| --- Log opened Thu Apr 25 00:00:07 2013 | ||
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| @archels | Mokstar: but see http://dspace.mit.edu/bitstream/handle/1721.1/62715/715318821.pdf | 01:19 |
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| @archels | there's still much ado about the "haemo-neural hypothesis" | 01:19 |
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| @archels | Mokstar: see logs | 02:11 |
| Mokstar | oh yeah | 02:12 |
| Mokstar | I forgot kanzure obsessively logs everything | 02:12 |
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| EnLilaSko | If a study writes "potentiates dopamine", do they refer to more dopamine relase, less dopamine break down or upregulation of receptors? | 08:52 |
| ParahSailin | synaptic strength | 08:53 |
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| EnLilaSko | ParahSailin: So it could refer to everything? (From what I understand, to increase synaptic strength (LTP?) you'll either need to release more neurotransmittors or make more receptors at that place) | 08:54 |
| ParahSailin | amplitude of change as result of presynaptic action | 08:56 |
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| kanzure | "@bryan : this is not an 'interesting' approach. It's a practical one informed by decades of experience building synthetic DNA constructs and optical systems. i.e. one that might actually work. ;)" | 09:20 |
| yoleaux | 14:26Z <sbp> kanzure: if he can munge papers from scribd. e.g. http://www.scribd.com/doc/137892848/Untitled?secret_password=bz3gwxkcfe9ig2wzw4a#full | 09:20 |
| kanzure | "The basic problem of synthesis is that serial programmatic polymer synthesis is intrinsically error-prone. Per-cycle monomer coupling efficiencies are never above 99.5% and generally more like 99% for microarrays. This means that for a 100mer the percentage of correct, full length oligo molecules is only (0.99)^100 = 0.36 -> 36% Two thirds of the stuff made at this length has deletions. If you assemble this pool your synthetic gene will ... | 09:20 |
| kanzure | ... be riddled with frameshift errors. No good." | 09:20 |
| kanzure | "Other companies have tried to correct this by using error-correction enzymes that chew apart mismatched DNA to eliminate the random deletions. While this is fruitful when using traditional plate oligos, the errors are so bad in microarray-sourced DNA that you end up with horrible final yields, and even if you do end up getting something correct in the end it takes so much additional screening work that the cost of post-processing erases any ... | 09:20 |
| kanzure | ... marginal gains made by beginning at the larger microarray scale. I know several companies and academic groups that have investigated these batch pcr-strategies for making synthetic fragments from arrays, but believe that none have demonstrated sufficient speed and throughput of error-free synthetic fragments to make a convincing leap over traditional bulk-oligo assembly pipelines. (i.e. 15cents/bp for 1kb fragments from geneart w. 6 day ... | 09:20 |
| kanzure | ... turnaround)." | 09:20 |
| kanzure | "We're basically building a lot of custom optical / sequencing / laser gear to sample single molecules of a microarray pool and to cherry-pick out the correct ones. Instead of enzymatic tricks, we're doing physical separation upfront of the good from the bad, while simultaneously de-scrambling the ~10^5-10^6 pools into defined small assembly sets for very rapid, very high-throughput assembly of larger kilobase pieces." | 09:20 |
| kanzure | "The key spirit of what we're doing is to minimize biological complexity and trickery throughout the process and to backload complexity onto hardware and software - the domains where we're good at engineering. I've been doing bio for over a decade, and if you don't keep it simple you're hosed!" | 09:20 |
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| ParahSailin | kanzure: who's saying this | 09:31 |
| kanzure | anselm | 09:32 |
| kanzure | http://anselmlevskaya.com/ | 09:32 |
| ParahSailin | might be tricky to amplify a short oligo enzymatically | 09:37 |
| kanzure | 20mer is doable | 09:37 |
| kanzure | i might have seen someone pcr a 10mer? no that sounds unlikely. | 09:39 |
| ParahSailin | you gotta have a primer... | 09:39 |
| ParahSailin | i guess you could ligate the short oligo to a linker | 09:40 |
| ParahSailin | and then do a bridge amplification to get clusters on your solid support, then do sequencing | 09:40 |
| ParahSailin | and then have some reliable way to break it off the linkers? | 09:45 |
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| ParahSailin | i wonder how hard optical tweezers are | 09:51 |
| wsimons | Is Mariu present under a different username? | 09:51 |
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| ParahSailin | wow expensive | 09:54 |
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| wsimons | Hello yorick. Seen Mariu lately? | 09:58 |
| yorick | wsimons: april 16th | 09:58 |
| kanzure | whois wsimons | 10:00 |
| wsimons | Your precision is commendable. | 10:00 |
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| yorick | wsimons: I have seen him join on april 18th, but he didn't say anything | 10:01 |
| wsimons | yorick: is much happening on the other network? | 10:02 |
| yorick | wsimons: not at all | 10:02 |
| wsimons | How about in here? | 10:04 |
| yorick | I think there is talk most of the days | 10:05 |
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| ParahSailin | hm, i should try my hand at next generation synthesis | 10:17 |
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| wsimons | "next generation synthesis? | 10:45 |
| ParahSailin | dna synthesis beyond amidite | 10:45 |
| wsimons | I thought, you meant old-school procreation. | 10:46 |
| ruphos | that's first generation | 10:47 |
| wsimons | "Next generation" -- the generation after one's own, right? | 10:48 |
| ruphos | fair point | 10:48 |
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| ParahSailin | why would illumina insert size distribution have such regular "jaggies" like this http://i.imgur.com/vlmC4YU.png | 11:18 |
| ThomasEgi | no labels on axis? | 11:20 |
| ParahSailin | just a random curiosity-- maybe also just an artifact of the assembly of the reads and/or the bwa sampe mapping | 11:20 |
| ParahSailin | y axis is # paired reads; x axis is nt span between reads | 11:21 |
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| * eudoxia does his semi-monthly check of apmc.zyvex.com | 11:30 | |
| eudoxia | well, at least they changed the favicon... i guess that means they are still working on stuff | 11:31 |
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| wsimons | FooQuuxman: how much does Comcast bleed you for in IL? | 11:44 |
| kanzure | wsimons: why are you here? | 11:47 |
| wsimons | I am looking for someone. | 11:48 |
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| wsimons | Are we feeling territorial already? | 11:49 |
| kanzure | i am allowed to be curious, screw off | 11:49 |
| kanzure | curiosity is not a sign of territorial behavior and you should feel bad for suggesting otherwise.. | 11:50 |
| wsimons | I don't mind, in the slightest. | 11:50 |
| wsimons | "Why are you here" conveys something greater than mere curiosity. It conveys aggression. My response was appropriate. =) | 11:51 |
| kanzure | you're wrong. | 11:51 |
| eudoxia | or maybe he just wanted to know why you are here | 11:51 |
| kanzure | what! impossible. | 11:51 |
| industromatic | Why am I here? :-) | 11:52 |
| wsimons | Possible. | 11:52 |
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| wsimons | Because someone put you here. | 11:52 |
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| kanzure | wrong. industromatic is here for other reasons than that. | 11:52 |
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| wsimons | This is a transhumanist hangout, is that correct? | 11:53 |
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| kanzure | no. | 11:53 |
| wsimons | No? Uh oh. | 11:53 |
| kanzure | this is a project channel | 11:53 |
| kanzure | we work on projects. | 11:53 |
| wsimons | Given that it is on freenode, that's hardly surprising. | 11:54 |
| industromatic | Ah, I'm enjoying being here. Did some good apartment building today so far, andmore electrical wiring to come. | 11:54 |
| wsimons | industromatic: how do you mean that? How do you "do" an apartment building? | 11:54 |
| industromatic | Think of bio research products to build too. | 11:54 |
| kanzure | industromatic: don't feed the troll. sorry for the inconvenience. | 11:54 |
| kanzure | also it was wrong of him to drag you into it | 11:54 |
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| industromatic | I was using building as a verb. I've been building. | 11:54 |
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| wsimons | kanzure: you seem rather preoccupied with right and wrong. Why is that? | 11:55 |
| industromatic | I'm amused. Is he a troll. If so, sorry for feeding him. Since I'm just here on lunch break anyway. | 11:55 |
| wsimons | industromatic: I decoded it wrong. Sorry. | 11:55 |
| industromatic | He sounds like a troll now. | 11:56 |
| kanzure | industromatic: what's for lunch? | 11:56 |
| industromatic | What do you build wsimons? | 11:56 |
| wsimons | Feeding others is the compassionate thing to do, especially if you're on your lunchbreak, industromatic. This is self-evident. | 11:56 |
| industromatic | Really good sandwich from my own bread machine bread and a tall stack of other goodies. | 11:56 |
| industromatic | wsimon: Oh, my. That had a lot of leading suggestive stuff in it and no answer. | 11:57 |
| wsimons | industromatic: At present, I am attempting to rebuild an old pair of headphones, which I'd like to retrofit with some durable wiring. | 11:57 |
| industromatic | headphones: That sounds useful. | 11:58 |
| industromatic | We try to go beyond repair though, and innovate. | 11:58 |
| wsimons | Sarcasm? | 11:58 |
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| industromatic | nonsarcastic. | 11:58 |
| industromatic | Sorry wsimons, you don't pass my turing-like test for a friendly person. No more conversation. | 11:59 |
| wsimons | Well... I was thinking about putting in two monophonic jacks into them, but that would be more expensive. It is alluring, though. | 11:59 |
| kanzure | ugh the glowing plant kickstarter reached $65k :( | 12:00 |
| wsimons | From what I know of Turing, human emotions did not come easy to him. This makes your statement rather ironic. | 12:00 |
| kanzure | wsimons: perhaps you should lurk more to get a feel for this channel | 12:00 |
| wsimons | kanzure: what sort of "projects"? | 12:00 |
| wsimons | Efficiency, kanzure, efficiency. | 12:01 |
| kanzure | i believe the /topic outlines various projects very well. | 12:02 |
| kanzure | sigh | 12:02 |
| wsimons | Besides, any particular manner in which industromatic might interact with another, a not-me, tells me close to nothing about how he would respond to me. So, not only inefficient, but ineffective, as well! | 12:02 |
| wsimons | Nootropics? | 12:03 |
| brownies | glowing cats | 12:05 |
| wsimons | Poor cats. | 12:05 |
| rigel | World Intellectual PropertyDay is tomorrow! | 12:05 |
| rigel | Yay(?) | 12:05 |
| wsimons | Intellectual property: what you know more than others. | 12:05 |
| wsimons | Thus, the wealthiest man of all is he who can keep the most secrets. | 12:06 |
| kanzure | why are you here again? | 12:06 |
| wsimons | I'm looking for someone. | 12:06 |
| eudoxia | aren't we all? | 12:07 |
| wsimons | What do you think of my defn. of intellectual property? Like/dislike? | 12:07 |
| kanzure | can you do that quietly, or by explicitly asking your questions. | 12:07 |
| kanzure | sigh, that question is inappropriate. get out. | 12:07 |
| wsimons | eudoxia: not in that way :) | 12:07 |
| -!- mode/##hplusroadmap [+o kanzure] by ChanServ | 12:07 | |
| wsimons | Correction: passive-aggressive. | 12:08 |
| @kanzure | passive aggression requires that i don't communicate with you, which i've been doing abundantly. this is ridiculous. | 12:08 |
| -!- mode/##hplusroadmap [+q wsimons!*@*] by kanzure | 12:08 | |
| -!- mode/##hplusroadmap [-q wsimons!*@*] by kanzure | 12:08 | |
| @kanzure | oh darn what's the mode i want | 12:09 |
| wsimons | The one that makes you feel most manly, of course. | 12:09 |
| wsimons | Giving you the illusion of control. | 12:09 |
| @kanzure | haha manly.. okay. | 12:09 |
| ParahSailin | goddamn glowing plant shit | 12:09 |
| wsimons | Alpha. | 12:09 |
| ParahSailin | kanzure: send me some money so i can beat those cambrian assholes to next gen synthesis | 12:10 |
| @kanzure | alpha was disproven years ago, you're full of shit. | 12:10 |
| wsimons | kanzure: Just curious; how is my question "inappropriate"? | 12:10 |
| @kanzure | you're just adding noise to the channel. that's why it's inappropriate. | 12:10 |
| @kanzure | ParahSailin: gimme a proposal for how much money you need and where it will be going | 12:10 |
| @kanzure | ParahSailin: also i recommend just talking to me about it before actually writing a proposal, because fuck writing proposals | 12:11 |
| ParahSailin | have you seen wsimons before, how did you immediately know he was a troll | 12:12 |
| eudoxia | experience, years of it | 12:12 |
| @kanzure | oh weird it was +q that i wanted | 12:13 |
| @kanzure | ParahSailin: writing style. notice his belief in alpha, that's a dead give-away. | 12:13 |
| wsimons | Actually, that happened rather late in the discussion, kanzure. :) | 12:13 |
| @kanzure | also statements like "Are we feeling territorial already?" show how he interprets other messages. | 12:14 |
| ParahSailin | the why are you here seemed immediately like suspecting malfeasance | 12:14 |
| @kanzure | unprovoked, off-topic comments like "I thought, you meant old-school procreation." are very telling too | 12:14 |
| ParahSailin | after the "territorial" thing, yeah it was obvious | 12:14 |
| wsimons | Seemed rude to me. | 12:14 |
| ParahSailin | oh... i was looking at history starting from the 13:35 join | 12:15 |
| ParahSailin | was missing the earlier context | 12:15 |
| ParahSailin | yeah ok, pretty obvious now | 12:15 |
| @kanzure | it's an art. | 12:15 |
| wsimons | Modern art. Needs to be qualified. | 12:16 |
| @kanzure | can you go away yet :( | 12:16 |
| wsimons | Why won't you answer me? What was so inappropriate about my question re: intellectual property? | 12:17 |
| wsimons | Or is unbridled openness, for the sake of openness, presumed to be universally good? | 12:17 |
| @kanzure | pfft your assumptions are spilling out all over the place dude. it's not my job to clean up your intellectual sloppiness. | 12:18 |
| wsimons | The good thing about faulty assumptions is that they can be corrected. | 12:18 |
| wsimons | And, if you truly fancy yourself as an agent of global enlightenment, then, yes, it is your "job". | 12:19 |
| wsimons | At the very least, it hurts nothing to try. | 12:19 |
| @kanzure | wtf enlightenment | 12:19 |
| wsimons | The purposeful, long-term improvement of the human condition? | 12:20 |
| wsimons | Is this not the stated goal behind h+? | 12:20 |
| wsimons | Because if it isn't, I'm really behind the times. | 12:21 |
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| @kanzure | http://fora.tv/2013/04/25/Jack_Hitt_Talks_Bunch_of_Amateurs__At-Home_Geneticists | 13:17 |
| nmz787 | kanzure: ParahSailin i had a paper showing 6 or 8bp primers working, so short amp of a 20mer wouldn't be out of the question, but maybe ridiculous :P | 13:26 |
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| EnLilaSko | paperbot: http://www.nature.com/nrn/journal/v6/n1/abs/nrn1588.html | 13:27 |
| paperbot | HTTP 401 unauthorized http://www.nature.com/nrn/journal/v6/n1/pdf/nrn1588.pdf | 13:27 |
| @kanzure | oh yeah, i remember that 8 bp paper. that was crazy. | 13:27 |
| nmz787 | ParahSailin: jaggies are maybe the disparity between chunk sizesfor overlapping blocks? | 13:28 |
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| -!- Topic for ##hplusroadmap: biohacking, nootropics, transhumanism, open hardware | sponsored by george church and the NRA | http://gnusha.org/logs http://diyhpl.us/wiki http://groups.google.com/group/diybio | banned by the Federal Death Administration | official paperbot fan club | 13:35 | |
| -!- Topic set by kanzure [~kanzure@131.252.130.248] [Sat Mar 23 20:40:45 2013] | 13:35 | |
| [Users ##hplusroadmap] | 13:35 | |
| [@archels ] [ chido ] [ HEx1 ] [ makoLime ] [ Sanky ] [ ua ] | 13:35 | |
| [@kanzure ] [ chris_99 ] [ ielo ] [ monkeynipples] [ saurik ] [ Urchin ] | 13:35 | |
| [ _sol_ ] [ Coornail ] [ industromatic ] [ nmz787 ] [ SDr ] [ wsimons] | 13:35 | |
| [ abetusk ] [ cpopell ] [ ivan` ] [ nsh ] [ sivoais ] [ yoleaux] | 13:35 | |
| [ abumirqaan ] [ DMXRoid ] [ Jaakko96 ] [ nuba ] [ smeaaagle ] [ yorick ] | 13:35 | |
| [ AdrienG ] [ DonnchaC ] [ jrayhawk ] [ nully ] [ soylentbomb ] [ Zarakii] | 13:35 | |
| [ AlonzoTG ] [ ElixirVitae] [ juri_ ] [ paperbot ] [ strages_home] [ zdap ] | 13:35 | |
| [ AshleyWaffle] [ EnLilaSko ] [ klafka ] [ ParahSailin ] [ streety ] [ zubaz ] | 13:35 | |
| [ augur_ ] [ fenn ] [ ksjdhfksjdhfksd] [ pasky ] [ superkuh ] | 13:35 | |
| [ balrog ] [ gnusha ] [ Lemminkainen ] [ phryk ] [ Thomas42 ] | 13:35 | |
| [ bkero ] [ heath ] [ lichen ] [ rigel ] [ ThomasEgi ] | 13:35 | |
| [ brownies ] [ hehelleshin] [ lupfantomo ] [ ruphos ] [ Thorbinator ] | 13:35 | |
| -!- Irssi: ##hplusroadmap: Total of 68 nicks [2 ops, 0 halfops, 0 voices, 66 normal] | 13:35 | |
| -!- Channel ##hplusroadmap created Thu Feb 25 23:40:30 2010 | 13:35 | |
| -!- Irssi: Join to ##hplusroadmap was synced in 8 secs | 13:35 | |
| nmz787 | like maybe their algorithmms don't try stiching reads at every base, maybe they skip and try every 50th base or 100th base (whatever the jaggie jump size is) | 13:35 |
| ParahSailin | i dont think bwa does anything like that | 13:36 |
| nmz787 | or some linker they use is 10bp or whatever the peak to peak distance is along the X axis | 13:37 |
| nmz787 | welp i gotta go to the post office to see if they have my laser goggles | 13:38 |
| nmz787 | fucker's website says they left a notice on the 1st | 13:38 |
| nmz787 | but i didnt get a pink slip | 13:38 |
| nmz787 | so gonna have to drop a nerd smackdown on the post office lady | 13:39 |
| nmz787 | this is the second time recently packages with USPS have been screwed up and sat at this collection facility for weeks | 13:39 |
| @kanzure | i let all of my mail sit at their facilities in the hope that they will just send it back and instead email me things | 13:40 |
| nmz787 | i've just been assuming that the boat from china is going slow to save on fuel | 13:40 |
| nmz787 | i didn't expect it to be sent 5 day from china | 13:40 |
| nmz787 | so i've been waiting for more than 3 weeks needlessly without being able to play with lasers | 13:41 |
| nmz787 | and i've been waiting even longer to play with this laser | 13:41 |
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| wsimons | lol | 14:29 |
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| -!- Topic for ##hplusroadmap: biohacking, nootropics, transhumanism, open hardware | sponsored by george church and the NRA | http://gnusha.org/logs http://diyhpl.us/wiki http://groups.google.com/group/diybio | banned by the Federal Death Administration | official paperbot fan club | 14:54 | |
| -!- Topic set by kanzure [~kanzure@131.252.130.248] [Sat Mar 23 20:40:45 2013] | 14:54 | |
| [Users ##hplusroadmap] | 14:54 | |
| [@kanzure ] [ chido ] [ ielo ] [ monkeynipples] [ saurik ] [ Urchin ] | 14:54 | |
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| [ AlonzoTG ] [ DonnchaC ] [ juri_ ] [ paperbot ] [ strages_1ome] [ Zarakii] | 14:54 | |
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| -!- Irssi: ##hplusroadmap: Total of 68 nicks [1 ops, 0 halfops, 0 voices, 67 normal] | 14:54 | |
| -!- Channel ##hplusroadmap created Thu Feb 25 23:40:30 2010 | 14:54 | |
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| ParahSailin | hm, i dont have shell access to the proton one server we just got | 14:56 |
| @kanzure | proton one? | 14:57 |
| ParahSailin | password changed from the default :( | 14:59 |
| ParahSailin | i forget where proton one is one the iontorrent scale | 15:00 |
| @kanzure | time to install a root kit on a live cd? | 15:01 |
| ParahSailin | i think proton one is the big version | 15:02 |
| ParahSailin | the hiseq of the family | 15:02 |
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| klafka | http://whatshouldwecallgradschool.tumblr.com/post/48874324965/when-my-pi-asks-about-my-data | 15:11 |
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| @kanzure | SphericalMouse: hi | 16:22 |
| SphericalMouse | yo | 16:24 |
| ParahSail1n | is cambrian a founders fund group? | 16:34 |
| @kanzure | nah, i doubt it. they have SBIR money from DARPA. they might have thiel foundation money (i mean, the commercial offshoot). | 16:36 |
| @kanzure | damn i don't even remember the thiel foundation commercial arm | 16:36 |
| ParahSail1n | something from lotr | 16:37 |
| @kanzure | it says their incubators are "singularity university, singularity university labs, alchemist accelerator" but i doubt these.. | 16:37 |
| @kanzure | oh wait. yep. | 16:40 |
| @kanzure | there other investors are: singularity university, andy pham, ken arnold, jeff kowalski (autodesk), tugboat ventures, felicis ventures, elaine wherry (meebo), david waxman (peoplepc, tenoneten ventures), kris gale (yammer, microsoft), una ryan, chris alden (tpg capital, six apart), steven eskenazi, frank caufield (ustream investor i think), scott nolan (founders fund, spacex employee), maurice werdegar (webmynd investor), jeremy howard (sold ... | 16:41 |
| @kanzure | ... some stuff to opera iirc), james patterson, michael levit, founders fund, ryan junee (sold some stuff to google), joel yarmon, david beyer, nova spivack (klout investor), tim draper (DFJ- which has some other interesting singularity-related investments), aydin senkut (felicis ventures), carl bass (autodesk ceo), adam pisoni (yammer), mark jacobstein, gil elbaz (some google exit) | 16:41 |
| @kanzure | from the looks of it, i think they raised through angel list | 16:42 |
| @kanzure | also i screwed up and forgot to mention lukman winoto yesterday when you asked about who they were. | 16:43 |
| nmz787 | so if they fail and I have a better idea, i'll know to spam that list of investors | 16:45 |
| @kanzure | you don't raise on angel list by spamming :P | 16:45 |
| @kanzure | there was a good article about the amount of preparation you should aim for when you do an angel list round | 16:46 |
| @kanzure | for instance, just like that silly tactic that omri used on kickstarter there, you have to make sure a handful of strong investors pre-commit to it, and then "the day of" you have to make sure they make that information public | 16:47 |
| @kanzure | because you have a very short amount of time to show that there's traction even among other investors | 16:47 |
| @kanzure | otherwise your attempts to raise a good round on angel list will probably tank (unless you have an exceptionally great deal for them, which you probably don't if you have to spam) | 16:47 |
| @kanzure | damn where's that article. | 16:48 |
| @kanzure | brownies: do you remember the url? | 16:48 |
| @kanzure | this wasn't it :( http://www.josephfung.ca/blog/2011-09-29/12-rules-for-using-angel-list-like-a-boss/ | 16:49 |
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| brownies | i think it's either on venture hacks or quora | 17:28 |
| @kanzure | quora? ok then it's lost forever.. | 17:34 |
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| ParahSail1n | paperbot: http://www.nature.com/ncomms/journal/v4/n4/full/ncomms2747.html | 17:43 |
| paperbot | HTTP 401 unauthorized http://www.nature.com/ncomms/journal/v4/n4/pdf/ncomms2747.pdf | 17:43 |
| nmz787 | ParahSail1n: http://diyhpl.us/~nmz787/High-power%20lithium%20ion%20microbatteries%20from%20interdigitated%20three-dimensional%20bicontinuous%20nanoporous%20electrodes.pdf | 18:01 |
| nmz787 | kanzure: please figure out how to upload via jquery from a bookmarklet | 18:01 |
| @kanzure | how about just use a filepicker.io bookmarklet | 18:02 |
| nmz787 | hmm, | 18:04 |
| nmz787 | needs looking into | 18:04 |
| nmz787 | how do they handle security | 18:04 |
| @kanzure | it's like dropbox, except they give you a hook on the other end for where you want the file to be placed. | 18:05 |
| nmz787 | "We handle all the complicated javascript and backend APIs to give you a clean and elegant way of saving files" | 18:05 |
| nmz787 | they don't mention if they log your info, etc | 18:05 |
| @kanzure | they might possibly store your files for you, i don't remember thatp art | 18:06 |
| @kanzure | *that part | 18:06 |
| nmz787 | hmm, adobe reader in browser is actually flash | 18:09 |
| nmz787 | so i'm not sure i can get to the File | 18:09 |
| nmz787 | (object) | 18:10 |
| @kanzure | i believe you can use an XHR to get the content anyway | 18:14 |
| nmz787 | one other question similar to mine 10 years ago unanswered | 18:14 |
| nmz787 | http://lists.evolt.org/archive/Week-of-Mon-20031013/080679.html | 18:14 |
| nmz787 | my search is: get embedded pdf "File object" javascript | 18:15 |
| nmz787 | yeah I could re-download the PDF, then upload it to another server and put the link in my copy-paste memory | 18:15 |
| @kanzure | here... http://stackoverflow.com/a/7372816/687783 | 18:16 |
| nmz787 | and have a bot running on upload directory write, to post the link here | 18:16 |
| nmz787 | :P | 18:16 |
| @kanzure | except you need to have xhr.onload do something with the data, like XHR it to somewhere else that is accepting a file. | 18:17 |
| nmz787 | k | 18:17 |
| nmz787 | why base 64 encoding? | 18:17 |
| nmz787 | isn't binary base 2? | 18:17 |
| nmz787 | oh, so it can be posted as a string | 18:19 |
| nmz787 | stored | 18:19 |
| @kanzure | by default the browser renders data in various encodings.. | 18:19 |
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| @kanzure | cern is asking for donations for kicad development http://cernandsociety.web.cern.ch/technology/kicad-development | 19:16 |
| @kanzure | they want $300k eurozenni to "Bring Kicad in line with the best proprietary tools, and outclass them" | 19:16 |
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| klafka | whats kicad? | 19:46 |
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| delinquentme | OMGhio. | 22:15 |
| delinquentme | whereget soma dis modainil | 22:15 |
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| @kanzure | "The cost of synthesis is a sum of the cost of the instruments (or its depreciation over time), the cost of the people running it, the fixed overhead costs of the company doing it, the cost of shipping, and lastly the cost of the reagents. Among other things. "Cost" is not a simple thing." | 22:52 |
| @kanzure | "The cost of phosphoramidites is really low (at a minimum) given that they're produced in china. The container the phosphoramidites come in can be more expensive than the contents. CpG isn't that expensive either... I mean let's take it to a ridiculous limit-point: an oligo synthesis run costs a few hundred dollars in reagents, maybe a thousand. You're working with a ~mole of material. Divide that by avogadro's number. 1e3/6e23 = about ... | 22:52 |
| @kanzure | ... a tenth of an attocent per monomer." | 22:53 |
| @kanzure | "Reagents are expensive when you waste them. For traditional gene synthesis, the cost of oligos does dominate. Even the lowest-scale bulk synthesis reactions make about 1000x more material than is needed for a synthesis reaction. Microarray synthesis scales usage way down (though the amount of dna on a microarray spot is actually too low to use directly for reliable assembly, so some amount of post-processing is required) However, ... | 22:53 |
| @kanzure | "If you had a magic daemon that coud assemble single-molecules, your reagent cost for a 100mer would be about 10 attocents. (We don't know how to make magic daemons yet, but I suspect that physics does allow for a mesoscopically-coupled polymerase that could act as a decently accurate 'molecular printer' if you coupled it to some single-molecule sequencing feedback.) Why does a bulk reagent limit the ultimate cost? If you're efficient it ... | 22:53 |
| @kanzure | ... doesn't have to." | 22:53 |
| @kanzure | ... microarrays jumble everything together and make the error-correction problem much more severe." | 22:53 |
| @kanzure | "With regards to enzymes/reagents don't think that the price you pay for them is going to be the price an industrial purchaser is going to pay- most endusers of anything in biology are paying large margins. What you're paying for as an enduser isn't the stuff in the tube, it's the quality control that guarantees the stuff in the tube will do what you hope it will, as well as the convenience of that little tube shipped to you the moment you ... | 22:53 |
| @kanzure | ... need it." | 22:53 |
| @kanzure | "Don't get fixated on a single aspect of the cost structure. Ingots of ultrapure silicon aren't cheap, but their cost is only distantly related to the price of a cpu. If you have a relatively fixed amount of cost for people and machines and reagents, the only way you get improved cost per unit is by making a shitload more units by using more efficient processes. That's the idea." | 22:53 |
| @kanzure | "The paper you reference used a poor sequencing strategy that made exactly the same kinds of base-calling errors as the synthesis errors is was supposed to detect. If you don't match your filter to your noise source, you're not going to get good rejection ratios." | 22:53 |
| @kanzure | "Quick reference for error sources in DNA: | 22:53 |
| @kanzure | chemical synthesis errors : ~1 in 100 | 22:53 |
| @kanzure | thermal depurination errors : 1 in 10^5 (or worse, depending on time spent above 60C) | 22:53 |
| @kanzure | polymerase copy errors: 1 in 10^6 (for modern, phusion-like enzymes) | 22:53 |
| @kanzure | in-vivo bacterial copy errors: 1 in 10^8-10^9 per replication." | 22:53 |
| @kanzure | "Even if you magic away all the synthesis errors, you still have to worry about thermal depurination and large assembly errors. It's all about building quality control into the whole system. And that is why cheap sequencing is a big deal: it was a necessary precedent for cheap synthesis. Of course, the devil is in the details of how you leverage it." | 22:53 |
| @kanzure | thermal depurination errors :( | 22:55 |
| -!- superkuh [~superkuh@unaffiliated/superkuh] has joined ##hplusroadmap | 22:57 | |
| ParahSail1n | there's a number of challenges facing them | 22:58 |
| @kanzure | btw have you met anselm? | 22:58 |
| ParahSail1n | no | 22:59 |
| ParahSail1n | im kinda out of the cool people loop | 22:59 |
| ParahSail1n | how many of those guys do you know? | 23:03 |
| @kanzure | i know anselm alright. we bump into each other whenever. | 23:05 |
| @kanzure | i may have exchanged sarcastic retorts with austen once. that's about it. | 23:06 |
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| -!- ielo [~ielo@cpc9-addl4-2-0-cust229.6-3.cable.virginmedia.com] has quit [Ping timeout: 245 seconds] | 23:25 | |
| -!- ielo [~ielo@cpc9-addl4-2-0-cust229.6-3.cable.virginmedia.com] has joined ##hplusroadmap | 23:28 | |
| archels` | kanzure: I'm finding that a bunch of sites are hotlinking lecture videos and books from my fileserver | 23:43 |
| archels` | do you get this as well, and what can you do againt it? | 23:43 |
| @kanzure | do you want to do something against it? | 23:44 |
| @kanzure | i mean, it's not necessarily a bad thing | 23:45 |
| @kanzure | you can check http referer headers, and if they start spoofing those and using iframes, you can use some iframe breakout javascript to do the detection for you. | 23:45 |
| @kanzure | if the traffic volume is really high then you can just change the content to something that promotes you | 23:46 |
| archels` | yes, they are serving an embedded video on my server with their ads next to it. fuck these guys | 23:46 |
| @kanzure | how are they embedding the video? <embed>/<object>? <iframe>? <video>? | 23:47 |
| archels` | it's a jwplayer instance | 23:48 |
| archels` | flash/HTML5 | 23:48 |
| @kanzure | jwplayer has a bunch of fallbacks | 23:48 |
| @kanzure | i think it defaults to flash and then has an html5 fallback? | 23:48 |
| @kanzure | or maybe it's the other way around. | 23:48 |
| archels` | I could check my logs in the hopes of finding the IP of the spider, but it's too late to block that now. I would have to also change the filenames of things they are already linking to | 23:49 |
| @kanzure | anyway, yeah, you can have some server-side code that checks the referer header and serve different content based on that. | 23:49 |
| archels` | oh, based on the referer. hmmm | 23:49 |
| @kanzure | no, you just have to serve different content to different users based on the request structure. | 23:49 |
| @kanzure | hah.. http://www.htaccesstools.com/hotlink-protection/ | 23:50 |
| @kanzure | i recommend redirecting to a different video, possibly you ranting at them. | 23:50 |
| archels` | heh, I'm not that bitter. Mostly just want to patch this hole | 23:52 |
| archels` | (or what I perceive/deem to be a hole, anyway) | 23:52 |
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| --- Log closed Fri Apr 26 00:00:08 2013 | ||
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