--- Log opened Tue Jul 09 00:00:20 2013
00:00 < gnusha> https://secure.diyhpl.us/cgit/paperbot/commit/?id=29ea31c5 Bryan Bishop: make sure shurl is defined in advance
00:00 < gnusha> paperbot: reload papers
00:00 < paperbot> UnboundLocalError: local variable 'shurl' referenced before assignment (file "/srv/ikiwiki/paperbot/modules/papers.py", line 157, in download)
00:00 < paperbot> gnusha: <module 'papers' from '/srv/ikiwiki/paperbot/modules/papers.py'> (version: 2013-07-09 07:00:40)
00:00 <@kanzure> https://secure.diyhpl.us/cgit/paperbot/commit/?id=29ea31c5
00:00 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/a9d0939622a81088a01e6bc4dfef1bb3.txt
00:01 <@kanzure> gah it's lost its explicitness
00:01 <@kanzure> paperbot: https://secure.diyhpl.us/cgit/paperbot/commit/?id=29ea31c5
00:01 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/8f928cf10937be452a341f7291a7ccf9.txt
00:04 <@kanzure> ParahSailin: can you look into this whenever?
00:05 <@kanzure> also someone should read http://genofond.org/viewtopic.php?f=9&t=6452
00:10 -!- yashgaroth [~ffffff@cpe-66-27-118-94.san.res.rr.com] has quit [Quit: Leaving]
00:19 -!- ParahSailin [~Rob@50-194-178-148-static.hfc.comcastbusiness.net] has quit [Ping timeout: 248 seconds]
00:27 -!- ParahSailin [~Rob@50-194-178-148-static.hfc.comcastbusiness.net] has joined ##hplusroadmap
00:32 -!- SolG [~Sol@c-174-57-58-11.hsd1.pa.comcast.net] has joined ##hplusroadmap
00:33 -!- _Sol_ [~Sol@c-174-57-58-11.hsd1.pa.comcast.net] has quit [Ping timeout: 264 seconds]
00:47 -!- marciogm [~textual@177.106.10.141] has joined ##hplusroadmap
00:55 -!- marciogm [~textual@177.106.10.141] has quit [Quit: Computer has gone to sleep.]
01:13 -!- oblique [~oblique@62-56-183.netrun.cytanet.com.cy] has quit [Ping timeout: 264 seconds]
01:20 -!- oblique [~oblique@unaffiliated/oblique] has joined ##hplusroadmap
01:21 -!- superkuh [~superkuh@unaffiliated/superkuh] has joined ##hplusroadmap
01:45 -!- Charlie [~quassel@74.63.212.44] has quit [Ping timeout: 276 seconds]
01:49 -!- Juul [~Juul@c-67-170-193-114.hsd1.ca.comcast.net] has joined ##hplusroadmap
02:05 -!- Coornail_ [~Coornail@li66-97.members.linode.com] has joined ##hplusroadmap
02:06 -!- ivan`_ [~ivan@unaffiliated/ivan/x-000001] has joined ##hplusroadmap
02:12 -!- Netsplit *.net <-> *.split quits: augur_, DonnchaC, Juul, klafka, ParaSa1lin, ua_, superkuh, sivoais, randallagordon, nuba,  (+9 more, use /NETSPLIT to show all of them)
02:13 -!- Netsplit over, joins: smeaaagle, audy, mietek
02:15 -!- Juul [~Juul@c-67-170-193-114.hsd1.ca.comcast.net] has joined ##hplusroadmap
02:15 -!- superkuh [~superkuh@unaffiliated/superkuh] has joined ##hplusroadmap
02:15 -!- oblique [~oblique@unaffiliated/oblique] has joined ##hplusroadmap
02:15 -!- SolG [~Sol@c-174-57-58-11.hsd1.pa.comcast.net] has joined ##hplusroadmap
02:15 -!- hehelleshin [~talinck@69-61-156-24.ubr1.dyn.lebanon-oh.fuse.net] has joined ##hplusroadmap
02:15 -!- klafka [~klafka@c-24-6-18-31.hsd1.ca.comcast.net] has joined ##hplusroadmap
02:15 -!- jrayhawk [~jrayhawk@nursie.omgwallhack.org] has joined ##hplusroadmap
02:15 -!- randallagordon [~randall@71-222-82-23.ptld.qwest.net] has joined ##hplusroadmap
02:15 -!- ParaSa1lin [~parahsail@unaffiliated/parahsailin] has joined ##hplusroadmap
02:15 -!- ua_ [~ua@static.124.15.9.5.clients.your-server.de] has joined ##hplusroadmap
02:15 -!- augur_ [~augur@208.58.5.87] has joined ##hplusroadmap
02:15 -!- sivoais [~zaki@unaffiliated/sivoais] has joined ##hplusroadmap
02:15 -!- DonnchaC [~donncha@windmill.donncha.is] has joined ##hplusroadmap
02:15 -!- nuba [~nuba@pauleira.com] has joined ##hplusroadmap
02:21 -!- oblique [~oblique@unaffiliated/oblique] has quit [Quit: leaving]
02:26 -!- sailu [c40c2b15@gateway/web/freenode/ip.196.12.43.21] has joined ##hplusroadmap
02:41 -!- sailu [c40c2b15@gateway/web/freenode/ip.196.12.43.21] has quit [Ping timeout: 250 seconds]
03:02 -!- Juul [~Juul@c-67-170-193-114.hsd1.ca.comcast.net] has quit [Remote host closed the connection]
03:05 -!- Viper168 [~Viper@unaffiliated/viper168] has quit [Ping timeout: 256 seconds]
03:06 -!- ThomasEgi [~thomas@185.5.8.81] has joined ##hplusroadmap
03:06 -!- ThomasEgi [~thomas@185.5.8.81] has quit [Changing host]
03:06 -!- ThomasEgi [~thomas@panda3d/ThomasEgi] has joined ##hplusroadmap
03:16 -!- pads [~not@100.43.114.90] has joined ##hplusroadmap
03:19 -!- padz [~not@100.43.114.90] has quit [Ping timeout: 246 seconds]
03:26 -!- SolG is now known as _sol_
03:30 -!- Thorbinator [~Thorbinat@66-237-51-34.starstream.net] has quit [Read error: Connection reset by peer]
03:31 -!- Thorbinator [~Thorbinat@66.237.51.34] has joined ##hplusroadmap
03:36 -!- Thorbinator [~Thorbinat@66.237.51.34] has quit [Ping timeout: 246 seconds]
03:37 < nmz787_> paperbot:http://link.springer.com/chapter/10.1007/978-3-642-02391-0_26
03:38 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/4e1df72e21065d4cc71da3f92e05091d.txt
04:07 -!- EnLilaSko [EnLilaSko@unaffiliated/enlilasko] has joined ##hplusroadmap
04:15 -!- yorick [~yorick@oftn/member/yorick] has joined ##hplusroadmap
04:27 -!- Thorbinator [~Thorbinat@66-237-51-34.starstream.net] has joined ##hplusroadmap
04:41 -!- adillian [adillian@0542da9a.skybroadband.com] has joined ##hplusroadmap
04:41 < adillian> Hi
04:44 -!- Viper168 [~Viper@unaffiliated/viper168] has joined ##hplusroadmap
05:22 -!- Thorbinator [~Thorbinat@66-237-51-34.starstream.net] has quit [Read error: Connection reset by peer]
05:23 -!- Thorbinator [~Thorbinat@66-237-51-34.starstream.net] has joined ##hplusroadmap
05:59 -!- Thorbinator [~Thorbinat@66-237-51-34.starstream.net] has quit [Read error: Connection reset by peer]
06:00 -!- Thorbinator [~Thorbinat@66-237-51-34.starstream.net] has joined ##hplusroadmap
06:06 -!- Coornail_ is now known as Coornail
06:06 -!- Coornail is now known as Guest43952
06:08 -!- adillian [adillian@0542da9a.skybroadband.com] has quit []
06:09 -!- adillian [adillian@0542da9a.skybroadband.com] has joined ##hplusroadmap
06:37 -!- makoLime [~mako@103-9-42-152.flip.co.nz] has quit [Ping timeout: 256 seconds]
06:46 -!- kmo [~kmo@apn-5-60-167-144.dynamic.gprs.plus.pl] has joined ##hplusroadmap
06:46 -!- kmo [~kmo@apn-5-60-167-144.dynamic.gprs.plus.pl] has quit [Changing host]
06:46 -!- kmo [~kmo@unaffiliated/kmo] has joined ##hplusroadmap
07:00 -!- marciogm [~textual@177.106.10.141] has joined ##hplusroadmap
07:26 <@kanzure> "Hi Bryan, I am writing to you in my capacity as the review chair for this year's Open Hardware Summit, to you, in your capacity as a figure of importance in the Open Source Hardware community. I would like to ask if you would be interested to help us review the submissions for talks at this year's OHS."
07:26 <@kanzure> i guess if you wait long enough, people might listen
07:34 <@kanzure> just sit around writing angry emails and angry comments in irc and something might happen, anyone can do it
07:36 < adillian> hello
07:37 < adillian> how do I transhuman?
07:40 <@kanzure> learn programming, electronics, molecular biology, maybe some chemistry, build equipment and devices
07:41 < EnLilaSko> adillian: By changing sex
07:41 < EnLilaSko> Or atleast dressing like the other sex
07:41 -!- EnLilaSko was kicked from ##hplusroadmap by kanzure [EnLilaSko]
07:41 -!- EnLilaSko [EnLilaSko@unaffiliated/enlilasko] has joined ##hplusroadmap
07:41 <@kanzure> go away
07:41 < EnLilaSko> Sorry, thought a joke would be ok
07:41 < EnLilaSko> lol
07:41 <@kanzure> it was a terrible joke
07:48 -!- Guest43952 is now known as Coornail
07:53 -!- chris_99 [~chris_99@unaffiliated/chris-99/x-3062929] has joined ##hplusroadmap
07:57 -!- eudoxia [~eudoxia@r179-24-19-206.dialup.adsl.anteldata.net.uy] has joined ##hplusroadmap
07:57 < eudoxia> just joined to provide independent confirmation that it was in fact a pretty bad joke
07:58 < eleitl> Joke?
07:58 < eleitl> There was a joke?
07:59 <@kanzure> eleitl: hello
07:59 < eudoxia> hey eleitl
07:59 < eleitl> Hail eudoxia.
07:59 < eleitl> Hi kanzure. How's things?
08:00 -!- oblique [~oblique@unaffiliated/oblique] has joined ##hplusroadmap
08:00 < eudoxia> how's your cryo org going? got to test stuff on actual cadavers?
08:00 < eleitl> Cryo org is going very slowly. We're waiting for the legal expertise.
08:01 <@kanzure> it's too early for me to determine how things are, i'm still waking up
08:01 < eleitl> I wouldn't expect that before August/September.
08:01 < eleitl> Oh, booting up.
08:01 < eleitl> Ideal case is that active shutdown in Switzerland is legal.
08:02 < eleitl> That would be a major sales proposition, obviously.
08:03 < eleitl> Given that your average suspension is terrible beyond words.
08:04 < eleitl> anyone has changed procedure post-Snowden?
08:05 < eleitl> maybe it's time for a little NSA honeypotting
08:06 < eudoxia> i don't think i've even used tor since the Snowden Ultimatum
08:06 < eudoxia> "what's the use, They know everything. big brother has achieved omniscience etc" *cries
08:06 < eleitl> I'm waiting for the new TBB, it's really faster.
08:06 <@kanzure> uh..
08:06 <@kanzure> eudoxia: you might have to rethink that strategy
08:07 < eudoxia> i heard they also removed the vidalia control panel/moved it somewhere else
08:07 < eleitl> But in general, it's about system security. Spooks seem to h4x0r systems routinely.
08:07 < eleitl> Yeah, the new TBB is sans Vidalia.
08:08 < eleitl> It seems making systems clean would be a major PITA.
08:09 < eleitl> You have to wipe everything, and reinstall from scratch, plus harden, etc.
08:09 < eleitl> Rekey, and so on.
08:10 < eudoxia> i wonder what distro Snowden used
08:10 < eleitl> probably some internal one
08:11 < eleitl> I expect that spooks use virtualized compartments
08:11 < eudoxia> i mean after he went to HK
08:11 < eleitl> he might have taken his tools with him
08:11 < eudoxia> Tails is a reasonable guess
08:11 < eleitl> amnesis distro on known good hardware is not a bad choice
08:12 < eleitl> amnesic, even
08:12 < ParahSailin> i bet they just use windows and rely on rubber hose cryptography
08:12 < eleitl> the question is how to keep your hardware un0wn3d
08:12 < eleitl> not easy at all
08:13 < ParahSailin> kanzure: is paperbot broken currently?
08:13 <@kanzure> build it yourself. i etch my circuits with my own saliva. or.. something.
08:13 <@kanzure> ParahSailin: yeah.. it seems to be fetching all links again.
08:13 < eleitl> you can bootstrap from next to nothing, but it's a lot of work
08:14 <@kanzure> good thing we're all super paranoid
08:14 <@kanzure> otherwise we might get lazy huh
08:14 < gradstudentbot> We simply don't do enough titrations in my lab.
08:15 < eleitl> gravimetry it's where it's at
08:15 < eleitl> calcinate the living shit out of your precipitate
08:15 <@kanzure> gradstudentbot: are you going to read that paper?
08:15 < gradstudentbot> I think I'd like to try to write the paper myself.
08:15 < eudoxia> hahahaah
08:16 -!- Sanky [~SankyZNC@unaffiliated/sanky] has quit [Read error: Operation timed out]
08:16 < eleitl> eudoxia, do you sense trouble brewing in Argentina again?
08:16 < ParahSailin> kanzure: pushed to kanzure master
08:16 <@kanzure> ParahSailin: i would prefer if you would continue to make pull requests in general
08:16 <@kanzure> ParahSailin: it's okay this time, i don't care /that/ much
08:17 <@kanzure> ParahSailin: but if i am being lame and not doing anything, feel free to push to master of course
08:17 < ParahSailin> oh, ok
08:17 < eleitl> http://forexmagnates.com/bitcoins-soar-in-value-in-argentina-due-to-capital-control-laws-bitcoin-meetup-held-in-nations-capital/
08:17 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/218baa64633d8a2030d1caac8014b8e6.txt
08:17 < gnusha> https://secure.diyhpl.us/cgit/paperbot/commit/?id=ce7355f8 rcallahan: Another verbose and explicit check
08:17 < gnusha> paperbot: reload papers
08:17 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/393162fb4336f452025551ddd52de274.txt
08:17 < paperbot> gnusha: <module 'papers' from '/srv/ikiwiki/paperbot/modules/papers.py'> (version: 2013-07-09 15:17:48)
08:17 <@kanzure> https://secure.diyhpl.us/cgit/paperbot/commit/?id=ce7355f8
08:17 <@kanzure> hooray
08:18 < ParahSailin> only did this way because its kind of negligent emergency
08:18 <@kanzure> your wife is a negligent emergency?
08:18 <@kanzure> whatever man :)
08:18 < ParahSailin> heh, no, leaving it in broken state
08:18 <@kanzure> thanks
08:18 < ParahSailin> we passed her green card interview this morning
08:18 <@kanzure> what step of the process is that?
08:18 < ParahSailin> thats why i was pretty distracted yesterday
08:18 < ParahSailin> near the end
08:19 < ParahSailin> should be receiving the green card in a couple weeks or so
08:20 < eleitl> I think I should apply for a second passport
08:20 < eleitl> can come useful
08:20 < ParahSailin> african diplomatic passports are expensive these days
08:20 < eleitl> there are some ways to buy nationality, but I actually can get a second one legally
08:21 < ParahSailin> eu countries often do make it easy for dual citizenship
08:21 < eudoxia> eleitl: well i've been saying argentina is a time bomb that's gonna blow up any day now since i was like 15 so whether i sense trouble brewing or not is not too important
08:21 < eleitl> yeah, EU passport, and a second nationality, just in case EU goes to shit
08:21 < ParahSailin> hows uruguay
08:22 < eleitl> uruguay will get a cold if Argentina sneezes
08:22 < ParahSailin> i hear there's lots of cows or sheep there
08:22 < eudoxia> eleitl: but i'm glad bitcoin is doing what it was meant to do
08:22 < eleitl> :)
08:22 < eudoxia> there are plenty of cows and some sheep
08:23 < ParahSailin> one of my employer's clients is someone in uy
08:23 < ParahSailin> its either sheep or cattle genotyping
08:24 -!- Sanky [~SankyZNC@unaffiliated/sanky] has joined ##hplusroadmap
08:24 < gradstudentbot> Yeah, it's the new grad student's fault.
08:31 < adillian> @kanzure: learning programming (slowly), want to learn electronics, know some biology and chemistry, want to built stuff. Also want to optimize myself first
08:32 <@kanzure> pre-mature optimization
08:32 < eleitl> How do you intend to optimize yourself?
08:32 < adillian> yes! pre-mature optimization is what I do a lot of
08:32 < adillian> rationality (lesswrong.com) and heuristics and cognition
08:32 < eleitl> Eat well, sleep well, take nootropics.
08:32 < adillian> and organizing everything
08:32 <@kanzure> adillian: please don't bring lesswrong in here
08:32 < adillian> and akrasia..
08:32 <@kanzure> and don't bring "akrasia" in here
08:32 < adillian> sorry
08:33 <@kanzure> there's #lesswrong for that self-wallowing misery
08:33 < adillian> lol ok, common topics or just annying?
08:33 < adillian> ah yeah I'm in there too
08:33 <@kanzure> unproductive crap
08:33 < gradstudentbot> The lab meeting was cancelled.
08:33 < adillian> how are you productive then? or is that too close a topic?
08:33 <@kanzure> drugs
08:33 < eleitl> heh
08:33 <@kanzure> eleitl: hey at least i'm honest
08:33 <@kanzure> eleitl: although it's not completely drugs
08:34 < eleitl> I'm quite happy with my current supplement stack.
08:34 < eleitl> Also, less alcohol.
08:35 < ParahSailin> aubrey's supplement stack is pretty amazing
08:35 < adillian> but alcohol and bad food is what keeps me going
08:35 < eleitl> alcohol fucks up your REM sleep
08:35 < eleitl> long-term, it fucks up everything
08:36 < eleitl> adillian, if you're young, you'll survive
08:36 < eleitl> if you get older, you'll have to change things, or suffer the consequences
08:37 <@kanzure> adillian: also, in general if you keep busy people around, you'll get busy yourself, so just pick better friends or w/e
08:38 < eudoxia> >[Bitcoin] is demonstrating itself to be more stable than the [Argentinian] Peso
08:38 < eudoxia> well i think this says a lot
08:39 < eleitl> kragen sitaker is in buenos aires, but he doesn't seem to be doing much these days
08:39 < ParahSailin> ARS looks like value has fluctuated less than 50% in the last 3 years
08:41 -!- Sanky [~SankyZNC@unaffiliated/sanky] has quit [Ping timeout: 246 seconds]
08:42 < eleitl> a problem is keeping flows balanced
08:42 < eleitl> you need to run an export business in order to not having to rebalance your accounts periodically, which is expensive
08:44 < ParahSailin> i think argentina has bigger underlying problems than macroeconomic manifestations
08:45 < eleitl> could be just mismanagement
08:45 < eleitl> they should be standing as badly as they do
08:47 -!- Sanky [~SankyZNC@unaffiliated/sanky] has joined ##hplusroadmap
08:47 < eleitl> btw kanzure, I've been making a mirror of your site for last 5 days
08:47 < eleitl> just in case you were wondering
08:51 <@kanzure> i was not
08:51 <@kanzure> seems sorta slow though
08:51 < eleitl> it goes with about 25 kByte/s
08:51 < eleitl> 12 GByte so far
08:52 < ParahSailin> use a bigger hose
08:52 < gradstudentbot> I hear you make more money being a garbage man.
08:53 < eleitl> the download is either throttled, or it's I/O-limited on kanzure's side
08:54 -!- rk[zzz] is now known as rk[wrkwrkwrk]
08:54 -!- delinquentme [~asdfasdf@75.98.88.253] has joined ##hplusroadmap
08:57 < delinquentme> bureaucracy
08:57 < delinquentme> good time
08:57 < ParahSailin> kanzure: so pywebkitgtk is the best one out of ghost.py and all the others?
09:19 <@kanzure> well
09:20 <@kanzure> phantomjs is currently the "best" because it's actually headless, doesn't require xorg
09:20 <@kanzure> for most-up-to-date, webkitgtk+ is the right solution because it can be compiled upstream and it's maintained
09:20 <@kanzure> but webkitgtk+ requires x11/xorg
09:21 <@kanzure> slimerjs might be okay eventually, but right now it requires xorg to run gecko (firefox)
09:21 <@kanzure> ghost.py is really behind the times because its author thinks it needs xvfb (but this isn't entirely true.. it could use xserver-xorg-video-dummy).
09:23 <@kanzure> webkitgtk+ is in most package repositories (but the version might be old)
09:23 <@kanzure> but that's good enough for testing in most cases
09:23 <@kanzure> here's a really simple webkitgtk+ thing i do in python, http://paste.debian.net/15181/
09:23 <@kanzure> run it with..
09:23 <@kanzure> LD_LIBRARY_PATH=`pwd`:/home/kanzure/local/qt/WebKit/WebKitBuild/Dependencies/Root/lib64/ strace python sample.py http://github.com/kanzure
09:24 <@kanzure> (if you want to use your compiled version of webkitgtk+ as opposed to the girepository version provided by your local friendly package manager)
09:25 < ParahSailin> so phantomjs, not pyphantomjs right?
09:26 <@kanzure> correct.
09:27 <@kanzure> pyphantomjs is very old and not maintained, sadly. it's a python rewrite of phantomjs. also it happens to require x11 because it was a rewrite of phantomjs from before phantomjs became actually headless.
09:28 < delinquentme> Does anyone know how long outside of the body the lung-on-a-chip maintained its cells homeostasis?
09:28 < ParahSailin> couple days probably?
09:28 <@kanzure> phantomjs is based on qtwebkit from qt 4.8 from 2012. but qt 4.8 had an old version of qtwebkit at that time. and qtwebkit had an old version of webkit at that time. so as you can imagine, phantomjs has a rather old web browser engine inside of it. most HTML5 things don't work.
09:29 <@kanzure> oh wait maybe qt 4.8 was 2011.
09:29 <@kanzure> bkero: are you around?
09:31 < bkero> kanzure: hi
09:31 <@kanzure> bkero: could you do the transfer now?
09:31 <@kanzure> or are you busy?
09:32 < bkero> kanzure: I'll need to sort some work stuff, put clothes on, and go downstairs
09:32 < bkero> I woke up around 12 minutes ago
09:32 <@kanzure> can you transfer the coins first, and then i'll cover your loss if my person doesn't pay?
09:33 <@kanzure> i expect payment will be something like 30-60 minutes
09:34 < bkero> I think you'll be good for it, ok.
09:34 < bkero> How many coins did you want?
09:34 < gradstudentbot> I haven't written the abstract.
09:35 < delinquentme> kanzure, pm
09:35 <@kanzure> bkero: one sec. haggling.
09:37 <@kanzure> bkero: let's say $380 USD for 5 btc?
09:37 < bkero> kanzure: okay
09:37 <@kanzure> bkero: can you pm me your account?
09:39 <@kanzure> thank you sir
09:39 <@kanzure> i'll probably buy in the near future, except for myself
09:44 <@kanzure> delinquentme: i don't see any pm
09:47 < delinquentme> kanzure, I think I sorted it out
09:47 < delinquentme> I needed a big O representation for a marketing email :D
09:48 < delinquentme> deets to come I might have a cool easy project
09:48 < delinquentme> also! when do you leave SJ?
09:48 <@kanzure> i'm already gone
09:48 -!- Viper168 [~Viper@unaffiliated/viper168] has quit [Ping timeout: 256 seconds]
09:49 -!- marciogm [~textual@177.106.10.141] has quit [Quit: Computer has gone to sleep.]
09:54 < delinquentme> KANZ I HATE
09:54 < delinquentme> Y U NO
09:55 < delinquentme> BASTID.
09:55 < delinquentme> </3
09:55  * delinquentme le weeps
09:55 < delinquentme> maybe I should just write a research paper on dis
09:55 < delinquentme> open saurce dat staf
09:55 < delinquentme> kanzure, talk to me about the pip publishign process
09:55 < delinquentme> is it easy?
09:56 < delinquentme> does anyone check for malicious axion?
09:56 <@kanzure> look at how i do it in pdfparanoia/Makefile
09:57 <@kanzure> the target you want to look at is "upload"
09:57 <@kanzure> i don't think it checks for malware
09:57 < eleitl> libgen might have malware
09:58 < ParahSailin> diyhpl.us might have malware
09:58  * eleitl afks --> $home
09:59 < ParahSailin> i think its an omen of something that rubyforge is down right when i need to install ruby gem
10:01 <@kanzure> gemfury
10:02 < ParahSailin> well i need to install vagrant for something and i dont have root to do rpm
10:03 -!- kmo [~kmo@unaffiliated/kmo] has quit [Ping timeout: 240 seconds]
10:04 < ParahSailin> i guess rpm2cpio
10:04 -!- kmo [~kmo@apn-5-60-167-144.dynamic.gprs.plus.pl] has joined ##hplusroadmap
10:04 -!- kmo [~kmo@apn-5-60-167-144.dynamic.gprs.plus.pl] has quit [Changing host]
10:04 -!- kmo [~kmo@unaffiliated/kmo] has joined ##hplusroadmap
10:07 -!- ivan`_ is now known as ivan`
10:26 < EnLilaSko> paperbot: http://onlinelibrary.wiley.com/doi/10.1002/ptr.5025/abstract;jsessionid=5CAE688A62FA7E5FE5E994B157FC8A81.d02t03
10:26 <@kanzure> and now we wait
10:26 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/4d3d343b685188ce50520c7f0474d807.txt
10:27 < ParahSailin> you can be sure that there was no way it was gonna get that
10:27 <@kanzure> paperbot: http://onlinelibrary.wiley.com/store/10.1002/ptr.5025/asset/ptr5025.pdf
10:27 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/b8f5510ef7aee90286cf607942ec950b.txt
10:27 <@kanzure> paperbot: http://onlinelibrary.wiley.com/store/10.1002/ptr.5025/asset/ptr5025.pdf?v=1&amp;t=hixdfaig&amp;s=3704672441418a1d7c48148980d7e3ab647c4f90
10:27 <@kanzure> oh wait
10:27 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/87e0ca2973c247fad735f2f21578e8e9.pdf
10:27 <@kanzure> wtf
10:27 < EnLilaSko> "Early view" = can't get?
10:28 < ParahSailin> was that a translator fault or a my fault
10:28 <@kanzure> why did that work? the ampersands were totally borked.
10:28 <@kanzure> i guess v=1 was what it needed passed on the pdf url
10:28 < ParahSailin> paperbot: http://dx.doi.org/10.1002/ptr.5025
10:28 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/8f5cf5a1508a21d04cd69e6d70dac8be.pdf
10:29 <@kanzure> looks like the same pdf to me
10:29 < ParahSailin> i agree, we need more logging for debugging purposes
10:30 <@kanzure> logging seems dangerous
10:30 <@kanzure> maybe just a small http server (bottle or flask) on a port, and we can watch the log before it gets thrown away
10:32 < ParahSailin> why do you think that first attempt failed? translator issue?
10:35 < ParahSailin> half my time is spent on installing shit-- package managers bla bla bla
10:35 < ParahSailin> pip install requests; fail
10:38 <@kanzure> pip-2.7 install requests
10:40 <@kanzure> i think the first one failed because of the jsessionid maybe
10:40 <@kanzure> paperbot: http://onlinelibrary.wiley.com/doi/10.1002/ptr.5025/abstract
10:40 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/49cc12e04f93a5e3e5b020a175917847.pdf
10:40 <@kanzure> paperbot: http://onlinelibrary.wiley.com/doi/10.1002/ptr.5025/abstract;jsessionid=1
10:40 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/c617fec2dede5dd9353df5dc12e465d9.pdf
10:40 < ParahSailin> im surprised it doesnt get a doi out of it and upload to libgen
10:40 <@kanzure> paperbot: http://onlinelibrary.wiley.com/doi/10.1002/ptr.5025/abstract;jsessionid=5CAE688A62FA7E5FE5E994B157FC8A81.d02t03
10:40 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/9fb2113d9b2f8019cd51d3daa0c6df07.pdf
10:40 <@kanzure> well now i'm really confused
10:40 <@kanzure> i do not like non-deterministic behavior
10:41 < ParahSailin> sci-hub can be non-deterministic, it uses a different proxy each time
10:41 <@kanzure> i don't think it used scihub
10:41 -!- eridu [~eridu@gateway/tor-sasl/eridu] has joined ##hplusroadmap
10:41 <@kanzure> maybe i should just run paperbot through mitmproxy constantly
10:41 < ParahSailin> probably not
10:46 <@kanzure> this would be easier to debug if there weren't really low limits on all outgoing requests
10:48 < ParahSailin> pm
10:51 -!- chris_99 [~chris_99@unaffiliated/chris-99/x-3062929] has quit [Read error: Connection reset by peer]
10:52 <@kanzure> responded
10:53 -!- chris_99 [~chris_99@unaffiliated/chris-99/x-3062929] has joined ##hplusroadmap
11:01 -!- eudoxia [~eudoxia@r179-24-19-206.dialup.adsl.anteldata.net.uy] has quit [Quit: leaving]
11:01 < ParahSailin> its quite bizarre how phenny modules work-- you register functions with the main loop by setting the commands attribute of functions in a module?
11:02 <@kanzure> phenny is actually pretty old
11:02 <@kanzure> i think sbp has written like 2 other irc bot frameworks in the mean time
11:02 -!- marciogm [~textual@177.106.10.141] has joined ##hplusroadmap
11:03 -!- yorick [~yorick@oftn/member/yorick] has quit [Read error: Operation timed out]
11:04 < ParahSailin> i think phenny.msg("#derp", "hodor") should work
11:05 <@kanzure> i am busy writing other code at the moment so either bug report or pull request and i'll get to it soon
11:05 < ParahSailin> i wouldnt mind going to all js so that there's a single environment integrated with phantomjs
11:05 <@kanzure> it's not a single environment actually
11:05 <@kanzure> there's two javascript environments in phantomjs
11:06 <@kanzure> one is for the outside context (the phantomjs client software)
11:06 <@kanzure> the other is inside each page which gets a fresh js context
11:14 <@kanzure> if you want to go with phantomjs then i suggest looking at how i structure phantomjs client modules
11:14 <@kanzure> https://github.com/kanzure/phantomjs-test-provisions
11:21 < ParahSailin> i tried to push that to mine, but it did it to yours instead
11:23 <@kanzure> git remote -vvv
11:23 < ParahSailin> ok next time ill push to mine again
11:23 <@kanzure> you can be explicit about it
11:23 <@kanzure> git remote rm origin
11:23 -!- adillian [adillian@0542da9a.skybroadband.com] has quit []
11:23 <@kanzure> git remote add kanzure git@github.com:kanzure/paperbot.git
11:23 <@kanzure> git remote add github git@github.com:rcallahan/paperbot.git
11:23 <@kanzure> git push github; git fetch kanzure; ... etc..
11:23 -!- adillian [adillian@0542da9a.skybroadband.com] has joined ##hplusroadmap
11:27 <@kanzure> ParahSailin: ssh newuser@diyhpl.us then tell me your username and i'll add you to paperbot.git on the server
11:27 <@kanzure> then you will do: git remote add diyhplus rcallahan@diyhpl.us:/srv/git/paperbot.git master
11:27 <@kanzure> and to make paperbot reload you do: git push diyhplus master:master
11:32 < ParahSailin> ok, created user rcallahan
11:33 <@kanzure> access granted
11:35 < gnusha> https://secure.diyhpl.us/cgit/paperbot/commit/?id=a5cbff87 rcallahan: Logging
11:35 < gnusha> paperbot: reload papers
11:35 < paperbot> gnusha: <module 'papers' from '/srv/ikiwiki/paperbot/modules/papers.py'> (version: 2013-07-09 18:35:18)
11:35 < ParahSailin> youll need to restart with LOGGING sysenv set
11:37 <@kanzure> set it to what?
11:37 < ParahSailin> the secret channel, not including #
11:37 -!- paperbot [~paperbot@131.252.130.248] has quit [Remote host closed the connection]
11:38 < heath> i'm having second thoughts on writing a  dsl to specify the operation rules, constraints, and possible results of genetic circuits
11:38 < heath> https://gist.github.com/heath/ce3958034a10bcb2fe68
11:38 <@kanzure> genetic circuits aren't a language
11:38 <@kanzure> wrong mental model
11:38 < heath> josiah zayner has some good points, and i'm guessing what kanzure is about to say is valid as weell
11:39 <@kanzure> i'm p. sure that guy is a troll
11:39 <@kanzure> he's the "Come back when you have a PhD" troll
11:40 < heath> *boo* *hiss*
11:40 -!- paperbot [~paperbot@131.252.130.248] has joined ##hplusroadmap
11:40 < heath> i think whipping out a web-based synbio platform in a month is a little over the top, but replicating cadnano's functionality is doable
11:41 < heath> but i like the idea of building stuff using a text editor instead of clicking around
11:42 <@kanzure> why would you make a web based platform :(
11:42 <@kanzure> tons of people have done that and they are all terrible and evil
11:43 <@kanzure> specifically, in the domain of bioinformatics and genetic engineering
11:43 <@kanzure> have you considered talking with some bio people and asking them what their actual problems are?
11:44 < heath> yep, first thing i _thought_ about without actually doing
11:44 < heath> a web platform is nice, i'm more inclined to use software that is web-based as long as its main source is available
11:44 < heath> e.g. gitorious
11:44 <@kanzure> you have no reasonable explanation for why it is "nice"
11:45 <@kanzure> i'm here to tell you that working with multi-gigabyte genomes in a browser is *not* nice
11:45 < heath> it's accessible from any device
11:45 <@kanzure> so is ssh, fuck off
11:45 < gnusha> https://secure.diyhpl.us/cgit/paperbot/commit/?id=a62f60c8 rcallahan: Log function scoping
11:45 < gnusha> paperbot: reload papers
11:45 < paperbot> gnusha: <module 'papers' from '/srv/ikiwiki/paperbot/modules/papers.py'> (version: 2013-07-09 18:45:35)
11:47 < heath> if you want to work with multi-gigabyte genomes, don't load it all at once, just like you would do on a desktop/laptop
11:47 <@kanzure> i still don't see why i have to use a browser, wah
11:47 <@kanzure> i write web apps all day and night, so it's not like i'm unaware of how it would work
11:47 <@kanzure> i know exactly how it would work and i'm failing to see the benefit to me
11:48 < heath> oh, also there's web-rtc which makes it relatively simple to make your app 'collaborative', i.e. chat/audio/video messaging
11:48 <@kanzure> here are the actual problems i've encountered: it takes too many weeks to try out a genome, ordering dna takes too long, my primers are wrong, my plasmids are wrong, my plasmids cost too much, my reagents cost too much, nobody knows how to debug my gels, everyone keeps making awful websites that i have to scrape because they are poor programmers
11:49 < heath> i don't know of anyone in this community that makes web apps, except for one guy
11:49 < heath> j5 is the other web app
11:49 < ParahSailin> i think genome compiler is a quality piece of software
11:49 <@kanzure> you're not paying attention then
11:49 < heath> so 2 people
11:49 <@kanzure> i'm not the only other one
11:50 <@kanzure> nmz787, cathal, myself, ParahSailin, those mozilla/synbio assholes, those genome compiler jerks, the clotho people, almost every igem team ever, that kid from ucla
11:51 <@kanzure> but yeah let's just assume that our friends are idiots
11:51 <@kanzure> that'll help..
11:51 < heath> oh, and there's genocad
11:51 <@kanzure> also nathan h's company, that i can't remember at the moment
11:51 < heath> ParahSailin: are you joking? <-- not a cut at you, just can't tell with irc. i imagine nobody actually uses genome compiler for any lab work, it doesn't seem practical
11:52 <@kanzure> oh yeah, that's the last thing i want to be using in a lab setting.. adobe air. wtf.
11:52 <@kanzure> yeah i want my genome pipeline to be like adobe flash: riddled with security flaws
11:53 < heath> kanzure: "so 2 people", that was meant to say i could think 2 projects, sorry for the confusion
11:53 < heath> regardless of adobe air, what use would it be in the lab?
11:54 < ParahSailin> heh, yeah that was a troll
11:54 <@kanzure> i think it does codon optimization, but who cares. i think cathal's python library does better codon optimization already.
11:55 < ParahSailin> paperbot: http://onlinelibrary.wiley.com/doi/10.1002/9781118523728.ch5/summary
11:55 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/9a5d38d92897ccabee2aeec893171cf3.txt
12:11 -!- adilian [~adillian@0542da9a.skybroadband.com] has joined ##hplusroadmap
12:15 -!- adillian [adillian@0542da9a.skybroadband.com] has quit [Ping timeout: 276 seconds]
12:16 -!- delinquentme [~asdfasdf@75.98.88.253] has quit [Ping timeout: 246 seconds]
12:23 <@kanzure> "I had to disconnect China fro Sci-Hub"
12:23 <@kanzure> "too much user"
12:25 <@kanzure> http://bbs.techyou.org/
12:26 < ParahSailin> lol
12:29 <@kanzure> http://boxuesky.com/
12:30 < ParahSailin> blog study sky
12:33 -!- adillian [~adillian@0542da9a.skybroadband.com] has joined ##hplusroadmap
12:36 -!- adilian [~adillian@0542da9a.skybroadband.com] has quit [Ping timeout: 264 seconds]
13:01 -!- Netsplit *.net <-> *.split quits: bkero, abetusk, rdb, heath, chido
13:06 -!- heathjs [quassel@2600:3c02::f03c:91ff:feae:6e5b] has joined ##hplusroadmap
13:06 -!- heathjs [quassel@2600:3c02::f03c:91ff:feae:6e5b] has quit [Changing host]
13:06 -!- heathjs [quassel@unaffiliated/ybit] has joined ##hplusroadmap
13:06 -!- Netsplit over, joins: rdb, heath, abetusk, chido, bkero
13:06 -!- heath [quassel@unaffiliated/ybit] has quit [Max SendQ exceeded]
13:16 -!- eridu [~eridu@gateway/tor-sasl/eridu] has quit [Quit: Leaving]
13:17 -!- rdb_ [~rdb@panda3d/developer/rdb] has joined ##hplusroadmap
13:20 -!- bkero1 [~bkero@216.151.13.66] has joined ##hplusroadmap
13:23 -!- Netsplit *.net <-> *.split quits: bkero, abetusk, rdb, chido
13:24 -!- Netsplit over, joins: abetusk, chido
13:38 -!- Netsplit *.net <-> *.split quits: abetusk, chido
13:41 -!- Netsplit over, joins: abetusk, chido
13:42 < heathjs> does anyone know anything about this guy? http://www.ted.com/profiles/956259
13:42 < heathjs> https://github.com/Leukippos?tab=repositories
13:43 < heathjs> https://twitter.com/Socrates_Logos
13:43 < heathjs> </stalk>
13:44 < heathjs> http://www.cds.caltech.edu/~murray/wiki/index.php/Biomolecular_Breadboards_for_Prototyping_and_Debugging_Synthetic_Biocircuits
13:45 < heathjs> that's not from gerd moe-behrens, just another example where all funding for synbio seems to be from gov grants
13:47 -!- heathjs is now known as heath
13:49 -!- rdb_ is now known as rdb
14:07 -!- ielo [~ielo@pool-96-255-47-217.washdc.fios.verizon.net] has joined ##hplusroadmap
14:09 -!- eudoxia [~eudoxia@r190-135-37-114.dialup.adsl.anteldata.net.uy] has joined ##hplusroadmap
14:14 -!- eudoxia [~eudoxia@r190-135-37-114.dialup.adsl.anteldata.net.uy] has quit [Client Quit]
14:22 -!- eudoxia [~eudoxia@r190-135-37-114.dialup.adsl.anteldata.net.uy] has joined ##hplusroadmap
14:27 -!- makoLime [~mako@103-9-42-133.flip.co.nz] has joined ##hplusroadmap
14:44 -!- bkero1 is now known as bkero
14:44 -!- bkero [~bkero@216.151.13.66] has quit [Changing host]
14:44 -!- bkero [~bkero@osuosl/staff/bkero] has joined ##hplusroadmap
14:52 -!- phillyj [~Thunderbi@pool-108-16-169-193.phlapa.east.verizon.net] has joined ##hplusroadmap
14:54 -!- phillyj [~Thunderbi@pool-108-16-169-193.phlapa.east.verizon.net] has quit [Read error: No route to host]
14:54 -!- phillyj [~Thunderbi@c-68-80-251-160.hsd1.pa.comcast.net] has joined ##hplusroadmap
14:56 -!- phillyj [~Thunderbi@c-68-80-251-160.hsd1.pa.comcast.net] has quit [Client Quit]
14:57 -!- rk[wrkwrkwrk] is now known as ryankarason
15:16 < heath> http://www.diysect.com/
15:17 < heath> http://www.kickstarter.com/projects/260055886/diysect-filming-biotinkering-for-the-web
15:17 < heath> eri gentry
15:17 <@kanzure> please don't
15:17 -!- eudoxia [~eudoxia@r190-135-37-114.dialup.adsl.anteldata.net.uy] has quit [Read error: Connection reset by peer]
15:18 < heath> oh, i thought she said eri, it's "mary"
15:19 <@kanzure> may tsang
15:19 <@kanzure> that's not eri
15:19 < gnusha> https://secure.diyhpl.us/cgit/paperbot/commit/?id=1cafc6c2 rcallahan: Variable name
15:19 < gnusha> paperbot: reload papers
15:19 < paperbot> gnusha: <module 'papers' from '/srv/ikiwiki/paperbot/modules/papers.py'> (version: 2013-07-09 18:45:35)
15:19 <@kanzure> ParahSailin: yo dawg write better commit messages
15:20 <@kanzure> ParahSailin: "git log" to see my beautiful shakespearean commits
15:20 < nmz787_> need javascript help http://jsfiddle.net/ds9s7/109/
15:20 < nmz787_> why is minMaxWindow not defined?
15:21 <@kanzure> where do you see the error?
15:22 < nmz787_> chrome inspector
15:22 < ParahSailin> dont we have jquery for stuff like document.getElementById
15:22 < nmz787_> can't call it manually
15:22 <@kanzure> ParahSailin: yeah, but jquery is useful for other things really
15:22 < nmz787_> trying to make it fire on the middle maximise window button
15:22 < nmz787_> no jquery allowed for this
15:22 <@kanzure> ParahSailin: by default modern browsers give you the $() selector, jquery is for everything else
15:22 <@kanzure> nmz787_: you should consider using requirejs to bundle all of your dependencies into the same page
15:23 < nmz787_> nope
15:23 < nmz787_> no libs allowed
15:23 <@kanzure> nmz787_: also if this is your attempt to run a vm in a browser, you should use the qemu's guy jslinux
15:23 < nmz787_> nope
15:23 < nmz787_> this is a test
15:23 -!- eudoxia [~eudoxia@r190-135-37-114.dialup.adsl.anteldata.net.uy] has joined ##hplusroadmap
15:23 <@kanzure> why are no libraries allowed?
15:23 <@kanzure> libraries are what makes the world go round
15:23 < nmz787_> req of the test
15:23 <@kanzure> if you don't like extra files, you can just use requirejs
15:24 <@kanzure> and you shouldn't work anywhere that doesn't let you use libraries
15:25 < nmz787_> no dude, this isn't any problem with libs
15:25 < nmz787_> how can you immediately divert to that as any sane answer?
15:26 <@kanzure> nmz787_: window.minMaxWindow = minMaxWindow
15:26 < nmz787_> seems like a scope issue from what I can tell
15:26 <@kanzure> you are losing your scope and basically minMaxWindow is not defined
15:26 < nmz787_> where would I set that line
15:26 <@kanzure> somewhere after you have defined the function
15:26 <@kanzure> also i would add a semicolon at the end just because i am pedantic
15:26 <@kanzure> window.minMaxWindow = minMaxWindow;
15:26 < gradstudentbot> I hope they kick me out.
15:27 < nmz787_> yup
15:27 < nmz787_> that did it
15:27 <@kanzure> and then if you still experience trouble change the onClick handler to be window.minMaxWindow()
15:28 < nmz787_> ahh
15:28 <@kanzure> by default your click handlers have to be on the global scope
15:28 <@kanzure> unless you set the event handler inside your closure/scope when minMaxWindow has been defined
15:28 <@kanzure> and then if you still experience trouble change the onClick handler to be window.minMaxWindow()
15:28 <@kanzure> oops
15:28 <@kanzure> i meant to send a different line instead of "and then if"..
15:28 <@kanzure> in this case we're just cheating and adding it to window, which is a global
15:29 <@kanzure> people who write good javascript will probably not like the fact that you're using window as a global, but it's too much effort for me to describe the alternative :P
15:30 <@kanzure> i wonder if jsfiddle is putting your js into an ondocumentready call
15:31 <@kanzure> because if that's the case then you could just set the element's handler in your javascript just after you define the function
15:31 <@kanzure> and pass a reference to the function there
15:31 <@kanzure> instead of using the window global
15:31 <@kanzure> *ondocumentready callback
15:34 < ParahSailin> i thought everything you defined on the top level was implicitly attr of window
15:34 -!- EnLilaSko [EnLilaSko@unaffiliated/enlilasko] has quit [Remote host closed the connection]
15:35 <@kanzure> ParahSailin: not if jsfiddle is putting your javascript into a closure
15:35 < ParahSailin> crazy fun
15:35 -!- yorick [~yorick@oftn/member/yorick] has joined ##hplusroadmap
15:37 < ParahSailin> ah, window.onload = function() {important business}
15:37 <@kanzure> ParahSailin: could you add the LOGGING and SCIHUB_PASSWORD environment variables to paperbot/README.md please?
15:37 <@kanzure> onload is different i think
15:37 <@kanzure> "The ready event occurs after the HTML document has been loaded, while the onload event occurs later, when all content (e.g. images) also has been loaded."
15:37 <@kanzure> "The onload event is a standard event in the DOM, while the ready event is specific to jQuery. The purpose of the ready event is that it should occur as early as possible after the document has loaded, so that code that adds funcionality to the elements in the page doesn't have to wait for all content to load."
15:40 < ParahSailin> well thats the closure jsfiddle does to the business you put in the js box
15:40 <@kanzure> sure
15:40 <@kanzure> in general you should use closures
15:40 <@kanzure> instead of making everything a global
15:40 <@kanzure> and in my fantasy world, everyone knows how to write commonjs-compliant javascript
15:41 -!- Charlie [~quassel@74.63.212.44] has joined ##hplusroadmap
15:55 -!- rdb [~rdb@panda3d/developer/rdb] has left ##hplusroadmap []
16:06 -!- adillian [~adillian@0542da9a.skybroadband.com] has quit []
16:08 < heath> nmz787_: was afk
16:08 < heath> window.minMaxWindow = function() {...
16:08 < heath> but then you're on the global scope
16:10 < heath> but then it looks like you already are operating ont the global scope, so... :)
16:12 -!- Thomas42 [~Thomas42@static.105.236.9.5.clients.your-server.de] has quit [Ping timeout: 246 seconds]
16:13 -!- marciogm [~textual@177.106.10.141] has quit [Quit: Computer has gone to sleep.]
16:14 < heath> which again raises your original question, hrm.
16:15 <@kanzure> there was nothing else being used like that
16:15 <@kanzure> so of course he would ask that question
16:15 <@kanzure> see?
16:18 < nmz787_> so this almost works http://jsfiddle.net/ds9s7/141/
16:20 -!- adillian [adillian@0542da9a.skybroadband.com] has joined ##hplusroadmap
16:21 -!- eudoxia [~eudoxia@r190-135-37-114.dialup.adsl.anteldata.net.uy] has quit [Quit: leaving]
16:21 -!- Thomas42 [~Thomas42@static.105.236.9.5.clients.your-server.de] has joined ##hplusroadmap
16:35 < nmz787_> http://fiddle.jshell.net/ds9s7/146/show/
16:35 < nmz787_> feast your heart out
16:41 < gnusha> https://secure.diyhpl.us/cgit/paperbot/commit/?id=13a4599a U-ACORNSYS\pwang: Added environment variables to readme; changed tr variable name to shu in scihub.py
16:41 < gnusha> https://secure.diyhpl.us/cgit/paperbot/commit/?id=3e4754e6 U-ACORNSYS\pwang: Merge branch 'master' of https://github.com/rcallahan/paperbot
16:41 < gnusha> https://secure.diyhpl.us/cgit/paperbot/commit/?id=450c7ef7 U-ACORNSYS\pwang: Merge branch 'master' of diyhpl.us:/srv/git/paperbot
16:41 < gnusha> paperbot: reload papers
16:42 < paperbot> gnusha: <module 'papers' from '/srv/ikiwiki/paperbot/modules/papers.py'> (version: 2013-07-09 18:45:35)
16:42 <@kanzure> ParahSailin: you sure do like your short variable names
16:42 <@kanzure> and merging
16:43 < nmz787_> huh, so this is what addgene runs https://github.com/okws/okws
16:44 -!- yorick [~yorick@oftn/member/yorick] has quit [Remote host closed the connection]
16:46 -!- ua_ [~ua@static.124.15.9.5.clients.your-server.de] has quit [Ping timeout: 276 seconds]
16:47 -!- ua [~ua@static.124.15.9.5.clients.your-server.de] has joined ##hplusroadmap
16:47 < ParaSa1lin> variable names proportional to the lines in scope
16:49 < nmz787_> heath: what's up?
16:49 < nmz787_> kanzure: I actually haven't look at genome compiler pretty much since they first came public
16:50 < nmz787_> kanzure: but I've heard it uses some adobe product, which seems wholly over the top
16:50 <@kanzure> adobe air
16:50 <@kanzure> it's like flash except worse
16:51 -!- ParahSailin_ [~ropoctl@99-25-202-211.lightspeed.hstntx.sbcglobal.net] has joined ##hplusroadmap
16:51 -!- ParahSailin_ [~ropoctl@99-25-202-211.lightspeed.hstntx.sbcglobal.net] has quit [Changing host]
16:51 -!- ParahSailin_ [~ropoctl@unaffiliated/parahsailin] has joined ##hplusroadmap
16:51 < nmz787_> yeah, so after I heard that I didn't consider it a realistic option
16:52 < nmz787_> but I guess a lot of adobe products make $$$ so maybe they're onto something?
16:52 < nmz787_> especially given how much avg joe biologist sucks at using a computer
16:52 <@kanzure> when i pull paperbot.git from diyhpl.us i don't see the two merge commits
16:52 <@kanzure> where did they go?
16:53 -!- delinquentme [~asdfasdf@192-195-81-250.PUBLIC.monkeybrains.net] has joined ##hplusroadmap
16:57 -!- paperbot [~paperbot@131.252.130.248] has quit [Remote host closed the connection]
16:58 < heath> nmz787_: heyo
16:59 < gnusha> https://secure.diyhpl.us/cgit/paperbot/commit/?id=c25b3148 U-ACORNSYS\pwang: Correct doi in libgen
16:59 < gnusha> paperbot: reload papers
17:00 -!- chris_99 [~chris_99@unaffiliated/chris-99/x-3062929] has quit [Quit: Leaving]
17:04 -!- paperbot [~paperbot@131.252.130.248] has joined ##hplusroadmap
17:16 < ParaSa1lin> paperbot, http://pubs.rsc.org/en/content/articlelanding/2011/nr/c1nr10681c
17:16 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/A%20transparent%20hybrid%20of%20nanocrystalline%20cellulose%20and%20amorphous%20calcium%20carbonate%20nanoparticles.pdf
17:18 < nmz787_> heath: sup
17:18 < heath> hola
17:19 < nmz787_> heath: i posted an article to diybio recently outlining computer-like biologic functions
17:19 < gradstudentbot> Grant submitted.
17:19 < nmz787_> or things in biologics that could be used like computer parts
17:21 < heath> someone published a nand 2 years ago, not sure why someone didn't use that to build out all the other gates
17:21 -!- adillian [adillian@0542da9a.skybroadband.com] has quit []
17:22 < heath> not saying it's illogical, just didn't know why
17:22 < heath> nmz787_: i'll look for it
17:22 < heath> your email that is
17:26 < nmz787_> heath: because they're all super slow to actuate and reset
17:44 < heath> nmz787_: what are you working on these days?
17:44 < heath> nmz787_: oh, you're referring to "The biological microprocessor, or how to build a computer with biological parts"
17:44 < heath> i sent an email to the author this morning about that
17:45 < heath> kind of curious what he has a Ph.D. in, I can't really find this anywhere, it could be underwater basket weaving for all I know
17:45 < nmz787_> yes
17:45 -!- ThomasEgi [~thomas@panda3d/ThomasEgi] has quit [Remote host closed the connection]
17:46 < nmz787_> lately i've been contemplating low-noise analog sampling in mixed-signal circuitry
17:46 < brownies> people always joke about that, but i feel like weaving baskets underwater would not be the easiest thing in the world
17:46 < nmz787_> I took a basket weaving class when i was probably 12 the one time i went to boy scout camp
17:47 < nmz787_> the one year i tried that out
17:48 <@kanzure> heath: you should read this thread, https://groups.google.com/forum/#!msg/diybio/GxRTESzUWUI/b68eQEeluisJ
17:48 <@kanzure> heath: in particular, read at least until the parts where i spoke up or anselm wrote words
17:49 <@kanzure> oh i mean my second email, not the first one. don't stop there.
17:49 <@kanzure> "... there is no source, the bytecode has multiple reentrent abstractions, is unstable and has a very low signal to noise ratio, the runtime is unbootstrappable, the execution is nondeterministic, it tries to randomly integrate and execute code from other computers... multiple reentrant and self-modifying abstractions. absolutely everything has subtle side effects."
17:52 < heath> thanks kanzure
17:52 < nmz787_> kanzure: that was specifically in relation to DNA though, I think
17:52 < nmz787_> the article i mentioned covers lots of levels of the cell
17:53 <@fenn> brownies: only the basket is underwater, it's not like underwater hockey
17:53 < nmz787_> i.e. DNA mechanisms, protein mechanisms, rna
17:53 < nmz787_> isolated from the whole system
17:57 < brownies> fenn: oh really? that's much more boring.
17:59 <@fenn> Grand Master Turing once dreamed that he was a machine. When he awoke he exclaimed:
17:59 <@fenn> ``I don't know whether I am Turing dreaming that I am a machine, or a machine dreaming that I am Turing!''
18:00 <@fenn> that's one for gradstudentbot
18:00 < gradstudentbot> The protocol is wrong.
18:04 < heath> .meow
18:04 < yoleaux> http://moar.edgecats.net/cats/tumblr_m3wxox7WOs1rows1to1_400.gif
18:08 -!- ParahSailin_ [~ropoctl@unaffiliated/parahsailin] has quit [Quit: ParahSailin_]
18:17 -!- panax [panax@131.247.116.193] has joined ##hplusroadmap
18:32 -!- ParahSailin_ [~ropoctl@99-25-202-211.lightspeed.hstntx.sbcglobal.net] has joined ##hplusroadmap
18:32 -!- ParahSailin_ [~ropoctl@99-25-202-211.lightspeed.hstntx.sbcglobal.net] has quit [Changing host]
18:32 -!- ParahSailin_ [~ropoctl@unaffiliated/parahsailin] has joined ##hplusroadmap
18:45 < nmz787_> how do i grep all subdirs for a string ".port"
18:45 < nmz787_> it wont seem to escape with slashes
18:45 < nmz787_> and the dot is being a wildcard
18:46 <@kanzure> try \Wport or \Bport
18:47 < nmz787_> nada
18:47 < nmz787_> i actually want to search for the period
18:49 < nmz787_> -F with no escaping works
18:49 < nmz787_> oh
18:49 -!- strangewarp [~C@c-67-176-51-26.hsd1.co.comcast.net] has quit [Read error: Connection reset by peer]
18:49 < nmz787_> i'm dumb \. was working, but highlighting wasn't
18:49 -!- strangewarp [~C@c-67-176-51-26.hsd1.co.comcast.net] has joined ##hplusroadmap
18:49 < nmz787_> so i quickly assumed it wasnt working
18:49 -!- superkuh [~superkuh@unaffiliated/superkuh] has quit [Quit: video games]
18:55 -!- ParahSailin_ [~ropoctl@unaffiliated/parahsailin] has quit [Quit: ParahSailin_]
19:32 -!- ParahSailin_ [~ropoctl@99-25-202-211.lightspeed.hstntx.sbcglobal.net] has joined ##hplusroadmap
19:32 -!- ParahSailin_ [~ropoctl@99-25-202-211.lightspeed.hstntx.sbcglobal.net] has quit [Changing host]
19:32 -!- ParahSailin_ [~ropoctl@unaffiliated/parahsailin] has joined ##hplusroadmap
19:34 < heath> nmz787_: \.
19:34 < heath> oh, maybe i should have continued reading
19:34 < heath> http://moar.edgecats.net/cats/tumblr_m3wxox7WOs1rows1to1_400.gif
19:37 -!- delinquentme [~asdfasdf@192-195-81-250.PUBLIC.monkeybrains.net] has quit [Quit: Leaving]
19:44 -!- yashgaroth [~ffffff@cpe-66-27-118-94.san.res.rr.com] has joined ##hplusroadmap
20:05 < brownies> .meow
20:05 < yoleaux> http://moar.edgecats.net/cats/entrancedp1.gif
20:23 -!- ParahSailin_ [~ropoctl@unaffiliated/parahsailin] has quit [Quit: ParahSailin_]
20:45 -!- ielo [~ielo@pool-96-255-47-217.washdc.fios.verizon.net] has quit [Ping timeout: 264 seconds]
21:13 -!- _sol_ [~Sol@c-174-57-58-11.hsd1.pa.comcast.net] has quit []
21:29 < jonathan_> man biologists take the cake in terms of uber nerdiness
21:29 < jonathan_> what other type of nerd enjoys long conversations about how *bad* something smells
21:31 < yashgaroth> we have 400L open tanks of lysed e.coli in the lab every week, people average about an hour bitching about it
21:31 < yashgaroth> also who threw all babak's shit into the trash
21:32 < jonathan_> umm I told em you did it
21:32 < yashgaroth> oh noooo
21:32 < jonathan_> j/k.  i dunno anything about it just saw the emails
21:33 < jonathan_> dude needs to grow up I think, if he believes anything in the lab is safe or guaranteed at all
21:33 < jonathan_> I cant even seem to convince anyone to keep the microwave in one location and plugged in
21:34 < jonathan_> but hey, we can have long convos about how incredibly bad some bio product smells eh
21:34 <@kanzure> bunch of pussies
21:34 < jonathan_> bryan i'll fwd you the emails
21:34 < yashgaroth> is this smell issue related to something at the lab
21:35 -!- mode/##hplusroadmap [+ooo archels klafka bkero] by kanzure
21:36 < jonathan_> smell, no.. a bio guy this eve kept telling me all about some chemical that smells "like the strongest toe-jam ever"  as if I knew what that meant and smelled my own toejam frequently?      meanwhile i'm trying to work and get out of there..
21:36 < jonathan_> obviously ppl with too much free time
21:36 <@kanzure> jonathan_: so, why not a lab based around consulting
21:36 <@kanzure> jonathan_: and then let people come in to do projects based on proposals or w/e for free, instead of membership fees, if you happen to like their projects (educational, tutorials, or actual work stuff)
21:37 < jonathan_> consulting for what, the smelliest chemical or talking about smelly bio?
21:37 <@kanzure> then the consulting revenue can support the facility
21:37 <@kanzure> i mean CRO work
21:37 <@kanzure> it's how the biotech world spins
21:37 <@kanzure> big bio has forms specifically for paying CROs big piles of money
21:37 < jonathan_> i'd rather not discuss whatveer the biz model for the lab is...   it is no longer my concern
21:37 <@kanzure> this is a thing they happily do
21:37 <@kanzure> okay whatever
21:37 < yashgaroth> he has his 'bucha and he's happy
21:38 <@kanzure> i see
21:38 < jonathan_> there have been a bunch of consultants come in...   (aka unemployed guys)
21:38 <@kanzure> consultant does not mean unemployed
21:38 < jonathan_> oh, my culture that almost died due to bad lab hrs?
21:38 <@kanzure> if they actively sign contracts at biotech companies, i think that's worth knowing
21:38 <@kanzure> no reason for a lab to not be 24/7
21:39 < jonathan_> there is one girl who is a successful consultant/trainer, she is going to def be in the lab, maybe with her own bench
21:39 <@kanzure> what consulting does she do?
21:39 < yashgaroth> who, dana?
21:39 < jonathan_> surfing
21:39 <@kanzure> what you really want is someone who regularly closes 10k-50k deals with biotech companies. these are super small contracts and shouldn't be hard to do at all.
21:40 < jonathan_> ask why they would be in that lab at all if there is no supervision there
21:40 <@kanzure> because you shouldn't have members you don't trust
21:41 <@kanzure> what sorta hostile environment is this
21:41 < jonathan_> Hrrrmmmmm    well even qualcomm for example has the exact same problem
21:41 < jonathan_> "who unplugged my router???  who changed the firewall rules???"
21:41 <@kanzure> that's why you provision your own private firewall/vm/whatever
21:41 < jonathan_> that is why test network is designed as completely separate from engineering network and corp networks
21:42 < jonathan_> "who brought the network down with the packet flood test?"
21:42 <@kanzure> that's just poor network design
21:42 < jonathan_> the point is that even large corps with well paid full time proj managers still has these probs
21:43 < jonathan_> so now a coop lab won't have these probs?   as I was mentioning tonight, no one wants to tell the f'ups to get lost, so problems will happen
21:44 < jonathan_> or even, no one seems to really want to manage the lab at all
21:44 <@kanzure> we should put gradstudentbot in charge of the lab
21:44 < gradstudentbot> When is he back from sabbatical?
21:44 < jonathan_> where's the white board or etc with stuff work lists?  none?
21:46 < jonathan_> anyways it was bound to happen just a matter of time
21:47 < jonathan_> btw max, richard wants a write up of our project, so he can post to the web
21:48 < yashgaroth> oh yeah aight
21:48 < jonathan_> so do you wanna write something then I can add the electronics part to it then we send it to him
21:48 < jonathan_> probably just a paragraph
21:48 < yashgaroth> cool
21:49 < jonathan_> make sure to emphasize how smelly the project is lol
21:50 < jonathan_> paperbot http://onlinelibrary.wiley.com/doi/10.1111/j.1439-0507.1995.tb00410.x/pdf
21:50 < paperbot> http://libgen.org/scimag4/10.1111/j.1439-0507.1995.tb00410.x.pdf
21:50 < yashgaroth> disruptively smelly
21:50 < jonathan_> wow paperbot is like magic!
21:51 < ParaSa1lin> hehe
21:51 < jonathan_> kombucha is a zooglea btw
21:53 < jonathan_> that's a great scrabble word
21:56 <@kanzure> that's probably the nerdiest thing you've said in here
22:00 -!- yash [~ffffff@cpe-66-27-118-94.san.res.rr.com] has joined ##hplusroadmap
22:02 < nmz787_> cool
22:02 < nmz787_> !
22:02 -!- yashgaroth [~ffffff@cpe-66-27-118-94.san.res.rr.com] has quit [Ping timeout: 248 seconds]
22:04 -!- Viper168 [~Viper@unaffiliated/viper168] has joined ##hplusroadmap
22:09 -!- yash [~ffffff@cpe-66-27-118-94.san.res.rr.com] has quit [Quit: Leaving]
22:09 -!- yashgaroth [~ffffff@cpe-66-27-118-94.san.res.rr.com] has joined ##hplusroadmap
22:15 < jonathan_> i wonder if that's a compliment or an insult.
22:18 < jonathan_> look at how many consultants are signed up for the grand opening.. all there for networking.  http://biotechandbeyond.eventbrite.com/
22:27 < jonathan_> Hello, Mr. Jeff Cassett, FBI
22:28 < jonathan_> "Special Agent Jeff Cassett is the Weapons of Mass Destruction Coordinator for the San Diego Division of the FBI."
22:28 < yashgaroth> aww dangit
22:29 < jonathan_> "Special Agent Cassett has held this position for 11 years and has responsibilities to coordinate the local FBI efforts in preventing, preparing for, and responding to WMD related events. SA Cassett currently works on the FBI’s Joint Terrorism Task Force and has previously served as a Special Agent Bomb Technician and the Team Leader for the FBI’s Hazardous Materials Response Team."
22:29 < jonathan_> thanks a lot Joe
22:30 < jonathan_> ""My name is Jeff Cassett. I am the Weapons of Mass Destruction Coordinator for the San Diego Division of the FBI. I wanted to take this opportunity to introduce myself to the group.  How did you hear about us? The FBI is very interested in maintaining connectivity to DIY BIO groups across the country. I have been involved in numerous meetings and conferences with DIY BIO participants, as well as leading researchers, and industr
22:30 < jonathan_> members, in the field of synthetic biology. Glad to hear there is a group in San Diego.   What sort of events do you expect from DIYbio San Diego?  The FBI hosts an FBI/DIYBIO/Synthetic Biology symposium every year to exchange ideas and network with hobbyists and industry members. This year's event will be held in Mountain View, CA/Sunnyvale, CA, in early June. Please feel free to reach out to me if you want more info or have an
22:30 < jonathan_> items of concern. jeffrey.cassett@ic.fbi.gov   ""
22:32 -!- ielo [~ielo@pool-96-255-47-217.washdc.fios.verizon.net] has joined ##hplusroadmap
22:33 < yashgaroth> david brin apparently
22:34 < jonathan_> plus a nice assortment of JOURNALISTS
22:34 < yashgaroth> wait do we need tickets to get in cuz I told like a dozen people to just show up
22:37 <@kanzure> "early june"
22:37 <@kanzure> was this last year?
22:37 < yashgaroth> "The FBI host[ed]"
22:38 <@kanzure> cause here's what they said http://diyhpl.us/wiki/transcripts/fbi-diybio-2012/
22:38 < jonathan_> max did you finish the writeup ?
22:38 <@kanzure> gradstudentbot: when are you going to finish writing the paper?
22:38 < gradstudentbot> I coauthored a paper about that a few years ago.
22:39 < yashgaroth> wut no
22:39 < jonathan_> dude write a paragraph already
22:39 < jonathan_> richard wants it tonight
22:39 <@kanzure> "a whole paragraph!?"
22:39 < jonathan_> yea I know, complex huh
22:39 <@kanzure> jonathan_: the secret to making a biologist do work is to write a bad paragraph, and then he will be angered enough to fix it
22:40 < yashgaroth> every snide comment adds 15 minutes to my dicking-around time, but fine
22:40 < jonathan_> this liquid stuff goes in this tube and it does stuff and like makes stuff happen and then it goes out this other tube after it's like mutated and stuff and then like there's a beaker involved and suddenly data appears and the PI signs off on it or something
22:41 < jonathan_> i kinda wanna sleep ya know
22:41 < yashgaroth> I'm typing
22:41 < jonathan_> was this last year?  -> yea that quote may have been from last year
22:42 < jonathan_> and anyway the reason for fbi to host the conf is so they can.. drum roll..  say nothing and SPY on everyone else..  and duh.. worked pretty well for them eh
22:43 -!- kmo [~kmo@unaffiliated/kmo] has quit [Remote host closed the connection]
22:45 < gradstudentbot> Don't even ask how my research is going.
22:54 <@kanzure> jonathan_: yeah but how else am i going to get NRA funding
22:55 <@kanzure> gene guns gotta fall under 2a
22:55 <@kanzure> fbi is a straight shot to the top of the NRA grant pile :p
22:56 < jonathan_> if ya cant beat em, join em.
23:13 < jonathan_> i rule
23:14 < jonathan_> paperbot pmid     18979556
23:15 < jonathan_> paperbot http://www.ncbi.nlm.nih.gov/pubmed/18979556
23:15 < jonathan_> poor paperbot
23:33 -!- ielo [~ielo@pool-96-255-47-217.washdc.fios.verizon.net] has quit [Ping timeout: 264 seconds]
23:33 < jonathan_> paperbot http://www.sciencedirect.com/science/article/pii/S0928468011000034
23:33 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/Hepatoprotective%20properties%20of%20kombucha%20tea%20against%20TBHP-induced%20oxidative%20stress%20via%20suppression%20of%20mitochondria%20dependent%20apoptosis.txt
23:38 < jonathan_> paperbot http://www.sciencedirect.com/science/article/pii/S0269915X00800348
23:38 < paperbot> http://libgen.org/scimag3/10.1016/S0269-915X%252800%252980034-8.pdf
23:38 < jonathan_> bad url The requested URL /scimag3/10.1016/S0269-915X%2800%2980034-8.pdf was not found on this server.
23:38 < jonathan_> suspect bad unicode
23:41 < jonathan_> paperbot http://www.sciencedirect.com/science/article/pii/S0924224407002932
23:41 < paperbot> http://libgen.org/scimag4/10.1016/j.tifs.2007.10.001.pdf
23:42  * jonathan_ dude what. 
23:42 < jonathan_> " Kombucha might be promising probiotics for consumption on the Moon
23:42 < jonathan_> Kozyrovska, Natalia; Foing, Bernard H.
23:42 < jonathan_> 38th COSPAR Scientific Assembly. Held 18-15 July 2010, in Bremen, Germany, p.3"
23:54 -!- klafka [~klafka@c-24-6-18-31.hsd1.ca.comcast.net] has quit [Read error: Connection reset by peer]
23:55 -!- klafka [~klafka@c-24-6-18-31.hsd1.ca.comcast.net] has joined ##hplusroadmap
23:56 -!- kmo [122@d30-138.icpnet.pl] has joined ##hplusroadmap
23:56 -!- kmo [122@d30-138.icpnet.pl] has quit [Changing host]
23:56 -!- kmo [122@unaffiliated/kmo] has joined ##hplusroadmap
--- Log closed Wed Jul 10 00:00:21 2013