--- Day changed Wed Aug 13 2008
01:09 < bkero> lol
01:09 < kanzure> :)
01:41 < kanzure> Aha. Here's an idea.
01:41 < kanzure> How about I go find out who else is hosted by the Nature hosting company?
01:52 < kanzure> http://www.biotechniques.com/default.asp?page=current&subsection=article_display&id=112830 An automated home-built low-cost fermenter suitable for large-scale
01:52 < kanzure> bacterial expression of proteins in Escherichia coli
01:54 < kanzure> ping?
01:54 < bkero> pong
01:58 < kanzure> "	
01:58 < kanzure> *	In lieu of a signature, we require a unique identifier used only for subscription verification purposes.
01:58 < kanzure>  	
01:58 < kanzure> PLEASE SELECT YOUR EYE COLOR:"
01:58 < kanzure> Hrm.
01:58 < kanzure> Something seems fishy about that.
01:59 < kanzure> unique identifier ?
01:59 < kanzure> eye color?
01:59 < kanzure> and they give four options?
02:03 < kanzure> Anyway, I was able to get access another way, so if anybody wants the paper just ask and I can throw it up on the server.
02:03 < kanzure> It's geared towards "nonbiotechnologists" i.e. supposedly simple.
02:03 < kanzure> Combine this with http://bioinformatics.org/pogo/ and you might have something interesting.
02:03 < kanzure> Ok, you'd still need to figure out some vectors.
02:03 < kanzure> Though I do remember some newscientist articles about DNA synthesizers on a chip.
02:04 < kanzure> http://biohack.sourceforge.net/wiki/index.php/DNA_synthesizer
02:04 < kanzure> would be nice if the writozyme http://heybryan.org/mediawiki/index.php/Retarded_polymerase would be complete by tomorrow :-)
02:04 < kanzure> oops, ignore the biohack.sf.net link
02:04 < kanzure> http://heybryan.org/mediawiki/index.php/DNA_synthesizer
02:05 < kanzure> 'A flexible light-directed DNA chip synthesis gated by deprotection ...'
02:05 < kanzure> I wonder how they plan to do purification.
02:08 < kanzure> (biotechniques.com's DB is dead at the moment (Postgre? methinks))
03:01 < kanzure> Hm, xpdf doesn't tell you when you've hit the last page.
03:07 < kanzure> hurray for cpan.
05:46 < kanzure> Hm. Odd problem.
05:46 < kanzure> xpdf takes an argument -exec and can run openFileAt() or something
05:46 < kanzure> it apparently does not allow openFileAt("/my/file/hey.pdf",3)
05:46 < kanzure> but it does allow openFileAt(/my/file/at/hey.pdf,3)
05:46 < kanzure> which is cool and all, except that my file names have commas in them
05:47 < kanzure> thus I get openFileAt(/my/file/at/hey 3,2,blah.pdf,3)
05:47 < kanzure> I'm trying s/\,/\/\,/;
05:47 < kanzure> but this doesn't look right
05:49 < kanzure> Error: Invalid command syntax: 'openFileAtPage('/mnt/maxtor/all/nature/papers/0957 + 561 A, B: twin quasistellar objects or gravitational lens?.pdf',2)'
05:53 < kanzure> Error: Invalid command syntax: 'openFileAtPage("/mnt/maxtor/all/nature/papers/0957 + 561 A\, B: twin quasistellar objects or gravitational lens?.pdf",0)'
05:53 < kanzure> w.t.f
05:55 < kanzure> hahah
05:55 < kanzure> http://64.233.167.104/search?q=cache:MLGuCqyB4e0J:www.sfr-fresh.com/unix/misc/xpdf-3.02.tar.gz:a/xpdf-3.02/xpdf/XPDFViewer.cc+openFileAtPage+xpdf+%22invalid+command+syntax%22&hl=en&ct=clnk&cd=1&gl=us
05:56 < kanzure> see  void XPDFViewer::execCmd(GString *cmd, XEvent *event)
05:56 < kanzure> this makes me cry
05:56 < kanzure> pathetic parser 
05:56 < kanzure> isn't it conceivable for a file name to have a comma in it ?
06:04 < kanzure> What character encoding is the "double dash" (-- as one character) in?
06:21 < kanzure> Hurray
06:21 < kanzure> it works
06:21 < kanzure> http://heybryan.org/shots/2008-08-13_AutoScholar.png
06:28 < kanzure> Hm.
06:29 < kanzure> I should interface this with hearpdf.pl.
06:29 < kanzure> oh, right. it's not all text ..
07:12  * kanzure just made a nasty crontab hack ... 1 * * * * ps -C "xmms" >& /dev/null; [[ $? -eq 1 ]] && ctrlxmms info >> /home/bryan/xmms_playlist_2008-08-13.txt
08:08 < kanzure> Aha. One downside of my script is that it breeds zombies.
09:39 < nsh> kanzure, how's your literature corpus doing?
09:54  * nsh needs a (few) article(s)
10:21 < kanzure> heh
10:21 < kanzure> What do you need?
10:53 < nsh> one sec
10:55 < nsh> http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T9H-491V0SX-BB&_user=10&_coverDate=08%2F31%2F1993&_rdoc=1&_fmt=high&_orig=browse&_sort=d&view=c&_acct=C000050221&_version=1&_urlVersion=0&_userid=10&md5=530b65ef49cf12c73055c54f01fef927
10:55 < nsh> ( The daughterless gene product in Drosophila is a nuclear protein that is broadly expressed throughout the organism during development )
10:55 < nsh> and: http://journals.cambridge.org/action/displayAbstract;jsessionid=65428F67AD754A5B02D8AA7D37E51556.tomcat1?fromPage=online&aid=71797#
10:55 < nsh> ( The 62E early-late puff of Drosophila contains D-spinophilin, an ecdysone-inducible PDZ-domain protein dynamically expressed during metamorphosis )
17:13 < kanzure> nsh: http://heybryan.org/~bbishop/docs/ has them now.
17:13 < kanzure> Sorry for the lag.
17:18 < kanzure> Heh. Managing editor of PLoS ONE thinks I am a "scary person". "Fortunately I don't have to read anything I publish (I have people to do that for me!)"
17:23 < kanzure> I wonder if nature wants to play fairly today.
17:24 < kanzure> Nope.
17:42 < nsh> cheers kanz
17:44 < kanzure> from some discussion in #singularity on oftc,
17:44 < kanzure> it occurs to me that, in here, we're all just pointing the finger as to who's a bot
17:45 < kanzure> I claim nsh is a bot
17:45 < kanzure> fenn thinks I might be a markov bot too
17:45 < kanzure> so are we all just a steaming mess of Turing test or something ?
17:45 < kanzure> a steaming hunk of Turing test dropouts
18:03 < kanzure> Turns out Opera has some command line options to throw commands at it. I'm thinking I'll get back to my heybryan.org/projects/browsehack/tabtabtab.html today or something. 
18:06  * nsh knows everyone is a bot
18:06 < nsh> not sure about hisself
18:06 < kanzure> paranoia?
18:06 < nsh> nah, i just have a nuanced understanding of the workings of the collective unconscious
18:07 < kanzure> egocentricism?
18:07 < kanzure> aka mecentricism?
18:12  * nsh smiles
19:15 < kanzure> Max More recommended http://www.amazon.com/True-Names-Opening-Cyberspace-Frontier/dp/0312862075/ref=pd_bbs_sr_1?ie=UTF8&s=books&qid=1218472198&sr=1-1 to me yesterday re: programmers-as-magicians
19:15 < kanzure> fenn: do you have it in your collection?
19:21  * nsh gets from undernet
19:27 < kanzure> or maybe anything by Scalzi, Haldeman, any of that would be good too
19:27  * kanzure glances at his (imaginary) calendar showing Armadillocon on the 15th, 16th and 17th
19:56  * bkero just finished reading some douglas rushkoff. :)  Highly recmomended.
19:56 < bkero> *recommended
20:22 < kanzure> I've heard of him, somewhere.
20:22  * kanzure just got off the phone with Alan.
20:23 < kanzure> Evidently Alan doesn't want to hear about nature, 'puts me in an awkward position' and such. Oh well. 
20:24 < kanzure> he's working on extracting figures/captions from papers and then tagging them. Don't know why he wants to tag them .. he says it's mostly so that he can then use some context and some natural language processing algorithms later.
20:24 < kanzure> Sounds like a dark path to me ... natural language processing of papers => yikes.
20:27 < bkero> lolcontext
20:27 < bkero> PDFs are notoriously closed and gimped
20:27 < bkero> The last dude to crack it got extradited from fucking Russia.
20:29 < kanzure> http://www.kanungo.com/software/pset-1.01.tar.gz
20:29 < kanzure> What?
20:30 < bkero> http://en.wikipedia.org/wiki/Dmitry_Sklyarov+
20:31 < bkero> http://en.wikipedia.org/wiki/Dmitry_Sklyarov
20:32 < kanzure> That was just copyright protection fluff.
20:33 < bkero> Still involved cracking PDFs.
20:34 < kanzure> Where's gmake?
20:35 < bkero> In portage as dev-util/gmake
20:35 < kanzure> "bash: ./Voronoi: cannot execute binary file"
20:36 < bkero> It's just under make
20:36 < kanzure> Hrm.
20:36 < bkero> If you've got scripts that use it, just symlink it.
20:36 < kanzure> oh, it's the same thing?
20:37 < kanzure> hrm, looks like they're expecting a Sun workstation :-) ha ha, puny mortals
20:38 < bkero> Yup
20:38 < bkero> You found solaris software?
20:38 < bkero> Damn you must be looking in those dark corners of the internet.
20:38 < kanzure> http://www.kanungo.com/software/pset-1.01.tar.gz <---
20:39 < bkero> Wassat
20:39 < kanzure> page segmentation :)
20:40 < bkero> yea
20:40 < bkero> works perfectly
20:40 < bkero> ln -s /usr/bin/make /usr/bin/gmake
20:41 < kanzure> compat.h:216: error: conflicting types for ‘malloc’
20:41 < kanzure> compat.h:217: error: conflicting types for ‘realloc’
20:41 < kanzure> lines in question: extern	char *malloc();
20:41 < kanzure> extern	char *realloc();
20:41 < kanzure> hrm
20:42 < kanzure> ah, stdlib.h:486 - previous definition of 'realloc' 
20:42 < kanzure> but then what about 'malloc' ? Surely that's defined somewhere. Why is that in compat.h ?
20:43 < kanzure> grumble grumble, hunting other people's bugs ...
20:47 < elias`> would be rather useful to have unified handling for similar types of data.. e.g. any piece of text (in terminal, web browser, PDF viewer) would have similar kinds of context menus available, followed URLs are recorded somewhere with the context (from IRC from someone, some web page, ..) etc.
20:47 < kanzure> right
20:47 < kanzure> http://heybryan.org/bookmarking.html last paragraph on the page
20:48 < kanzure> ((XYCUT_PARAM *)(*xycut_param_p)) = (XYCUT_PARAM *) malloc (sizeof(XYCUT_PARAM)); <---- invalid lvalue in assignment.
20:48 < kanzure> grr
20:49 < kanzure> How is the left hand side of that statement messed up?
20:49  * kanzure has forgotten much of his C by now. 
20:49 < kanzure> I think the issue is *)(* which is something I've never had to do before
20:50 < elias`> cast operator in the left hand side looks pretty bad
20:51 < kanzure> yes
21:06 < kanzure> http://rafb.net/p/8meVAf65.html
21:06 < kanzure> grumble grumble
21:35 < kanzure> http://heybryan.org/resume/resume.txt meh, needs some work
22:31 < kanzure> oh wait
22:31 < kanzure> Todd is the one responsible for bilconference.com
22:32 < kanzure> it's the preTED thing.
22:32 < kanzure> http://bilconference.com/wp-content/themes/bil/images/shirt.jpg <-- Todd
22:49 < kanzure> http://hardware.slashdot.org/article.pl?sid=08/08/13/1827215
22:49 < kanzure> 'What exactly would robots with rat brains want to do, since they can't do any of their natural biological functions?'
22:49 < kanzure> 'The same thing we do every night, Pinky - try to take over the world.'