--- Log opened Fri Jun 27 00:00:47 2014
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00:24 < nmz787> 'just sweep it under the rug'  paraphasing random internet person
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06:57 < kanzure> http://2013.igem.org/Team:TU-Delft/Zephyr
06:57 < kanzure> http://2013.igem.org/Team:TU-Delft/Zephyr_How
06:57 < kanzure> "Zephyr is a low-cost Do It Yourself (DIY) machine which can scan petridishes and 96 well plates for expression of fluorescence at micrometer scale. The Typhoon is the commercial machine that does the same, only it is priced around 120.000 dollars. The main difference is the use of low-cost optics. This allows you to pick exactly which fluorescence you want to detect and not to pay for the ones you do not use. Furthermore, it does not have ...
06:57 < kanzure> ... confocal optics, as this is not that often when scanning bacteria and protein gels. This DIY machine can be built by anyone with one or two days on their hands and the costs are around 1500 dollars."
07:02 < Viper168_> I assume that period should be a comma
07:02 < Viper168_> in 120.000
07:02 < Viper168_> otherwise it means $120
07:02 < kanzure> they are probably just usin the parallel reality numbering system
07:03 < dbolser> oh yeah, eu
07:03 < dbolser> in germany they use . to mean , and , to mean .
07:03 < dbolser> so 1.343,34 is normal
07:03 < chris_99> haha
07:03 < chris_99> thats odd
07:03 < dbolser> indeed
07:04 < Viper168_> that's also dumb
07:04 < kanzure> yep
07:04 < dbolser> dumb is mm/dd/yy
07:04 < kanzure> yep
07:05 < Viper168_> I prefer knowing the month first so I have a reference for what day it is first thing
07:05 < kanzure> just use ISO 8601
07:05 < Viper168_> what day it is in said month that is
07:05 < dbolser> how does twitter count views in their summary?
07:05 < kanzure> .wik ISO 8601
07:05 < yoleaux> "ISO 8601 Data elements and interchange formats – Information interchange – Representation of dates and times is an international standard covering the exchange of date and time-related data. It was issued by the International Organization for Standardization (ISO) and was first published in 1988." — http://en.wikipedia.org/wiki/ISO_8601
07:06 < dbolser> that sorts well
07:06 < chris_99> i don't think having the year first is that useful for humans though
07:07 < dbolser> assuming your brain reads strictly left to right
07:07 < chris_99> mm
07:11  * archels has been spotting quotes as separation mark more and more
07:11 < archels> as in, 1'123'242.41
07:12 < eudoxia> that's horrible
07:20 < kanzure> eudoxia: you should rewrite nanoengineer
07:21 < eudoxia> kanzure: the first herculean labor of transhumanism?
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07:35 < kanzure> eudoxia: who cares?
07:36 < eudoxia> shrug
07:36 < eudoxia> i actually discussed doing that with kirka before he disappeared from the internet, he was building his own in racket or something
07:36 < eudoxia> maybe he got somewher
07:36 < eudoxia> somewhere*
07:42 < kanzure> i doubt it
07:42 < kanzure> pretending that others you're not in communication with are making progress is like pretending a magical gnome will do all your work
07:43 < eudoxia> i do that with zyvex labs :V
07:43 < kanzure> do they even have employees?
07:44 < kanzure> .gc site:linkedin.com "zyvex labs"
07:44 < eudoxia> i don't even know
07:44 < yoleaux> 158 (site), 148 (end), 110 (api)
07:44 < kanzure> "Zyvex Labs. Privately Held; 1-10 employees; Nanotechnology industry"
07:44 < kanzure> so 1 employee
07:47 < ParahSailin> so, having to build gcc on this fedora core 4 machine because boost wont build because bcl2fastq wont build
07:49 < kanzure> enjoying your yak shaving?
07:50 < sheena> anyone here know things about an idea to supplement my upper body strength's ability to hold an object still while it's being pulled on https://docs.google.com/drawings/d/1cV5hlavzAf6eU1bAee8TzfH4vEI5WMKFipEezW5TbfM/edit?usp=sharing
07:51 < ParahSailin> kanzure: im just getting started, i will probably have to install libc too
08:07 < kanzure> it sounds like your office could use a snake pit
08:10 < ParahSailin> this is on a vendor's machine
08:10 < ParahSailin> we needed them to give us a shell; they give us something ancient
08:20 < kanzure> .title http://www.genesis-ultrasound.com/venous-ultrasound.html
08:20 < yoleaux> First diagnosis with venous ultrasound made by Dr. Karl Dussik
08:20 < kanzure> "He used a method in which a transducer was placed on both sides of the patient and submerged in water. The patient's head was partially under water as well. They transmitted sound waves toward the patient at a known rate. The echos were then recorded on heat sensitive paper. These were among the first ultrasound images and the first to diagnose brain tumors."
08:21 < kanzure> .title http://www.ob-ultrasound.net/aloka_ssd-1.html
08:21 < yoleaux> The Aloka SSD-1 waterbag scanner in 1960
08:21 < kanzure> .title http://www.ob-ultrasound.net/japan_ultrasonics.html
08:21 < yoleaux> history of Medical ultrasound / ultrasonography  in Japan, Toshio Wagai
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08:22 < kanzure> "n 1954, Tanaka published an important review entitled "Application of ultrasound to diagnostic field", and investigations had started with other body organs. By 1955, experiments and fabrication with B-mode scanning had started using a similar scope modified from the original A-mode machine coupled with a linear moving transducer gantry. This was shortly developed into the water-bag scanners."
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08:22 < kanzure> this looks similar to the turret ultrasound imaging apparatus that fenn found, http://www.ob-ultrasound.net/project/japan_water-bath_s.jpg
08:25 < ParahSailin> http://en.bookfi.org/ google asks me if i want to translate from russian, so i know its good
08:26 < ParahSailin> cool http://bookfi.org/dl/2236252/dab1cb
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08:27 < kanzure> at least russia has public access to literature
08:43 < kanzure> ParahSailin: why don't these methods show up in python-brlcad? https://github.com/kanzure/brlcad/blob/master/src/librt/primitives/brep/brep.cpp
08:45 < ParahSailin> im not that familiar with ctypes
08:46 < kanzure> oh right, i should check if those methods are available in the shared library in the first place
08:47 < kanzure> i only see somelib.rt_brep_plot and somelib.rt_brep_plot_poly
08:47 < kanzure> argh this is strange. that's not true. that was just tab completion. but this works:
08:47 < kanzure> In [7]: somelib.rt_brep_curve
08:47 < kanzure> Out[7]: <_FuncPtr object at 0x7f5b58037bb0>
08:48 < kanzure> but rt_brep_get is undefined. heh.
08:49 < kanzure> nm /that/lib.so | grep rt_brep_get returns nothing, but there's 21 functions that start with rt_brep_
08:49 < mosasaur> which python module imports these functions?
08:52 < kanzure> python-brlcad
08:59 < mosasaur> brlcad/__init__.py seems to expect _bindings to exist
08:59 < kanzure> it makes it
09:00 < kanzure> if _os.path.exists(_path_bindings):
09:00 < kanzure> https://github.com/kanzure/python-brlcad/blob/master/brlcad/__init__.py
09:01 < mosasaur> Ah OK, I never installed brlcad so a "locate bindings | grep brlcad" gives me nothing. What does it say on your system?
09:02 < kanzure> that question' doesn't make sense
09:02 < kanzure> what are you trying to learn?
09:02 < mosasaur> where the _bindings files are
09:02 < kanzure> they are generated
09:03 < mosasaur> well, do you have them, and where are they?
09:03 < kanzure> if you have installed python-brlcad then you have already generated the bindings
09:03 < mosasaur> you did not answer my question
09:04 < kanzure> are you asking me where site-packages is?
09:04 < mosasaur> no I just want to know the exact location of _bindings
09:05 < ParahSailin> kanzure: that is really bizarre
09:05 < kanzure> it's in brlcad/ when you install it
09:05 < kanzure> committing the bindings doesn't make sense because it wont work for whatever stupid version of brlcad you have installed
09:05 < kanzure> so it just generates bindings at install-time
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09:06 < kanzure> in my case it's /home/kanzure/.virtualenvs/brlcad/lib/python2.7/site-packages/brlcad-0.0.1-py2.7.egg/brlcad/_bindings/
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09:19 < kanzure> hm, librt.brep_intersect_curve_surface and librt.brep_intersect_curve_curve seem to exist
09:21 < gradstudentbot> You can't guarantee that.
09:22 < ParahSailin> you sure the .so corresponds to that cpp file?
09:22 < gradstudentbot> Cancer: still not cured.
09:22 < kanzure> no
09:23 < ParahSailin> https://github.com/kanzure/brlcad/blob/4ef506d738e12cc8f401a9419c0c9d89cda45459/src/librt/primitives/brep/brep.cpp the _get does not exist in this revision
09:24 < ParahSailin> do you know which revision your so is from?
09:25 < kanzure> huh, apparently not
09:25 < kanzure> that's a reasonable explanation
09:26 < kanzure> i keep forgetting that all the structs (like rt_db_internal) have the name "struct_" prepended. so it's really struct_rt_db_internal.
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13:30 < kanzure> jove.com is down
13:34 < kanzure> totally didn't do it
13:35 < chris_99> lol
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14:07 < chris_99> Does anyone know the name for how an enzyme can detect a particular type of molecule and then break it down accordingly, if there is such a generic name
14:08 < kanzure> binding
14:09 < kanzure> .wik binding affinity
14:09 < yoleaux> "In biochemistry and pharmacology, a ligand (from the Latin ligandum, binding) is a substance (usually a small molecule), that forms a complex with a biomolecule to serve a biological purpose. In protein-ligand binding, the ligand is usually a signal-triggering molecule, binding to a site on a target protein." — http://en.wikipedia.org/wiki/Binding_affinity
14:09 < chris_99> thanks!
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14:10 < kanzure> ParahSailin: i think we shuld fork the syrian electronic army ("syrian biology front", maybe) and get some of that aid money
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14:11 < gradstudentbot> That's definitely a Nature paper.
14:14 < ParahSailin> i think army and biology and syria just put me on a watchlist
14:15 < chris_99> lol
14:15 < kanzure> would be funny to troll diybio with an email from the syrian electronic army
14:16 < kanzure> "hai guys, wut media works best in the middle of the fucking desert?"
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14:17 < kanzure> doc brown getting his plutonium from that region is pretty funny, now that i think about it
14:18 < chris_99> Did they/do they have nuclear reactors there?
14:19 < kanzure> no, the libyan terrorists stole the plutonium
14:19 < kanzure> he was going to make them a nuke
14:20 < chris_99> aha hehe
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14:21 < chris_99> I assume currently it's not possible to build arbitrary enzymes to break down arbitrary molecules
14:23 < kanzure> hm wait why did brown even know libyan terrorists anyway
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14:23 < kanzure> maybe that's what "heavy stuff" was always referring to
14:23 < kanzure> someone should photoshop him into one of those ISIS propaganda videos
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14:28 < chris_99> maybe he made heavy water for them ;)
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14:34 < chris_99> Just found out about this http://en.wikipedia.org/wiki/Zymase thought that was clever
14:34 < kanzure> .wik zymase
14:34 < yoleaux> "Zymase is an enzyme complex that catalyzes the fermentation of sugar into ethanol and carbon dioxide. It occurs naturally in yeasts. Zymase activity varies among yeast strains." — http://en.wikipedia.org/wiki/Zymase
14:35 < chris_99> he extracted it in 1907
14:35 < chris_99> *1897
14:46 < joepie91__> paperbot: http://www.ehbonline.org/article/S1090-5138(10)00075-9/abstract
14:46 < joepie91__> (amidoingitrite)
14:47 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/6af3d1247ab3e711097ffcda087d7ce9.txt
14:47 < joepie91__> I'm not, okay
14:47 < kanzure> that just means paperbot tried really hard
14:47 < joepie91__> oh, I see
14:47 < joepie91__> paperbot: http://download.journals.elsevierhealth.com/pdfs/journals/1090-5138/PIIS1090513810000759.pdf
14:47 < joepie91__> ?
14:47 < joepie91__> yes? no?
14:48 < kanzure> he is reconsidering his existence
14:48  * joepie91__ pokes it with a stick, impatiently
14:48 < kanzure> paperbot: http://download.journals.elsevierhealth.com/pdfs/journals/1090-5138/PIIS1090513810000759.pdf
14:49  * joepie91__ stabs Python 3 in the eye with the stick
14:49 < kanzure> geeze that's a lot of redirects
14:49 < kanzure> at least 5
14:49 < kanzure> http://download.journals.elsevierhealth.com/pdfs/journals/1090-5138/PIIS1090513810000759.pdf -> http://loginptr.elsevierhealth.com/PhoenixWeb/PhoenixServlet?d=http://download.journals.elsevierhealth.com -> http://download.journals.elsevierhealth.com?xs=yes&sid=46443037323744412d444532452d393238302d453333372d3930353834344644383334333a3133312e3235322e3133302e3234383a31343033393035373538323138 -> ...
14:50 < kanzure> ... http://www.ehbonline.org/article/S1090-5138(10)00075-9/pdf -> a few others
14:50 < joepie91__> right
14:50 < joepie91__> I guess I'm not getting a paper? :(
14:50 < kanzure> paperbot tried :\
14:50 < kanzure> probably does not have access
14:51 < kanzure> usually they don't redirect you if you have access
14:51 < gradstudentbot> Is this going to count as my ethics training?
14:54 < joepie91__> :(
14:54 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/1aff50d9d0ed1c6c0006e56bc71bb858.txt
14:54 < joepie91__> ...?
14:55 < joepie91__> heh
14:55 < kanzure> haha
14:55 < joepie91__> persistent paperbot is persistent
14:55 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/1a0201b63be97d4827d78edd86bb05d7.txt
14:56 < kanzure> .botsnack
14:56 < yoleaux> :D
14:56 < kanzure> not you
14:57 < chris_99> heh
14:58 < gradstudentbot> Do I have to go through the IRB for that?
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15:54 < mokstar> yay
15:54  * mokstar gets a job.
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16:40 < kanzure> hm i didn't expect this code to be working already
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18:02 < kanzure> "Quote "Show me papers, not links I have to filter through. "    I agree with that.  Discuss specific, individual papers and their conclusions.  It is less worthwhile to point to blog entries or file directories of 100 pdf's."
18:02 < kanzure> jonathan cline hates me :(
18:17 < jrayhawk> i appreciate the ideal, at least
18:17 < kanzure> but without directories of pdfs, you're not going to get any
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19:23 < kanzure> https://github.com/kanzure/modelo
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19:25 < ybit2> kanzure: what made you write modelo?
19:26 < kanzure> angry about orm stuff
19:26 < kanzure> all muddled up with sql
19:26 < kanzure> models and type validations are both generally useful across a wide range of projects
19:27 < kanzure> but that doesn't mean i want to use sqlalchemy everywhere
19:31 < kanzure> ugh "Panasonic has a nice, small -80 freezer for about 4K." -80 freezer costs $4k? wtf
19:31 < kanzure> and why the fuck is it made by panasonic :|
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20:13 < kanzure> ehsm is streaming tomorrow (day 2?)
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20:26 < kanzure> ParahSailin_: what happened to operation "make antibodies yo"?
20:27 < kanzure> is that still going to happen
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20:45 < kanzure> nmz787: so what's the plan on the synthesier or parts
20:45 < kanzure> synthesizer
20:56 < nmz787> yo
20:56 < nmz787> http://www.npr.org/2011/11/30/142714568/interpreting-the-constitution-in-the-digital-era
20:57 < nmz787> I think I can look at that stuff on Sunday
20:58 < nmz787> tonight I'm gonna try to get the BOM done for the openspectrometer
20:58 < nmz787> kanzure: i'm kind of unsure how to arrange things actually... and if I want to move all my stuff to this lab i know of
20:58 < kanzure> "arrange things"?
20:59 < kanzure> what, your furniture not matching the drapes?
20:59 < nmz787> its relatively private, but I don't know if my renters insurance would cover items there
20:59 < nmz787> i need to get a labelmaker
20:59 < nmz787> well like the room with the microscope has a bunch of boxes, and lacks a table for one edge of the room
20:59 < nmz787> and then I was thinking the tables kind of suck
21:00 < nmz787> but I'm not sure what I'd really like... the prob is it's kind of a small room
21:00 < nmz787> I guess I'll check about my renters insurance policy
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21:47 < ||0_-_0||> paperbot http://www.nature.com/nrg/journal/v15/n7/full/nrg3742.html
21:47 < paperbot> http://libgen.org/scimag/get.php?doi=10.1038%2Fnrg3742
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--- Log closed Sat Jun 28 00:00:48 2014