| --- Day changed Wed Nov 26 2008 | ||
| gene | http://www.newscientist.com/article/dn16119-invention-microscopic-biorobot-slaves.html | 00:00 |
|---|---|---|
| gene | check it out | 00:00 |
| gene | "But like more normal-sized robots, biobots could be entertaining too, the patent says. People could race them around tracks, mazes, or obstacles. They might even compete in biobot war games, trying to track each other down and making a kill by secreting antibiotics." | 00:00 |
| gene | we might want to try this... | 00:00 |
| kanzure_ | using light to guide them is pretty slow | 00:01 |
| kanzure_ | I mean, they're slow | 00:01 |
| kanzure_ | guiding mechanism (light) is as fast as possible of course | 00:01 |
| kanzure_ | but their movement isn't that quick really | 00:01 |
| gene | kanzure move your hand | 00:02 |
| kanzure_ | I'm not bacteria | 00:02 |
| gene | do you see it? | 00:02 |
| gene | yeah | 00:02 |
| gene | you aren't | 00:02 |
| gene | but you can see stuff pretty fast | 00:02 |
| kanzure_ | http://heybryan.org/mediawiki/index.php/In_vitro_liquid_wars <- was one of my projects that I was designing over the summer | 00:02 |
| kanzure_ | right, I wasn't saying that | 00:02 |
| kanzure_ | bacteria aren't the fastest little swimmers around | 00:02 |
| gene | I know | 00:03 |
| gene | hey that dude probably stole from you | 00:03 |
| gene | TEST YOUR MIGHT, CHALLENGE THAT PATENT! | 00:03 |
| kanzure_ | what, it's a patent? | 00:05 |
| kanzure_ | why.. | 00:05 |
| kanzure_ | fenn: Paul wants me to start publishing logs of the channel | 00:12 |
| kanzure_ | I'm concerned that I might not recall everything I've ever written in the channel | 00:13 |
| kanzure_ | so I don't know whether a full log spurt on the internet would be appropriate. | 00:13 |
| kanzure_ | What's the protocol in these situations? | 00:13 |
| kanzure_ | nsh: public channel logging? yes/no? | 00:14 |
| kanzure_ | procto: if we want to log, would your bot be willing? | 00:14 |
| * nsh doesn't mind | 00:16 | |
| kanzure_ | I'm concerned that I might not recall everything I've ever written in the channel | 00:17 |
| kanzure_ | so I don't know whether a full log spurt on the internet would be appropriate. | 00:17 |
| procto | kanzure_: yeah, I can throw a bot up | 00:20 |
| procto | kanzure_: you can host it if you want | 00:20 |
| procto | the code is super simple | 00:20 |
| kanzure_ | I supposedly have all logs ever in txt format | 00:20 |
| xp_prg | kanzure did you meet with him? | 00:21 |
| kanzure_ | Sanjay? yes | 00:21 |
| xp_prg | how did it go? | 00:22 |
| kanzure_ | quite well, he was surprisingly knowledgable of some of the software packages I've already been using | 00:22 |
| xp_prg | cool, does he like synth bio? | 00:22 |
| kanzure_ | uh, I went to talk to him about CFD | 00:23 |
| kanzure_ | don't know why I should have mentioned synthetic biology .. | 00:23 |
| kanzure_ | http://heybryan.org/~bbishop/docs/logs/ | 00:25 |
| Maattt | hey people | 00:29 |
| kanzure_ | Hey Maattt. | 00:29 |
| Maattt | I'm back home in Houston and it feels WEIRD | 00:29 |
| kanzure_ | Heh. Just found this: http://gonzolabs.org/dance/contestants/ "Dance your PhDs". Seems to be an interpretative dance. From Amara Graps. | 00:29 |
| Maattt | what... haha | 00:30 |
| kanzure_ | Hrm. GTA3 or visualization programming. | 00:32 |
| Maattt | I'm pretty sure whatever that girl is doing is not what vitamin D does :p | 00:39 |
| kanzure_ | Don't be so sure. 10 years from now. Every party you go to. Just wait. You'll see. | 00:47 |
| kanzure_ | http://www.opencfd.co.uk/openfoam/doc/README.html 'Run the first example case of incompressible laminar flow in a cavity:' | 01:20 |
| kanzure_ | hm | 01:53 |
| kanzure_ | "A team in the US has brought the world one step closer to cheap, mass- | 01:53 |
| kanzure_ | produced, perfect diamonds. The improvement also means there is no | 01:53 |
| kanzure_ | theoretical limit on the size of diamonds that can be grown in the | 01:53 |
| kanzure_ | lab. | 01:53 |
| kanzure_ | CVD for diamond growth? | 01:53 |
| kanzure_ | http://www.newscientist.com/article/dn16036 | 01:53 |
| kanzure_ | http://www.pnas.org/content/105/46/17620 Enhanced optical properties of chemical vapor deposited single crystal | 01:53 |
| kanzure_ | diamond by low-pressure/high-temperature annealing. | 01:53 |
| kanzure_ | ultra high strength microspheres or | 01:54 |
| kanzure_ | microfibers would be able to solve the problem of finding lightweight | 01:54 |
| kanzure_ | storage tanks for the hydrogen fuel on the VentureStar reusable launch | 01:54 |
| kanzure_ | vehicle: http://groups.google.com/group/sci.astro/msg/4bddfa864aa04056?hl=en | 01:54 |
| fenn | spheres? | 01:55 |
| kanzure_ | I guess it's the same reasoning in geodiscs | 01:56 |
| kanzure_ | fenn: for context, I've forwarded an email to openvirgle with where I found it | 01:59 |
| kanzure_ | it's an interesting email from arocket, the rocketry mailing list with Cormack and XCOR and Henry Spencer (the guy with all usenet postings ever), etc. | 01:59 |
| kanzure | Carmack? hrm. | 02:01 |
| kanzure | CVD is popping up in a lot of places. CVD, these diamonds. Wonder what's up with that. | 02:01 |
| kanzure | maybe it's because it does homogeneous distribution of the chemical vapor in high temperature and high pressure environments, and this is somehow special across the board? | 02:02 |
| fenn | also it doesnt take for-fucking-ever like most processes | 02:02 |
| fenn | well i guess i have to tear myself away from the internet to go drive for 14 hours | 02:04 |
| kanzure | delivery job? | 02:04 |
| kanzure | oh, turkey | 02:04 |
| kanzure_ | http://www.ayanda-biosys.com/mea_biochips.html Ayanda MEAs. scooped from mea-users mailing list. | 02:15 |
| kanzure_ | ' | 02:15 |
| kanzure_ | Electrode material: platinum; Electrode geometry: 3D tip-shaped (electrode height: 25 - 35 um); Electrode dimensions: 30 um circular electrodes; Electrode spacing: 100 um (centre to centre); Electrode impedance at 1 kHz: 600 - 900 k?; Noise level: 15 - 20 uV; Applications: Acute slice preparations or organotypic slice cultures (brain tissue, spinal cord, etc.); Re-use: acute slices up to 100 times, organotypic cultures several times.' | 02:15 |
| kanzure | fenn: What's wrong with using igloos again? Besides having to live in a cold environment. | 02:34 |
| kanzure_ | http://heybryan.org/bioreactor/membraneless_filtration/gnuplot_spiral_parametric.txt <- yay, it works. | 02:47 |
| kanzure_ | http://heybryan.org/bioreactor/membraneless_filtration/2008-11-25_gnuplot.png | 02:47 |
| kanzure | Maattt: Ever play with spirals? | 03:12 |
| kanzure | http://heybryan.org/bioreactor/membraneless_filtration/2008-11-25_gnuplot.png | 03:13 |
| kanzure | http://heybryan.org/bioreactor/membraneless_filtration/gnuplot_spiral_parametric.txt | 03:13 |
| Maattt | you mean those things where you put one circle inside another and they go around and around? | 03:13 |
| kanzure | One circle inside of another? Nah, not quite. | 03:13 |
| Maattt | oh, never mind | 03:13 |
| Maattt | you mean actual spirals | 03:13 |
| kanzure | Heh. | 03:13 |
| Maattt | what about them? | 03:13 |
| Maattt | i was just in a car with a guy who drove at 130 mph | 03:14 |
| kanzure | I'm just playing around with a 3D spiral generator. | 03:14 |
| kanzure | Drag racer? | 03:14 |
| Maattt | 3d spirals? | 03:14 |
| kanzure | right | 03:14 |
| kanzure | So I have some cross sections and such, and am splicing them together with some varying delta h from 0 to max height, that sort of thing. | 03:14 |
| Maattt | cool | 03:14 |
| kanzure | uh, well, not zero, but some initial height | 03:14 |
| kanzure | Will be throwing it into a fluids simulator later I guess. | 03:15 |
| Maattt | you have some very diverse interests. | 03:15 |
| kanzure | Braaiiins! | 03:15 |
| Maattt | mine are mostly confined to art and bacon. | 03:15 |
| kanzure | tasty bacon? | 03:15 |
| kanzure | Hrm, visualization first or vtk compatability | 03:58 |
| kanzure | compatibility | 03:58 |
| kanzure_ | 'XCOR Aerospace to announce ticket sales for suborbital flights' | 04:01 |
| kanzure_ | Somebody should show gene the vtk sonification toolkit. | 04:44 |
| kanzure_ | http://openfoamwiki.net/index.php/Contrib_PyFoam | 04:52 |
| kanzure_ | ah, here we go. vtkBox: http://www.creatis.univ-lyon1.fr/~jpr/PUBLIC/Doc_VTK_5.0.4/html/a01187.html | 04:55 |
| kanzure_ | http://vtkblog.blogspot.com/search/label/vtkCubeSource <--- Check this out. Where precisely are coords mentioned for each of these objects? :/ | 05:05 |
| kanzure_ | (in the compressed archive there's a .cpp) | 05:05 |
| kanzure_ | Ah: http://www.vtk.org/pipermail/vtkusers/2008-February/094235.html polygonPoints | 05:08 |
| kanzure_ | http://www.vmtk.org/ "Vascular Modeling Toolkit" | 05:28 |
| kanzure_ | "The Vascular Modeling Toolkit is a collection of libraries and tools for 3D reconstruction, geometric analysis, mesh generation and surface data analysis for image-based modeling of blood vessels." | 05:28 |
| kanzure_ | https://svn.cscs.ch/pv-meshless/trunk/VTK/Examples/DataManipulation/Python/BuildUGrid.py perhaps this is it instead. | 05:39 |
| UtopiahGHML | I wonder if any work in stigmergy has been applied to logistic and the human factor (like floor marking and such) | 09:36 |
| kanzure | oh | 15:03 |
| kanzure | I'm so happy | 15:03 |
| kanzure | people are starting to email me as "Dr. Bryan Bishop" | 15:03 |
| kanzure_ | http://heybryan.org/books/Manufacturing/origami/Origami%20fold%20as%20algebraic%20graph%20rewriting.pdf <- The origami webEOS / webOrigami people sent me this paper. | 15:09 |
| kanzure_ | They're also addressing me as Dr. :-) | 15:09 |
| kanzure | gene: Almost done. | 15:23 |
| gene | excellent | 15:24 |
| gene | I mean excellent.... | 15:24 |
| kanzure | Woah. Hold on a sec. | 15:26 |
| kanzure | I've been talking with Aaron Swartz? Really? | 15:26 |
| kanzure | Was it anyone in here that was saying he was a jerk a few months ago? | 15:26 |
| kanzure | Something about living with a certain somebody in NY. | 15:27 |
| kanzure | Maybe I was talking with Jef. | 15:27 |
| gene | huh? | 15:27 |
| gene | NOW, NO ONE CAN STOP US FROM VISUALIZING DATA! NO ONE, MWAHAHAHAHAHAHA | 15:28 |
| gene | Who is this Aaron person? | 15:30 |
| kanzure | Aaron did RSS when he was 14. | 15:30 |
| kanzure | and contributes to the W3C groups, etc. | 15:30 |
| gene | wow | 15:31 |
| gene | I have true admiration for the people who served in the Robot Smashing Service | 15:32 |
| gene | you might be right about BASIC | 15:37 |
| gene | http://www.marriedtothesea.com/090608/10-PRINT-SHIT-FUCK-CRAP-20-GOTO-10.gif | 15:37 |
| gene | the URL gives it awaythough | 15:39 |
| kanzure | BASIC is good for learning, and good for simple prototyping, but prototyping in later scripting languages like perl, python, tcl, bash, whatever, is more likely to 'stick' (as in, be useable). | 15:40 |
| kanzure | Now, as it turns out, Visual Basic has a few tricks up its sleeves because it's by Microsoft. | 15:40 |
| kanzure | They're doing some compiler tricks to make it run slightly more quickly than otherwise :-) because they know their own source code to Windows and so on (supposedly). | 15:40 |
| kanzure | gene: Actually, I know it might sound corny, but if you want to see an interesting form of basic, check out Dark Basic. | 15:41 |
| kanzure | They have a demo version online | 15:41 |
| kanzure_ | http://darkbasic.thegamecreators.com/ | 15:41 |
| kanzure_ | "DarkBASIC allows you to create your own games, demos, slideshows, even business applications using the easy to understand BASIC programming language. Even if you've never coded before, just follow the in-depth tutorials and you'll be generating results in minutes! Harness the power of Direct X and make 3D objects come to life in just a few simple commands." | 15:41 |
| gene | well it has the word dark in it, it's bound to be interesting | 15:41 |
| kanzure | I was writing a few games with it, like "Super Monkey Balls" (a 3D platformer game with annoying music) and a 2D RPG (a continuation of some work I was doing in Visual Basic called "DBZ Insane", which was a slightly functional DBZ RPG, with ki blasts and everything :-)) | 15:43 |
| gene | was that first one based off another game? | 15:44 |
| wrldpc | heh: http://digg.com/music/Scientific_Rap_Museum | 15:44 |
| gene | well I have to leave within -1 seconds | 15:45 |
| gene | so bye | 15:45 |
| kanzure | First one was not based off of another game. | 15:46 |
| kanzure | It consisted of this giant yellow sphere with a terribly large grin, jumping around on way-too-large platforms. | 15:46 |
| kanzure | Hrm. One of the demos that I remember doing was this 'game' where you had a giant glove-hand floating in the sky (the mouse) and you were isometric to a hilly terrain on which there were a few thousand red spheres spawned. As you clicked and moved, the balls would move over the terrain in that general direction. Can't remember why I bothered doing that.. | 15:48 |
| wrldpc | I really can't stand sinecures. | 16:05 |
| wrldpc | The do-nothing produce-nothing get-EVERYTHING people. | 16:06 |
| kanzure | Anything in particular ? | 16:12 |
| wrldpc | snowcm.com/ | 16:44 |
| wrldpc | http://www.snowcm.com/ | 16:44 |
| wrldpc | there are thousands of these firms. | 16:56 |
| kanzure | Heh, I like how professors call at the most inconvenient times. | 17:36 |
| kanzure | "Bryan! Hey, are you coming to the lab today?" *laundry* | 17:37 |
| kanzure | Hi elias`. | 17:43 |
| gene | You know that game does sound like another game a lot | 18:03 |
| gene | well, it looks like I have to go linux | 18:05 |
| gene | to use open foam | 18:05 |
| kanzure | if you tried really, really hard, we're talking superhuman effort, you might be able to get openfoam to work with cygwin. But that's just asking for trouble. | 18:12 |
| kanzure | also, the ME dept www server is running webmin on port 10000 but I can't figure out from where to access it. I need to figure out the mysql username so that I can deploy a wiki on ~adl :-/ | 18:12 |
| kanzure_ | http://bitesizebio.com/2008/11/25/diy-electrocompetent-e-coli/ <- like it says, getting comp cells | 18:14 |
| kanzure_ | http://www.heppnetz.de/projects/goodrelations/ <- B2B alternative? I wonder how many companies are using it. | 18:23 |
| procto | wrldpc: you were asking about biotech cooking. here's an idea I just read on one of my cooking blogs | 18:24 |
| procto | wrldpc: it's just so simple it's barely biotech, but at the same time, it's very refreshing and innovative | 18:24 |
| procto | wrldpc: basically, what this dude did is he made noodles by adding xanthan to a liquid and using a syringe to push it into a plastic tube, and then let it set | 18:25 |
| procto | wrldpc: he made the same thing with chicken broth, and you get delicious chicken broth noodles | 18:25 |
| procto | and the science is of course the experimentation with different gelatinous substances | 18:26 |
| procto | etc. | 18:26 |
| procto | (before him, only agar agar and the like were used, which resulted in noodles that were too weak) | 18:26 |
| kanzure | xanthan? | 18:28 |
| xp_prg | kanzure you using that script at all? | 18:34 |
| kanzure | yeah, I thought we were talking the other day about this? | 18:35 |
| kanzure | did you forget our conversation? | 18:35 |
| procto | kanzure: xanthan gum | 18:36 |
| kanzure | so a gum noodle? | 18:37 |
| kanzure | I'm not familiar enough with xanthan gum I guess. | 18:37 |
| kanzure_ | http://www.tri-conference.com/ molecular medicine tri-conference, 2009. | 18:40 |
| procto | kanzure: it's a gelling agent | 18:41 |
| procto | kanzure: you've most likely eaten it at least twice this week | 18:41 |
| procto | they put it in just about everything | 18:41 |
| procto | xanthan gum and gum arabic are the two most popular stabilizers | 18:42 |
| procto | the noodle is just this gelatinous thing | 18:42 |
| kanzure | gum arabic I've heard of, yes :) | 18:43 |
| procto | the point of his research was to make it more noodly than gely | 18:43 |
| procto | so he experimented, etc. | 18:43 |
| kanzure | it's also used in nanoparticle synthesis as it turns out, but I only remember that because I linked to the eznanoparticle-synthesis subdir in an email earlier today | 18:43 |
| gene | what your not familiar with Xanthan gum? | 18:52 |
| gene | or at least guar gum? | 18:56 |
| gene | buy a big bag of the stuff from a health food store | 18:57 |
| gene | I hear it is quite useful | 18:57 |
| gene | http://www.a-vital-life.com/page.php?p=sbga-harvest | 19:22 |
| gene | how about that for algae harvesting? | 19:22 |
| gene | A HUGE BOAT | 19:22 |
| gene | not driven with propellors, but fricking paddlewheels | 19:22 |
| kanzure | I wonder if you can make algae replicate linearly, in a constrained space. | 19:22 |
| kanzure | like in a very tiny capillary | 19:22 |
| gene | heh | 19:23 |
| gene | that would be funny | 19:23 |
| kanzure | then you just smash it all out. | 19:23 |
| kanzure | or blow it out | 19:23 |
| gene | I think one company is doing(or done that) | 19:23 |
| gene | they grow it inside mats | 19:23 |
| kanzure | that's the basic scheme for single (or near single) layer tissue growth, giant sheets. | 19:24 |
| gene | with exhaust from a coal plant | 19:24 |
| kanzure | anyway, the spiral generator is almost working. At the moment I'm making cross-sections out of four voxels, w | 19:25 |
| kanzure | which you can imagine as a hollowed out rectangular polygon. | 19:25 |
| kanzure | annoyingly, the coords for voxel creation aren't labeled, so there's 8 points and 3 numbers per point, | 19:25 |
| kanzure | and the mapping isn't obvious, so I've been painstakingly trying to figure out how to deform the typical cube voxel into the rectangular shape | 19:26 |
| gene | I know what a voxel is | 19:26 |
| kanzure | blah documentation. | 19:26 |
| gene | you can't | 19:26 |
| gene | it's a voxel | 19:26 |
| kanzure | nope, you can :) | 19:26 |
| gene | oh | 19:26 |
| kanzure | Hi fenn. | 19:26 |
| * kanzure goes down to eat and then off to the lab .. apparently the ME dept has "quarantined" a machine in my lab because it was "infected by a virus" | 19:27 | |
| kanzure | I suspect they were watching port 6667 | 19:27 |
| gene | speaking of voxels, one of the people here on campus made an MRI machine with 0.5 mm cube voxels | 19:27 |
| gene | THE MOST EVIL PORT OF THEM ALL | 19:27 |
| kanzure | is that resolution of the machine, or is that the resolution of the visualization? | 19:27 |
| kanzure | because I can make up a normal cube out of a trillion voxels, but that doesn't mean that the original data that was scanned had a resolution of a trillion | 19:28 |
| * kanzure really leaves now | 19:28 | |
| gene | of the machine | 19:30 |
| gene | bye | 19:30 |
| gene | http://ovablastic.blogspot.com/2008/11/rats-neurons-in-dish-learn-how-to-fly.html | 20:34 |
| procto | ah yes, that | 20:38 |
| kanzure | I am gone for the weekend. | 21:20 |
| gene | hey guess what I on H+ on a bus | 22:22 |
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