--- Log opened Wed Aug 07 00:00:48 2013
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01:06 < drazak> kanzure: the everyone gets a trophy attitude on diybio is awful
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01:41 < nmz787> drazak: ?
01:42 < nmz787> anyone around who can help with some javascript scope crap
01:42 < drazak> nmz787: dakota's last post on diybio
01:42 < nmz787> i'm giving an element an id (it didn't have one previously) with $('blah').attr('id', someVar)
01:42 < drazak> nmz787: I'm Ben Gadoua on diybio btw
01:43 < nmz787> ?
01:43 < nmz787> i thought his post was good
01:43 < nmz787> it's nice to see some kit dev
01:43 < nmz787> i didn't really look into the specifics
01:43 < drazak> his post was awful and what we know if his method is awful
01:43 < nmz787> :/
01:44 < nmz787> he's doing something
01:44 < nmz787> personally i learned aseptic tech in my moms kitchen in highschool, seeing th eothers contam in college lab was crazy
01:45 < drazak> yeah
01:45 < drazak> but if you have the stuff to flame sterilize, which is ethanol and a lighter
01:45 < drazak> why not do it
01:45 < drazak> like... seriously
01:45 < nmz787> it doesn't say he didnt' use flame
01:45 < nmz787> oh
01:45 < nmz787> wait
01:45 < drazak> it does in the blog post
01:45 < nmz787> he did
01:45 < nmz787> :P
01:45 < nmz787> well that's pretty weird
01:46 < drazak> In this experiment, we wanted to test the bare minimum (ie, no flame, no hood) and see if we could get a control with no growth and samples that looked like endophytic fungi were growing from them.
01:46 < drazak> I'm unsure what the expense or hardship of flame sterilization is
01:46 < nmz787> in nepal they had some high grade rice ferments, not sure if they had stills, but they must have
01:47 < nmz787> dunn oif it would have burned, so that's the extreme i guess
01:47 < nmz787> but then those people without a copper coil still, wouldn't have petri dishes (glass or plastic)
01:47 < drazak> yeah
01:47 < nmz787> meh, whatever... he had decent results
01:47 < nmz787> which is a good point
01:48 < gradstudentbot> I have to read all these articles.
01:48 < nmz787> had sterile water
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01:49 < drazak> nmz787: oh you have results that are impossible to recreate?
01:49 < nmz787> yeah looks like the only contam issue would be the tweezers used to transfer
01:49 < nmz787> since after cutting he's rinsing in bleach and sterile water
01:50 < nmz787> drazak: are you still in WNY?
01:52 < drazak> no
01:52 < drazak> vancouver
01:52 < drazak> looking at my old posts? :P
01:53 < nmz787> openwetware
01:53 < nmz787> BC or WA?
01:53 < nmz787> I'm just outside Portland OR now
01:53 < nmz787> (used to be in Rochester NY)
01:53 < nmz787> so we have moved in parallel somewhat
01:54 < drazak> BC
01:54 < drazak> oh right openwetware was a thing
01:55 < nmz787> /is/
01:59 < drazak> wonder what my user account's name is
02:02 < drazak> oh hey found it
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05:18 < ParahSail1n> the flame sterilization is kind of a voodoo ritual
05:19 < drazak> ParahSail1n: dunno about that
05:19 < ParahSail1n> my last lab didnt have convenient gas outlets on the desk so we just didnt do that mysticism
05:19 < ParahSail1n> i just held my breath and didnt let stuff uncovered for very long
05:20 < ParahSail1n> never got a bottle of lb contaminated
05:20 < ParahSail1n> maybe the holding the breath was also mysticism though
05:21 < drazak> yeah maybe
05:22 < ParahSail1n> but i poured plates like that too
05:38 < drazak> ParahSail1n: dunno, I'm in the "better safe than sorry" camp
05:39 < drazak> ParahSail1n: mysticism about baked upippette tips instead of just autoclaved, etc
05:39 < ParahSail1n> baked?
05:41 < drazak> ParahSail1n: read under tips and tubes http://www.invitrogen.com/site/us/en/home/References/Ambion-Tech-Support/nuclease-enzymes/general-articles/the-basics-rnase-control.html#1
05:42 < drazak> ParahSail1n: if you are getting pipette tips that need to be autoclaved anyway, you need to bake them to ensure they are RNAase free
05:44 < ParahSail1n> i just used bought tips
05:44 < ParahSail1n> for when i was doing molecular stuff
05:44 < drazak> yeah if your lab is cheap as fuck you need to do that sort of stuff
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07:32 < chido> I set my hair on fire once, I could do without the ritual
07:47 < ParahSailin> any suitable sacrifice will power the ritual
07:48 < ParahSailin> doesnt have to be natural gas
07:49 < ParahSailin> i know people who leave one plate intentionally uncovered as the sacrifice
07:49 < ParahSailin> that plate gets infected and everything else gets spared
07:50 < ParahSailin> blood sacrifice is another classic
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08:15 <@kanzure> drazak: yes, the trophies-for-everyone attitude is terrible. "my journey is about doing science without doing science. teehee!"
08:16 <@kanzure> nmz787: openwetware.org is sorta dead. they fired their staff and sysadmin.
08:17 <@kanzure> ParahSailin: maybe there is a way to automate the blood sacrifice
08:19 < ParahSailin> not really a need to automate that, an ounce of blood has the same efficacy whether sacrificed all at once or spread over the course of the hour
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08:22 < ParahSailin> also doesnt seem to matter if the method of sacrifice is fire, spilling on soil, or poured down drain or toilet
08:22 < drazak> kanzure: yeah...
08:22 < drazak> kanzure: I'm not saying these people are all necessarily doing bad science
08:30 < anannie> paperbot: http://ieeexplore.ieee.org/xpl/articleDetails.jsp?arnumber=6114145
08:30 < paperbot> http://libgen.org/scimag/get.php?doi=10.1109%2FLAPC.2011.6114145
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08:37 < drazak> kanzure: do I need something to be able to get the papers from the link paperbot gives? I just get a blanke page >.>
08:38 <@kanzure> no, you just need to complain at ParahSailin because he was the one who broke paperbot (the get.php stuff doesn't work)
08:38 <@kanzure> eventually he will either disable it or fix it
08:40 < drazak> kanzure: was I too rude to dakota?
08:40 < Adillian> hey
08:40 < drazak> ahoy
08:40 < Adillian> what's the consensus on psychoanalysis in here? important for interactions or not worth learning?
08:40 <@kanzure> drazak: no. i am the king of rudeness so i'm a little biased.
08:41 < drazak> kanzure: heh
08:41 < Adillian> http://changingminds.org/ - this is the best I've found at the moment
08:41 < drazak> kanzure: dunno but there is a lot of fucking useless halfassed shit on diybio
08:41 < Adillian> but I get the feeling that a lot of the more capable stuff is kept quiet about, due to the power it would grant people over one another
08:41 < drazak> kanzure: do I still have dit rights on openwetware
08:41 <@kanzure> drazak: openwetware.org is unmaintained
08:41 <@kanzure> Adillian: you're reading too much into it and you're falling for a scam
08:42 < drazak> kanzure: oh nmz787 was saying it's still a thing
08:42 < drazak> I didn't think it was
08:42 < Adillian> kanzure ; you've never attempted to illicit information from someone?
08:42 <@kanzure> nmz787 was wrong. they fired bill like 4 years ago.
08:42 <@kanzure> Adillian: you don't need to use "psychoanything" to get information from people.
08:42 < drazak> oh rofl
08:42 < ParahSailin> you have illicit information?
08:42 < Adillian> there's no scam, this particular site may not be great..
08:42 < drazak> no wonder there isn't a lot more stuff on it
08:42 < Adillian> people lie, reading lies at the very least is useful
08:42 < drazak> ParahSail1n: hey fix get.php ya bum
08:42 <@kanzure> Adillian: are you on any drugs
08:43 < Adillian> then there's learing to lie yourself
08:43 < Adillian> kanzure: explain?
08:43 <@kanzure> Adillian: most psychoanything sites are full of shit.
08:43 <@kanzure> Adillian: it's not worth your time.
08:43 < ParahSailin> drazak: rational apathy-- paperbot does everything for me that i need
08:43 < Adillian> forget the word psychoanalysis.... let's start again. How can I best figure out how to understand other people
08:43 < drazak> ParahSailin: well fix it so I can get papers again >.>
08:43 <@kanzure> Adillian: fuck other people, what have they ever done for you
08:44 < Adillian> there are a few obvious ones that people pick up in primary school..
08:44 < ParahSailin> drazak: give me a sufficient carrot
08:44 < Adillian> fuck them? ok, what better way than to understand them and get information out of them that they don't want you to see?
08:44 <@kanzure> blackmail
08:44 < Adillian> why the hostility against this topic? bizarre
08:44 <@kanzure> because you seem to be bad at it
08:44 < ParahSailin> #lesswrong is a channel that likes to talk about psychology and dark arts
08:44 < Adillian> blackmail is dangerous, and wastes opportunities, why burn them?
08:44 < ParahSailin> maybe you want to go there
08:44 < drazak> ParahSailin: eternal gratitude
08:44 <@kanzure> oh yeah, that's true
08:45 <@kanzure> go over there
08:45 <@kanzure> instead of here please.
08:45 < Adillian> kanzure: i'm bad at it? ok.. forget this I don't know what your hostility against this is, it's just a question. I'll leave it.
08:45 < Adillian> I will go there... thanks anyway
08:45 <@kanzure> i am just generally hotsile. fuck off.
08:46 < Adillian> ok :)
08:46 <@kanzure> i am allowed to be hostile
08:46 <@kanzure> blah
08:46 <@kanzure> ParahSailin: did you write a downloader by any chance?
08:47 < ParahSailin> ParahSail1n: nah i went to sleep last night
08:47 <@kanzure> what
08:47 <@kanzure> are you talking to yourself
08:48 < drazak> lol
08:48 < ParahSailin> what ok i didnt get enough sleep either
08:48 < drazak> kanzure: people in here talking to themselves?
08:48 < drazak> well that's new
08:48 <@kanzure> yeah, ParahSailin == ParahSail1n
08:48 <@kanzure> or ===
08:48 <@kanzure> too much javascript :(
08:56 <@kanzure> http://git.io/top pfft substack is #9. he is slacking.
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09:05 < Not-003> [kanzure/papermonk] kanzure pushed 1 commit to master [+0/-0/±1] http://git.io/kyWiPw
09:05 < Not-003> [kanzure/papermonk] kanzure 72d6fd2 - remove plan() calls because end() is called anyway
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09:19 < chido> we actually had a sort of blood sacrifice at the lab today, my colleague ran into a door on his way to pick up his gel and had to do the purifying with a bleeding nose
09:26 < Not-003> [kanzure/papermonk] kanzure pushed 2 commits to master [+0/-0/±2] http://git.io/A37qpg
09:26 < Not-003> [kanzure/papermonk] kanzure 4c8279a - README: change section headers in markdown
09:26 < Not-003> [kanzure/papermonk] kanzure b428f5b - README: art/bling because why not?
09:27 <@kanzure> there.. https://github.com/kanzure/papermonk#readme
09:27 <@kanzure> cogitokat: thanks
09:28 < cogitokat> kanzure, sure thing!
09:28 < cogitokat> :D
09:30 < Not-003> [kanzure/papermonk] kanzure pushed 1 commit to master [+0/-0/±1] http://git.io/lygSJQ
09:30 < Not-003> [kanzure/papermonk] kanzure 283dbef - README: bibliometric -> bibliographic
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10:17 <@kanzure> https://github.com/CrowdStrike/Tortilla
10:17 <@kanzure> https://media.blackhat.com/us-13/US-13-Geffner-Tor...-All-The-Things-WP.pdf
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13:01 < nmz787> http://www.popsci.com/science/article/2013-08/19-year-old-biotech-enthusiast-will-trade-coffee-beans-lab-equipment
13:01 < nmz787> "Nona Griffin reports on DIYbio and bioart. She was most recently a science fellow at the Eugene Lang College of the New School for Liberal Arts. Follow her on Twitter."
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13:17 < nsh> NU
13:18 < nsh> .twho NanosByNona
13:18 < yoleaux> @NanosByNona is “Nona Griffin” in New York — DIYbio &Bioart Reporter — and has 2 tweets, 4 followers, and follows 19.
13:18 <@kanzure> "Genspace is hosting the journal club, and we will be connecting via zoom.us.  If you would like to join the meeting from afar (will not be at BioCurious), please make a zoom.us account and send me an email if you have not done so already. We will send the meeting link out to the group so all can attend."
13:18 <@kanzure> "2012 Jinek paper, Science Vol 337, 2012."
13:20 < nmz787> guess this http://genetics.wustl.edu/bio5491/files/2013/03/Jinek-et.-al.-2012.pdf
13:21 < nmz787> CRISPR stuff
13:54 < heath> will someone in japan purchase this and ship it my way? http://www.7netshopping.jp/books/search_result/?fromSearchPage=1&title=&writer=&publisher=&info=&code=9784063648492&ctgySearchDetail=&extract=0&allGoods=0&nobuy=off&bprice=off&no_zaiko=off&publish_sy=&publish_sm=&publish_ey=&publish_em=&priceClassFrom=&priceClassTo=&submit22.x=0&submit22.y=0
13:55 < heath> sometime around xmas preferably
13:55 < heath> http://www.7netshopping.jp/books/detail/-/accd/1102999920/subno/1 is the better link
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13:58 < heath> makoLime_origina: ping
13:58 < heath> you're japanese right? :P
13:58 < nmz787> there needs to be a reliable online simpsons video snippet finder and link generator
13:59 < makoLime_origina> heath, no.
13:59 < makoLime_origina> Nor a weaboo.
13:59 < nmz787> like, i want to send my fried maybe 5 secs of a simpsons episode where Homer chokes a carboxyl group on a molecule model
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14:00 < nmz787> hmm, this is as close as it gets http://babysimpson.co.uk/info/stranglings/small/aabf22_2.jpg
14:02 < nmz787> heath: what is it?
14:02 < nmz787> says ISBN but looks like a pocket pikachu
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14:27 < heath> nmz787: i think it's special edition manga for the moyashimon series
14:27 < heath> probably shows different types of drinks popular in japan around that time, with a focus on the microbes used in making them
14:27 < heath> http://web.media.mit.edu/~mellis/cellphone/index.html
14:28 < heath> i'm thinking yes
14:29 < heath> every cell phone i purchase these days breaks in a matter of months, this seems like it might last me a little longer
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14:38 < nmz787> lol
14:39 < nmz787> i've dropped this HTC evo 4g out of a moving car at ~40 MPH and it's still fine
14:39 < nmz787> was filming the road
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14:40 < nmz787> it came apart in pieces, it wouldn't boot until i reflashed the ROM (but the bootloader has a recovery, and I had a backup on the SD card, so I was back up in ~10 mins after I felt it was dry enough)
14:40 < nmz787> (since it was also winter and a wet/snowy road in mountains
14:40 < nmz787> )
14:42 < heath> please don't tell me your war stories of your phones surviving falls, it makes me sick
14:42 < heath> :)
14:47 < heath> well that's settled, i'm building one of these
14:47 <@kanzure> building a who what?
14:48 < heath> software
14:48 < heath> https://github.com/damellis/cellphone2
14:49 < heath> hardware
14:49 < heath> https://github.com/damellis/cellphone2hw
14:49 < heath> lcd variant: https://github.com/damellis/cellphone2hw/blob/master/Components/BOM.pdf?raw=true
14:49 < heath> bom for lcd variant*
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14:59 < poppingt`> what's that weird where the Github logo usually is?
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14:59 < poppingt`> weird icon*
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15:15 < nmz787> heath just get a MIL grade phone, the republic wireless phone is one of those
15:15 < nmz787> can't beat the $20 or $30 a month either for 3G
15:21 < Urchin[emacs]> mil grade?
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15:32 < heath> Urchin[emacs]: mil as in .mil as in military :)
15:32 < heath> see http://www.alibaba.com/showroom/military-grade-phones.html
15:34 < gradstudentbot> My experiment was working a second ago, but now it doesn't even work.
15:34 < nmz787> actually I was talking about this MIL-STD-810
15:35 < nmz787> add that to your favorite phone manufacturer on google
15:36 < nmz787> here's a list of some http://www.mobilephonedevelopment.com/RuggedAndroid/
15:37 < panax> they still most likely won't meet temp specs for mil-std-810
15:37 < nmz787> otherwise i have a few older phones i could sell you
15:37 < nmz787> vey strong!
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15:38 < gradstudentbot> You don't happen to have any more virgin flies, do you?
15:39 < nmz787> panax: rugby says 160F
15:39 < nmz787> http://www.samsung.com/us/mobile/cell-phones/SGH-I847ZKAATT-features
15:39 < nmz787> 4G
15:39 < nmz787> gingerbread 2.3 :(
15:39 < nmz787> but 1.4 GHz would prob be prety snappy
15:39 < panax> ok but maybe not on the low end
15:40 < nmz787> you mean price?
15:40 < panax> but doesn't matter anyway
15:40 < panax> like -40C
15:41 < nmz787> says -60F
15:41 < heath> nmz787: the screen still looks vulnerable in a case like that, at least with the open phone i can replace the screen for a relatively cheap cost
15:41 < nmz787> huh, they're relatively cheap on ebay
15:41 < panax> hard to get a display/batteries that do that...
15:41 < nmz787> i was thinking of a phone to get my dad
15:42 < heath> do you have any rugged cdma phones, gsm coverage around here sucks
15:44 < nmz787> this was my old phone that I believe I still have... been through hell and still works great http://www.phonescoop.com/phones/phone.php?p=1042
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15:46 < nmz787> republic wireless is also cdma... but i heard you can't always use used phones for new $20/mo accounts
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16:13 < heath> eh, i'll just go with the diy cellphone
16:14 < nmz787> really?
16:14 < nmz787> that seems much less rugged
16:15 < nmz787> a lot more work than paying some ebayer $5 to $100
16:16 < gnusha_> https://secure.diyhpl.us/cgit/paperbot/commit/?id=b3dd17e1 Bryan Bishop: README: fix minor markdown formatting
16:16 < gnusha_> https://secure.diyhpl.us/cgit/paperbot/commit/?id=bca705c5 Bryan Bishop: README: update $LOGGING description
16:16 < gnusha_> https://secure.diyhpl.us/cgit/paperbot/commit/?id=14bf5e14 Bryan Bishop: README: art, because why not?
16:16 < gnusha_> paperbot: reload papers
16:16 <@kanzure> there... now we have a pic of paperbot, https://github.com/kanzure/paperbot
16:17 < nmz787> your original art?
16:17 <@kanzure> no, it was drawn by cogitokat
16:18 <@kanzure> same as https://github.com/kanzure/papermonk
16:19 < nmz787> papermonk?
16:19 < nmz787> is this a zotero like thing?
16:20 <@kanzure> it is going to replace zotero's translator infrastructure with something that works in both node and inside browsers
16:20 <@kanzure> and then we'll switch out paperbot's internals with papermonk instead of paperbot having to be both python and zotero and all the other junk
16:20 < nmz787> hopefully that means it will be easier for me to fix 'trasnlators'
16:20 <@kanzure> yep that's the plan
16:20 <@kanzure> zotero's translators are all poorly written, and the idea is to make sure they are all testable and always working
16:21 <@kanzure> and then be notified when they stop working within 5-15 minutes
16:21 <@kanzure> if successful, it should be easy to replace zotero's js stuff with papermonk things instead. but i will have to write them a small wrapper i think.
16:28 <@kanzure> i was going to make an example module today
16:29 < nmz787> hmm, it would be nice if you could 'train' a translator using mouse clicks
16:30 < nmz787> 'select abstract text'
16:30 < nmz787> and it figures out what elements need to be scraped
16:30 < nmz787> 'select pdf link'
16:30 <@kanzure> sure, that could be done since it's all javascript. it could work via a proxy server that injects a small amount of javascript into the page, then you click things and it records the selectors.
16:30 < nmz787> etc
16:30 < gradstudentbot> Is there free food at that seminar?
16:34 < anannie> Is YC worth it?
16:34 <@kanzure> worth 7% of your company? that depends, what is your company worth?
16:36 < anannie> Hopefully that's going to be a very large figure
16:36 <@kanzure> uh
16:37 <@kanzure> no, i mean, right now
16:37 < anannie> We don't have a valuation yet. Our YC experience is going to be our first pre-investment valuation
16:39 <@kanzure> anannie: http://diyhpl.us/~bryan/venture-deals.pdf
16:41 < anannie> Wow. thanks!
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17:00 <@kanzure> haha chrome://settings/passwords
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17:04 < panax> http://news.cnet.com/8301-1009_3-57597364-83/chrome-password-security-issue-stirs-debate/
17:04 <@kanzure> haha cnet. yeah..
17:05 < panax> there's no good reason to use that feature ever
17:07 <@kanzure> there's no good reason to use cnet either
17:10 < nmz787> meh, i saw it a while ago, and even used it to show a password i'd forgot
17:10 < nmz787> what's the problem again?
17:10 <@kanzure> i was just laughing at it. i didn't know the exact uri. and now i do.
17:11 <@kanzure> the problem is that users aren't informed about security and i imagine that's what the cnet thing is about
17:11 <@kanzure> but i don't think anyone is supposed to be surprised by that
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17:32 < nmz787> there's really no better way to keep things secure other than good practices, it seems
17:32 < nmz787> even if you have things in a truecrypt volume, if you're using if the key is in RAM
17:33 < nmz787> if you're using the truecrypt volume the truecrypt decryption key is in RAM
17:33 < nmz787> *
17:33 < panax> cold boot attack
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17:47 < nsh> i prefer the "cold boot stomping on a human face forever" attack
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17:49 < anannie> heh
17:50 <@kanzure> anannie: are you the one selling bras?
17:50 < anannie> Nope.
17:50 <@kanzure> k, different person
17:50 < anannie> that's Nali
17:50 <@kanzure> oh that was nalannaie
17:50 <@kanzure> oh right
17:50 <@kanzure> whatever.
18:06 < poppingtonic> paperbot: http://www.sciencemag.org/content/332/6027/339
18:07 < paperbot> http://libgen.org/scimag/get.php?doi=10.1126%2Fscience.1201959
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18:35 < ParahSail1n> library piracy site for your filing compulsion: http://aaaaarg.org/
18:35 < ParahSail1n> mostly liberal arts stuff from the looks of it though
18:36 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=fdbee23f Bryan Bishop: another article piracy thing
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18:39 <@kanzure> ParahSail1n: i don't think downloader.test(url) and downloader.download(url, options, callback) is enough. there should be more functions i think.
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18:39 <@kanzure> ParahSail1n: i'm not sure what they should be yet.
18:40 <@kanzure> stuffing everything into download() is a dumb idea
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18:55 < ParahSail1n> .title http://www.priceplow.com/blog/soylent-subterfuge
18:55 < yoleaux> Soylent Subterfuge: When a Bad Joke Turns into a Business
18:58 < Not-003> [papermonk-downloader-plosone] kanzure pushed 1 commit to master [+7/-0/±0] http://git.io/uXji5A
18:58 < Not-003> [papermonk-downloader-plosone] kanzure bd4774a - papermonk scraper for plosone.org This is a first version of a downloader module for papermonk, meant to serve as an example for implementing other modules. At the moment, the actual paper downloading code is not implemented because it's silly to stuff everything into the "download" function, maybe this concept should be split up into multiple methods instead. version bump to: 0.0.1 (initial commit)
18:58 < Not-003> [papermonk-downloader-plosone] kanzure tagged bd4774a as v0.0.1 http://git.io/aTEvyg
19:00 < poppingtonic> kanzure: hi what do I need to learn to contribute to papermonk's downloader?
19:02 <@kanzure> i am not ready yet because i am still figuring out the api
19:02 <@kanzure> right now downloaders only have two methods: test and download
19:02 <@kanzure> but that doesn't make much sense to me
19:02 <@kanzure> because maybe you just want the abstract on a page?
19:02 < Not-003> [kanzure/papermonk] kanzure pushed 1 commit to master [+0/-0/±3] http://git.io/IS5YpA
19:03 < Not-003> [kanzure/papermonk] kanzure b372907 - replace stubs with papermonk-downloader-plosone This is the first papermonk module, hooray! version bump to: v0.0.3
19:03 < Not-003> [kanzure/papermonk] kanzure tagged b372907 as v0.0.3 http://git.io/AmZhTg
19:04 <@kanzure> download is supposed to take url, options (a dictionary), and a callback. so all of the download() methods will have to look at options extensively? that doesn't seem right. that should be moved into papermonk.download() and then papermonk.download() could choose which methods to call on the downloader. but i don't know how i want to separate the functions yet.
19:07 <@kanzure> maybe each downloader should have a few different prototypes- Paper, Abstract, Pdf, PdfBundle, Journal, and each one could be separately interrogated.
19:10 <@kanzure> ParahSail1n: halp
19:12 <@kanzure> really it would be best if the downloader only accepts an html blob as input, and then you pass that html blob to it and then see what it does to it
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19:50 < panax> Francis Collins, director of the National Institutes of Health, has brokered a deal with the family of Henrietta Lacks to release the genetic sequence of the HeLa cell line to researchers
19:51 <@kanzure> .title https://www.youtube.com/watch?v=IECBj8v60Wk&t=6mac
19:51 < yoleaux> Giant Robot Day! Aug 06 2013 (GRP 92) - YouTube
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20:09 < ParahSail1n> kanzure, depends whether you want to do "pure" transformations on the results of getting that url or if you need to do navigation to other pages from there
20:09 <@kanzure> oh yeah, navigations. damn.
20:10 <@kanzure> each downloader could be a state machine. and papermonk would grab the next page of html? hrm.. no.
20:12 <@kanzure> i like the idea of a paper scraper state machine
20:12 <@kanzure> instead of just a giant pile of spaghetti in download()
20:16 <@kanzure> brownies: architecture advice?
20:23 < ParahSail1n> well thats why i suggested monadic/functor structure
20:24 < ParahSail1n> having to work in the web browser (and be javascript) is a bit of a constraint
20:24 <@kanzure> what constraints are you thinking of? i can probably show you otherwise.
20:24 < ParahSail1n> id say let zotero folks worry about running stuff in a browser
20:25 <@kanzure> what do you think is impossible to do in the browser ?
20:26 < ParahSail1n> well javascript has first order everything for the most part, but i think scrapers would end up looking just like zotero's translators
20:27 <@kanzure> yeah it's pretty sloppy
20:27 <@kanzure> https://github.com/zotero/translators/blob/master/EBSCOhost.js
20:27 <@kanzure> i think a state machine would be a good improvement over this
20:29 <@kanzure> take a look at https://gist.github.com/kanzure/80badcf6c66c7a3d8d8e#file-spatula-coffee
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20:37 <@kanzure> i guess that's not the most beautiful example of a state machine-based scraper
20:51 < jmil> kanzure: http://blog.reprap.org/2013/08/announcing-amri-advanced-manufacturing.html
20:51 < jmil> kanzure: thoughts appreciated
20:52 <@kanzure> .title http://open3dlp.blogspot.com/
20:52 < yoleaux> Project Open3DLP
20:52 <@kanzure> .title http://opensls.tumblr.com/
20:52 < yoleaux> Open SLS: An Open Source Selective Laser Sintering
20:52 <@kanzure> my only complaint is why does it need a new organization. why not just RRRF.
20:52 <@kanzure> i don't get it "DONATE: You can donate tax-deductible funds directly to AMRI through Rice University's 501c3 here."
20:53 <@kanzure> oh maybe RRRF is only registered in the uk
20:54 < jmil> kanzure: rrrf is too narrow. this is going to be bigger. also Hoeken said he would redirect rrrf to AMRI
20:54 < jmil> so it's resurrection of RRRF
20:54 <@kanzure> there hasn't been RRRF things going on?
20:54 < jmil> kanzure: go to the site :D
20:54 <@kanzure> also, yeah, i imagine zach is butthurt and wants to get back to doing things his way :)
20:54 < jmil> http://www.rrrf.org/
20:54 < jmil> it's dead
20:55 <@kanzure> i see. makes sense.
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20:56 < jmil> kanzure: regarding Rice, it's a bit of a chicken and egg problem. we can't incorporate until we launch. we can't launch until we incorporate. so rice is providing administrative overhead for free as personal favor to me. also all donations are tax deductible since they will be the funnel. so we are cleared for launch although we are not independent 501c3. yet.
20:56 < jmil> but i envision people can setup local AMRI anywhere.
20:56 < jmil> that is my hope kanzure
20:56 <@kanzure> why the focus on young people?
20:57 < jmil> based on the belief that it's the best time to reinforce their interest in making stuff, and open source
20:57 < jmil> but AMRI fellowships will be open in the future to "anyone who wants to learn"
20:57 <@kanzure> because people over the age of 25 aren't capable of contributing to open source projects?
20:57 <@kanzure> that part sounds sketchy
20:57 < jmil> ok i can take out young
20:57 < jmil> "young"
20:57 <@kanzure> young-friendly is an okay thing to promote i think
20:57 < jmil> nothing is set in stone
20:58 <@kanzure> the other thing is that if i was doing this i would want to enforce some rather strict requirements on open hardware projects
20:58 < jmil> i think also companies like to donate stuff more to "students". but i didn't want to limit to students. so i call it "young makers". but young can be anyone under 70 :D
20:58 <@kanzure> because otherwise you're going to be dumping in money to people doing really cool things, but they won't be doing responsible version control or anything
20:59 < jmil> kanzure: we don't want to force "open" for AMRI. we want companies to be open to sponsoring amri fellows
20:59 <@kanzure> open source was the business friendly side of free software, you know
20:59 <@kanzure> that's the whole point of open.. business friendly.
20:59 < jmil> the version control model is still being defined
20:59 < jmil> right now everyone has a github or thingiverse
20:59 <@kanzure> thingiverse doesn't count because it's a proprietary blackhole of misery
21:00 <@kanzure> zach should be against it
21:00 <@kanzure> after what happened
21:00 < jmil> thingiverse is better than nothing. and by the end of month we should have him trained in github
21:00 <@kanzure> him=?
21:00 < jmil> don't read too much into things
21:00 < gradstudentbot> Who's in charge of the master mix?
21:00 < jmil> him as in the guy who posted his project on thingiverse
21:00 <@kanzure> he already publishes things here https://github.com/hoeken
21:00 < ParahSail1n> oh hey jmil
21:00 < jmil> o/ ParahSail1n
21:01 < jmil> gradstudentbot: whut?
21:01 < gradstudentbot> Nobody is even going to read this paper.
21:01 <@kanzure> gradstudentbot: don't you have a few more pages to write?
21:01 < gradstudentbot> I am still writing a draft.
21:01 < ParahSail1n> a couple guys here wanted to use your lab as the drop for various reagent orders
21:01 < jmil> ParahSail1n: whut?
21:01 <@kanzure> oh yeah, the running joke is that you're the new address to ship everything to
21:01 < jmil> so confused
21:02 < ParahSail1n> sigma won't send anthrax to residential addresses
21:02 < jmil> omfg
21:02 <@kanzure> or primers
21:02 < jmil> OMFG
21:02 < jmil> please dont
21:02 <@kanzure> nobody has shipped anything, relax. it was just a joke. "Rice University c/o jmil for those irc guys"
21:03 < jmil> lmao
21:03 <@kanzure> also, gradstudentbot is just a bot and not a person
21:03 < gradstudentbot> Oh a sales rep? No, I'm not busy, sure I have time to talk.
21:03 <@kanzure> he is a fairly accurate emulator of your average molecular biology grad student
21:03 < ParahSail1n> we're joking but what's your MS just in case
21:03 < jmil> kanzure: so, anyway. thanks for your suggestions. this is very helpful
21:03 < jmil> lmao
21:04 < jmil> ParahSail1n: have you been to rice before?
21:04 < ParahSail1n> too long
21:04 < jmil> oh right i forgot
21:04 <@kanzure> you two haven't met yet?
21:04 < jmil> can't remember
21:04 < ParahSail1n> havent met yet
21:05 <@kanzure> you could geek out about broken cell media recipes
21:05 < ParahSail1n> i should go check out your lab sometime
21:05 <@kanzure> .. or whatever it is biology people do together.
21:06 < yashgaroth> drink?
21:06 < ParahSail1n> since you're associate professor i take it you're in the lab on weekends?
21:08 < jmil> assistant professor. so, def. but traveling a lot too
21:08 < jmil> leaving lab now in fact. bbl :D
21:09 < heath> jmil: ParahSail1n did get ricin through though ;P
21:09 < heath> http://ellingtonlab.org/blog/2011/11/03/on-ricin/
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21:12 < heath> "these effin calculations"
21:12 < heath> from a grad student
21:12 < heath> gradstudentbot: add
21:12 < gradstudentbot> My project sucks.
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21:13 < ParahSail1n> ping timeouts instead of /quits suck
21:14 < ParahSail1n> dont worry guise ill figure out his mailstop number and intercept packages before he gets to work
21:14 <@kanzure> thanks
21:15 <@kanzure> paperbot: http://www.opticsinfobase.org/boe/abstract.cfm?uri=boe-4-9-1533
21:15 < paperbot> http://libgen.org/scimag/get.php?doi=10.1364%2FBOE.4.001533
21:15 <@kanzure> "Single-cell optoporation and transfection using femtosecond laser and optical tweezers"
21:15 <@kanzure> "In this paper, we demonstrate a new single-cell optoporation and transfection technique using a femtosecond Gaussian laser beam and optical tweezers. Tightly focused near-infrared (NIR) femtosecond laser pulse was employed to transiently perforate the cellular membrane at a single point in MCF-7 cancer cells. A distinct technique was developed by trapping the microparticle using optical tweezers to focus the femtosecond laser precisely on ...
21:15 <@kanzure> ... the cell membrane to puncture it. Subsequently, an external gene was introduced in the cell by trapping and inserting the same plasmid-coated microparticle into the optoporated cell using optical tweezers. Various experimental parameters such as femtosecond laser exposure power, exposure time, puncture hole size, exact focusing of the femtosecond laser on the cell membrane, and cell healing time were closely analyzed to create the optimal ...
21:15 < ParahSail1n> biggest bitcoin scam yet https://bitcointalk.org/index.php?topic=264098.0
21:15 <@kanzure> ... conditions for cell viability. Following the insertion of plasmid-coated microparticles in the cell, the targeted cells exhibited green fluorescent protein (GFP) under the fluorescent microscope, hence confirming successful transfection into the cell. This new optoporation and transfection technique maximizes the level of selectivity and control over the targeted cell, and this may be a breakthrough method through which to induce ...
21:16 <@kanzure> ... controllable genetic changes in the cell."
21:16 < ParahSail1n> this time the asic miner pre-orders
21:16 <@kanzure> .title
21:16 < yoleaux> WTF Avalon? Ship the Chips!
21:19  * heath waves gn
21:22 <@kanzure> ParahSail1n: feel free to write a downloader your way, because i'm not going to write anything else tonight
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23:39 < Lemminkainen> paperbot: http://www.ncbi.nlm.nih.gov/pubmed/20585901
23:39 < paperbot> http://libgen.org/scimag/get.php?doi=10.1007%2Fs12033-010-9302-5
23:46 -!- cpopell is now known as stieruridir
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