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| 06:34.33 | thebolt | Morning |
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| 06:47.04 | kblin | morning folks |
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| 06:47.47 | firc | hi |
| 06:47.56 | firc | Is there a list of passing student projects? |
| 06:48.59 | kblin | !results |
| 06:48.59 | socinfo | "results" is Results can be found on the Google Open Source Blog: http://google-opensource.blogspot.com/2010/08/our-6th-google-summer-of-code-has-come.html |
| 06:49.16 | kblin | that's what there is so far, watch the blog for other updates |
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| 06:55.15 | firc | thanks kblin |
| 06:55.42 | kblin | and off to work |
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| 08:20.17 | mbo | !next |
| 08:20.17 | socinfo | "next" is Google Summer of Code 2010 is over. Watch the Google Open Source Blog for results, your inbox for t-shirts and spend your time writing some useful or fun code. |
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| 09:13.10 | thebolt | hi kai |
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| 09:16.21 | kai | cautiosly pokes his network connection |
| 09:16.34 | kai | hi thebolt |
| 09:16.58 | thebolt | how do you do today? |
| 09:17.32 | kai | can't really complain |
| 09:18.12 | kai | still having fun getting vector images of my ammino acids |
| 09:19.23 | kai | it seems like I can use the rdkit toolkit dberkholz suggested yesterday, if I can get it to compile |
| 09:19.35 | kai | no luck on that so far |
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| 09:23.38 | thebolt | seems to be many "ifs" ;) |
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| 10:46.00 | kai | ew |
| 10:50.26 | kai | am I happy there's perltidy |
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| 11:39.51 | hiddenpearls | @kai: t-shirt and certificates will be in delivery ? |
| 11:40.11 | hiddenpearls | @kai: combined in one package ? |
| 11:47.27 | smtms | kai, when are you sending my t-shirt? |
| 11:47.36 | smtms | kai, will it be blue? or black? |
| 11:47.43 | thebolt | haha |
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| 11:51.53 | kai | smtms: ask socinfo about that. I'm not talking about those all the time, socinfo is. |
| 11:52.16 | kai | hiddenpearls: it was like that in 2005-2007, never got a cert after that |
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| 12:58.21 | Jun | !socinfo |
| 12:58.21 | socinfo | "socinfo" is always right |
| 12:58.26 | Jun | !socinfo |
| 12:58.26 | socinfo | "socinfo" is always right |
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| 12:59.51 | Waren | yop |
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| 13:41.09 | dberkholz | kai: try an older gcc, like 4.1 -- a lot of these things are too enterprisey for the devs to use new toolchains |
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| 13:42.02 | dberkholz | although i don't remember having any particular problems with rdkit, as a gentoo dev i'm kind of an expert at building weird software. |
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| 13:51.35 | kai | dberkholz: dunno https://sourceforge.net/tracker/?func=detail&aid=3054150&group_id=160139&atid=814650 is my bug report |
| 13:51.47 | kai | dberkholz: looks like a compiler flag issue |
| 13:52.04 | dberkholz | sigh, they're still using the sf bug tracker. poor guys. |
| 13:52.33 | dberkholz | linking a shared lib against a static one? |
| 13:52.43 | kai | cmake's doing |
| 13:53.06 | kai | I just did the "mkdir build; cd build; cmake .. && make" |
| 13:53.50 | kai | I don't get why they're not switching bug tracking to their google code project, though :) |
| 13:54.57 | dberkholz | kai: don't suppose you're on gentoo? i've got an ebuild that kinda sorta works |
| 13:56.13 | kai | nope, I tend to watch my cpus spin in blast, not in gcc :) |
| 13:57.20 | kai | I've got other work to do today, so I just reported the bug and moved on, I'll try to see if I can fix the build of rdkit next week |
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| 13:58.10 | kai | trying to speed up one of our data mining scripts right now, that's more important than drawing structures |
| 13:58.53 | dberkholz | kai: good times. let me know if you ever need to use a technique called nmds (nonmetric multidimensional scaling, like PCA but better), i've got a patch that speeds up available code around 1000x |
| 13:59.11 | dberkholz | haven't cleaned it up enough to submit yet |
| 14:00.32 | kai | ah, currently I need to fix our annotation logic. I've got an embl file that the code processes, and we loop over every CDS_motif feature for every CDS feature, giving us a measly 131 million times in that loop |
| 14:01.07 | kai | and even though the loop only takes a couple of milliseconds, that kind of adds up |
| 14:01.49 | kai | we never really noticed before, but now that other parts of the pipeline parallelize better, this silly single-thread code kind of sticks out |
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| 14:03.09 | dberkholz | looping is so last century. |
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| 14:03.30 | byang | Where is the GSoC 2010 result announcement? |
| 14:03.45 | kai | !results |
| 14:03.46 | socinfo | "results" is Results can be found on the Google Open Source Blog: http://google-opensource.blogspot.com/2010/08/our-6th-google-summer-of-code-has-come.html |
| 14:04.05 | kai | dberkholz: well, I did learn a lot about which perl profilers suck |
| 14:04.24 | byang | a, the webpage seems blocked in China... |
| 14:04.26 | dberkholz | perl? i'm sorry. |
| 14:04.37 | dberkholz | get with the bioinformatic times, migrate to python =) |
| 14:04.41 | byang | Is there other copy? |
| 14:04.56 | kai | byang: not that I'm aware of |
| 14:05.01 | dberkholz | byang: do you have access to google search engine caches? |
| 14:05.33 | byang | sometimes I can, but now, I can't... |
| 14:05.46 | dberkholz | or any other search engine that caches pages and makes them avaliable |
| 14:06.21 | dberkholz | kj |
| 14:06.22 | kai | dberkholz: well, we'll be merging our code with a project partner who's using python |
| 14:06.29 | dberkholz | woops, that was meant for my email client. |
| 14:06.45 | kai | which means I'll get to rewrite the parts that are currently in bash |
| 14:06.58 | kai | I'll see if I feel like rewriting the rest |
| 14:07.12 | byang | ah, using bing.com to see it, god |
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| 14:07.31 | kai | BioPerl has way better parsers than BioPython, and writing parsers is so dull |
| 14:07.43 | kai | maybe I can get some undergrads to do it, though |
| 14:08.01 | dberkholz | kai: one of our gsoc projects this year was about a libbash for python |
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| 14:10.06 | kai | dberkholz: gentoo? |
| 14:10.25 | dberkholz | yep. our package management is a mix of the two, so we've got a vested interest in making them play nicely together |
| 14:10.54 | dberkholz | i didn't really have a chance to track its progress closely but the student passed |
| 14:11.12 | dberkholz | too many projects this year to keep fully updated on all of them |
| 14:11.19 | kai | ah, fell for melange's default of 5 entries per list page again |
| 14:11.48 | dberkholz | look for the bash AST one |
| 14:12.25 | kai | yeah |
| 14:12.42 | kai | once I set the table to display all of the projects, that was kind of easy to find |
| 14:13.06 | byang | how can I submit my sample code to Google, I did not find any instruction on list and the official site. |
| 14:13.19 | kai | byang: you'll get an email with instructions |
| 14:13.31 | kai | see the !timeline |
| 14:13.34 | kai | !timeline |
| 14:13.34 | socinfo | "timeline" is (#1) http://socghop.appspot.com/document/show/gsoc_program/google/gsoc2010/faqs#timeline, or (#2) for the visually oriented: http://1.bp.blogspot.com/_mRuBILD0TjI/S6tGHR4mM3I/AAAAAAAACbw/tftJozZHs-0/s1600/gsoc10timeline.JPG |
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| 14:14.17 | byang | timeline said, it is August 30 |
| 14:14.24 | byang | only one day? |
| 14:14.33 | byang | when will we receive the instruction |
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| 14:16.09 | byang | ok, I find it, 'student can begin submit...' |
| 14:16.17 | kai | :) |
| 14:16.45 | byang | thanks a lot |
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| 19:19.57 | dberkholz | carols: mind a quick query? |
| 19:20.04 | carols | dberkholz: happy to |
| 19:20.10 | carols | serves tea and coffee |
| 19:20.14 | carols | happy friday |
| 19:31.55 | dberkholz | hmm, i need to check my definition of quick. definitely getting skewed by academia. |
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| 20:39.44 | kblin | evening folks |
| 20:40.22 | thebolt | evening kblin |
| 20:40.48 | gevaerts | Good evening! |
| 20:40.50 | gevaerts | yawns |
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| 20:42.19 | kblin | ok, enough embedded hardware for this year |
| 20:42.27 | kapila | next! |
| 20:42.35 | kapila | !next |
| 20:42.35 | socinfo | "next" is Google Summer of Code 2010 is over. Watch the Google Open Source Blog for results, your inbox for t-shirts and spend your time writing some useful or fun code. |
| 20:45.19 | thebolt | kblin: but it is so fun, what else should one do? :) |
| 20:47.44 | kblin | yeah, but I folded an ordered a beagleboard xm today |
| 20:48.14 | thebolt | i see |
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| 20:52.15 | kblin | together with some required peripherals.. |
| 20:52.36 | kblin | but at least I can drive two hdds off the same PSU |
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| 20:58.07 | thebolt | :) |
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