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| kanzure | michael nielsen on open science http://news.ycombinator.com/item?id=3174407 | 08:00 |
|---|---|---|
| klafka | i didn't realize he wrote a book on open access publishing | 08:05 |
| klafka | oh because it came out this mont | 08:06 |
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| kanzure | delinquentme: haha just saw your diybio email.. | 09:22 |
| kanzure | sorry you haven't got feedback heh | 09:23 |
| delinquentme | i gotta post it more places as well | 09:23 |
| delinquentme | and I really only need 1 lab to say " YES" | 09:23 |
| delinquentme | and im in business | 09:23 |
| klafka | i hate when you get distracted reading pizza blogs instead of working | 09:25 |
| klafka | dammit | 09:25 |
| kanzure | pizza blogs.. yeah that happens often for me?? | 09:25 |
| klafka | idk why | 09:26 |
| klafka | i don't even eat pizza atm | 09:26 |
| kanzure | delinquentme: you and fenn should meet up and sell robots to labs | 09:26 |
| kanzure | have you met him yet? you've been in sf for at least two weeks now right? | 09:27 |
| delinquentme | nah im back in PA | 09:27 |
| kanzure | lame :/ | 09:27 |
| delinquentme | flew back yoostardah | 09:27 |
| kanzure | oh well. he's probably better at interneting anyway. | 09:27 |
| delinquentme | yeah i need to get out there | 09:27 |
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| delinquentme | theres a few companies who are calling me n shit | 09:30 |
| delinquentme | but like | 09:30 |
| delinquentme | THEY NO SCIENCE | 09:30 |
| delinquentme | Y U NO .. GOOD FOR HUMANITEH!? | 09:30 |
| delinquentme | fenn, yuno? | 09:30 |
| delinquentme | and kanzure what is fenn aboot? | 09:30 |
| kanzure | fenn is the other skdb developer | 09:30 |
| kanzure | http://fennetic.net/ | 09:31 |
| delinquentme | ohhhhh ic ic | 09:31 |
| delinquentme | but you know what im saying about the 60 grand machine thing | 09:34 |
| delinquentme | its like heres an open source version of your M3 .. which you can build for 10 grand | 09:34 |
| delinquentme | maybs its just the build it and fucking make it all work | 09:34 |
| kanzure | well think of it this way- how many diybio projects are using liquid handling machines? right now? none.. | 09:34 |
| kanzure | wait what? it cost you 10k? | 09:35 |
| delinquentme | and like everything in science its gnashed and and cursed upon till its wholly apparent | 09:35 |
| delinquentme | nah I havnt prototyped it yet | 09:35 |
| delinquentme | and it can be made cheaper | 09:35 |
| kanzure | oh this is 002 | 09:35 |
| kanzure | doh | 09:35 |
| delinquentme | the current setup with a full 12 stack would be under 10g | 09:36 |
| delinquentme | 12 blades | 09:36 |
| klafka | what are you basing your design off of? | 09:36 |
| kanzure | shit i thought this was 001 | 09:36 |
| delinquentme | klafka, im not sure I follow? | 09:36 |
| kanzure | and that you were re-announcing it for some reason | 09:36 |
| delinquentme | oh | 09:37 |
| delinquentme | noted. | 09:37 |
| kanzure | https://github.com/delinquentme/LH002/raw/master/images/LH002_full_01.png | 09:37 |
| kanzure | https://github.com/delinquentme/LH002/raw/master/images/LH002_full_02.png | 09:37 |
| kanzure | https://github.com/delinquentme/LH002/raw/master/images/LH002_full_03.png | 09:37 |
| kanzure | https://github.com/delinquentme/LH002/raw/master/images/LH002_full_04.png | 09:37 |
| kanzure | https://github.com/delinquentme/LH002/raw/master/images/LH002_full_05.png | 09:37 |
| klafka | i mean are you basing your design off another pre-existing liquid handling machine | 09:37 |
| klafka | like | 09:37 |
| kanzure | https://github.com/delinquentme/LH001 | 09:37 |
| kanzure | https://github.com/delinquentme/LH002 | 09:37 |
| delinquentme | klafka, i guess i'd say that its based around a tecan evo .. but with less wasted space for the applications of biology | 09:37 |
| klafka | if you're comparing it to a 60 grand machine | 09:37 |
| delinquentme | yeahh thats what she looks like :D | 09:37 |
| klafka | then you clearly have competition | 09:37 |
| kanzure | delinquentme: quick suggestion.. dump the google docs file into the git repo | 09:38 |
| delinquentme | and apparently github sucks for image hosting .. so i need to imgur it | 09:38 |
| kanzure | eh | 09:38 |
| delinquentme | klafka, yeah I definitely had the tecans in mind when designing it | 09:38 |
| klafka | how do you know btw, that your design will work? | 09:39 |
| kanzure | sorry gitduino or other git-based hardware hosting isn't up yet | 09:39 |
| kanzure | klafka: he built LH001 | 09:39 |
| klafka | oh you did? | 09:39 |
| klafka | nice | 09:39 |
| kanzure | http://www.youtube.com/watch?v=ZY5IY5CZ1es | 09:39 |
| klafka | so are you trying to turn this into like os hardware? | 09:39 |
| klafka | or trying to get a company to take your design and sell it and market it | 09:40 |
| klafka | like george church did | 09:40 |
| delinquentme | klafka, yeah it currently is up on github | 09:40 |
| delinquentme | like all the files you need to print the parts | 09:40 |
| delinquentme | oh never thought about that... | 09:40 |
| delinquentme | this was with his MAGE machine? | 09:40 |
| klafka | polonator | 09:41 |
| delinquentme | wow | 09:42 |
| delinquentme | haha so much to do | 09:42 |
| delinquentme | klafka, thanks for the heads up on that | 09:42 |
| klafka | indeed | 09:42 |
| klafka | np | 09:42 |
| delinquentme | thermo said they were interested but i didnt know companies operate like that | 09:43 |
| delinquentme | SO | 09:43 |
| delinquentme | its like always FINISH IT!!!! | 09:43 |
| kanzure | did thermo understand that it's about open hardware? | 09:43 |
| delinquentme | yeah | 09:44 |
| kanzure | reaallly how fascinating.. | 09:44 |
| delinquentme | the specific branch is just interested in stitching together stuff for labs | 09:44 |
| delinquentme | like its the common | 09:44 |
| delinquentme | " we need it all for 10 grand" | 09:44 |
| kanzure | they do one-off consulting projects? | 09:45 |
| kanzure | ok | 09:45 |
| kanzure | hey i forget is there an open source syringe pump yet? or is that still in the pipeline | 09:45 |
| klafka | syringe pump? | 09:46 |
| klafka | also is there an oss micropippetter | 09:46 |
| kanzure | ah yep http://blog.reprap.org/2005_03_01_archive.html | 09:46 |
| kanzure | http://staff.bath.ac.uk/ensab/replicator/Pix/syringe-pump-h.jpg | 09:46 |
| kanzure | "The RP syringe pump. The only non-RP parts are the syringe (which only costs a few pence), a length of M5 studding plus an M5 nut, four M3 screws, and the motor (245-6089; available from RS Components - click the link). We have a later versions with an optical counter on the motor shaft for precise metering, with heating jackets, and a whole range of different capacity syringes." | 09:47 |
| kanzure | well fuck all this other shit | 09:47 |
| kanzure | that's the primary component you need for diybio-style microfluidics | 09:47 |
| kanzure | http://www.youtube.com/watch?v=pNdARr_t1dQ | 09:49 |
| delinquentme | very nice! | 09:50 |
| delinquentme | who is working on this?? | 09:50 |
| kanzure | i wrote some crummy software to generate svg-based designs for lab on a chip stuff, but it never went anywhere | 09:50 |
| kanzure | i got a laser cutter and did test prints | 09:50 |
| klafka | what is diybio actually doing that's interesting | 09:51 |
| kanzure | but it was just surface tension stuff | 09:51 |
| klafka | frankly it seems to me the cost of biotech hasn't really reached the hacker level | 09:51 |
| klafka | we're in pre-altair days | 09:51 |
| kanzure | klafka: the LA group is doing some pretty cool projects | 09:52 |
| klafka | oh? | 09:52 |
| kanzure | like their neural tissue culture, directed evolution/selection of an extremophile and genome sequencing thereof.. | 09:52 |
| klafka | interesting | 09:52 |
| klafka | that's gotta be a _lot_ of cash still | 09:52 |
| klafka | well if they're doing full genome sequencing | 09:52 |
| delinquentme | i need learning hacks | 09:53 |
| kanzure | they also pcr'd out a copy of gfp from squid or whatever | 09:53 |
| delinquentme | learning fucking takes too long | 09:53 |
| klafka | that's interesting | 09:53 |
| kanzure | klafka: nope they are collaborating with beijing genome institute for that | 09:53 |
| kanzure | klafka: http://diyhpl.us/wiki/transcripts/open-science-summit-2011/joyce-peng-beijing-genomics-institute.txt | 09:53 |
| klafka | oh god bgi | 09:53 |
| klafka | lol | 09:53 |
| klafka | bgi scares me | 09:53 |
| klafka | anyway | 09:53 |
| klafka | time for hair cut | 09:53 |
| kanzure | yep :) | 09:53 |
| delinquentme | yeah that was nothing more than a commercial | 09:53 |
| delinquentme | for bgi | 09:53 |
| kanzure | delinquentme: sure.. but maybe klafka didn't know about them | 09:53 |
| delinquentme | re hev sequencers and gov money | 09:54 |
| kanzure | delinquentme: i'm surprised how a lot of the audience didn't know about their 140+ sequencers | 09:54 |
| delinquentme | well thats why you advertise! | 09:54 |
| delinquentme | *grumbles* | 09:54 |
| kanzure | haha but it was huge news a few years back | 09:54 |
| kanzure | so that presentation | 09:54 |
| kanzure | said that they were using github | 09:54 |
| delinquentme | oh ps i was mentioned on derek lowes blog :D | 09:54 |
| kanzure | they had a screenshot and i tried to get the url | 09:54 |
| kanzure | https://github.com/ehec-outbreak-crowdsourced/BGI-data-analysis | 09:54 |
| kanzure | but they deleted the actual repo or something.. | 09:54 |
| kanzure | so this is just the 1/100th-ly-sized repo | 09:54 |
| klafka | dude they ordered like 30 or something pacbio sequencers too | 09:55 |
| kanzure | ncbi will be crushed | 09:56 |
| kanzure | demolished. raped. | 09:56 |
| delinquentme | the NCBI data is safe | 09:56 |
| kanzure | i mean in terms of data input :) | 09:56 |
| delinquentme | nexus and google collabo assured that | 09:56 |
| kanzure | where are you going to put all those hundreds of petabytes hmm | 09:56 |
| delinquentme | if you didnt hear about that | 09:56 |
| delinquentme | so should I move to the bay and work at random company | 09:57 |
| delinquentme | or stay in pitt and work @ cmu and do collaboratings | 09:57 |
| delinquentme | I think cmu is where its going to be at | 09:57 |
| kanzure | you will probably not find a job that intersects everything you want. | 09:57 |
| kanzure | so you could either do random collaborations that probably won't pay | 09:58 |
| kanzure | or you can do a startup with fenn or on your own | 09:58 |
| kanzure | but even then it's not a guarantee that any money will come of it | 09:58 |
| delinquentme | kanzure, who was the designer on the syringe pump | 09:59 |
| kanzure | dunno.. adrian bowyer would know | 09:59 |
| kanzure | adrian bowyer <a.bower@bath.ac.uk> | 10:00 |
| kanzure | oops | 10:00 |
| kanzure | adrian bowyer <a.bowyer@bath.ac.uk> | 10:00 |
| kanzure | huh, http://people.bath.ac.uk/ensab/G_mod/Svlis/ | 10:02 |
| kanzure | i didn't know about that geometric kernel. it seems to be based on subdivision of surfaces. | 10:02 |
| Technicus | Hello . . . I am planning a building project and I want to keep track of the materials, budget, hours, process, documents, etc... Does anyone here have a suggestion for an opens source project management suite? | 10:51 |
| Technicus | Hopefully my question is not too off topic . . . | 10:51 |
| ybit | Technicus: github | 10:52 |
| ybit | github and your favorite text editor? | 10:53 |
| ybit | rather | 10:53 |
| ybit | your favorite vcs and text editor | 10:53 |
| ybit | org-mode is great for tracking time spent on a project | 10:54 |
| ybit | Github can handle org files | 10:54 |
| ybit | the display of them | 10:54 |
| ybit | If you need to export to other formats, C-x-e-g then choose to export into other formats like html, markdown, etc. | 10:55 |
| ybit | this isn't off-topic at all, btw :) | 10:56 |
| Technicus | ybit: I should maybe be a little more specific . . . I am rebuilding an RV and I want to do cost analysis of parts and materials. Another thing is that I intend to replace the drive train and suspension with components from a M939 series truck. | 10:57 |
| ybit | Maybe you want a spreadsheet editor then? | 10:58 |
| ybit | org-mode has this too, but i'll be quiet about it now :) | 10:58 |
| kanzure | i don't think org-mode is a good suggestion here | 10:59 |
| Technicus | Perhaps that would be appropriate. I do also want to clock the time I put into research, development and build. | 10:59 |
| kanzure | it sounds like you need a lot of separate tools | 10:59 |
| kanzure | there's no way a tool will do all of that for you :) | 10:59 |
| kanzure | "oh and it would also cook my breakfast" | 10:59 |
| Technicus | Yeah . . . I thought that would be the case, because I also want to develop some schematics. | 11:00 |
| ybit | apt-cache search time | grep track | 11:01 |
| ybit | wmwork | 11:01 |
| ybit | worklog | 11:01 |
| ybit | gtimelog | 11:01 |
| kanzure | there's some commercial PDM (product data management) tools that will cost you many 100s of grands | 11:01 |
| Technicus | Mostly looking for ways to keep track of what I am trying to do, so I don't get lost, repeat things, and can demonstrate progress. | 11:01 |
| ybit | (oooorrrrrrg-mode) | 11:02 |
| delinquentme | syncrobid | 11:05 |
| Technicus | kanzure: I'll employ LibreOffice Calc before I shell out a penny for any commercical product data management software. :) | 11:05 |
| delinquentme | but i dont think its open source Technicus | 11:05 |
| Technicus | kanzure: . . . or write my own. | 11:06 |
| drazak | kanzure: latest Nature mentions the DIYBio mailing list | 11:40 |
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| klafka | reading people on arstechnica talk about the jstor/schwartz thing is really painful | 16:11 |
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| kanzure | lunar space elevator stuff.. http://www.lpi.usra.edu/meetings/leag2011/pdf/2043.pdf | 16:36 |
| kanzure | klafka: why's that? | 16:36 |
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| klafka | this one comment about how people who work in journal publishing put in a lot of work and the cost of journals basically covers the expenses | 16:40 |
| klafka | when elsevier made 1.3 billion net profit last year | 16:40 |
| klafka | basically anti-michael nielsen | 16:40 |
| klafka | hey kanzure are you familiar w/ bitbucket | 16:40 |
| klafka | ? | 16:40 |
| klafka | if I pushed a change from one computer, and i want another computer which already has a repo on it updated with those changes what would be thje command | 16:40 |
| klafka | it seems like it's a pull request | 16:40 |
| klafka | but i can't find how to actually request one | 16:41 |
| klafka | nvm | 16:50 |
| kanzure | yes i'm familiar with bitbucket | 16:51 |
| kanzure | hg pull right? | 16:51 |
| kanzure | oh, you meant social features | 16:52 |
| klafka | oh no | 16:52 |
| klafka | i figured it out | 16:52 |
| klafka | it wasn't a bitbucket feature | 16:52 |
| klafka | it was a git feature | 16:52 |
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| kanzure | http://www.youtube.com/watch?v=V6sFw4_GlhY | 20:11 |
| kanzure | he takes the monkey bars to go upstairs? | 20:11 |
| kanzure | this guy is ok in my book | 20:11 |
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| kanzure | toilet paper microfluidics http://www.youtube.com/watch?v=kcdKxuYC8V8 | 22:37 |
| Stee| | kanz, do you keep up with Lab Chip? | 22:39 |
| kanzure | nope | 22:40 |
| Stee| | good paper on how to achieve mixing in microfluidic systems, which is pretty difficult | 22:40 |
| Stee| | I'm trying to predict loss of energy due to dipole mixing (hill's spherical vortex) so I ran across the paper | 22:40 |
| kanzure | http://diyhpl.us/~bryan/papers2/microfluidics/Mixing-induced%20activity%20in%20open%20flows.pdf | 22:41 |
| kanzure | http://diyhpl.us/~bryan/papers2/microfluidics/Patterning%20of%20flow%20and%20mixing%20in%20rotating%20radial%20microchannels.pdf | 22:41 |
| kanzure | might help.. | 22:41 |
| kanzure | http://diyhpl.us/~bryan/papers2/microfluidics/Review%20-%20Micromixers.pdf | 22:41 |
| Stee| | yeah, the issues is I'm mostly dealing with a synthetic jet ejecting into its own residual | 22:41 |
| Stee| | which...hasn't ever been addressed. | 22:41 |
| Stee| | ever. | 22:41 |
| Stee| | bleagh | 22:41 |
| * kanzure sleeps | 22:54 | |
| superkuh | I found another use for toilet paper the other day, in high voltage pulsed autotransformers soaked with copper sulfate: http://superkuh.com/library/Electronics/vector-inversion_autotransformers_design_%20JC%20Martin_%20I%20Smith.pdf | 22:57 |
| --- Log closed Mon Oct 31 00:00:20 2011 | ||
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