2014-06-04.log

--- Log opened Wed Jun 04 00:00:24 2014
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]00:02
-!- gully_foyle_ja [~theghosto@pool-71-116-65-137.snfcca.dsl-w.verizon.net] has quit [Ping timeout: 264 seconds]00:04
-!- dcary [46b171ae@gateway/web/freenode/ip.70.177.113.174] has quit [Ping timeout: 240 seconds]00:06
-!- sivoais [~zaki@unaffiliated/sivoais] has quit [Ping timeout: 245 seconds]00:08
-!- cpopell is now known as cpopell`zzz00:09
-!- kyknos [~kyknos@89.233.130.143] has quit [Ping timeout: 252 seconds]00:16
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap00:25
-!- ebowden [~ebowden@1.152.235.162] has joined ##hplusroadmap00:29
-!- Viper168 [~Viper@unaffiliated/viper168] has quit [Ping timeout: 265 seconds]00:29
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]00:29
-!- Viper168 [~Viper@unaffiliated/viper168] has joined ##hplusroadmap00:31
-!- sapiosexual [~sapiosexu@d205-250-250-250.bchsia.telus.net] has quit [Ping timeout: 264 seconds]00:33
-!- kyknos [~kyknos@89.233.130.143] has joined ##hplusroadmap00:34
-!- kumavis [~kumavis@107-219-148-42.lightspeed.sntcca.sbcglobal.net] has quit [Ping timeout: 252 seconds]00:41
-!- ebowden [~ebowden@1.152.235.162] has quit [Remote host closed the connection]00:49
nmz787whoo! just ordered 3 of the v0.2 of openSpectrometer boards! http://uploads.oshpark.com/uploads/project/top_image/4HVNNy11/i.png01:00
nmz787now to  make sure I have all the parts, and try to prove my circuit, then I'll likely separate board into two so the optical stuff is isolated physically01:01
-!- delinquentme [~dingo@74.61.157.78] has quit [Ping timeout: 255 seconds]01:05
-!- kuudes [~vuokra@dsl-olubrasgw2-58c0c7-183.dhcp.inet.fi] has quit [Quit: kuudes]01:05
archelsnmz787: are you developing this or are you more like an end user?01:09
mosasaurDoes it have this tech nmz787? http://www.thehindu.com/sci-tech/science/honey-i-shrunk-the-mass-spectrometer/article5835840.ece01:11
-!- HashNuke [uid12117@gateway/web/irccloud.com/x-jerervlgwkkrfxkz] has quit [Quit: Connection closed for inactivity]01:12
nmz787archels: I have been working on the whole concept from the ground up01:14
archelscool01:20
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap01:20
nmz787well, they're been around for a while, so I kinda just did my research on making a decent one01:22
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]01:24
-!- ebowden [~ebowden@58.171.26.159] has joined ##hplusroadmap01:25
-!- Viper168 [~Viper@unaffiliated/viper168] has quit [Ping timeout: 252 seconds]01:26
-!- Viper168 [~Viper@unaffiliated/viper168] has joined ##hplusroadmap01:29
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap01:30
nmz787https://github.com/nmz787/open-spectrometer/blob/master/pcb-design/propeller_square/trace_layers.png01:37
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]01:38
archelsp < 10^-17401:48
-!- Netsplit *.net <-> *.split quits: kyknos01:48
archelsnice p-value01:48
-!- Vutral [~ss@2a01:198:35a::101] has joined ##hplusroadmap01:49
-!- Vutral [~ss@2a01:198:35a::101] has quit [Changing host]01:49
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap01:49
-!- EnLilaSko [EnLilaSko@unaffiliated/enlilasko] has joined ##hplusroadmap01:49
-!- Netsplit over, joins: kyknos01:49
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]01:55
-!- sivoais [~zaki@unaffiliated/sivoais] has joined ##hplusroadmap01:57
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap01:59
-!- night [Adifex@2600:3c01::f03c:91ff:fe6e:f4e8] has quit [Ping timeout: 240 seconds]02:02
-!- Adifex [Adifex@2600:3c01::f03c:91ff:fe6e:f4e8] has joined ##hplusroadmap02:03
-!- ebowden [~ebowden@58.171.26.159] has quit [Remote host closed the connection]02:05
-!- ebowden [~ebowden@58.171.26.159] has joined ##hplusroadmap02:06
-!- FourFire [~fourfire@159.171.124.1] has joined ##hplusroadmap02:06
-!- ebowden [~ebowden@58.171.26.159] has quit [Remote host closed the connection]02:09
-!- ebowden [~ebowden@101.172.211.57] has joined ##hplusroadmap02:12
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]02:12
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap02:17
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]02:21
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap02:29
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]02:30
-!- drewbot_ [~cinch@ec2-54-83-91-91.compute-1.amazonaws.com] has quit [Remote host closed the connection]02:31
-!- drewbot [~cinch@ec2-54-87-81-141.compute-1.amazonaws.com] has joined ##hplusroadmap02:31
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap02:39
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]02:41
-!- strangewarp_ is now known as strangewarp02:44
-!- Adifex [Adifex@2600:3c01::f03c:91ff:fe6e:f4e8] has quit [Ping timeout: 240 seconds]02:53
-!- kuudes [~vuokra@dsl-olubrasgw2-58c0c7-183.dhcp.inet.fi] has joined ##hplusroadmap02:53
-!- Adifex [Adifex@2600:3c01::f03c:91ff:fe6e:f4e8] has joined ##hplusroadmap02:54
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap02:56
-!- chris_99 [~chris_99@unaffiliated/chris-99/x-3062929] has joined ##hplusroadmap03:19
-!- HEx1 [~HEx@hexwab.plus.com] has joined ##hplusroadmap03:41
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Ping timeout: 265 seconds]03:50
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap04:11
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]04:17
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap04:25
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]04:26
-!- AshleyWaffle_ [~waffle@gateway/tor-sasl/anastasiawyatt] has joined ##hplusroadmap04:27
-!- Viper168 [~Viper@unaffiliated/viper168] has quit [Ping timeout: 265 seconds]04:28
-!- chris_99 [~chris_99@unaffiliated/chris-99/x-3062929] has quit [Ping timeout: 240 seconds]04:29
-!- chris_99 [~chris_99@unaffiliated/chris-99/x-3062929] has joined ##hplusroadmap04:29
-!- AshleyWaffle [~waffle@gateway/tor-sasl/anastasiawyatt] has quit [Ping timeout: 272 seconds]04:33
-!- [nsh] [~unf@wikipedia/nsh] has quit [Ping timeout: 252 seconds]04:34
-!- Viper168 [~Viper@unaffiliated/viper168] has joined ##hplusroadmap04:35
-!- ThomasEgi [~thomas@185.5.8.81] has joined ##hplusroadmap04:46
-!- ThomasEgi [~thomas@185.5.8.81] has quit [Changing host]04:46
-!- ThomasEgi [~thomas@panda3d/ThomasEgi] has joined ##hplusroadmap04:46
kanzure.title http://aosabook.org/en/llvm.html04:50
yoleauxThe Architecture of Open Source Applications: LLVM04:50
gnushahttps://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=6650ab4f Bryan Bishop: oligonucleotide-related wikipedia articles >> http://diyhpl.us/diyhpluswiki/dna/wikipedia-articles/04:53
gnushahttps://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=69e611bf Bryan Bishop: more wikipedia articles >> http://diyhpl.us/diyhpluswiki/dna/wikipedia-articles/04:53
gnushahttps://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=2f3c386a Bryan Bishop: more dna synthesis-related wikipedia articles >> http://diyhpl.us/diyhpluswiki/dna/wikipedia-articles/04:53
-!- ebowden [~ebowden@101.172.211.57] has quit [Remote host closed the connection]04:56
-!- ebowden [~ebowden@1.156.183.87] has joined ##hplusroadmap04:57
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap05:20
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Ping timeout: 265 seconds]05:25
archelsouch, fuck05:27
archelsI have two laptops sitting next to one another, both with aluminium bodies05:27
archelsand I keep zapping myself when I touch both at the same time05:27
seba-archels ground them05:29
archelsno alligator clips nearby05:30
archelsand both are already plugged into a grounded socket05:30
* archels calls adapter certification authorities and complains05:30
-!- ThomasEgi [~thomas@panda3d/ThomasEgi] has quit [Remote host closed the connection]05:41
-!- yorick [~yorick@oftn/member/yorick] has joined ##hplusroadmap05:41
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap06:03
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]06:05
-!- helleshin [~talinck@66-161-138-110.ubr1.dyn.lebanon-oh.fuse.net] has joined ##hplusroadmap06:06
-!- hehelleshin [~talinck@66-161-138-110.ubr1.dyn.lebanon-oh.fuse.net] has quit [Ping timeout: 240 seconds]06:08
-!- hehelleshin [~talinck@66-161-138-110.ubr1.dyn.lebanon-oh.fuse.net] has joined ##hplusroadmap06:09
-!- helleshin [~talinck@66-161-138-110.ubr1.dyn.lebanon-oh.fuse.net] has quit [Ping timeout: 265 seconds]06:11
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap06:17
-!- eudoxia [~eudoxia@r190-134-54-13.dialup.adsl.anteldata.net.uy] has joined ##hplusroadmap06:19
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]06:27
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap06:40
-!- ThomasEgi [~thomas@185.5.8.81] has joined ##hplusroadmap06:41
-!- ThomasEgi [~thomas@185.5.8.81] has quit [Changing host]06:41
-!- ThomasEgi [~thomas@panda3d/ThomasEgi] has joined ##hplusroadmap06:41
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]06:49
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap06:53
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]06:58
gene_hackerarchels same here, darn these grounding loops!06:59
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap07:10
-!- FourFire [~fourfire@159.171.124.1] has quit [Ping timeout: 264 seconds]07:10
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]07:18
-!- ebowden [~ebowden@1.156.183.87] has quit [Remote host closed the connection]07:24
-!- FourFire [~fourfire@159.171.124.1] has joined ##hplusroadmap07:27
kanzure"swift implementation of flappy bird" https://github.com/fullstackio/FlappySwift/tree/master/FlappyBird07:37
kanzureonly presented because his turn-around time is nice07:37
kanzureoh, two whole days07:38
kanzurenot as impressive07:38
paskyhmm http://www.cognitivealgorithm.info/ this guy claims on elance that he has $500,000 budget for theoretical work o.O07:43
kanzurewhy are you using elance :o07:48
-!- delinquentme [~dingo@74.61.157.78] has joined ##hplusroadmap07:48
paskykanzure: to make money? any better ideas? :)07:49
kanzureyes you could bug me07:50
kanzureand then i pay you to do things07:50
kanzurefuck elance07:50
paskysure, so what things do you need doing? :)07:51
kanzurevarious python things07:51
paskythat sounds good, would you care to elaborate?07:53
-!- JayDugger [~jwdugger@pool-173-74-79-151.dllstx.fios.verizon.net] has joined ##hplusroadmap07:54
kanzurenot at the moment, we could do it by pm or email07:54
paskysure! when you have a moment, can you please send me some details at pasky@ucw.cz? or pm here :)07:55
kanzureyep07:55
paskythanks07:55
* kanzure yawns07:57
kanzurewhat we really need is a pancake/waffle delivery service07:57
-!- Vutral [~ss@2a01:198:35a::101] has joined ##hplusroadmap08:05
-!- delinquentme [~dingo@74.61.157.78] has quit [Ping timeout: 255 seconds]08:05
-!- Vutral [~ss@2a01:198:35a::101] has quit [Changing host]08:06
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap08:06
kanzurehttps://github.com/petertodd/timelock "Create a secret key that can be decrypted in a known amount of time using parallel-serial hash chains. The creator can compute the timelock in parallel, taking advantage of the large amount of cheap parallelism available today, while others are forced to compute it serially, constrained by the lack of scalar performance growth."08:08
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]08:11
-!- ebowden [~ebowden@1.156.185.219] has joined ##hplusroadmap08:12
-!- joepie91_ [5064fe45@gateway/web/freenode/ip.80.100.254.69] has joined ##hplusroadmap08:17
-!- jmil [~jmil@hive76/member/jmil] has joined ##hplusroadmap08:22
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap08:23
-!- ebowden [~ebowden@1.156.185.219] has quit [Ping timeout: 265 seconds]08:25
kanzure"Hello Bryan, My name is Stephen.  I do HIV molecular biology work at university.  I also did work setting up a  clinical molecular lab in Mozambique.  The work went well, but in 3rd world nations where equipment is a decades old or barely functional, the use of a thermalcycler for HIV clinical work it important for an impoverish country.... [redacted][redacted]"08:27
-!- mosasaur [~mosasaur@unaffiliated/mosasaur] has quit [Quit: Leaving.]08:28
-!- eudoxia [~eudoxia@r190-134-54-13.dialup.adsl.anteldata.net.uy] has quit [Quit: Lost terminal]08:32
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]08:32
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap08:39
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]08:53
-!- justanotheruser [~andrew@unaffiliated/justanotheruser] has quit [Ping timeout: 264 seconds]08:54
seba-kanzure ?08:58
seba-what is the webpage of the channel, http://diyhpl.us/wiki/ this?09:01
kanzureyes09:01
kanzurehttp://diyhpl.us/wiki/hplusroadmap09:01
kanzureetc09:01
seba-kanzure, https://www.sciencemadness.org/whisper/viewthread.php?tid=18135 is this maybe interesting for the page?09:04
kanzureah you are from sciencemadness09:04
kanzureelite group of all 12 people09:04
-!- [nsh] [~unf@wikipedia/nsh] has joined ##hplusroadmap09:04
kanzureyes it is relevant09:04
seba-i have some pics as well :-)09:06
seba-kanzure what do you man by elite group of 12 people lol09:08
kanzurei think only 11 people know about it or something09:08
kanzure"22602 topics / 308161 posts / 17993 members"09:09
kanzurehm it has grown09:09
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap09:11
-!- voodster [~je@95.129.166.182] has joined ##hplusroadmap09:15
seba-heh09:18
seba-lol09:18
-!- voodster [~je@95.129.166.182] has left ##hplusroadmap []09:18
seba-kanzure is anything else that people need?09:19
kanzureseba-: do you mean equipment?09:20
seba-kanzure, also that yes09:20
seba-like DIY stuff09:20
kanzureseba-: http://diyhpl.us/cgit/skdb/tree/doc/BOMs/diybio-equipment.yaml09:20
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]09:20
kanzureseba-: dna synthesizer is the one at the top of my mind09:20
seba-bunsen burners are cheap in aldi/hofer hm09:21
seba-9 eur09:21
seba-:D09:21
kanzureseba-: electroporation stuff is easy to make, i suppose09:21
seba-scales are cheap from china, i checked against professional scales and they work ok09:21
kanzureseba-: good diy microscopes would be nice, even if you have to buy the lenses separately09:21
kanzureseba-: nmz787 has his spectrophotometer..09:22
seba-autoclaves = pressure cookers09:22
kanzuredid you say you do chemistry things09:22
seba-i'm making a nice UV254nm source09:22
seba-yes09:22
kanzurehow are you with phosphor-stuff09:23
seba-what's with phosphor stuff?09:23
kanzurein particular, http://diyhpl.us/wiki/dna/dna-synthesis.html09:23
seba-i've bought a cheap russian scope with good lenses09:23
seba-bought a touret and an extra lens09:23
paskyhmm, I wonder if http://www.hutter1.net/prize/ is still on?09:23
seba-works ok09:23
kanzureseba-: look over the chemistry on that page and let me know what you think09:23
kanzureseba-: also http://en.wikipedia.org/wiki/Oligonucleotide_synthesis09:24
seba-isn't that quite cheap to order?09:24
kanzureactually no :)09:24
seba-how much is it09:24
kanzure50-100 million dollars for a genome09:25
kanzurebut also, it is important to have this as an amateur capability09:25
seba-i'll maybe look into it, seems kind of interesting09:26
kanzurei've been thinking about a modified chemistry where you make a linked polymer upfront, and then blast each unit in the chain with photons of different frequency to get the unit to convert into one of the four nucleotide-equivalents, instead of step-wise addition of each nucleotide-equivalent09:26
kanzurebut that would require a molecule that can respond to four different frequencies of light correctly09:27
kanzure(this is as opposed to the 12-step cap, decap, add dNTPs, wash, rewash, etc reaction that plagues conventional dna synthesizers)09:27
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap09:28
kanzureone of the other issues is that if your yield at any step is low you significantly constrain the maximum length of dna that you can synthesize09:28
kanzurei mean, correct dna, and correctness matters09:28
kanzurepasky: fwiw #lesswrong has way more AIXI fans than you'll find in here09:31
gradstudentbotHaha, undergrads.09:31
kanzurepasky: i dunno if that's the right hutter actually.. so maybe my comment is mistaken.09:32
paskyI think it probably is, though I'm not that sure :)09:33
paskyi'm not a big fan of aixi in particular, but i'll have to read more about it i guess09:34
-!- drazak_ is now known as drazak09:35
kanzureseba-: btw why did figuring out the total synthesis of cyanocobalamin take 100 people 10 years? http://www.synarchive.com/syn/7109:36
ParahSailinthats pretty typical for total synthesis09:42
kanzureit looks like just a problem of searching through organic reaction databases and then working backwards09:43
kanzureso it should be solvable by brute force, unless the reactions required are obscure09:43
kanzurelike, in most cases, i think that the number of required reactions is going to be less than the number of electrons in the molecule09:44
seba-back then also a lot of reactions weren't known09:46
seba-or partially known09:46
kanzureis there a non-proprietary database with the majority of the known reaction mechanisms?09:47
kanzurethat i can get my hands on09:47
seba-http://www.organic-chemistry.org/09:47
seba-but it doesn't cover all09:48
kanzureiirc there's like 100,00009:48
-!- kumavis [~kumavis@107-219-148-42.lightspeed.sntcca.sbcglobal.net] has joined ##hplusroadmap10:06
nmz787dang, i hoped/expected more comments on my spectrometer post :/10:18
kanzurewhere?10:19
nmz787i posted to PLOTS spectrometer board, diybio10:24
nmz787maybe dorkbot's list10:24
nmz787just posted it to twitter too, thanks to delinquentme's suggestion10:24
kanzureoh, you posted it in that thread10:28
kanzurehttps://github.com/nmz787/open-spectrometer/blob/master/pcb-design/propeller_square/trace_layers.png10:28
-!- maaku [~quassel@50-0-36-179.dsl.dynamic.sonic.net] has quit [Ping timeout: 240 seconds]10:37
seba-nmz787, how does your spectrometer work?10:38
chris_99nmz787, theres a lot more detail now on the hackaday.io raman thing10:39
seba-nmz787, like the principle behind?10:39
chris_99he explained it to me yesterday actually, if you look at the logs for yesterday10:40
nmz787seba-: umm, it's a microcontroller toggling control lines on an CCD and ADC10:40
seba-nmz787, what do you use for light source/getting correct wavelength10:41
nmz787seba-: i have a bunch of light sources now, nothing tied onto the project yet, though I've been eyeing deuterium flashbulbs from China for a while10:43
nmz787getting correct wavelength is handled by a physical fourier transform thanks to a grating10:43
seba-how does that work?10:44
ParahSailinyou know, that pink floyd album cover?10:44
ParahSailinthats a physical fourier transform10:44
seba-?10:44
chris_99that's refraction rather than diffraction though right10:45
gradstudentbotGot halfway through figuring out all the cell signalling molecules in psoriasis when the cells died and the data couldn't be replicated, so psoriasis is really hard to cure guys don't get it10:45
-!- maaku [~quassel@50-0-36-179.dsl.dynamic.sonic.net] has joined ##hplusroadmap10:46
-!- maaku is now known as Guest9559410:47
nmz787seba-: umm, it works thanks to QED (quantum electrodynamics)10:47
seba-lol10:47
nmz787seba-: there's a great book on that by feynman that will delight you if interested10:47
nmz787sersly10:47
-!- Viper168 [~Viper@unaffiliated/viper168] has quit [Ping timeout: 252 seconds]10:47
ParahSailinpretty sure thats a basic quantum effect, not requiring qed to explain10:48
nmz787ParahSailin: reading qed enlightened me greatly10:49
nmz787ok, g2g to work now10:50
nmz787posted the project to hackaday.io too http://hackaday.io/project/1342-open-Spectrometer10:52
-!- Guest95594 is now known as maaku10:54
-!- chris_99 [~chris_99@unaffiliated/chris-99/x-3062929] has quit [Quit: Leaving]11:21
-!- hehelleshin is now known as helleshin11:43
archelshttp://www.youtube.com/watch?v=t1HmYNqp8NM11:45
archels.title11:45
yoleauxThermal Touch - A New Augmented Reality Interface for Wearables11:45
-!- nmz787_i [~nmccorkx@134.134.139.76] has joined ##hplusroadmap11:50
-!- nmz787_i1 [~nmccorkx@192.55.55.41] has joined ##hplusroadmap12:01
-!- nmz787_i [~nmccorkx@134.134.139.76] has quit [Remote host closed the connection]12:01
-!- nmz787_i1 [~nmccorkx@192.55.55.41] has quit [Client Quit]12:02
-!- nmz787_i [~nmccorkx@192.55.55.37] has joined ##hplusroadmap12:03
gene_hackerso you want to do something like this kanzure: http://www.nature.com/nchem/journal/v1/n1/abs/nchem.136.html12:10
kanzuresorta, yes12:13
kanzurethe method is commonly called retrosynthetic analysis or retrosynthesis12:13
kanzurei tried to get matt campbell interested in it but nothing ever happened12:14
kanzureit's basically a huge set of graph rules12:14
gene_hackerwell I might be able to get him interested again, given that I have to make molecules12:14
gene_hackerbeen done12:14
kanzurehmm so the blocker at the time that i remember was that i didn't know about a database that i could readily use or convert into an appropriate format12:15
kanzurei don't think pubchem has it http://pubchem.ncbi.nlm.nih.gov/12:15
gene_hackerhttp://arxiv.org/abs/1304.135612:16
paperbothttp://diyhpl.us/~bryan/papers2/paperbot/The%20Graph%20Grammar%20Library%20-%20a%20generic%20framework%20for%20chemical%20graph%20rewrite%20systems.pdf12:16
kanzureyep exactly12:16
gene_hackerthere's some other stuff by this guy too, just look up chemical graph grammars12:17
gene_hackerI think these guys were the ones trying to do origin of life stuff if I recall correctly12:17
kanzurethe data is the most important part. i think the graph manipulation stuff is easy in comparison.12:17
kanzurehere are a handful of rules (but this does not seem comprehensive) http://rmg.mit.edu/database/kinetics/families/12:18
gene_hackerwell the library is open source: http://www.tbi.univie.ac.at/software/GGL/12:19
gene_hackerI'm sure if you ask nicely they might give you the graph grammar rules they have12:19
gene_hackernow I'm curious about one thing12:20
gene_hackergradstudentbot how's research12:20
gradstudentbotI forgot to make a control group.12:20
gene_hackernow on that photo modulated DNA stuff12:22
gene_hackerif only it were so easy to get molecules to respond to different colors of light12:22
kanzurei haven't looked thoroughly at other things chemists have done, maybe they have already done that12:23
kanzurethis seems to be a much larger database: http://www.ebi.ac.uk/rhea/about.xhtml "Rhea is a reaction database, where all reaction participants (reactants and products) are linked to the ChEBI database (Chemical Entities of Biological Interest) which provides detailed information about structure, formula and charge. Rhea provides built-in validations that ensure both elemental and charge balance of the reactions. We have populated the database ...12:23
kanzure... with the reactions found in the EC list (and in the IntEnz and ENZYME databases), extending it with additional known reactions of biological interest. While the main focus of Rhea is enzyme-catalysed reactions, other biochemical reactions (including those that are often termed "spontaneous") also are included."12:24
kanzureexample: curl http://www.ebi.ac.uk/rhea/rest/1.0/ws/reaction/cmlreact/3031912:24
gene_hackerthat'd make what I'm doing a lot more useful for winning the feynman prize12:24
gene_hackerwell check out that chris wilmer paper, they had a cool way of figuring out what was difficult to synthesize and stuff12:25
kanzure"SPRESI (now part of the National Chemical Database Service provided by RSC). SPRESI is the world's 3rd largest structure and reaction database; consists of chemical structures and reaction information gathered since 1974 from over 645,000 references including 164,000 patents. It includes over 7 million structures, 3.9 million reactions and over 31.7 million pieces of additional information such as chemical and physical properties, reaction ...12:28
kanzure... conditions and keywords abstracted from the primary literature. Also contains an organic synthesis planning tool."12:28
kanzure3.9 million reactions12:28
kanzureand all these:12:30
kanzurehttp://en.wikipedia.org/wiki/List_of_organic_reactions12:30
kanzurethis site has 4161 reactions listed, http://www.chemthes.com/rxn_dp.php?id=4161 (but the data doesn't look structured to me)12:35
-!- sapiosexual [~sapiosexu@d205-250-248-248.bchsia.telus.net] has joined ##hplusroadmap12:51
kanzuregene_hacker: i think getting a chemistry person involved might help on that direction12:56
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]12:57
nmz787_ikanzure: hopefully you don't have to wait for me to decide to go to phd for chem :P12:58
kanzurenah we can just abduct a cheminformatics person12:59
nmz787_igene_hacker: are you in portland or just oregon?12:59
kanzurenot portland12:59
nmz787_ioffice chatter 'how will i recognize my chair, they look like all the others'  my thoughts "DNA"13:00
kanzurehmm using retrosynthesis for dna synthesis, i dunno13:01
kanzuredna synthesis doesn't really require dna, there are a ton of options (ssDNA, dsDNA, ssRNA, dsRNA, mRNA, tRNA, etc)13:01
kanzureand also the polymerases that were engineered/evolved to work with TNA, GNA, LNA, (or at least a subset of these)13:01
kanzurereally you just need something that a polymerase can be made to recognize and correctly copy into ssDNA or w/e13:02
nmz787_ikanzure: i think your lasering beads on a backbone idea sounds too much like the sequencing with TEM idea that cost a lot and then died13:03
kanzureoh sure, it wasn't that serious of a suggestion13:04
nmz787_ii think modifying tdt would be better than that, overall, though sort of has the chicken and egg problem of getting all the modified tdt prototypes13:04
kanzurenano-confinement of individual molecules is unlikely to be easy13:04
nmz787_iuse photoisomerizable groups that respond to diff wavelengths13:05
nmz787_inah you could just tether it, then have your beam radius the tether length13:05
kanzuretdt would also require you to figure out ratcheting and start/stop13:05
nmz787_ii don't think so13:05
nmz787_iwell13:05
nmz787_iin the sense that getting the photocontrol to work13:05
nmz787_inot pulsing light would mean it wasn't moving13:05
kanzurethe advantage of already having a polymerized backbone is that you don't have to do the cap/decap chemistry13:06
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap13:08
kanzurei wonder if there is a thicker kind of polymerase-compatible dna we could make13:08
nmz787_ibut then you have to have a subwavelength beam13:08
nmz787_ibetter than what intel is doing now13:08
nmz787_iso that'll be some time, unless you use electron or ion beams13:08
-!- kuudes_ [~vuokra@dsl-olubrasgw2-58c0c7-183.dhcp.inet.fi] has joined ##hplusroadmap13:08
nmz787_iwithout beating intel on diffractive optics13:08
kanzurewhat about peptide or amino acid sequence synthesis13:09
nmz787_ihmm?13:11
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]13:11
kanzuredunno13:11
kanzurei am just saying things. don't listen.13:11
-!- kuudes [~vuokra@dsl-olubrasgw2-58c0c7-183.dhcp.inet.fi] has quit [Ping timeout: 252 seconds]13:12
-!- kuudes_ is now known as kuudes13:12
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap13:21
kanzure.g bglbrick13:23
yoleauxhttp://www.ncbi.nlm.nih.gov/pubmed/2020576213:23
kanzure.title13:23
paperbothttp://libgen.org/scimag/get.php?doi=10.1186%2F1754-1611-4-113:23
yoleauxBglBricks: A flexible standard for biological par... [J Biol Eng. 2010]13:23
-!- Viper168 [~Viper@unaffiliated/viper168] has joined ##hplusroadmap13:24
kanzurehm i wonder why nobody has cited this in the last six years:13:31
kanzurehttp://diyhpl.us/~bryan/papers2/DNA/Photoelectromechanical%20synthesis%20of%20low-cost%20DNA%20microarrays%20-%20thesis%20-%202008.pdf13:31
kanzureooh, "photoremovable protecting groups in chemistry and biology" https://givensgroup.drupal.ku.edu/sites/givensgroup.drupal.ku.edu/files/docs/pubs/120.pdf13:36
kanzurethat is a cool paper13:36
-!- AshleyWaffle_ is now known as AshleyWaffle13:38
-!- justanotheruser [~andrew@c-50-129-87-238.hsd1.in.comcast.net] has joined ##hplusroadmap13:38
kanzure"Mechanism-Based Design of a Photoactivatable Firefly Luciferase" "We developed a photoactivatable firefly luciferase (pfLuc) whose activation can be13:44
kanzurecontrolled by light." http://web.pkusz.edu.cn/zhao/files/2013/05/ja4013535.pdf13:44
kanzure"Photoswitching of Enzyme Activity by Laser-Induced pH-Jump" hm13:46
kanzure"Release of Guests from Encapsulated Masked Hydrophobic Precursors by a Phototrigger"13:47
-!- delinquentme [~dingo@74.61.157.78] has joined ##hplusroadmap13:53
-!- HEx1 [~HEx@hexwab.plus.com] has quit [Ping timeout: 245 seconds]13:55
-!- nmz787_i [~nmccorkx@192.55.55.37] has quit [Remote host closed the connection]13:55
-!- nmz787_i [nmccorkx@nat/intel/x-mplapgfdfhcwbygx] has joined ##hplusroadmap13:55
-!- delinquentme [~dingo@74.61.157.78] has quit [Ping timeout: 260 seconds]14:16
-!- delinquentme [~dingo@74.61.157.78] has joined ##hplusroadmap14:40
-!- hehelleshin [~talinck@66-161-138-110.ubr1.dyn.lebanon-oh.fuse.net] has joined ##hplusroadmap14:40
-!- helleshin [~talinck@66-161-138-110.ubr1.dyn.lebanon-oh.fuse.net] has quit [Ping timeout: 240 seconds]14:41
-!- hehelleshin [~talinck@66-161-138-110.ubr1.dyn.lebanon-oh.fuse.net] has quit [Remote host closed the connection]14:43
-!- EnLilaSko [EnLilaSko@unaffiliated/enlilasko] has quit [Quit: - nbs-irc 2.39 - www.nbs-irc.net -]14:59
-!- yorick [~yorick@oftn/member/yorick] has quit [Read error: Connection reset by peer]15:06
-!- yorick [~yorick@oftn/member/yorick] has joined ##hplusroadmap15:06
-!- FourFire [~fourfire@159.171.124.1] has quit [Ping timeout: 245 seconds]15:17
-!- kumavis [~kumavis@107-219-148-42.lightspeed.sntcca.sbcglobal.net] has quit [Ping timeout: 245 seconds]15:21
-!- sapiosexual is now known as sapiosexual|AFK15:54
-!- Viper168 [~Viper@unaffiliated/viper168] has quit [Ping timeout: 260 seconds]16:01
-!- Viper168 [~Viper@unaffiliated/viper168] has joined ##hplusroadmap16:18
kanzure"You want very, very low impedance for bypassing (DC) so short distances for SM caps and avoid long ground lines and 'loops' -- which it looks like you are doing. Mohm impedance signal lines (ADC input?) can be isolated by ground area but avoid adding a lot of extra capacitance to ground by trace-length over/next to ground -- it looks like you've probably done ok. The default 8-mil trace widths of many layout programs is an inherent pitfall ...16:23
kanzure... for RF design so use wide traces for power, grounds, etc.and say 15-mil or so for important high-impedance signal lines -- though it sounds like you've kept them short which is good."16:23
kanzure"Finally, use a super-clean DC supply or add secondary on-board regulation for an added 30+ dB supply noise immunity. Wall-warts can be rather noisy and infect your design but local bypassed regulation can do wonders."16:24
kanzureunrelated, but "Credit cards had a long and complex history, starting out as something the wealthy (who were used to dealing with banks and credit) and only become a mass market, nationwide item in 1966.  People didn't understand or trust credit cards at first and it took significant marketing efforts to get people to see them as "just like cash".  (The limits on liability when cards are lost or stolen were actually made into law at the ...16:26
kanzure... bank's request, as a way of gaining trust.)" i didn't know that they were the ones that proposed the law16:26
-!- yorick [~yorick@oftn/member/yorick] has quit [Remote host closed the connection]16:35
kanzurefenn, roman lygin replied to me the other day, haven't written back16:41
kanzure"i got a response from an ex-employee at opencascade (someone who has sort of been going around the web apologizing for the sad state of opencascade's source code for years now): "I have read that commercial kernels represent investments of 400+ person-years. That seems reasonable and OCC is likely about the same scale. Another reference is that RGK (Russian Geometric Kernel) the government sponsored project took $20M, and only for the first ...16:42
kanzure... phase. With that, I am skeptical that setting a goal of having one more modeling kernel would be reasonable one. Of course, in no way do I want to discourage your efforts (and truth to be told, I was impressed with the detailed descriptions you collected on some packages). But I'm just trying to suggest if you choose the proper target to address ;-)."16:42
kanzureoops, that was the wrong pretext, i didn't mean to paste that one in particular. oh well.16:42
kanzureotherwise correct quote16:42
-!- HEx1 [~HEx@hexwab.plus.com] has joined ##hplusroadmap16:52
kanzurehttp://isicad.net/articles.php?article_num=16135 "This paper describes RGK (Russian geometric kernel) as part of a project funded by the Russian Federation's Ministry of Industry and Trade to build up a foundation of independent components important to Russian's high technology sector."17:15
kanzure.title https://www.youtube.com/watch?v=khtyT7lMc2k17:17
yoleauxПеремещение механизма 117:17
kanzure.title https://www.youtube.com/watch?v=EqkOqskWbEQ17:17
yoleauxПеремещение механизма 217:17
kanzure.title https://www.youtube.com/watch?v=UG63pzCh91c17:17
yoleauxПеремещение механизма 317:17
kanzure"Russian national 3D kernel" http://isicad.net/articles.php?article_num=15189 (basic background)17:20
kanzure"According to Nikolay Snytnikov, COO of LEDAS and the head of a developers' team responsible for implementing NURBS library and the algorithms for constructing surface-surface intersections, the success of the project was not least at all determined by a factor that the involved companies already had considerable experience in geometric modeling, in total reaching several hundreds man-years. .. In the course of the Round Table an issue was ...17:28
kanzure... raised about a possible role of RGK in development of Russian machine-tool industry, the output of which nowadays is below the level reached in the Soviet period."17:28
kanzurehttp://www.3dcadworld.com/russian-cad/ says:17:31
kanzure"Russia’s rise to preeminence in CAD software development was spurred by the dissolution of the Soviet Union, after which many of Russia’s top minds in the physical and theoretical sciences found themselves reduced to penury. Beginning in the mid 1990s, as economic reforms allowed private investment in Russia, multinational corporations, including IBM and Intel, started to take advantage of the large pool of highly-educated scientists and ...17:31
kanzure... mathematicians in Russia. Intel, in particular, recognized that Russia was an ideal venue for the development of mathematically intense graphics software."17:32
kanzure"One notable CAD vendor that, early on, recognized the mathematical strengths of Russian software developers was Dassault Systemes. In 1996, DS started working with the Russian Research Institute of Artificial Intelligence, and, subsequently, with Ledas, a spin-out of the institute and the AI Lab of the Institute of Informatics Systems in Novosibirsk, Siberia. DS and Ledas worked together continuously until 2011, successfully completing 11 ...17:32
kanzure... major contracts. The components developed by Ledas as part of that relationship were incorporated into DS’s CATIA V5 and V6 CAD programs, and have, according to DS, proven their reliability and performance in a full industrial context."17:32
kanzurepretty dumb that the ai lab is the one writing their geometry software17:37
-!- delinquentme [~dingo@74.61.157.78] has quit [Read error: Connection reset by peer]17:39
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Ping timeout: 265 seconds]17:49
-!- Viper168 [~Viper@unaffiliated/viper168] has quit [Ping timeout: 264 seconds]17:52
-!- wassthe [~wassthe@158.100.69.111.dynamic.snap.net.nz] has joined ##hplusroadmap17:53
-!- delinquentme [~dingo@74.61.157.78] has joined ##hplusroadmap17:54
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap17:56
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]18:03
-!- yashgaroth [~ffffff@cpe-76-167-105-53.san.res.rr.com] has joined ##hplusroadmap18:04
joepie91_http://ar.to/2010/01/set-your-code-free18:06
-!- delinquentme [~dingo@74.61.157.78] has quit [Remote host closed the connection]18:08
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap18:22
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]18:22
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap18:31
-!- kuudes [~vuokra@dsl-olubrasgw2-58c0c7-183.dhcp.inet.fi] has quit [Quit: kuudes]18:35
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]18:37
-!- cpopell`zzz is now known as cpopell18:37
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap18:43
-!- justanotheruser [~andrew@c-50-129-87-238.hsd1.in.comcast.net] has quit [Ping timeout: 240 seconds]18:43
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]18:45
-!- jmil [~jmil@hive76/member/jmil] has quit [Quit: jmil]18:50
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap18:54
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]18:55
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap19:07
-!- nmz787_i [nmccorkx@nat/intel/x-mplapgfdfhcwbygx] has quit [Ping timeout: 265 seconds]19:41
-!- Adifex is now known as night19:51
-!- ebowden [~ebowden@147.69.41.218] has joined ##hplusroadmap19:56
-!- ebowden [~ebowden@147.69.41.218] has quit [Ping timeout: 252 seconds]20:00
-!- lichen [~lichen@c-50-139-11-6.hsd1.or.comcast.net] has quit [Quit: Lost terminal]20:01
-!- delinquentme [~dingo@c-67-188-197-104.hsd1.ca.comcast.net] has joined ##hplusroadmap20:14
-!- Viper168 [~Viper@unaffiliated/viper168] has joined ##hplusroadmap20:23
-!- AshleyWaffle [~waffle@gateway/tor-sasl/anastasiawyatt] has quit [Write error: Connection reset by peer]20:24
-!- AshleyWaffle [~waffle@gateway/tor-sasl/anastasiawyatt] has joined ##hplusroadmap20:34
-!- Viper168 [~Viper@unaffiliated/viper168] has quit [Ping timeout: 255 seconds]20:36
-!- Viper168 [~Viper@unaffiliated/viper168] has joined ##hplusroadmap20:40
kanzure.title http://search.newport.com/?q=*&x2=sku&q2=9064-XY-M20:50
yoleauxSearch Newport20:50
kanzure"Triple Divide XY Axis Translation Stage, 28 mm Travel, M4 and M6"20:50
kanzure$50020:50
kanzurexanadu has a released product? huh20:59
nmz787xanadu as in ted nelson?21:03
kanzureyep21:04
nmz787hmm21:05
nmz787it is confusing21:05
kanzureit is xanadu21:06
-!- Viper168_ [~Viper@unaffiliated/viper168] has joined ##hplusroadmap21:17
-!- Viper168 [~Viper@unaffiliated/viper168] has quit [Ping timeout: 264 seconds]21:20
-!- Viper168_ is now known as Viper16821:23
-!- delinquentme [~dingo@c-67-188-197-104.hsd1.ca.comcast.net] has quit [Ping timeout: 252 seconds]21:42
-!- kumavis [~kumavis@107-219-148-42.lightspeed.sntcca.sbcglobal.net] has joined ##hplusroadmap21:44
-!- ThomasEgi [~thomas@panda3d/ThomasEgi] has quit [Remote host closed the connection]21:55
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Ping timeout: 265 seconds]22:00
-!- petrushka [~asakharov@24.60.79.55] has joined ##hplusroadmap22:00
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap22:08
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]22:14
kanzurehttp://krebsonsecurity.com/2014/06/operation-tovar-targets-gameover-zeus-botnet-cryptolocker-scourge/22:15
kanzurepost from 2009 where he was selling an exploit pack (or, rather, someone related to him): https://xakepy.cc/showthread.php?t=5470822:17
-!- Viper168 [~Viper@unaffiliated/viper168] has quit [Ping timeout: 260 seconds]22:21
-!- justanotheruser [~andrew@unaffiliated/justanotheruser] has joined ##hplusroadmap22:22
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap22:27
-!- Viper168 [~Viper@unaffiliated/viper168] has joined ##hplusroadmap22:29
kanzure.title http://blog.bofh.it/debian/id_41322:40
yoleauxEvading from linux containers22:40
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]22:41
-!- justanotheruser [~andrew@unaffiliated/justanotheruser] has quit [Quit: Reconnecting]22:45
-!- justanotheruser [~andrew@c-50-129-87-238.hsd1.in.comcast.net] has joined ##hplusroadmap22:45
-!- justanotheruser [~andrew@c-50-129-87-238.hsd1.in.comcast.net] has quit [Changing host]22:45
-!- justanotheruser [~andrew@unaffiliated/justanotheruser] has joined ##hplusroadmap22:45
-!- justanot1eruser [~andrew@c-50-129-87-238.hsd1.in.comcast.net] has joined ##hplusroadmap22:48
-!- justanotheruser [~andrew@unaffiliated/justanotheruser] has quit [Client Quit]22:48
-!- justanot1eruser is now known as justanotheruser22:48
-!- delinquentme [~dingo@74.61.157.78] has joined ##hplusroadmap22:51
-!- yashgaroth [~ffffff@cpe-76-167-105-53.san.res.rr.com] has quit [Quit: Leaving]22:56
-!- justanotheruser [~andrew@c-50-129-87-238.hsd1.in.comcast.net] has quit [Ping timeout: 240 seconds]22:59
-!- joepie91_ [5064fe45@gateway/web/freenode/ip.80.100.254.69] has quit [Ping timeout: 240 seconds]23:01
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap23:04
-!- justanotheruser [~andrew@c-50-129-87-238.hsd1.in.comcast.net] has joined ##hplusroadmap23:06
-!- Viper168_ [~Viper@unaffiliated/viper168] has joined ##hplusroadmap23:30
-!- Viper168 [~Viper@unaffiliated/viper168] has quit [Ping timeout: 260 seconds]23:32
-!- delinquentme [~dingo@74.61.157.78] has quit [Ping timeout: 240 seconds]23:39
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Ping timeout: 265 seconds]23:41
-!- petrushka [~asakharov@24.60.79.55] has quit [Quit: quit]23:43
kanzureyou guys are boring23:46
-!- kumavis [~kumavis@107-219-148-42.lightspeed.sntcca.sbcglobal.net] has quit [Ping timeout: 240 seconds]23:48
-!- Vutral [~ss@mirbsd/special/Vutral] has joined ##hplusroadmap23:50
nmz787:/23:53
nmz787i've been watching ren and stimpy23:53
nmz787http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3065121/pdf/nihms278766.pdf23:58
nmz787.title23:58
yoleauxnmz787: Sorry, that command (.title) crashed.23:58
nmz787anyway screws cast into pdms for screw valves23:59
-!- Vutral [~ss@mirbsd/special/Vutral] has quit [Excess Flood]23:59
nmz787there is at least one good pic23:59
--- Log closed Thu Jun 05 00:00:25 2014

Generated by irclog2html.py 2.15.0.dev0 by Marius Gedminas - find it at mg.pov.lt!