2010-07-04.log

--- Day changed Sun Jul 04 2010
brunsgenusDoes anyone know where I could contact a marine biologist?01:11
Utopiah(unrelated) http://en.wikipedia.org/wiki/Human_artificial_chromosome01:26
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brunsgenus_I need to find a marine biologist who could help me in obtaining an obscure jellfish01:37
Utopiah:-# http://www.youtube.com/watch?v=R84LRX8FeBA won't help at all but I (weirdly) like it01:39
brunsgenus_lol01:45
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brunsgenusgm01:58
brunsgenusdamn02:05
brunsgenusybit02:24
brunsgenusyour question earlier02:24
brunsgenusabout the other sections02:24
brunsgenusask splicer02:24
brunsgenusI got it from him02:24
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JayDuggerHappy Independence Day, everyone.05:05
JayDuggerHappy belated Canada Day and happy early Bastille Day, as appropriate.05:06
* Utopiah just discovered http://en.wikipedia.org/wiki/Bastille_Day#Bastille_Day_celebrations_in_other_countries05:12
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kanzurehmm youtube is broken06:39
kanzurehttp://www.youtube.com/watch?v=GpkQSB_h5lY06:39
Utopiahit's a JS exploit06:40
kanzurehttp://www.reddit.com/r/programming/comments/cluc5/html_injection_vulnerability_in_youtube_comments/06:40
kanzureyep06:40
Utopiahit will spread as long as YT doesnt do anything06:40
kanzureyou know.. with an automatic comment poster, we could spam the entire youtube userbase06:44
kanzurehow much money do you think could be made from the adsense clicks?06:44
JayDuggerI have no idea.06:45
UtopiahGoogle is good at tracking ... they won't pay for that.06:45
JayDuggerHow would that work?06:45
kanzureUtopiah: okay, then don't use google :P06:45
bdeskor maybe it can be combined with other attacks, which would be more interesting.06:45
kanzurebdesk: there's not a lot of time before youtube fixes it06:45
UtopiahInternet ads without Google? :/06:45
kanzureUtopiah: yeah, like yahoo's06:45
kanzureor something06:45
Utopiahthat's why they face a monopoly threat in France in France06:46
Utopiahwell, you can try if you're fast enough but I doubt anybody will pay06:46
JayDuggerEngineers Without Borders 07:13
JayDuggerhttp://www.ewb-usa.org/about.php07:13
kanzuremy local EWB group was just building water purifiers.. but they weren't very good.07:13
JayDuggerThat's too bad.07:13
UtopiahJayDugger: http://www.ewb-international.org/ international07:14
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JayDuggerWell, back to finding a substitute for Firefox's HaH extension.07:31
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kanzurepmetzger: package received. thanks.10:53
pmetzgerso you have the paper copy now?10:56
pmetzgermost excellent.10:56
pmetzgeris it in good condition?10:56
kanzureyes10:56
kanzureand yes10:56
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pmetzgerAs I've said, this is perhaps the most interesting/important book in the field of molecular machines. Well worth the read (though a bit of a slog).10:57
kanzurei read the section on design automation, design compilers, etc. and it was very underdeveloped10:58
kanzurebut i suppose that's not the purpose of the book10:58
pmetzgerno, it isn't.10:58
bdeskwhich book?10:59
bdeskit is one by drexler?11:00
kanzureyes, 'nanosystems'11:00
pmetzgerremember, this was his doctoral thesis. it covers a LOT of material for a thesis.11:00
pmetzgerand it was 20 years ago.11:00
pmetzgermany topics aren't covered in nearly enough detail, but that's okay.11:00
kanzurepmetzger: have you ever been to the institute for molecular manufacturing?11:02
kanzureis it just some office space?11:02
kanzurehttp://imm.org/11:02
bdeski've heard that rice university has good research in this area.  or used to.11:02
pmetzgerIMM isn't even office space.11:03
pmetzgerit is a virtual organization.11:03
pmetzgerbdesk: no, it isn't.11:03
kanzurethen why is IMM listed as being in palo alto?11:03
pmetzgerbdesk: I can name everyone doing direct research on molecular machines (outside of the molbio world)11:03
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pmetzgerIt is technically in Palo Alto. :)11:03
pmetzgerit has a mailbox there.11:04
pmetzgerit exists to be an affiliation for Eric, J. Storrs Hall, Ralph Merkle and a couple of other people.11:04
kanzurepmetzger: go ahead and name all of them, please.11:04
pmetzgerand to provide a way to give money to a few of them.11:04
pmetzgerWell, lets see. There are the people I just mentioned, there's Damian Allis.11:05
pmetzgerThere's Jim von Ehr's team.11:05
bdeski was thinking of this http://cnst.rice.edu/11:05
pmetzgerThere is Robert Freitas11:05
pmetzgerbdesk: smalley specifically denounced drexler.11:05
bdeskoh.  well maybe he is right?11:06
pmetzgerbdesk: and their work is all synthetic chemistry, no molecular manfacturing.11:06
kanzureyeah, well, smalley died11:06
pmetzgerbdesk: no, he was wrong. 11:06
pmetzgerbdesk: most of his criticisms existed because he wanted money.11:06
bdeskkanzure: lol11:06
pmetzgerbdesk: at least that's my interpretation. there was a half billion dollar pool of cash and the only way to get it was to make drexler look bad.11:07
bdesksorry i didn't mean to interrupt the listing11:07
pmetzgerbdesk: but anyway, smalley and drexler's debates are online, and almost everything smalley said was already shown wrong by papers drexler did years before smalley's criticisms.11:07
bdeski see.  i didn't realize this was such a thing.11:08
pmetzgerlike, for example, smalley kept claiming drexler wanted to "pick up" individual atoms with molecular tongs or some such thing, which was something drexler himself had said was impossible years before smalley claimed it was drexler's idea.11:08
pmetzgerit was a very dirty fight.11:08
pmetzgerkind of wrecked drexler's reputation among chemists.11:08
kanzurepmetzger: please continue with the name listing11:09
pmetzgerwell, lets see. there is me, though I'm not important.11:09
pmetzgerI think I've covered the major people at this point, really. I mean, there are a few others.11:09
pmetzgerand one might count the DNA origami people (though I don't.)11:09
pmetzgerbut it isn't a large community.11:10
pmetzgerOh, there is Moriarty in the UK.11:10
pmetzgerand Freitas has a couple of collaborators in Russia who's names I can't remember.11:10
pmetzgerthat's just about it.11:10
pmetzgerthe DNA origami world, if you count it, is a bit larger. Winfree, Rothemund, Seeman...11:11
pmetzgerguy at Harvard who I'm embarrassed to say I can't remember the name of right now (senior moment)11:11
pmetzgerHarvard Med.11:11
pmetzgerby now there probably are some others in DNA origami.11:12
kanzurethe russian collaborators are Maksim Astafiev, Diana Alisheva, Natalia Akberova, and Denis Tarasov11:12
kanzurepmetzger: at harvard med? probably george church11:12
pmetzgerno.11:12
pmetzgerhe's not doing DNA origami11:12
pmetzgerhang on11:12
pmetzgerWilliam Shih11:13
pmetzgerthat's who I was thinking of.11:13
pmetzgerThough the DNA origami world is spreading pretty fast.11:13
pmetzgerHowever, they can't really make machines in the conventional sense with DNA origami yet. Still, it is atomically precise work, so I should count it at some level.11:13
pmetzgerIt is very different from the vision of machine phase chemistry though.11:13
pmetzgerit is all solution phase.11:13
pmetzgeranyway, in terms of machine phase stuff, I listed just about all of them above. I probably have forgotten two or three, but that's about it.11:14
pmetzgerit isn't a big universe.11:14
kanzurechris phoenix?11:15
pmetzgerChris vaguely counts, yah.11:15
pmetzgerhe's published real papers, though I don't think he does a lot of active research.11:16
pmetzgerbut yah, I guess he counts.11:16
kanzurethen his ex-wife, christine peterson?11:16
pmetzgerChristine doesn't really do any research on this stuff.11:16
kanzureno, i guess not11:17
pmetzgernever has. I think the chemistry degree at MIT turned her off to doing real work in the field.11:17
pmetzgerThough I could be mistaken.11:17
pmetzgerShe's a cool person but I don't think she's ever done any real research in the field.11:17
pmetzgerI'm sure I'm missing a couple of other people and there are probably a few I don't even know about, but not many.11:18
pmetzgerI guess Christian Schafmeister if you stretch things a bunch?11:19
pmetzgerI mean, his interests are clearly in the same direction.11:19
pmetzgerbut he does wet chemistry. some cool stuff with bisamino acids, but I haven't heard of much interesting progress from him in the last decade.11:20
pmetzgerI'm stretching here, as I said. I'm sure there must be some others but not many.11:20
bdeskmachine phase vs solution phase means in air vs in water?11:21
pmetzgerno.11:21
pmetzgermachine phase means something very different.11:21
pmetzgerit is sort of like inner phase in enzymes only with completely active transport by nanomachines and in high vacuum.11:21
bdeskoh probably http://www.ruf.rice.edu/~rau/phys600/drexler.htm11:21
pmetzgernot a great introduction there actually.11:22
pmetzgerthere's a good explanation in nanosystems.11:22
pmetzgerBasically the notion is this:11:22
pmetzgerin solution phase, you depend on diffusion and random collisions to get reactants into the correct conformation.11:22
pmetzgerthis means that unwanted side reactions are possible, that low probability conformations mean slow reactions and/or low yields.11:23
bdeskand yet the alternative to this is not atom placing?11:23
pmetzgeryou are also in an environment where highly reactive moieties will collide repeatedly with things, thus causing them to react in general before touching the right thing11:24
pmetzgeratom-by-atom placing is a deceptive term.11:24
bdeski don't understand how it is different from machine phase.11:24
pmetzgerSo imagine that instead of two macromolecules hitting each other at random, they're bonded to handles that are mechanically placed together in a high vacuum.11:24
pmetzgerthe angle and force are precisely controlled by the machinery11:24
pmetzgerit is in high vacuum, so no interaction other than the desired one is possible.11:25
bdeskok so machine phase vs solution phase means in vacuum vs in air/water/whatever11:25
pmetzgerintramolecular rearrangements are a problem for unstable/reactive moieties but not intermolecular reactions.11:25
pmetzgerno, vacuum isn't enough.11:25
pmetzgercomplete control of the geometric interaction of the reactants in high vacuum is the important part.11:26
pmetzgerinner phase in enzymes is like this, where there is also nearly complete control of the geometry of the reactants.11:26
bdeskhow is this not what you were suggesting smalley was falsely accusing drexler of endorsing?11:26
pmetzgersmalley was claiming the notion was to pick up atoms with robot arms11:27
pmetzgerthat's not the same thing11:27
bdeskok i see.11:27
pmetzgeryou can't pick up an individual carbon atom or what have you11:27
pmetzgerit doesn't work.11:27
bdeskso you're saying you can have atomic precision by picking up a chuck of atoms by a handle, and this isnt' the same thing as picking up a single atom.11:27
pmetzgerbut you CAN move around a large chunk of a molecule that is covalently or otherwise bonded.11:27
pmetzgerit is very different, yes.11:28
bdeskok.  and this control is what is meant by machine phase.11:28
pmetzgerthe control is the important part.11:28
pmetzgerit is a large chunk of how enzymes work as I noted.11:28
pmetzgerone doesn't need covalent bonds, hydrogen bonds or other strong intermolecular forces are okay.11:28
pmetzgerbut you can't "pick up" an atom in the general case, and everyone knows that's a silly idea.11:29
pmetzgersmalley also made very silly claims about positional uncertainty that drexler already did the calculations for in chapter 5 of nanosystems.11:30
pmetzgerI think smalley was incapable of doing those calculations himself or understanding them.11:30
pmetzgerbut anyway, if smalley had been right about that stuff, biology wouldn't work either.11:30
pmetzgerso it was clearly from the start incorrect.11:30
pmetzgerit is a long sad story.11:30
pmetzgeranyway, "nanosystems" has lots of small technical errors in it, as does any book like it.11:31
pmetzgerbut overall, it is pretty much dead on accurate.11:31
pmetzgernothing it claims can be done cannot be done. sometimes he has misprints/typos, sometimes he assumes certain molecules are more stable than they are, etc., but nothing that is actually important to the underlying thesis.11:32
pmetzgerbut very few people have actually read nanosystems, probably because it is such a hard book to read. you need a lot of background.11:32
bdeskthe pieces are so small that it is hard to see them.  or expensive to see them.11:33
pmetzgerthe pieces?11:33
pmetzger?11:36
bdeskthe little gears11:36
kanzureAFMs aren't very expensive.11:36
pmetzgeryou don't have to see them while you're making stuff.11:36
pmetzgerdrexler makes a good argument that you can get error rates below 1 in 10^-15 operations11:37
pmetzgerwhich is good enough that you can make subsystems and test them and throw the broken ones away.11:37
pmetzgereven much higher error rates would allow that.11:37
kanzure10^-15 operations? you mean 10^15 operations right?11:37
pmetzgersorry.11:37
pmetzgeryah.11:38
kanzure1 in 0.00000001 operations wouldn't make sense :P11:38
kanzureor 0.00whatever111:38
pmetzgermy brain isn't always 100% on. :)11:38
pmetzgeran error rate of 1 in 10^15 or an error rate of 10^-15, clearly not 1 in 10^-15 :)11:40
pmetzgerbdesk: you can get a copy of "Nanosystems" for $6 including shipping. I suggest buying one. It is very low effort to acquire.11:40
pmetzgerhttp://www.amazon.com/gp/offer-listing/0471575186/ref=dp_olp_used?ie=UTF8&qid=1278268872&sr=8-1&condition=used11:41
AJollyLifethe internet makes many things low effort to aqure11:41
pmetzgerjolly: it does.11:41
AJollyLifei go to amazon and hit buynow and i am suddely poorer11:41
pmetzgerbeing poorer by $6 is not a big deal though. :)11:42
AJollyLifeyeah, id be sad if i had to worry about $611:43
AJollyLifeapparently all my painkillers have expired :(11:43
pmetzgerooh! the price of used copies has gone up!11:44
pmetzgeronly one available for $3 now.11:44
AJollyLifeanyone know if its a big deal if you take expired pain killers?11:44
pmetzgerI wonder if I've had an impact on the market.11:44
pmetzgerJolly: it depends on the compound and how expired.11:45
kanzurepmetzger: what about "richard jones"11:45
pmetzgerkanzure: in what context?11:45
bdeskget an AFM and look at the painkiller molecules.11:45
kanzureas a molecular machines researcher?11:45
pmetzgeroh, he's more or less a skeptic.11:46
pmetzgerhe doesn't believe machine phase is possible, only synthetic biology I think.11:46
kanzurehow about: Malcolm Heggie, Lev Kantorovich, Chris Pakes11:46
AJollyLifeive got tylenol that expired 11/09, and asprin that expired in 7/09.  my abs are still really sore from a workout thursday, and it hurts when i move :(11:46
pmetzgerkanzure: I don't know any of those names.11:46
pmetzgerjolly: I wouldn't take either for sore muscles, but they're unlikely to harm you if they were stored in a reasonably cool dark place.11:47
bdesktylenol will hurt you in the liver11:48
AJollyLifeive got some aleve stored at work, but i cant get in there atm.  ive taken some arnica, which usually helps, but it hasnt made that much of a difference today11:48
pmetzgerI'd just tough it out. Painkillers will only encourage you to damage the muscle more.11:48
pmetzgerthe pain is telling you something useful.11:49
AJollyLifevery true11:49
kanzurepmetzger: have any papers to add to http://designfiles.org/papers/nanotech/ ? :)11:50
bdeskdo the conditions of synthetic biology count as machine phase or as solution phase?  or is it somewhere inbetween?11:50
pmetzgerI count it somewhere in between.11:50
pmetzgerAnd I think synthetic biology research is legitimately important and fascinating.11:50
pmetzgerI track the field.11:50
pmetzgerkanzure: pakes seems to be doing some interesting work with probes now that I look at the page, but no, hadn't heard of pakes before.11:51
pmetzgerkanzure: none of my own yet. Give me two years.11:51
bdeskso "doesn't believe machine phase is possible, only synthetic biology" would mean that he doesn't think that you can get closer to machine phase than biology has already accomplished?11:51
kanzureit takes about a year to get a paper published (after you have written it) unless you dump it on arxiv or something11:52
pmetzgerbdesk: I get that impression, yes. His opinions are a bit weird.11:52
pmetzgerbdesk: he claims to be very sympathetic to the field and then has... weird arguments why certain things cant work even though in some cases they've been experimentally demonstrated already11:52
pmetzgerbdesk: sometimes argues no one has an idea of how to do certain things that there are published papers on.11:53
pmetzgerthe problem with the field is that there are just too few people doing work.11:53
pmetzgerkanzure: I'm an Arxiv kind of guy.11:53
pmetzgerspiritually. :)11:53
bdeskwhat about open access peer reviewed publishing?11:54
kanzurebdesk: i haven't timed it :) haven't done any yet, either.11:54
pmetzgerI like open access peer reviewed publishing.11:54
kanzurethe paper going through the pipeline with my name on it was coauthored with some more conventional authors ;)11:54
pmetzgerOpen access in general.11:54
kanzureand it was for the proceedings of a particular conference11:54
pmetzgerpeer review in general.11:54
pmetzgerthe intersection is, IMHO, the future.11:55
pmetzgerlack of open access slows scientific progress.11:55
pmetzgerpeople should make their raw data etc. available too.11:55
bdeski like a lot of things about academia, but the closedness of the journals is not one of them.11:55
pmetzgerthe journal publishing model is broken.11:56
pmetzgerthere are lots of good papers no one will ever read because they're locked inside journals that they can't get to.11:56
pmetzgerso they re-do research that they could instead build on.11:56
bdeskhonestly i think that redoing research is undervalued, but that is probably not a popular opinion in here.11:57
kanzurebdesk: sorry, but most research is not described adequately11:57
pmetzgerreproducing research is undervalued.11:57
pmetzgerredoing it as though it had never been done is different11:57
pmetzgerresearch in some fields is reasonably well described. I never had much trouble trying to re-do organic chem procedures.11:58
pmetzgerthough more often than one expected they just failed utterly, probably because the original authors hadn't actually done what they thought they had.11:59
pmetzgeror lied.11:59
pmetzgersome journals are notorious for this...11:59
pmetzgerbb later12:02
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bdesk"Determinants of the development time. Stage 1a: Brownian assembly of medium-scale blocks. Stage 1b: Mechanosynthetic assembly of small building blocks. Stage 2: First-generation solution-based systems. Stage 3: Inert environments, diamondoid materials."12:54
bdeskwe are working on stage 1a, or this roadmap is no longer relevant?12:54
kanzure1a sounds like something i've seen a few times12:58
kanzurelike brownian assembly of jigsaw puzzle pieces on a microscopic scale12:58
JayDuggerAnyone here ever13:00
JayDuggerwhoops.13:00
JayDuggerSorry: hit "enter" instead of "delete."13:00
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JayDuggerkanzure--do you use UZBL?13:12
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kanzureJayDugger: actually, no, but i should be using it.13:25
kanzurei think ybit or jrayhawk might be using uzbl13:25
ybitkanzure's answer for me13:26
JayDuggerAh.13:27
ybitit is used on occassion when i want a quick answer and don't want to wait on firefox's tabs to load13:27
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JayDuggerI finally have a Fingerworks keyboard again reliably working with my desktop.13:28
JayDuggerUnfortunately--this breaks a favorite FF extension, LoL, which assigns numbers to links while you hold down a user-defined key. (defaults to space)13:29
kanzureJayDugger: konqueror has a similar feature (for number links)13:29
kanzurei wrote a greasemonkey script once to do that in firefox, specifically for google results13:30
kanzureand then used an autoscroll feature :P13:30
brunsgenusI wanted to get that keyboard for severe arthritis 13:30
JayDuggerI suspect the Fingerworks keyboard sends key-down and key-up as soon as you touch the key.13:30
JayDuggeryeah, they were totally worth it.13:30
JayDuggerMuch cheaper than surgery.13:30
JayDuggerThis breaks LoL, but my alternatives are all relatively over-powered: vimperator, keysnail, or so on.13:31
JayDuggerUZBL kept coming up in searches, so I thought I'd ask about it here.13:32
bdeskwhich keyboard is good?  i am using the dell one that came with my desktop and i will get rsi before my dissertation is finished.13:32
kanzurebdesk: i like the old IBM Model M's13:32
brunsgenushttp://www.alphagrips.com/frontbigdummmy.jpg13:32
kanzurehttp://www.mikecase.net/ModelM/IBM-Model-M-Keyboard.jpg13:32
JayDuggerAssuming you don't want to get a specialty keyboard?13:32
bdeski will google the fingerworks one.13:32
JayDuggerDon't waste your time unless you've several hundred dollars to buy one on eBay.13:33
JayDuggerThey went out of production some years ago.13:33
bdeskoh they are out of business13:33
brunsgenushttp://grinandlearnit.files.wordpress.com/2009/03/right-hand-keyboard.jpg13:33
JayDuggerNo. Apple bought them.13:33
JayDuggerall kinds of specialty keyboards exist.13:34
bdeskthey have "ceased operations as a business"13:34
brunsgenusthe ultimate form of laziness: http://cybernetnews.com/wp-content/uploads/2006/03/OddKeyboard.jpg13:34
kanzurebrunsgenus: that's called "the data hand"13:34
JayDuggerI like the Kensington keyboards.13:35
brunsgenusits called i love being lazy13:35
kanzurei want to try accelerometer fingertips :/13:36
kanzureat some ridiculously high sampling rate13:36
JayDuggerYou'll have to test keyboards to fund where your budget and wrists intersect.13:36
JayDuggerAnyhow, back to cutting down a tree.13:37
JayDuggerGood afternoon, everyone.13:37
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bdeski wish that the enthough hackers would improve python's packaging system rather than create their own enthought python distribution.14:10
bdeskenthought*14:11
brunsgenusI wish I could find a pet store or someone selling this fucking jellyfish14:12
fennpower rangers was the weaksauce american clone of the much cooler japanese show 14:13
brunsgenusamerica>japan14:16
brunsgenustherefore anything it makes its better than japan's14:16
bdeskbrunsgenus: you want to get pluripotency like christopher reeve http://www.southparkstudios.com/clips/15389014:19
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fenni'm so disappointed that nobody's bothered to scan and upload nanosystems14:40
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bdeskbut then how would eric drexler make monies?14:43
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fenni hope you're not being serious14:50
bdesk"Never a rich man, Drexler is barely solvent. He recently moved from his three-bedroom ranch house in Silicon Valley into a modest apartment."14:51
fennyeah well people buying $3 books on amazon isn't gonna change that14:51
bdesklord british made hundreds of thousands in high school selling $5 disks14:51
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bdeskwired magazine seems to give drexler crap for showing most of the machinery in this picture as smooth surfaces instead of as molecules http://www.wired.com/wired/images.html?issue=12.10&topic=drexler&img=215:28
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brunsgenuslol15:34
brunsgenusmy fraternity brother got mad at me15:34
brunsgenusapparantly he started an iphone repair business and i didnt know he owned it and i put on it that you could do it for free and get the instructions off of the internet15:35
bdeskfor blowing all your frat beer funds on jellyfishes?15:35
brunsgenus>frat15:35
brunsgenuslol 15:35
brunsgenusalso bdesk i would never waste beer money15:36
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kanzurecomments on sonia arrison's article: http://news.ycombinator.com/item?id=148332815:42
brunsgenus"Ex-bio engineer here. I do not think the DIY bio community exists or will ever gain traction. "15:44
bdeski think the article read too much like a press release about what the 'biohacker' community wishes it was, so the comments are backlash.15:45
brunsgenuseh15:45
brunsgenusfuck them15:45
brunsgenusI don't see why what they say matters....15:45
bdeskbrunsgenus: agreed!15:46
brunsgenusHonestly the only thing that makes experimenting at home difficult is funding. People can pool money together to make a collaborative team and then money is no longer an issue.15:47
brunsgenusAlso the permits is an issue but rules are meant to be broken.15:47
brunsgenusare an issue*15:48
brunsgenusbdesk: if you want, I might be able to get people to take this site offline if you want15:48
bdeskO_O15:49
brunsgenuswat15:49
fennnot "the only thing" - acquiring reagents and biotech stuff is not straightforward outside of an institution15:49
brunsgenusyeah i guess15:49
brunsgenusI am just getting into this stuff anyhow.15:50
kanzuregerman podcast on biohacking http://chaosradio.ccc.de/cre143.html15:50
fennbrunsgenus: you were suggesting ddos'ing ycombinator because of some comments you disagreed with?15:50
brunsgenusfenn, I never said such thing.15:51
bdeskhttp://www.wired.com/wired/images.html?issue=12.10&topic=drexler&img=215:51
bdeskoops15:51
bdeskBiohacking ist noch eine recht neue Disziplin bei der alternativen Erforschung unserer Welt.15:51
kanzurein related news, it was sonia arrison who wrote the article that Hacker News is replying to15:51
brunsgenus>doesn't speak german15:51
kanzuresonia recently dropped off of the humanity+ board of directors because of sexism15:51
cluckjEx-bio engineer here. I do not think the DIY bio community exists or will ever gain traction. For one, I don't understand how someone could do labwork in their garage. Two I don't understand how people could afford mandatory tools like PCR machines. Three, the results from your labor don't seem tangible or exciting. At least with the computer hacking movement in the 60s and 70s you could hold a computer in your hand, you could see15:53
cluckj improvements in speed and performance as you tinkered. When programming, the output of your code would be realized relatively quickly. Bio is too complicated, too tedious, and too expensive to ever be fun or support a hacker community.15:53
cluckjI can't tell if that's a troll or not15:53
bdeski doubt it is a troll.15:54
cluckjI really think it might be15:54
brunsgenusI don't think it is a troll, trolls don't get involved in this stuff from what I have seen.15:54
cluckja pcr isn't a mandatory machine15:54
cluckjthe dudes who invented pcr did it by hand15:54
cluckjand uh15:55
cluckjthere's a pretty big hacker community15:55
bdeski'm not saying i agree with the comment.15:55
cluckjhaha15:55
kanzure"I'm guessing this is on the heals of the Kickstarter Bio-Incubator post from before. It's an interesting concept. You might want to check out: DIYbio.org for information on the capital efficient biotech movement." - nick pinkston (cloudfab.com guy)15:55
cluckj:)15:55
kanzure"diybio.org for information on the capital efficient biotech movement"15:55
kanzurewhat a load of fucking shit15:55
kanzurefenn: diybio.org has turned into a "capital efficient biotech movement"15:56
kanzure:(15:56
bdeskthat is instead of saying "poor man's biotech movement"15:56
bdeskcapital efficient is a euphemism.15:56
cluckjlol15:56
kanzurebdesk: what's happening behind the scenes is everyone is making a "diybio startup"15:56
fennwell at least they didn't say 'organization'15:56
cluckjthere's plenty of organization15:57
fennoo i wanna do a diybio startup too me me me me15:57
cluckjboston and nyc have been going for at least 2 years15:57
fennthey've barely (if at all) progressed beyond the meetup group stage15:58
fennmight have even gone backwards15:58
fenni havent been keeping track the last few months15:58
bdeskkanzure: well if the diy bio really wants to be like the homebrew club as its PR suggests, then you can't be surprised that people are wanting to make startups as the next step.  it works with the analogy.15:58
cluckjI've been keeping track fora while15:58
kanzurefenn: all that talk in the thermocyclers thread from back in 2008 or ealrly 2009 went absolutely nowhere15:58
kanzureand instead, tito jankowski decided to take the opposite of everyone's advice15:59
cluckjand been pestering mac to have regular meetings15:59
kanzurebdesk: i'm not surprised.. just a little upset that most of these people are better at PR than actually doing shit15:59
kanzure"oh let's make it a business" uh, no, how about you demonstrate you're not a moron?15:59
cluckjI'm not sure diy bio is like the homebrew computer club16:00
bdeskmaybe the ones doing the PR and marketing are just the most visible by their nature?16:00
kanzurebdesk: so?16:00
kanzurethe guys who are good at doing stuff are not the ones doing the "diybio startups" ;)16:00
cluckjhaha16:00
cluckjkanzure that's not true!16:00
kanzurecluckj: orly16:00
cluckjthere's a couple people in boston who are doing some Serious Shit16:01
kanzurelet's hear it, then.16:01
bdeskthey probably have huge plans.16:01
kanzurean iphone being hooked up to a microscope is not Serious Shit16:01
cluckjhttp://www.keegotech.com/16:01
kanzureno content on the site16:02
cluckjoh16:02
cluckjhaha he doesn't have it setup yet16:02
bdesk"battery that runs on dirt"16:02
cluckjhe's doing microbial fuel cell stuff16:02
kanzuremeh16:02
cluckjI think Ian_Daniher is doing things too16:02
kanzurei don't think you understand16:02
kanzurethese are companies16:02
cluckjhis company is run out of his basement iirc16:03
bdeskI remember a feynman interview when he was brought to a military meeting and they asked him how they could make their tanks run on dirt as fuel.16:03
kanzurecluckj: you can run a company anywhere16:03
cluckjwhat do you mean?16:03
cluckjwell16:04
cluckjI mean if you don't mean companies, then what?16:04
kanzurei thought we were talking about diybio16:05
cluckjyes16:05
cluckjhe comes to DIY Bio meetings16:05
kanzuresigh16:05
cluckjoh16:05
cluckjI see what you mean16:05
kanzureit's just a little back stabbing i guess16:06
cluckjI think diy bio is too loose an organization right now to really be doing things together16:06
cluckjyeah16:06
cluckjthey're getting there, though16:06
kanzureif i would have known that the majority of the diybio community was just "capital efficient biotech industry" in disguise, i would have only peripherally involed myself16:06
kanzure*involved16:06
fenni love the follow up comments to "ex-bio engineer here"16:06
cluckjhaha16:06
cluckjkanzure then make it something else :)16:06
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kanzurecluckj: mac and jason have successfully "latched down" the brand16:07
cluckjyeah16:07
cluckjthey're getting down on it even more lately16:07
kanzurei mean, in a way, this explains a lot of the weird social behaivor in the community16:08
kanzurelike why everyone does projects "in secrecy"16:08
kanzureit's because they are trying to do a company..16:08
kanzureand are not really interested in just being the best they can be16:08
kanzurefrankly it's just all a little misleading16:09
kanzurenot everyone is like this, of course.16:09
cluckjhehe16:09
cluckjthat's kinda depressing if it's true16:10
kanzurecluckj: from an anthropological perspective, you should be aware that the community didn't form around the idea of starting companies and holding secrets against each other16:10
kanzurejust fyi.16:10
cluckjkanzure well...16:10
cluckjnot entirely16:10
cluckjit does have a strain of "profiteering" in it16:10
kanzurehm?16:10
bdeskit looks like diy bio was a success and now it will have some IPOs!16:11
kanzurebdesk: hah, no.16:11
cluckjit's tempered by the presence of open-sourceness16:11
cluckjlol16:11
kanzurecluckj: i think that might be just because of me yelling at the top of my youngs16:11
kanzure*lungs16:11
cluckjhaha16:11
cluckjdon't be so modest :P16:11
kanzureonly a few people on the mailing list have ever actually commited code to an open source project16:11
kanzuremeredith, len, jonathan cline, i'm definitely missing a few16:12
cluckjopen-source doesn't have to mean F/OSS16:12
kanzurecluckj: uh..16:12
kanzurewell if we're working on the OSI definitions it does.16:12
kanzurein 2008 i wrote a long email about this16:12
cluckjopenwetware is an example16:12
kanzureopenwetware is just a wiki with a bad name16:12
cluckjnot a very useful place, though16:12
bdeskcluckj: you mean the creative commons licenses?16:13
cluckjyes16:13
cluckjdiy bio is still in its infancy16:13
fenngod would you guys please talk about something useful16:13
kanzurecluckj: i'd like to go on record saying you're wrong. :P16:14
cluckjkanzure k :)16:14
kanzurei'll stop now16:14
fenncluckj: do you have any closing comments?16:14
cluckjkanzure why?16:14
kanzurecluckj: because i know you're bullshitting, heh16:14
bdeskthat is not a closing comment lol16:14
kanzureor maybe you're not exposed to the same set of information that i am16:15
cluckjehhh, I might be, but I'm not sure how much16:15
cluckjyeah16:15
cluckjyou've been around for longer than I have16:15
cluckjwe should have a chat sometime about the history of diy bio :D16:16
kanzureat first i was complaining about how i was systematically excluded from stuff.. but then fenn convinced me it didn't matter16:16
kanzureor something :P16:16
cluckjhaha16:16
fenni have poor memory16:17
fennbut i dont see how being involved in openpcr or whatever would have mattered16:17
bdeskkanzure: they exclude you because you put your sekrits on the internets.16:17
kanzuremy precious sekrits?!16:17
cluckjnot ur sekrits........16:17
fennmy precious openpcr secrets!16:17
kanzurehahah16:18
kanzurefenn: openpcr got over-funded via kickstarter, btw16:18
kanzurehttp://www.kickstarter.com/projects/930368578/openpcr-open-source-biotech-on-your-desktop16:18
kanzure$10k instead of the $6k they asked for16:18
cluckjoh damn16:18
kanzurekickstarten mah .. i can't even do it.16:19
kanzurethey don't even release designs16:19
kanzurehttp://openpcr.org/build-yours/16:19
cluckjif they get that working, and open-sourced, then I'll take back saying that diy bio is in its infancy16:19
kanzure"openpcr" my butt. openbutt16:19
cluckjI'm not opening your butt16:19
kanzurecluckj: see also http://www.kickstarter.com/projects/peyer/hello-world-modern-biotechnology-for-high-schools?pos=52&ref=popular16:20
kanzurehttp://www.kickstarter.com/projects/1040581998/biocurious-a-hackerspace-for-biotech-the-community16:20
kanzurehttp://www.kickstarter.com/projects/405545346/lasersaur-open-source-laser-cutter-016:20
cluckjlol16:20
kanzurehttp://www.kickstarter.com/projects/701662757/makerbeam-an-open-source-building-kit?pos=116:20
cluckjgfp in e coli isn't revolutionary16:20
kanzure$18k pledged of $10k goal?16:20
kanzureneither is a thermocycler.. especially a giant hunk of metal16:20
cluckjcarolina biological sells a kit for that on the cheap16:20
kanzurecluckj: all that the community was supposedly doing was write instructions and designs and plans for building equipment16:21
kanzurebut instead we have people doing this totally round-about way16:21
kanzureof starting a company, raising money via kickstarter, on the *chance* that they will release some usable design files16:21
cluckjhrm16:21
kanzurebut knowing tito, it's probably just shit in Google Sketchup16:21
bdeskmaybe it will be animated.16:22
kanzurehah16:22
kanzurebdesk: doing a dance?16:22
bdeskdancing pcr16:22
cluckjawesome16:22
bdeskit could be the corporate logo for their new corp16:22
kanzurebdesk: http://i134.photobucket.com/albums/q116/Moochamoocha/Funny_Pictures_Animated_Dancing_Ban.gif16:23
cluckjalso does anyone know when people started using biocurious?16:23
kanzurecluckj: 'using'? what?16:23
cluckjwhere did that come from16:23
kanzurebiocurious.org was registered 2009-12-1016:23
cluckjhah16:23
kanzurejoseph jackson came up with the name16:23
kanzurebut it sprouted out of livly.org16:23
cluckjmy friend grant used "bio-curious" back in 200816:24
kanzurewhich has gone commercial.. it says it's a non-profit... but yeah.16:24
kanzurecluckj: oh? that's neat16:24
cluckjwhen joe started talking about it we were laughing16:24
kanzurei suspect 'biocurious' is one of those things in the subconcious or something16:24
cluckjyeah16:24
kanzureor maybe he directly stole it16:24
kanzure'stole'16:24
cluckjwhatever, it's hilarious no matter who says it16:24
* kanzure nods16:25
cluckjI doubt he stole it, nobody read that blog he posted it on except for jason bobe16:25
kanzureeri is stalking me on the web, i think16:28
kanzureshe has some weird thing against me16:28
kanzurehttp://news.ycombinator.com/item?id=148656516:28
cluckjweird16:29
kanzurequite telling when people sign their names with "cofounder" instead of "maker" or something16:29
cluckjlol16:29
fennif somebody posted my project to hacker news i'd probably say something too16:29
cluckj$200/mo is ridiculous imo16:29
kanzurecluckj: agreed16:29
kanzurei also think $30k is ridiculous16:30
fennwhy is it ridiculous?16:30
fenngotta deal with landlords and renovate buildings and all that16:30
kanzureif you're targetting individuals, you should keep costs down16:30
cluckjyes16:30
fenni dont really see how that's possible16:31
fenni mean, cost per month is basically $2k/n16:31
fennminimum16:32
kanzurenobody said the gym membership model was a good idea16:32
kanzureit was quite peculiar actually16:32
kanzurejoseph was *very* against the idea of charging membership fees16:32
kanzureuntil he started to be a part of biocurious16:32
fennhow do you fund it then?16:33
kanzurewell, originally part of the biocurious idea was to be a biotech incubator16:33
fennwell apparently that didnt happne16:33
kanzureyeah..16:33
fenni mean, VC doesn't carea16:33
fenncare*16:33
kanzurethere's shitloads of biotech VC :P16:33
kanzureyou could easily make an argument that it would be better if different startups were working in the same biotech dev house16:34
fennthey want a business plan, estimated quarterly earnings projections, etc etc16:34
fennto VC "collaboration" means "IP loss"16:35
bdeskhacker news is by a guy who has that kind of model going on with software startups right?16:35
kanzurebdesk: yes, it's called ycombinator16:35
bdeski mean the multiple startups in the same dev house16:35
kanzurei don't know if they physically work in the same location16:35
kanzurebut you can ask in #startups (that's where all the yc-funded peeps hang out)16:36
fennthey do16:36
fenni should go over there some time, it's like a block away16:36
kanzureyes, you should16:36
kanzurea lot of them are totally orgasmic over your data logging, btw16:36
fenno rly16:36
kanzurefenn: "IP loss".. blah16:37
kanzurearen't we.. uh.. er.. doesn't joseph go around talking about why IP is so terrible?16:37
fennlol "Git for Computer Scientists"16:37
fennyeah, joseph is juggling a few different hats16:38
fennor at least that's my impression16:38
bdesknice metaphors lol16:38
kanzurefenn: have you visited halycon molecular yet?16:38
fennno, i dont care about halcyon16:39
kanzureany particular reason? i applaud your decision for various reasons16:39
fenn1) sfw, an electron microscope, woo. 2) what relationship do i have with them 3) sequencing is already good enough16:39
kanzureeither they are really good at publicity or something's actually going on there worth knowing about (more than TEM/STM/AFM-based DNA sequencing)16:40
kanzurenot sure why they are so well funded, either16:40
kanzurefenn: while i'm nagging you about bay area stuff i should mention that on tuesday mac and eri gentry are doing a diybio session for singularity university16:42
kanzureHA the number of folks with the passwords 'singularity2035' and 'infomorph' in the community is staggering16:43
bdeski don't know what halcyon is, but sequencing is not already good enough.16:48
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kanzurehalycon is a "super secret" company doing electron microscopy for DNA sequencing16:48
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fennwhat is "infomorph" from?16:54
bdeskhttp://en.wikipedia.org/wiki/Infomorph16:55
bdeskhttp://med.stanford.edu/sgtc/journal_club/talk_andregg.html16:55
bdeski see that they hope this will do 150kb at a time.  this is a big deal compared to the 'next gen' (last gen) sequencing that do short reads.16:55
bdeskalso they will try to get the methyl modification (epigenetic modification) of the genome.16:56
bdeskand there is hoped to be no haplotyping problem.16:56
bdeskand they hype a speed of 6 min / genome.16:57
cluckjlol16:57
bdeskif all of these happen, then it would be a useful improvement over the current sequencing.16:57
fenndunno how you would deal with that much data16:58
bdeskmaybe if they build it, it will come.16:58
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brunsgenusfuuuuck17:02
brunsgenushttp://www.movies-links.tv/index.html17:03
brunsgenuswtf is this faggotry?!17:03
leptonwtf indeed17:04
QuantumGso it's been 4 years since the Genomics X-Prize was announced.. they've now got a sponsor, Archon, there's 8 registered teams.. the deadline is late 2013.. I wonder when this race is actually gunna start.17:05
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bdeskQuantumG: there was an internets rant about how they measure the 'cost' which is part of the condition of winning.17:06
bdeski think it's stupid to have a contest where part of the condition is the cost, unless you do it like stock cars or something.17:07
bdeskso therefore i think that the genomics xprize is stupid.17:07
QuantumGwhat's "recurring cost" mean?17:07
bdeski think they should just have a standing offer to sign a contract with any company that will do X genomes with Y quality for Z dollars in W time.17:08
bdeskif the company fails then sue them like with a normal contract.17:08
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QuantumGif by recurring cost they mean marginal cost then I think they're being generous.  I don't think a genome sequencing machine should cost more than a few $ of electricity to do a genome.17:10
bdeskthe conditions of the contest are crap17:11
QuantumGwhy?  cause it's hard?17:11
bdeskno, because it is poorly defined.17:11
bdeskanyway i already said how i think they should go about this if their goal is to spur gene sequencing research by giving money away.17:13
QuantumGmeh, when you've proven you can spur innovation I'm sure the folks with the money will listen to you.17:14
bdeskyes, and if i'm so smart why am i not rich, etc.17:16
QuantumGhttp://www.politigenomics.com/2010/06/the-cost-of-doing-sequencing.html17:16
kristianpaulkanzure: hey17:17
kristianpaulare you followting qi mail list?17:17
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kristianpaulif, i think you should reply the thread about 3D scanning and formats17:17
kristianpaul:)17:17
bdeskQuantumG: that is the rant i was thinking of.17:18
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QuantumGI'm sure its a case of damned if you do and damned if you don't.  One of my biggest announces of the Ansari X-Prize was that Rutan spent $20M to win a $10M prize and then never flew a single commercial customer.17:19
QuantumGannoyances*17:20
bdeskhah17:20
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kanzurehttp://kurzweilai.net/ has a new look17:48
fennthis is cool, photos of families around the world sitting next to a week's groceries http://www.time.com/time/photogallery/0,29307,1626519_1373664,00.html18:04
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fenni wonder how rob carlson manages to get into a series of presentations with drew endy, bonnie bassler, craig venter, and george church19:14
fennlike, who the hell is rob carlson?19:14
cluckjwho the hell is craig venter19:15
fennPresident Obama's Bioethics Commission is July 8-9 in Washington DC.19:16
fenncraig venter at least seems to have done something19:16
cluckjoh dear19:17
cluckjI forgot about that19:17
bdeskhttp://www.synthesis.cc/bio.html19:17
bdeskhe is probably a good speaker.19:17
bdeskeven if i did a good research i would not be invited to this kind of thing because talk like a nerd19:18
cluckjhehe19:19
fennanyone ever heard of "rainbow mansion"?19:36
fennjust wondering if i'm going to be stumbling into a den of vampires19:37
bdeskno and i am afraid to google it19:38
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genehackerI'd be more worried about the twilight fans fenn, I hear they bite20:10
fennkinky20:18
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genehackerI also hear they have a hatred of P2P21:03
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kanzurefenn: rob carlson is an ass. i think that's why.21:29
kanzure`Biology "apps" could give you the ability to jump higher, run faster, grow stronger and live longer. They could even make us smarter.`21:34
AJollyLifeid buy those apps21:36
kanzurelook out for my diyhplus app platform21:38
kanzureyou know, the best thing that could happen to aubrey right now21:42
kanzureis probably a fake death21:42
kanzure"life extension researcher dies in horrible, flaming death"21:42
kanzurethen two weeks later "life extension researcher beats odds"21:42
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JayDuggerGood morning, everyone.22:00
Utopiah'ning22:01
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Brunsoh hai22:41
AJollyLifenah, that would be force field researcher...22:45
Brunswat22:46
AJollyLifethat was from an earlier conversation22:46
AJollyLifewhats up?22:46
fenn"life extension researcher extends life. today, in what would have otherwise been a horrible flaming death, aubrey degrey decided not to cook scrambled eggs, and instead took the dog for a walk."22:46
Brunsnothing22:47
Brunsjust sitting around22:47
Brunsso even though the whole jellyfish thing seems silly to you all i have a friend who is going to attempt to research this with me22:47
BrunsI am in contact with a store that sells jellyfish that will be sending me the jellyfish soon, shits SO cash22:48
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Brunsdurp23:17
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niftyzero1http://www.brainpreservation.org/index.php?path=letter23:19
niftyzero1sign!23:19
Brunswhats it for23:19
BrunsI don't read23:19
BrunsI just act23:19
niftyzero1alternative to cryonics by using plastic infusion23:20
Brunsits asking for me to donate money I don't have, thus inhibiting me from signing...23:21
Brunssorry23:21
niftyzero1you don't need to donate23:22
Brunsactually, it goes from $2-$10023:23
Brunsno $023:23
niftyzero1?  I don't get any donation request... the petition link goes to: http://www.ipetitions.com/petition/brainpreservation/23:24
niftyzero1I just see Name, Email, Comments23:24
niftyzero1what page did you end up on?23:24
Brunsoh, at the top it says the signature was recorded...way way up where it is hard to notice23:24
Brunsthen in the center of the page it is asking for donations23:25
niftyzero1ah... I guess they are being a bit aggressive with panhandling...23:25
Brunsyeah, it seems kinda cheap 23:25
Brunsmakes me want to take my signature back, almost23:26
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