--- Log opened Sun Jul 22 00:00:15 2012
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04:35 < fenn> interesting discounting method (25-year-olds are valued most) http://en.wikipedia.org/wiki/Disability-adjusted_life_year
04:35 < fenn> if only there were a way to make old people suck less
04:40 < fenn> fun fact of the day: owsley stanley aka "the king of acid" ate "almost nothing but meat, eggs, butter and cheese since 1959"
04:40 < fenn> he died in a car crash at age 76
04:41 < fenn> so unfortunately we don't get to see the effects of his diet on lifespan
04:44 < fenn> i used to talk to an audio tech from australia in ##robotics named theBear.. weird.
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04:57 < yorick> kanzure: why am I a node.js op‽
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06:42 < delinquentme> Hio!
07:20 < delinquentme> nanotube printed micro circuits?
07:21 < delinquentme> development of automated deposition techniques for making chips?
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09:43 < delinquentme> http://www.bostonglobe.com/business/2012/07/21/can-custom-dna-maker-gen-become-intel-biotech-revolution/bTC0zaHBaAqLKfcjvUoLVO/story.html?s_campaign=sm_tw
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09:54 < kanzure> fenn: i don't understand theBear comment you made?
09:54 < kanzure> delinquentme: stop reading news :P
09:55 < delinquentme> haha
09:55 < delinquentme> i know dude I'm hankering for a new project
09:55 < delinquentme> I wish smaller mechano-electrical components were cheaper
09:55 < delinquentme> also I really wanna get a reprap
09:56 < delinquentme> and you see what carlson said about the market for synthetic DNA is unproven?
09:56 < delinquentme> seemed like a premature comment?
09:56 < delinquentme> I tweeted at him saying that we dont really have a huge market *troubleshooting* working organisms
09:56 < delinquentme> which would be where you're going to blow through synthetic DNA
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10:21 < delinquentme> kanzure, is there an industry standard for microfluidic 3d modelling yet?
10:25 < kanzure> everyone just uses autocad
10:25 < kanzure> i prefer svg
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12:02  * Mokbortolan_1 uses sketchup.
12:28 < delinquentme> http://io9.com/5928050/3d-printing-technology-could-let-you-print-your-pharmaceuticals-at-home
12:28 < delinquentme> im sorry I dont get how this works
12:28 < delinquentme> we're talking about pharma companie who spend years developing molecules
12:29 < delinquentme> and with only a few compounds we can create them at home?
12:29 < delinquentme> somethings missing for me.
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13:01 < AdrianG> delinquentme: create known compounds maybe
13:01 < AdrianG> researching involves a lot more than final synthesis of a well-tested compound.
13:05 < delinquentme> AdrianG, I guess what im surprised about is that they're saying we can create pharmaceuticals with only a few compounds at varying temps / concentrations?
13:06 < delinquentme> I guess I know nothing about pharma .. but I thought the compounds were all wildly exotic
13:06 < AdrianG> not really
13:07 < AdrianG> most oral agents satisfiedy the criteria of five
13:07 < AdrianG> http://en.wikipedia.org/wiki/Lipinski%27s_rule_of_five
13:07 < AdrianG> injectables is a whole other story
13:08 < AdrianG> say, making old orally active pharmaceuticals, say like methamphetamine hcl is very simple
13:08 < AdrianG> can be done in any trailer
13:08 < AdrianG> now, synthesizing interferon is a bit more difficult
13:16 < kanzure> it is well known that fist of the north star was able to synthesize interferon just by nodding
13:16 < kanzure> shortest synthetic route known.
13:31 < brownies> i am convinced there are literally like 6 people who ever played that video game
13:31 < brownies> and somehow i've met all of them.
13:32 < kanzure> somehow my flask app started working
13:32 < kanzure> i wasn't expecting it to work but it did and now i'm confused
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18:30 < delinquentme> could the Fourier transform be used in data compression?
18:33 < delinquentme> yes.
18:34  * nsh nods
18:35 < delinquentme> I havnt read the research completely ... anyone know how hard this is to implement?
18:36 < nsh> depends what you want to compress, and under what criteria
18:37 < nsh> a trivial example is audio, if you transform to the frequency domain, truncate frequencies higher than some cutoff, then transform back
18:37 < nsh> you've done some lossy compression
18:38 < delinquentme> oh but then this is kind of a lossy compression method?
18:38 < delinquentme> Like im thinking through the possibilities for sending genomics data
18:39 < delinquentme> I guess you could chop the thing up into pieces and SHA1 sum each portion
18:39 < delinquentme> resend those which dont check out
18:40 < nsh> there are probably existing solutions
18:40 < nsh> that would be difficult to improve upon without relevant expertise and experience
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19:19 < kanzure> "FIST OF THE DEATH STAR: ALDERAAN IS ALREADY DEAD"
19:20  * nsh blinks
19:23 < kanzure> nsh: just updating my playlists.. http://www.youtube.com/playlist?list=PL85F050BEFA28E044
19:25 < delinquentme> are there existing SUPER compression tools for genomics data sets?
19:25 < delinquentme> kanzure, did i tell you about backblaze?
19:25 < delinquentme> I emailed them and apparently theyve got not genomics clients
19:26 < kanzure> yes you can print out the dna and mail it to them
19:26 < kanzure> it's much higher information density
19:26 < delinquentme> thats an interesting idea
19:26 < delinquentme> but they've got to resequence it
19:26 < delinquentme> that takes time
19:26 < kanzure> so do other decompression algorithms
19:26 < delinquentme> true but not as much as sequencing
19:26 < delinquentme> but heres the idea
19:27 < delinquentme> ACTGs can be represented as 2 bits
19:27 < delinquentme> 00, 01, 10, and 11
19:27 < kanzure> are you familiar with how zip, gzip or bzip works?
19:27 < delinquentme> lets say we arbitrarily pick which represents the nucleotide
19:27 < delinquentme> nah not at all
19:27 < delinquentme> which was what I was about to check
19:27 < kanzure> you should read up on compression algorithms.
19:27 < delinquentme> ( to see if there are awesome compression tools which exist )
19:27 < kanzure> until lzra makes sense
19:28 < delinquentme> Latvian Association of Certified Auditors
19:28 < delinquentme> nope i missed that part
19:28 < kanzure> lzma
19:29 < kanzure> lempel-zimmersomething markov chain somethingsomething
19:29 < delinquentme> but I think we can agree that a compression SPECIFICALLY for some data type
19:29 < delinquentme> would be better than general compression
19:29 < delinquentme> ( humor me if you would )
19:30 < delinquentme> My question to the #bioinformatics kids is: " Does this massive string of the genome have a use ?"
19:30 < delinquentme> or does it need to contain all of the other FASTA related material / annotations to be useful
19:30 < kanzure> what do you mean by useful?
19:31 < kanzure> annotations are usually stored on ncbi's servers
19:31 < delinquentme> so useful is kind of the part where " can I make a service that people will pay for by combining ...
19:31 < delinquentme> 1) Automated / cheap backblaze based storage
19:32 < kanzure> maybe you should study compression before monetizing your nonexistent algorithm
19:32 < delinquentme> 2) A  2 bit compression process for *only* the genome string
19:32 < delinquentme> but like for storage of someones genome
19:32 < delinquentme> you're going to have all the HG18 related information handy right?
19:33 < delinquentme> you're simply comparing that individuals genome string against that standard template
19:33 < kanzure> huref isn't always #18
19:33 < delinquentme> sure sure
19:33 < delinquentme> but I'm curious if that has any value
19:33 < kanzure> you seem to be against symbol tables, but this is exactly what you are describing
19:33 < kanzure> not sure i can help you man
19:33 < delinquentme> this is the part where I think you're talking compression
19:34 < delinquentme> It was kind of my shot in the dark guess that no ones built out a 2-bit compression for *just* the genome string
19:34 < kanzure> i forget the name of one implementation of that
19:37 < delinquentme> god im so hungry i might eat a salad
19:38 < nsh> .wik LZMA
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19:46 < nsh> .wik LZMA
19:46 < hplunny> "The Lempel–Ziv–Markov chain algorithm (LZMA) is an algorithm used to perform lossless data compression." - http://en.wikipedia.org/wiki/LZMA
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19:49  * nsh notes to self for the second time that if you copy an address to clipboard from chrome, then close the window, it disappears
19:49 < nsh> annoyingly.
19:50 < kanzure> nsh: xclip -sel or the other one
19:50 < kanzure> xclip -sel | pastebinit is my goto method.
19:51 < nsh> ty
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20:38 < delinquentme> Umm machine which measures light output ina  96 well plate?
20:51 < delinquentme> kanzure, do you know if 7zip is the default ubuntu compression tool?
20:52 < delinquentme> lulz nm
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--- Log closed Mon Jul 23 00:00:16 2012