=== neurogeek [n=neurogee@201.208.187.154] has joined #edubuntu === HedgeMage [n=HedgeMag@ubuntu/member/hedgemage] has joined #edubuntu === JavierElectrico [i=Javier_E@pc-55-216-239-201.cm.vtr.net] has joined #edubuntu [01:22] hi laser === bddebian [n=bdefrees@71.224.172.103] has joined #edubuntu [01:49] Howdy === JavierElectrico [i=Javier_E@pc-55-216-239-201.cm.vtr.net] has joined #edubuntu [02:24] hi there === sbalneav [n=sbalneav@S0106000b6a5631f9.wp.shawcable.net] has joined #edubuntu [03:27] Evening all [03:28] Heya sbalneav [03:29] Hey bddebian === thompa [n=thom@c-69-180-208-122.hsd1.tn.comcast.net] has joined #edubuntu === thompa [n=thom@c-69-180-208-122.hsd1.tn.comcast.net] has joined #edubuntu === Laser_away is now known as LaserJock === neurogeek [n=neurogee@201.208.187.154] has joined #edubuntu === sankarshan [n=sankarsh@202.41.228.162] has joined #edubuntu === JavierElectrico [i=Javier_E@pc-55-216-239-201.cm.vtr.net] has joined #edubuntu [07:11] hi there === JavierElectrico [i=Javier_E@pc-55-216-239-201.cm.vtr.net] has left #edubuntu [] === LaserJock is now known as Laser_away === Laser_away is now known as LaserJock === jbrefort [n=jean@lns-bzn-29-82-248-214-35.adsl.proxad.net] has joined #edubuntu [08:51] hi jbrefort [08:52] hi LaserJock [08:52] hey LaserJock and jbrefort [08:53] highvoltage! [08:53] hi highvoltage [08:53] highvoltage: I put up some Paris pics on my site [08:55] LaserJock: ooh [08:55] LaserJock: where's that again? [08:55] laserjock.us === highvoltage looks [08:55] it's in the gallery ;-) [08:58] :) [08:58] LaserJock: does this remind you of sbalneav? http://ftw.generation.no/?n=160 [08:59] ewwwwww [08:59] I sure hope not [08:59] :-) [08:59] hehe [08:59] LaserJock, nice photos [08:59] I'd never look at LTSP hacking sessions the same [09:00] lol [09:00] jbrefort: thanks, I'm an aweful photographer, but you can't go to Paris and not take pictures [09:01] I can ;) [09:02] I lived in Paris for six years, when I was a student [09:02] jbrefort: well, none of us there could really help ourselves, some of us went a bit trigger happy there [09:02] well, but this was my first time outside of North America [09:02] jbrefort: how was it living there? [09:03] stressing, too many people (for me) [09:03] for me it looked like a nice place to do some site-seeing, but not a place I'd enjoy living so much. [09:03] jbrefort: yes, waaay too many people [09:03] but I love going in Paris from time to timebut no more than a couple of days [09:04] LaserJock: do you know what could cause this: [09:04] xargs: file: exited with status 255; aborting [09:04] internal error: collect info file-info about package tuxlab-c4k: 13 [09:04] (lintian error, btw) [09:04] could it be that the package has too many files inside? [09:05] hmm, I'm not sure [09:06] I can't imagine that it'd choke on too many files. I'm pretty sure it runs on even the largets Debian packages === highvoltage delves a bit deeper [09:09] jbrefort: do you have something like a features ToDo list for gchemutils? [09:09] and I thought you said you planned on puting gchempaint into gchemutils, is that right? [09:14] yes, I'll include gchempaint just after branching for 0.8 [09:14] ah [09:14] there is a TODO file in the source tree. I don' remember what I put in there [09:16] Oops, the TODO file is old and needs some refresh [09:16] heh, I was just reading that [09:16] is the mozilla plugin done? [09:16] yes, but it supports only a few file types [09:17] in the future, I'd like it to support both 2d and 3d files and crystals as well [09:17] mhm [09:18] and, if I can understand how printing works for mozilla plugins, I'll implement it as well [09:18] anyway, the 3d view needs some love [09:19] it looked pretty nice to me [09:19] seems like some of the stuff doesn't have a ton of features, but what it does, it seems to do well [09:19] I'd like it shows multiple bonds and add more styles (wireframe and more) [09:20] I loaded up one of my molecules [09:20] one possibility would be to use the viewer from ghemical [09:20] and it rendered rather nicely [09:20] yeah [09:21] gcrystal should also at least import cif files [09:22] the idea is to use openbabel for that. I started writing an openbabel plugin [09:23] yeah, that would be nice [09:23] I'm going to update the TODO file now [09:23] most of the time what I find frustrating, is not being able to import the data format I have [09:24] and not being able to output to the file format I want [09:26] openbabel is the solution to file formats problems [09:26] yes [09:26] I love openbabel [09:27] I added anly support for a few formats, because I ha no samples for the other known formats [09:27] but adding new formats to gchem3 is trivial [09:28] for input? [09:29] is there any output options? I don't see any [09:30] it only outputs to screen [09:31] if you wish to output to another file format, use babel [09:31] well, I'm usually interested in creating .ps or .png files [09:31] we might write a GUI for babel [09:31] oh, that would be nice [09:32] there are times when I just want to convert formats [09:32] gchem3d can export ps files and pdf too (using the print command) [09:32] ah yeah [09:32] I sure seems light [09:32] png and jpeg would be easy to add, and will be added soon [09:33] I'm running it of ssh from home [09:33] and it runs nicely [09:33] just I'm working on some resolution support for these [09:33] s/of/over/ [09:35] what do you use for the various plots? [09:36] goffice [09:36] oh sure [09:37] it didn't look like gnuplot to me ;-) [09:38] as I can change the code in goffice if needed, it seems a good solution [09:39] yeah [09:39] is it possible to like zoom in or change axis ranges easily? [09:40] it would be possible, just it needs some coding [09:40] I just updated the TODO file [09:41] we might edit charts using the GogGuru (the same editor as in gnumeric) [09:41] it would just need to implement a few GObjects (this has to be done in C) [09:42] very cool [09:42] two new lines from TODO [09:42] * allow plotting any property againt another one, i.e. ei vs vdw radius. [09:42] * allow charts customization (using the code in goffice). [09:42] yes [09:43] ah, one thing carsten mentioned was that Kalzium copies the bodr data whereas you depend on it [09:43] that's easy to implement and should not demand a lot of time, so probably before 0.8 [09:44] copying needs frequent updates [09:44] and Daniel added a pc file in bodr to make things easy [09:44] do you know what license it's distributed under? [09:45] good question [09:46] MIT license [09:47] ah [09:47] I suppose we'll need a package for that in Debian/Ubuntu [09:47] Daniel intends to do that afaik, just waiting for 0.4 [09:48] 0.3 is buggy and can't be used [09:48] ah [09:49] I think Michael Banck and I are kinda making sure Daniel gets thing into Debian proper [09:49] yes [09:49] sure === juliux [n=juliux@ubuntu/member/juliux] has joined #edubuntu [09:50] I think between the 3 of use we might get somewhere ;-) [09:51] I discussed with jpansanel about using the structures in bodr as templates for gchempaint [09:52] yeah? [09:52] and i'd also like a residue database in bodr [09:52] how many structures do they have? [09:53] quite a lot, but only 3d at the moment [09:53] it would be so cool to have like NMR, UV/Vis, or IR data to go with them [09:53] yes [09:54] the organic chemists would love it ;-) [09:54] and the physical chemists would complain about bad assignments ;-) [09:55] hmm, unreliable assignments must be avoided [09:55] there are many in IR especially ;) [09:55] yes [09:57] the structure database has 368 structures at the moment [09:58] is there any easy/straightforward way to convert them to 2D? Can openbabel be used? [09:59] no, afaik [09:59] we cab do the 2d->3d conversion using ghemical [09:59] seems like you would have to figure out what plane to project it onto [10:00] for some, no projection would give a good result [10:00] yeah [10:00] seems like it'll be mostly manual work [10:01] yes, jpansanel was ok [10:02] he does cdk? [10:02] i don't think [10:02] but not sure [10:03] he wrote some code for konqueror afaik [10:03] around chemical mime types [10:04] hmm [10:11] jbrefort: is there a public svn repo of bodr [10:11] I found 0.3 but there aren't any structure in it that I can find [10:12] yes, the svn repository is at http://www.blueobelisk.org/repos/blueobelisk/trunk [10:14] :/ it give me an error, maybe I'm doing it wrong [10:14] may be i'm wrong [10:15] I can see it in a browser [10:15] http://wiki.cubic.uni-koeln.de/repos/blueobelisk/trunk [10:15] but I get: svn: PROPFIND request failed on '/repos/blueobelisk/trunk' when I do a svn co [10:16] sweet, that worked [10:19] that looks like an excellent project for people to work on [10:20] you don't have to be a programmer [10:20] just a chemist with some time ;-) [10:20] yes, I'll make some proposals for enhancements in bodr [10:21] I wonder if I could get people in my department to contribute [10:22] another place where a non programmer can help is checking my english in docs [10:22] have a Structure Day [10:22] ask jpansanel how this must be done [10:23] heh, yes. I'm a native english speaker and write a fair amount of documentation and I still need lots of proofreading when I'm done [10:26] so think about what I can produce as a non native english speaker (and I write much better than I speak) === HedgeMage [n=HedgeMag@ubuntu/member/hedgemage] has joined #edubuntu === ogra [n=ogra@ubuntu/member/ogra] has joined #edubuntu [10:50] hello ogra [10:52] morning orga [10:54] hey guys [10:55] ogra, is your fujisu siemens thinclient running with edgy? [10:55] hey ogra [10:56] ogra: if the ltsp chroot was a static bunch of files that were packaged, where would you ideally put the chroot? /var/ltsp, /usr/share/ltsp, other: _______ ? [10:57] juliux, i'll try tomoroow if i make install tests anyway [10:57] ok, I'm off now, the germans are up [10:57] ogra, here it is not working, it is a problem with the grafics [10:57] heh. goodnight LaserJock [10:57] highvoltage, /var/lib or /usr/share i guess === LaserJock is now known as Laser_away [10:57] night LaserJock [10:58] Laser_away, gn8 [10:58] juliux, you mean the rangee one, right ? [10:58] ogra: /var/lib would probably be more correct if I wanted to allow the user to chroot into the environment and change it? [10:58] ogra, yes [10:59] highvoltage, i'd have to looh up the advantages/disadvantage details in the FHS ... from my gut feeling i'd use /usr/share though ... buit /var/lib might be FHS compliant [11:00] ogra: ok, thanks for that. I'll look up the FHS documentation and try to figure out what looks reasonable [11:01] ogra: do you think the chroot is likely to stay in /opt long-term, since upstream and ubuntu ltsp is now the same? [11:02] hmm, according to FHS /usr/share would be for arch independent data ... [11:03] .... /var/lib looks about right [11:03] ... This hierarchy holds state information pertaining to an application or the system. State information is data that programs modify while they run, and that pertains to one specific host... [11:04] even though it doesnt get modified at runtime of ltsp-server ... it does get modified in the clients ram :P [11:04] heh, I don't think that counts though :) [11:05] ah, no, wait [11:05] Purpose [11:05] /srv : Data for services provided by this system [11:05] /srv contains site-specific data which is served by this system. [11:06] thats the right one [11:06] /srv/ltsp/$arch [11:06] ogra: would it be acceptable to have a tarball in a package that would extract to /opt, or is that too hacky? [11:06] if its a tarball, thats the right place [11:06] ah, that sounds good [11:06] but our package should probably use /srv to be FHS compliant [11:07] http://www.pathname.com/fhs/pub/fhs-2.3.html#SRVDATAFORSERVICESPROVIDEDBYSYSTEM === highvoltage bookmarks that page [11:09] I think we'll use /src/ltsp/i386 then for the ltsp installation in tuxlabs. [11:09] LHS :( [11:09] *srv [11:09] :) [11:09] is ubuntu trying to become compliant? [11:10] or would /srv/nfs/ltsp/i386 be more appropriate? [11:10] lucasvo: I thought ubuntu is already very compliant :) [11:10] highvoltage: no I wouldn't put it in nfs === Yagisan [n=Yagisan@doomsday/developer/Yagisan] has joined #edubuntu === cbx33 [n=pete@ubuntu/member/cbx33] has joined #edubuntu === juliux_ [n=juliux@195.227.105.180] has joined #edubuntu === juliux_ is now known as juliux === airjump [n=MZ@p508ACC04.dip.t-dialin.net] has joined #edubuntu [01:49] what's edgy+1 called again? === airjump [n=MZ@p508ACC04.dip.t-dialin.net] has left #edubuntu [] === jean__ [n=jean@lns-bzn-27-82-248-55-220.adsl.proxad.net] has joined #edubuntu === jean__ is now known as jbrefort === spacey [n=herman@ubuntu/member/spacey] has joined #edubuntu === cbx33 [n=pete@ubuntu/member/cbx33] has joined #edubuntu === bddebian [n=bdefrees@71.224.172.103] has joined #edubuntu [03:28] Howdy [03:30] howdy bd dd d dbdebian [03:33] Heh, hi highvoltage === RichEd [n=richard@dsl-146-139-230.telkomadsl.co.za] has joined #edubuntu === cbx33 [n=pete@ubuntu/member/cbx33] has joined #edubuntu === cbx33 [n=pete@ubuntu/member/cbx33] has joined #edubuntu === gnomefreak [n=gnomefre@ubuntu/member/gnomefreak] has joined #edubuntu === gnomefreak [n=gnomefre@ubuntu/member/gnomefreak] has joined #edubuntu === gnomefreak [n=gnomefre@ubuntu/member/gnomefreak] has joined #edubuntu === jono [n=jono@88-107-1-169.dynamic.dsl.as9105.com] has joined #edubuntu === bddebian [n=bdefrees@71.224.172.103] has joined #edubuntu === cbx33 [n=pete@ubuntu/member/cbx33] has joined #edubuntu [06:51] darn, did I mis jono [06:52] Laser_away: just missed him [06:52] Laser_away, ping pong === juliux [n=juliux@ubuntu/member/juliux] has joined #edubuntu === Rondom [n=Rondom@p54AEF4A4.dip.t-dialin.net] has joined #edubuntu [07:08] cbx33: that's illogical === Laser_away is now known as LaserJock === arkan0x [n=arkan0x@201.215.139.215] has joined #edubuntu === LaserJock is now known as Laser_away === Burgundavia [n=corey@wireless-29.media.mit.edu] has joined #edubuntu === Amaranth [n=travis@ubuntu/member/amaranth] has joined #edubuntu [08:51] Where is RichED? === juliux [n=juliux@ubuntu/member/juliux] has joined #edubuntu === HedgeMage [n=HedgeMag@ubuntu/member/hedgemage] has joined #edubuntu === jinty [n=jinty@205.Red-83-56-149.dynamicIP.rima-tde.net] has joined #edubuntu === Burgundavia [n=corey@ubuntu/member/burgundavia] has joined #edubuntu === Amaranth [n=travis@ubuntu/member/amaranth] has joined #edubuntu === pierro [n=pierre@meu77-1-82-241-107-44.fbx.proxad.net] has joined #edubuntu === gnomefreak [n=gnomefre@ubuntu/member/gnomefreak] has joined #edubuntu