| --- Log opened Wed Aug 07 00:00:48 2013 | ||
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| drazak | kanzure: the everyone gets a trophy attitude on diybio is awful | 01:06 |
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| nmz787 | drazak: ? | 01:41 |
| 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 | 01:42 |
| 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 | :/ | 01:43 |
| 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 | 01:44 |
| 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 | 01:45 |
| 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 | 01:46 |
| 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 | 01:47 |
| gradstudentbot | I have to read all these articles. | 01:48 |
| nmz787 | had sterile water | 01:48 |
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| 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 | 01:49 |
| nmz787 | drazak: are you still in WNY? | 01:50 |
| drazak | no | 01:52 |
| drazak | vancouver | 01:52 |
| drazak | looking at my old posts? :P | 01:52 |
| 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 | 01:53 |
| drazak | BC | 01:54 |
| drazak | oh right openwetware was a thing | 01:54 |
| nmz787 | /is/ | 01:55 |
| drazak | wonder what my user account's name is | 01:59 |
| drazak | oh hey found it | 02:02 |
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| ParahSail1n | the flame sterilization is kind of a voodoo ritual | 05:18 |
| 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 | 05:19 |
| ParahSail1n | never got a bottle of lb contaminated | 05:20 |
| ParahSail1n | maybe the holding the breath was also mysticism though | 05:20 |
| drazak | yeah maybe | 05:21 |
| ParahSail1n | but i poured plates like that too | 05:22 |
| drazak | ParahSail1n: dunno, I'm in the "better safe than sorry" camp | 05:38 |
| drazak | ParahSail1n: mysticism about baked upippette tips instead of just autoclaved, etc | 05:39 |
| ParahSail1n | baked? | 05:39 |
| 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 | 05:41 |
| 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 | 05:42 |
| 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 | 05:44 |
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| chido | I set my hair on fire once, I could do without the ritual | 07:32 |
| ParahSailin | any suitable sacrifice will power the ritual | 07:47 |
| ParahSailin | doesnt have to be natural gas | 07:48 |
| 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 | 07:49 |
| ParahSailin | blood sacrifice is another classic | 07:50 |
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| @kanzure | drazak: yes, the trophies-for-everyone attitude is terrible. "my journey is about doing science without doing science. teehee!" | 08:15 |
| @kanzure | nmz787: openwetware.org is sorta dead. they fired their staff and sysadmin. | 08:16 |
| @kanzure | ParahSailin: maybe there is a way to automate the blood sacrifice | 08:17 |
| 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 | 08:19 |
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| 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 | 08:22 |
| 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 | 08:30 |
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| drazak | kanzure: do I need something to be able to get the papers from the link paperbot gives? I just get a blanke page >.> | 08:37 |
| @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 | 08:38 |
| 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. | 08:40 |
| 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 | 08:41 |
| 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 | 08:42 |
| 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 | 08:43 |
| 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 | 08:44 |
| @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. | 08:45 |
| 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? | 08:46 |
| ParahSailin | ParahSail1n: nah i went to sleep last night | 08:47 |
| @kanzure | what | 08:47 |
| @kanzure | are you talking to yourself | 08:47 |
| 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 :( | 08:48 |
| @kanzure | http://git.io/top pfft substack is #9. he is slacking. | 08:56 |
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| 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 | 09:05 |
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| 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 | 09:19 |
| 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? | 09:26 |
| @kanzure | there.. https://github.com/kanzure/papermonk#readme | 09:27 |
| @kanzure | cogitokat: thanks | 09:27 |
| cogitokat | kanzure, sure thing! | 09:28 |
| cogitokat | :D | 09:28 |
| 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 | 09:30 |
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| @kanzure | https://github.com/CrowdStrike/Tortilla | 10:17 |
| @kanzure | https://media.blackhat.com/us-13/US-13-Geffner-Tor...-All-The-Things-WP.pdf | 10:17 |
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| 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." | 13:01 |
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| nsh | NU | 13:17 |
| 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." | 13:18 |
| nmz787 | guess this http://genetics.wustl.edu/bio5491/files/2013/03/Jinek-et.-al.-2012.pdf | 13:20 |
| nmz787 | CRISPR stuff | 13:21 |
| 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 | 13:54 |
| heath | sometime around xmas preferably | 13:55 |
| heath | http://www.7netshopping.jp/books/detail/-/accd/1102999920/subno/1 is the better link | 13:55 |
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| 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 | 13:58 |
| 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 | 13:59 |
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| nmz787 | hmm, this is as close as it gets http://babysimpson.co.uk/info/stranglings/small/aabf22_2.jpg | 14:00 |
| nmz787 | heath: what is it? | 14:02 |
| nmz787 | says ISBN but looks like a pocket pikachu | 14:02 |
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| 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 | 14:27 |
| heath | i'm thinking yes | 14:28 |
| heath | every cell phone i purchase these days breaks in a matter of months, this seems like it might last me a little longer | 14:29 |
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| nmz787 | lol | 14:38 |
| 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 | 14:39 |
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| 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 | ) | 14:40 |
| heath | please don't tell me your war stories of your phones surviving falls, it makes me sick | 14:42 |
| heath | :) | 14:42 |
| heath | well that's settled, i'm building one of these | 14:47 |
| @kanzure | building a who what? | 14:47 |
| heath | software | 14:48 |
| heath | https://github.com/damellis/cellphone2 | 14:48 |
| 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* | 14:49 |
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| poppingt` | what's that weird where the Github logo usually is? | 14:59 |
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| poppingt` | weird icon* | 14:59 |
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| 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 | 15:15 |
| Urchin[emacs] | mil grade? | 15:21 |
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| heath | Urchin[emacs]: mil as in .mil as in military :) | 15:32 |
| heath | see http://www.alibaba.com/showroom/military-grade-phones.html | 15:32 |
| 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 | 15:34 |
| nmz787 | add that to your favorite phone manufacturer on google | 15:35 |
| nmz787 | here's a list of some http://www.mobilephonedevelopment.com/RuggedAndroid/ | 15:36 |
| 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! | 15:37 |
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| gradstudentbot | You don't happen to have any more virgin flies, do you? | 15:38 |
| 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 | 15:39 |
| nmz787 | you mean price? | 15:40 |
| panax | but doesn't matter anyway | 15:40 |
| panax | like -40C | 15:40 |
| 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 | 15:41 |
| heath | do you have any rugged cdma phones, gsm coverage around here sucks | 15:42 |
| 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 | 15:44 |
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| nmz787 | republic wireless is also cdma... but i heard you can't always use used phones for new $20/mo accounts | 15:46 |
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| heath | eh, i'll just go with the diy cellphone | 16:13 |
| nmz787 | really? | 16:14 |
| nmz787 | that seems much less rugged | 16:14 |
| nmz787 | a lot more work than paying some ebayer $5 to $100 | 16:15 |
| 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 | 16:16 |
| nmz787 | your original art? | 16:17 |
| @kanzure | no, it was drawn by cogitokat | 16:17 |
| @kanzure | same as https://github.com/kanzure/papermonk | 16:18 |
| nmz787 | papermonk? | 16:19 |
| nmz787 | is this a zotero like thing? | 16:19 |
| @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 | 16:20 |
| @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. | 16:21 |
| @kanzure | i was going to make an example module today | 16:28 |
| nmz787 | hmm, it would be nice if you could 'train' a translator using mouse clicks | 16:29 |
| 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? | 16:30 |
| anannie | Is YC worth it? | 16:34 |
| @kanzure | worth 7% of your company? that depends, what is your company worth? | 16:34 |
| anannie | Hopefully that's going to be a very large figure | 16:36 |
| @kanzure | uh | 16:36 |
| @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 | 16:37 |
| @kanzure | anannie: http://diyhpl.us/~bryan/venture-deals.pdf | 16:39 |
| anannie | Wow. thanks! | 16:41 |
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| @kanzure | haha chrome://settings/passwords | 17:00 |
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| panax | http://news.cnet.com/8301-1009_3-57597364-83/chrome-password-security-issue-stirs-debate/ | 17:04 |
| @kanzure | haha cnet. yeah.. | 17:04 |
| panax | there's no good reason to use that feature ever | 17:05 |
| @kanzure | there's no good reason to use cnet either | 17:07 |
| 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. | 17:10 |
| @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 | 17:11 |
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| 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 | 17:32 |
| nmz787 | if you're using the truecrypt volume the truecrypt decryption key is in RAM | 17:33 |
| nmz787 | * | 17:33 |
| panax | cold boot attack | 17:33 |
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| nsh | i prefer the "cold boot stomping on a human face forever" attack | 17:47 |
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| anannie | heh | 17:49 |
| @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. | 17:50 |
| poppingtonic | paperbot: http://www.sciencemag.org/content/332/6027/339 | 18:06 |
| paperbot | http://libgen.org/scimag/get.php?doi=10.1126%2Fscience.1201959 | 18:07 |
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| ParahSail1n | library piracy site for your filing compulsion: http://aaaaarg.org/ | 18:35 |
| ParahSail1n | mostly liberal arts stuff from the looks of it though | 18:35 |
| gnusha_ | https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=fdbee23f Bryan Bishop: another article piracy thing | 18:36 |
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| @kanzure | ParahSail1n: i don't think downloader.test(url) and downloader.download(url, options, callback) is enough. there should be more functions i think. | 18:39 |
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| @kanzure | ParahSail1n: i'm not sure what they should be yet. | 18:39 |
| @kanzure | stuffing everything into download() is a dumb idea | 18:40 |
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| ParahSail1n | .title http://www.priceplow.com/blog/soylent-subterfuge | 18:55 |
| yoleaux | Soylent Subterfuge: When a Bad Joke Turns into a Business | 18:55 |
| 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 | 18:58 |
| poppingtonic | kanzure: hi what do I need to learn to contribute to papermonk's downloader? | 19:00 |
| @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 | 19:02 |
| 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 | 19:03 |
| @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. | 19:04 |
| @kanzure | maybe each downloader should have a few different prototypes- Paper, Abstract, Pdf, PdfBundle, Journal, and each one could be separately interrogated. | 19:07 |
| @kanzure | ParahSail1n: halp | 19:10 |
| @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 | 19:12 |
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| 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 | 19:50 |
| @kanzure | .title https://www.youtube.com/watch?v=IECBj8v60Wk&t=6mac | 19:51 |
| yoleaux | Giant Robot Day! Aug 06 2013 (GRP 92) - YouTube | 19:51 |
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| 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. | 20:09 |
| @kanzure | each downloader could be a state machine. and papermonk would grab the next page of html? hrm.. no. | 20:10 |
| @kanzure | i like the idea of a paper scraper state machine | 20:12 |
| @kanzure | instead of just a giant pile of spaghetti in download() | 20:12 |
| @kanzure | brownies: architecture advice? | 20:16 |
| ParahSail1n | well thats why i suggested monadic/functor structure | 20:23 |
| 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 | 20:24 |
| @kanzure | what do you think is impossible to do in the browser ? | 20:25 |
| ParahSail1n | well javascript has first order everything for the most part, but i think scrapers would end up looking just like zotero's translators | 20:26 |
| @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 | 20:27 |
| @kanzure | take a look at https://gist.github.com/kanzure/80badcf6c66c7a3d8d8e#file-spatula-coffee | 20:29 |
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| @kanzure | i guess that's not the most beautiful example of a state machine-based scraper | 20:37 |
| jmil | kanzure: http://blog.reprap.org/2013/08/announcing-amri-advanced-manufacturing.html | 20:51 |
| jmil | kanzure: thoughts appreciated | 20:51 |
| @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." | 20:52 |
| @kanzure | oh maybe RRRF is only registered in the uk | 20:53 |
| 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 | 20:54 |
| @kanzure | i see. makes sense. | 20:55 |
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| 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? | 20:56 |
| 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 | 20:57 |
| @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 | 20:58 |
| 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 | 20:59 |
| @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 | 21:00 |
| 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 | 21:01 |
| 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" | 21:02 |
| 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 | 21:03 |
| 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 | 21:04 |
| @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. | 21:05 |
| yashgaroth | drink? | 21:06 |
| ParahSail1n | since you're associate professor i take it you're in the lab on weekends? | 21:06 |
| jmil | assistant professor. so, def. but traveling a lot too | 21:08 |
| jmil | leaving lab now in fact. bbl :D | 21:08 |
| heath | jmil: ParahSail1n did get ricin through though ;P | 21:09 |
| heath | http://ellingtonlab.org/blog/2011/11/03/on-ricin/ | 21:09 |
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| heath | "these effin calculations" | 21:12 |
| heath | from a grad student | 21:12 |
| heath | gradstudentbot: add | 21:12 |
| gradstudentbot | My project sucks. | 21:12 |
| -!- jmil [~jmil@hive76/member/jmil] has quit [Ping timeout: 260 seconds] | 21:12 | |
| ParahSail1n | ping timeouts instead of /quits suck | 21:13 |
| ParahSail1n | dont worry guise ill figure out his mailstop number and intercept packages before he gets to work | 21:14 |
| @kanzure | thanks | 21:14 |
| @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 ... | 21:15 |
| @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! | 21:16 |
| * heath waves gn | 21:19 | |
| @kanzure | ParahSail1n: feel free to write a downloader your way, because i'm not going to write anything else tonight | 21:22 |
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| 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 | 23:39 |
| -!- cpopell is now known as stieruridir | 23:46 | |
| --- Log closed Thu Aug 08 00:00:07 2013 | ||
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