| --- Day changed Fri Oct 10 2008 | ||
| * drazak waes | 00:03 | |
| kanzure_ | wae to you too :) | 00:03 |
|---|---|---|
| drazak | hehe | 00:03 |
| drazak | I'm going through some of those books you gave me | 00:03 |
| drazak | I read the stuff for ochem 1 and 2, and I'm reading stryer's bichemistry | 00:04 |
| kanzure_ | http://senselab.med.yale.edu/ModelDb/ShowModel.asp?model=83562 Basal ganglia-thalamocortical loop model of action selection. | 01:07 |
| fenn | hm. so it's not just me: http://xkcd.com/448/ | 01:12 |
| kanzure_ | you wake up knowing what international time zone your clock happens to be in? :) | 01:13 |
| kanzure_ | ".. might be described as a type of _kinesia paradoxa_, where the individual who typically experiences severe difficulties with the most simple of movements may suddenly perform complex, skilled movements ..'. | 01:18 |
| kanzure_ | http://en.wikipedia.org/wiki/User:Skysmith/Missing_topics_about_Neurology <- don't we all love lists? | 01:23 |
| willPow3r | lists are sexy | 01:28 |
| xp_prg | missing topics, they are listed how are they missing? | 01:30 |
| kanzure_ | hrm http://wexler.free.fr/library/files/annett%20(1996)%20on%20knowing%20how%20to%20do%20things.%20a%20theory%20of%20motor%20imagery.pdf | 01:48 |
| drazak | kanzure_: reading your diy at home stuff | 02:40 |
| kanzure_ | I have lots of stuff :) which stuff? | 02:40 |
| drazak | the zip file | 02:43 |
| drazak | how good is the PCR at home? | 02:43 |
| kanzure_ | Sorry, which zip file? | 02:43 |
| kanzure_ | Are you talking about the git repository? | 02:43 |
| kanzure_ | http://heybryan.org/gitweb.cgi and such? | 02:43 |
| drazak | http://biohack.sourceforge.net/ | 02:43 |
| kanzure_ | k, ignore that site and just go to the gitweb.cgi link | 02:44 |
| kanzure_ | that 40 MB zip file is the old version | 02:44 |
| kanzure_ | anyway, there were some guys in Boston trying the PCR :) | 02:44 |
| kanzure_ | actually, just the gel | 02:44 |
| kanzure_ | I remember them saying something about wanting to do PCR soon though. | 02:44 |
| kanzure_ | http://heybryan.org/~bbishop/docs/thermocycler.pdf for a simple thermocycler | 02:44 |
| drazak | right | 02:47 |
| ybit | procto: you live in s.f. or visiting there for the convergence conf.? | 03:00 |
| kanzure_ | http://ponoko.com/ laser-cutting-print-on-demand-from-the-web service. | 03:07 |
| kanzure_ | input: CAD, output: metal trincket in your mailbox. | 03:07 |
| kanzure_ | Wonder what their resolution is. | 03:08 |
| drazak | if it's a decent machine, almost perfect | 03:12 |
| kanzure_ | http://graphviz.org/Gallery.php Any recommendations or favorites? | 03:37 |
| drazak | kanzure_: do you have a link for making a home made centrifuge? | 03:38 |
| kanzure_ | yes | 03:38 |
| kanzure_ | do you need it right now? | 03:38 |
| drazak | well it's cool if you could link me, but I don't need it | 03:38 |
| kanzure_ | The laptop isn't working well - would take me 15 or 20 minutes to get Opera and pidgin up | 03:38 |
| kanzure_ | I'll get it to you Real Soon | 03:39 |
| drazak | I'll look for it myself then | 03:39 |
| kanzure_ | but yes, there are homemade centrifuges all the time | 03:39 |
| kanzure_ | small-time centrifuges are just computer case fans + magnets | 03:39 |
| kanzure_ | bkero was talking about room-sized centrifuges with brushless electric motors from motorcycles or something yesterday :p | 03:39 |
| drazak | way too big | 03:40 |
| drazak | I'll just grab a case fan or something | 03:40 |
| drazak | I saw something for a blender centrifuge | 03:40 |
| kanzure_ | I'm pretty sure a blender works like a centrifuge. | 03:41 |
| kanzure_ | Motor + sit a blade on top of it. | 03:41 |
| drazak | right | 03:41 |
| drazak | you'd just have to replace the blade with something else | 03:41 |
| kanzure_ | except the blade is within the mixed contents, instead of spinning the whole vial/case | 03:41 |
| drazak | well | 03:42 |
| drazak | kind of | 03:42 |
| kanzure_ | wtf "Autism Speaks walk". rawr. I'll cure you with a foot up your ass. | 03:42 |
| * kanzure_ has a few televisions on | 03:43 | |
| kanzure_ | huh. overlap=false doesn't make overlap false in 'dot'. | 04:14 |
| bkero | what? | 04:24 |
| bkero | Centrifuges are easy | 04:24 |
| bkero | It's just a motor with a cone on it. The cone has holes drilled for vials | 04:25 |
| drazak | yeah | 04:26 |
| * ybit likes http://graphviz.org/Gallery/directed/psg.html | 04:55 | |
| ybit | and http://graphviz.org/Gallery/directed/Genetic_Programming.html | 04:56 |
| ybit | kanzure_ ^ kanzure_ | 04:56 |
| kanzure_ | mm | 04:56 |
| * kanzure_ watches some pokemon | 04:56 | |
| ybit | grr, i meant the second nick | 04:56 |
| ybit | hehe, pokemon | 04:56 |
| ybit | did anyone here play the card game? | 04:57 |
| kanzure_ | yes but no | 04:57 |
| ybit | i was the only one to own pokemon cards in my town it seems :P | 04:57 |
| kanzure_ | It turns out I wasn't really playing the game | 04:57 |
| kanzure_ | but instead "haha, this looks cooler" | 04:57 |
| kanzure_ | Nobody knew the rules anyway. | 04:57 |
| splicer | they weren´t printed on the package? | 04:58 |
| ybit | i knew how to play... by myself | 04:58 |
| ybit | luckily i would always win | 04:58 |
| splicer | magic was big here | 04:58 |
| ybit | ah, same | 04:59 |
| * ybit needs some rest since... | 04:59 | |
| ybit | i'll be getting up @ 4am to drive my mum somewhere far, far away | 04:59 |
| ybit | gn (good night) | 05:00 |
| splicer | nite | 05:00 |
| kanzure_ | in context, 'gn' makes sense here | 05:00 |
| kanzure_ | but not just randomly :) | 05:00 |
| kanzure_ | anyway. | 05:00 |
| ybit | :P | 05:01 |
| kanzure_ | Covering my tail and all. | 05:01 |
| splicer | won't help, bend over | 05:01 |
| splicer | do people listen to ACDC? | 05:02 |
| kanzure_ | Yes. | 05:02 |
| kanzure_ | <-- Metalhead. | 05:02 |
| splicer | me to | 05:02 |
| splicer | I'm a bit fascinated by the Walmart thing | 05:02 |
| kanzure_ | ? | 05:02 |
| splicer | ACDC apparently makes release their new album exclusively on walmart | 05:03 |
| kanzure_ | That's unfortunate. | 05:03 |
| splicer | the idea being that there is a walmart anywhere, but not always a record store | 05:03 |
| splicer | The thing is.. the release is in 10 days and the torrent is out now... | 05:04 |
| splicer | so much for being proactive by choosing walmart | 05:05 |
| splicer | The recordindustry have been amazingly slow in understanding what's going on... It's been like this for 10 years now... and they still don't completely get it. | 05:07 |
| splicer | An ACDC album peole are waiting for will be on the trackers about 10 days before the release date. | 05:08 |
| splicer | It's like death and taxes | 05:09 |
| kanzure_ | I hear my musician friends sometimes joking that their albums appear on torrents before they're even post-production, they listen and say "Damn, this is good shit" and use it anyway. | 05:10 |
| splicer | hehe | 05:10 |
| splicer | In a few years I think the industry maybe understands that the release date is the date the music hits the torrents... People could actually be buying ACDC albums now. | 05:12 |
| xp_prg2 | hi all! | 05:35 |
| gene | hello | 05:45 |
| gene | I accidentally the whole thing | 05:55 |
| xp_prg2 | you accidentally what? | 06:08 |
| -!- xp_prg2 is now known as xp_bed | 07:13 | |
| faceface | the app I was looking for yesterday is called vsound | 08:51 |
| faceface | http://www.vsound.org/ | 08:51 |
| faceface | fyi | 08:51 |
| faceface | but I can't make it work | 09:34 |
| -!- marcel_inuse is now known as hjkl | 10:35 | |
| -!- ybit2 is now known as ybt | 11:14 | |
| -!- ybt is now known as ybit | 11:14 | |
| fenn | now this is some pretty documentation: http://www.python.org/doc/2.6/tutorial/introduction.html | 14:20 |
| fenn | apparently that is ReStructuredText output | 14:21 |
| school_ybit | did you guys see this? http://www.youtube.com/watch?v=ynL8BCXih8U | 15:45 |
| school_ybit | probably already commented on it when my laptop was down | 15:45 |
| kanzure___ | Hello | 16:07 |
| faceface | hi | 16:28 |
| * faceface goes to conference | 16:29 | |
| * bkero remains at work | 16:29 | |
| faceface | I was working on a pdf downloader from JMB, what shall I do with the bundle? | 16:29 |
| faceface | so far I need a list of 'toc' pages | 16:29 |
| faceface | I'm sure I can find one | 16:29 |
| faceface | I was going to call my blog "decode this" - a pun on "decode me" | 16:30 |
| faceface | I'm sure you can tell me what to do with my PDF's when I get back | 16:31 |
| faceface | I named the files with a random file name... do we have a tool to look up a pdf in pubmed? | 16:31 |
| faceface | I figure its easier to apply the metadata afterwards rather than try to capture it from the journal site | 16:31 |
| faceface | any opinion? | 16:32 |
| faceface | put opinions @ the discussion group | 16:32 |
| nsh | pun does not mean what you think it does. | 16:34 |
| -!- xp_bed is now known as xp_prg | 17:28 | |
| xp_prg | fenn you here? | 18:43 |
| -!- zybit is now known as ybit | 18:47 | |
| kanzure___ | Hrm. So this is unfortunate. | 20:38 |
| bkero | Drop your gum on the floor? | 20:38 |
| fenn | bkero: i semi-randomly met corey shields at iu linux fest today | 20:39 |
| kanzure___ | The designs in the repository are ambiguous. The subcomponents and artifacts (and so on) don't have explicit connections between each other; one of the things that I was going to do was remove the input and output artifacts entirely and just focus on the functions, but as it turns out this introduces problems into the graph. | 20:39 |
| kanzure___ | I'm still trying to figure out how wrong everything is | 20:39 |
| kanzure___ | my gut tells me "very wrong" | 20:39 |
| fenn | a graph with no vertices? | 20:40 |
| fenn | yeah i'd call that a problem | 20:40 |
| kanzure___ | nope, allow me to explain | 20:40 |
| kanzure___ | apparently in the repository there are supposed to be 3 graphs | 20:40 |
| kanzure___ | an assembly graph, a 'CFG' (component function graph?), and a 'function structure' | 20:40 |
| kanzure___ | the CFG is what I already have successfully generated from the database | 20:41 |
| kanzure___ | edges and arcs are labeled with flows - like "electrical" - between components | 20:41 |
| kanzure___ | the 'function structure' is supposed to be like a black box diagram | 20:41 |
| kanzure___ | http://heybryan.org/~bbishop/docs/repo/cdd/supermax%20hair%20dryer.png | 20:41 |
| fenn | what's the diff between cfg and function structure? | 20:41 |
| kanzure___ | that last link is what a function structure would look like for the hair dryer. here's my attempt at the output: http://heybryan.org/~bbishop/docs/repo/cdd/78.png | 20:42 |
| kanzure___ | cfg and function structure diff, please hold | 20:42 |
| drazak | so I'm definitely going to setup some stuff form home PCR/electrophoresis | 20:42 |
| kanzure___ | http://heybryan.org/~bbishop/docs/repo/cdd/78_CFG.png <-- CFG. | 20:43 |
| kanzure___ | drazak: Avoid ethidium bromide. | 20:43 |
| fenn | and dont electrocute yourself either :) | 20:43 |
| kanzure___ | what do they run at these days, 200 V? | 20:44 |
| fenn | dunno, agarose is much lower thann acrylaamide of course | 20:44 |
| kanzure___ | acrylamide is the way to go as far as I'm concerned | 20:44 |
| fenn | higher volage = faster | 20:44 |
| kanzure___ | Anyway, | 20:44 |
| fenn | youur god damn ggiant png's are messing up my computer | 20:44 |
| kanzure___ | why is it loading the whole PNG at once | 20:45 |
| fenn | it's cranking away, i assume out of ram | 20:45 |
| drazak | kanzure___: I'm not worried about ethidium bromide | 20:46 |
| kanzure___ | drazak: just use something else. | 20:46 |
| drazak | are other stains as good? | 20:47 |
| kanzure___ | yeah | 20:47 |
| kanzure___ | labs down here really love sybergold | 20:47 |
| kanzure___ | or cybergold | 20:47 |
| kanzure___ | but it's commercial :( | 20:47 |
| drazak | I don't mind commercial stuff | 20:48 |
| drazak | I'm going to have to buy commercial primers | 20:48 |
| kanzure___ | Traitor. You'll be shot. | 20:48 |
| * kanzure___ queries the primerfarm for a new batch | 20:48 | |
| kanzure___ | fenn: If you have any bright ideas on getting that "function structure" / black box diagram version from the messy 78_CFG.png data set, I'm all ears. | 20:49 |
| fenn | hair dryer diagram was done by hand? | 20:49 |
| kanzure___ | yes. in a stupid program called 'conceptdraw pro' | 20:50 |
| kanzure___ | $300 pricetag .. so, yeah, hax0red that. | 20:50 |
| kanzure___ | in the XML repo, the CDD (ConceptDraw Diagram) files are inclued in the .repo files apparently | 20:50 |
| kanzure___ | but only for some of them | 20:50 |
| kanzure___ | it's done by hand and thus, yes, doesn't actually have a correlate necessarily to the xml.. | 20:51 |
| kanzure___ | certainly no specified correlate. | 20:51 |
| fenn | so that PNG is only 400k, so it's not that big | 20:56 |
| fenn | konqueror gqview and convert all take forever to load it, lots of kernel-level cpu usage? | 20:57 |
| fenn | 16000 pixels wide, no wonder | 21:09 |
| drazak | fenn: use feh to view it | 21:09 |
| fenn | convert wanted a gig of ram, so that's probably why it wasnt working (256MB on my old lappy) | 21:09 |
| fenn | feh dies repeating: libpng error: IDAT: CRC error | 21:25 |
| fenn | oo and a snow crash even | 21:26 |
| kanzure___ | wtf? | 21:26 |
| fenn | a zoomed out snow crash | 21:26 |
| fenn | feh is very fast but it crashes if i look at it wrong | 21:27 |
| fenn | anyway i can see the output as a jpeg, but it just looks like a bunch of spaghetti | 21:29 |
| bkero | fenn: What did you say to him? | 21:36 |
| bkero | fenn: Did you tell him you know me? :P | 21:36 |
| fenn | yeah i said "hi bkero mentioned me yesterday, here i am whee" | 21:37 |
| bkero | What did he say? | 21:37 |
| fenn | then he poked at the employment website for like 20 minutes talking about the way iu hires people | 21:37 |
| bkero | Was it pretty casual? | 21:37 |
| fenn | and eventually i mentioned i have a degree in microbiology and so he explained that each department had their own it specialist staff | 21:38 |
| fenn | it was a convention with tables and cookies and stuff, so yeah i guess it was casual | 21:38 |
| bkero | Heh | 21:38 |
| bkero | His nickname is C-Money | 21:38 |
| bkero | He's a bandwidth pimip | 21:39 |
| bkero | pimp | 21:39 |
| fenn | also he had this gigantic monitor showing the status of all their nodes | 21:39 |
| bkero | Hehe he probably stole that from bigscreen. | 21:39 |
| fenn | so i was sort of hypnotized by that | 21:39 |
| fenn | i also asked what the big deal was with database developers | 21:40 |
| fenn | apparently they have this database to keep track of tera grid usage, and whoever developed it left, so there's a big mess nobody understands | 21:41 |
| bkero | Hehe | 21:41 |
| bkero | So in the end was he able to help you out or point you in the right direction? | 21:42 |
| fenn | dunno, i will look at the biology department now i guess | 21:43 |
| fenn | hmm @ http://cgb.indiana.edu/employment/details/15 | 21:54 |
| fenn | i can do all that, but i bet they will ignore me because i dont have a degree in CS | 21:55 |
| bkero | Do you know anybody over ther? | 21:55 |
| fenn | no | 21:55 |
| bkero | no dude | 21:55 |
| bkero | Sysadmins don't need degrees. | 21:55 |
| bkero | Because a CS degree does not equal sysadmin. | 21:56 |
| fenn | maybe i can weasel microbiology as 'related discipline' LP | 21:56 |
| fenn | s/LP/:P/ | 21:56 |
| kanzure___ | argh | 21:56 |
| * kanzure___ whines | 21:57 | |
| bkero | Do you know what RAID, LVM, NFS, SAMBA, DNS, and processes are? | 21:57 |
| kanzure___ | I don't wanna do data entry | 21:57 |
| fenn | ya | 21:57 |
| bkero | Can you code small bash/python? | 21:57 |
| kanzure___ | bkero: uh, I think everyone here knows those :) | 21:57 |
| bkero | And can you use svn? | 21:57 |
| kanzure___ | except maybe LVM. Is that llvm? | 21:57 |
| fenn | i can do big bash/python. oog | 21:57 |
| bkero | That's all that should be required for that job. :P | 21:57 |
| bkero | No. LVM is Logical Volume Management. | 21:57 |
| kanzure___ | Corporate shit? | 21:57 |
| fenn | its like MD0 | 21:57 |
| bkero | kanzure___: Have you ever set up a RAID56 array? ;) | 21:57 |
| kanzure___ | or hdd boot sector stuff? | 21:58 |
| bkero | Yes, md? devices are lvm | 21:58 |
| bkero | er no | 21:58 |
| bkero | md? devices are software raid | 21:58 |
| fenn | why would anyone use hardware raid? it's so unreliable :) | 21:58 |
| bkero | No, LVM is what is used to make partitions resizable and encryptable. | 21:58 |
| bkero | Hardware raid performs much better than software raid. | 21:58 |
| kanzure___ | Anyway. I'm pretty sure the repository is more or less useless. Their turtles aren't uniform anyway. Bad turtles. | 21:59 |
| kanzure___ | but I'm sure as hell not going to do the reverse engineering and data entry of 150 products to seed the repositories | 22:00 |
| kanzure___ | :/ | 22:00 |
| fenn | i guess i dont know what LVM's are used for then | 22:00 |
| bkero | To logically split a disk into resizable and joinable parts. | 22:01 |
| fenn | how does it "Stripe whole or parts of logical volumes across multiple PVs, in a fashion similar to RAID0." without using /dev/md0? | 22:01 |
| bkero | LVM is split into 3 pieces. Physical volumes, (physical) volume groups, and logical volumes. | 22:01 |
| bkero | Volume groups are made of physical volumes, and logical volumes are made of volume groups. | 22:02 |
| bkero | So if I have 2 hard drives, I make them into 'physical volumes'. Then I make a volume group, and the physical volumes to it. Then, for example, I just want one big logical disk. I allocate all of the volume groups space into 1 big logical volume. | 22:03 |
| fenn | and this is not raid0? | 22:03 |
| bkero | No | 22:03 |
| drazak | fenn: hardware rade is 1000x more reliable than software | 22:03 |
| bkero | This is just LVM doing what LVM does. | 22:03 |
| fenn | drazak: i was just trolling | 22:04 |
| drazak | s/rade/raid/ | 22:04 |
| drazak | :P | 22:04 |
| fenn | drazak: lots of people have nightmares when their hardware raid card dies and they can't do shit until they get another identical one | 22:04 |
| drazak | it's because they're using subpart cards to begin with | 22:04 |
| bkero | Same case with software raid though | 22:07 |
| bkero | If your motherboard dies you can't get shit until you get another. Given, it doesn't have to be ientical. | 22:07 |
| bkero | fenn: Apply for the job. You can do it. | 22:08 |
| bkero | Sysadmin work is cake. | 22:08 |
| kanzure___ | oh | 22:10 |
| kanzure___ | Bad turtles => just means that more information has to be filled in really | 22:10 |
| kanzure___ | not that the turtles have to be exterminated | 22:10 |
| kanzure___ | Hard to fill in that extra data without actually looking at the original products though. | 22:11 |
| * kanzure___ soldiers home. | 22:11 | |
| fenn | hmm could i do LVM with a spool of DVD-R's? | 22:24 |
| bkero | uh | 22:28 |
| bkero | If you've got the drives | 22:28 |
| bkero | alla t once | 22:28 |
| fenn | that's no good | 22:28 |
| fenn | my mac plus used to say 'please insert floppy disk 23' | 22:29 |
| fenn | we seem to have lost that ability | 22:29 |
| kanzure_ | fenn: consider multi-CD installation apps | 22:33 |
| fenn | basically i want to keep track of my DVD collection without having to make some spreadsheet that doesn't directly represent the data | 22:33 |
| kanzure_ | fenn: oh my. that'd be nice :) | 22:34 |
| kanzure_ | I see what you mean with the use of LVM there. | 22:34 |
| kanzure_ | that's a simple /mnt/ hack, isn't it? | 22:34 |
| fenn | except apparently that's not what LVM does, so i still dont know what LVM does | 22:34 |
| fenn | kanzure_: have to unmount dvd to mount another one, and it wouldnt be persistent anyway (would have to cycle through all of them every boot) | 22:35 |
| kanzure_ | why would you have to cycle every boot? | 22:35 |
| kanzure_ | I'd be okay with broken file system mounts, as long as I in fact have a system for umounting and giving it to another friend for mounting | 22:36 |
| fenn | how would this mount hack work? | 22:36 |
| fenn | i'm picturing just overlapping everything on the same directory | 22:37 |
| kanzure_ | I wouldn't care if it has multiple dirs really .. as long as you have the 'direct representation of the medium' in kernel space somehow | 22:37 |
| kanzure_ | that's what your message clued me in to. | 22:37 |
| kanzure_ | everybody has lists but we all know the problem with these lists.. | 22:38 |
| fenn | lists get out of sync and require maintenance | 22:38 |
| kanzure_ | worse, it sometimes requires O(n) or O(something greater than n) maintenance | 22:39 |
| kanzure_ | hrm | 22:39 |
| kanzure_ | I need a way to distinguish O of the kernel/boxen versus O of me brain | 22:39 |
| fenn | weird this is an hourly job: I am recruiting a laboratory assistant to contribute to several epigenetic research projects investigating the role of tumor suppressor gene silencing in the pathogenesis of human gastrointestinal cancers. | 22:41 |
| kanzure_ | technically I'm working as an 'assistant' as well. | 22:42 |
| kanzure_ | in wet/bio labs, this seems to imply dish washing or standard routines, like gels over and over again | 22:42 |
| kanzure_ | in engineering labs this means just be awesome evidently | 22:42 |
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