusion?22:15
louipcI hope my neighbour isn't irradiating the hell out of me22:15
kanzurewith apologies for linking to popsci22:15
diginetI thought we were talking about fission22:15
diginetof yeah22:15
kanzurehttp://hackaday.com/2011/08/06/the-diy-nuclear-reactor/22:15
diginetfusion is legal22:15
delinquentmearent you going to be putting of substantially more power than a single home would need in a lifetime?22:15
louipcfission22:15
diginetboring, but legal22:15
kanzureoh, fission22:15
diginetyeah22:15
diginetsorry22:15
kanzurehmmm fission.22:15
kanzurelet me think22:15
diginetdunno why I assumed fission22:15
delinquentmePS elon musks twitter background it the mangetic suspended taurus :D22:15
delinquentmewhatcha think 'bout kanzure ?22:15
kanzurejust trying to remember the right person's name22:16
diginetfusion does have neutron radiation, but I doubt it would be concern at the levels most fusors operate at22:16
delinquentmewheres my tyson degrasse meme22:16
diginetkanzure, DavidH Hahn?22:16
delinquentmethe thorium reactor guy?22:16
louipcfusion... hasn't been made to produce positive output has it?22:16
kanzurehttp://boingboing.net/2011/08/04/man-busted-for-diy-fission-experiments.html22:16
diginetlouipc, no22:16
louipcrite22:16
delinquentmeohhhh22:16
diginetif anyone says otherwise, they're a crank22:16
louipcheheheh22:16
delinquentmeHis suspicions were confirmed when police arrested him22:17
louipcother than the sun22:17
diginetyeah22:17
louipcand it's cousin stars22:17
louipc:P22:17
diginetI KNOW LETS BUILD A STAR22:17
delinquentmewell cold fusion claims sure22:17
diginetseems legit22:17
louipcYA MAN22:17
delinquentmediginet, thats in effect what we're doing no  :D22:17
delinquentmenational ignition facility22:17
delinquentmewhewt22:17
* delinquentme thinking out loud22:18
diginetI read the coolest short story when I was little, I could never find it, it was in some science fiction anthology, and this kid bought a kid to "grow your own star" and it turned into a black hole22:18
delinquentmesometimes I feel like I've lost that fear22:18
delinquentmeim too comfy22:18
delinquentmeneeds more .. panic attacks22:18
delinquentmeremind me of that abyss you know?22:18
diginet*kit, not kid22:18
diginetdelinquentme, I have no idea what you're talking about?22:18
delinquentmediginet, panic attacks got me started on this living longer thing22:19
delinquentmehavn't had one in a while22:19
diginetthat doesn't sound healthy22:19
delinquentmelike years and years22:19
kanzurei think living longer is important regardless of whether or not you have panic attacks?22:19
delinquentmepanic attacks hahah22:19
delinquentmekanzure, true22:19
* superkuh is slowly putting together a copy of de Soto's ultramicro dense plasma focus.22:19
delinquentmebut the ....22:19
delinquentmeencompassing fear to run from it22:20
delinquentmeisnt there22:20
diginetconsidering I take medication for panic attacks (among other things) I can't imagine why someone would ever /want/ one22:20
kanzurea copy of his what?22:20
superkuhNext month I'll order most of the parts from mcmastercar.22:20
superkuhhttp://superkuh.com/library/Physics/Dense%20Plasma%20Focus/Nanofocus_%20an%20ultra-miniature%20dense%20pinch%20plasma%20focus%20device%20with%20submillimetric%20anode%20operating%20at%200.1%20J_%20PSST_Nanofocus_L_Soto_et_al_2009.pdf22:20
kanzurea focusing instrument?22:20
delinquentmeits there but not at the cold sweat and instant presence of mind kind of way22:20
kanzureclicking22:20
superkuhkanzure, no, a type of magnetic pinch for thermonuclear fusion.22:20
superkuhElectrical discharge in moderate vacuum between coaxial cylindrical electrodes.22:20
kanzureoh that looks fun22:20
delinquentmesounds sexy22:20
superkuhhttp://superkuh.com/small-dense-plasma-focus.jpg22:20
diginetI don't get the generalization of the word "sexy"22:21
superkuhThat sketch is using part sizes taken from McMastercar and the caps I have sitting around my apartment.22:21
diginetsex is about the last thing I think of when I think of fusion22:21
kanzureis that a person's shoe?22:21
superkuhFor scale.22:21
kanzurewhat about scale bars22:21
kanzurenot that i'm complaining22:21
kanzuretheir device generated .1J?22:23
superkuhNo. That is the input energy.22:23
superkuhVery small. Easily controlled.22:23
kanzurefor maintaining plasma?22:24
superkuhIt is a pulsed device.22:24
diginetsuperkuh is going to kill us all22:24
diginet. . .with /awesomeness!/22:24
superkuhI only hope to operate it with a noble gas an use the soft xrays in combination with pinholes to play.22:24
louipcthe shoe's a nice touch22:25
louipcyou guys heard about this? http://techshop.ws/22:37
kanzureyes22:37
kanzurelouipc: their equipment tends to be chronically over-scheduled22:38
kanzureer.. i mean. there's long waitlists.22:38
louipcoh I see22:38
louipcI heard they're opening more locations though22:38
kanzureare you aware of hackerspaces?22:39
louipcyeah22:39
louipckanzure: know any that are licensed for nuclear reasarch?22:42
louipchmm spelled that wrong22:42
diginetahha, they could frame it on a wall, just like restaurants frame their licenses22:44
louipcheheh22:44
louipckanzure: sorry, yeah there's a hackerspace near me, the only thing I know they have of marginal interest is a laser cutter22:45
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kanzurelouipc: sounds sorta lame23:13
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delinquentmeNIGHT ALL!!!!!!!!!!!!!!!!!!!!23:53
delinquentme<323:53
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diginetoff topic, but I think I found the greatest place on the internet23:55
diginetby which I mean, the worst23:55
joshcryerPlease share it.23:59
--- Log closed Sun Apr 22 00:00:46 2012

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