Camelia, the Perl 6 bug

IRC log for #bioclipse, 2011-07-18

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All times shown according to UTC.

Time Nick Message
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07:49 zaetnick good morning
07:49 zaetnick cande: I'm back (more or less)
07:49 cande good morgon :)
07:50 cande r u comming to bmc 2morrow?
07:51 zaetnick I'm not planning to...but, r u there
07:57 cande om Gpox kommer dit så gör jag också det :)
07:57 zaetnick how is it going? any improvement with the R-console
07:57 cande yes and no  :)  it's working
07:57 Gpox left #bioclipse
07:58 cande but not as good as i intended to, But we have atleast two more weeks before i go, so i think it's possible to make it great!
07:58 cande ok , gpox tänkte inte åka till bmc imorgon, kanske ska vi träffas imorgon?
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08:03 zaetnick got a phone call...
08:04 zaetnick what do you think if we try on skype...
08:06 zaetnick if it works well we can talk basically every day this week and we can have good progress
08:06 zaetnick I hope
08:07 cande yes we can try that
08:08 zaetnick v good
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08:09 zaetnick well, when is it convenient for you
08:18 cande but i want to meet atleast one day this week :)
08:19 zaetnick you miss me too much
08:20 zaetnick sure,
08:23 cande hehe yes :)
08:24 cande the bioclipse wiki is slow today aswell
08:24 zaetnick :-)
08:25 zaetnick shall we start talking right now
08:26 zaetnick if yes I need 10 minutes
08:26 cande yes, me to
08:35 cande zaetnick: are you ready?
08:37 zaetnick yep
08:38 cande cool
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09:06 edrin hi
09:06 zarah saluton edrin
09:08 edrin does anyone know who moved the xws4j plugins from the Bioclipse SVN to git?
09:10 sneumann__ Doesn't the git repository tell you who created it ?
09:11 edrin maybe :)
09:18 egonw edrin: please meet Gpox (Arvid)
09:18 egonw Gpox: please meet edrin (Johannes)
09:19 egonw edrin, Gpox: please briefly talk about XMPP, Bioclipse, and OSGi
09:19 edrin ah thenks
09:19 edrin that's the plan
09:20 edrin another general question. is there now a git checkout/checkin plugin for eclipse which does not need a console window?
09:20 egonw yes, egit
09:20 egonw http://eclipse.org/egit/
09:20 edrin ok, nice
09:21 edrin what is jgit? (saw this one on the eclips eupdate site, too)
09:21 Gpox that is the git implementation in java, egit is the eclipse plugin part
09:21 edrin ok, thank you :)
09:39 egonw Gpox, edrin: so what repositories are there right now?
09:39 egonw the XWS4J needs to migrate to git...
09:39 egonw and the Bioclipse wrapping bundle
09:39 egonw how is that currently designed?
09:40 edrin i am wondering, too ...
09:42 Gpox I am not sure but jonalv moved the net.bioclipse.xws4j from bioclipse-svn to github, currently it is using net.xws4j from xws4j svn under eclipse-plugin
09:42 edrin egonw: we think that the bioclipse.xws4j repository in git is based on: net.bioclipse.xws4j-plugin from bioclipse svn and net.sf.xws4j-plugin from xws4j svn
09:42 edrin Gpox: ok, is it functional?
09:43 Gpox it compiles in elcipse, not yet on jenkins
09:44 edrin so: it seems that net.sf.xws4j is most likely already a bioclipse-independent eclipse plugin
09:44 edrin what is jenkins?
09:44 cande left #bioclipse
09:45 * edrin is currently checking his last eclipse workspace for the svn settings of his xws4j projects...
09:46 CIA-120 bioclipse.statistics: Christian Ander R_console * rdfe715c / plugins/net.bioclipse.r.business/src/net/b​ioclipse/r/business/RBusinessManager.java : Windowsplatform runcmd modification - http://bit.ly/nBiQcO
09:46 Gpox http://jenkins-ci.org/, forked from hudson. we use it to build bioclipse http://pele.farmbio.uu.se/jenkins/view/Bioclipse/
09:48 Gpox http://pele.farmbio.uu.se/​jenkins/job/net.sf.xws4j/ checks out and build the plugin from xws4j svn
09:50 edrin and then uploads it to git?
09:51 edrin what is the functionality of the externals folder in the bioclipse.xws4j repository then?
09:51 Gpox no, that was just me trying to get it to work. preferably it should take the jar from this build
09:52 edrin sorry, I am confused now
09:53 edrin that means the "externals" folder in git bioclipse.xws4j is outdated, or the jenkins job is currently experimental?
09:56 Gpox both, when you checkout net.biolcipse.xws4j you need the net.sf.xws4j jar somehow. Right now it is unpacked in the externals folder checked it to git
09:58 edrin ok, but the jar you are talking about, this is not the net.sf.xws4j eclipse plugin but the xws4j lib?
09:59 Gpox http://xws4j.svn.sourceforge.net/viewvc/xws​4j/xws4j/trunk/eclipse-plugin/net.sf.xws4j/
09:59 zarah Gpox's link is also http://tinyurl.com/6f9ls2o
09:59 edrin ok
10:00 edrin what is the difference between the net.sf.xws4j plugin in the bioclipse.xws4j externals folder and the plugin taken from the xws4j svn?
10:00 edrin is there one at all?
10:01 edrin egonw, Gpox: it seems the last sync on my HD with xws4j svn(s) were 2009-11-05 23; in both cases it was synced with the net.bioclipse.xws4j and net.sf.xws4j plugins in the xws4j svn
10:04 Gpox edrin: no, they should be the same.
10:04 edrin ok
10:06 edrin doesn't it result in a duplication of net.sf.xws4j if you once take it as a plugin directly from svn and additionally have it as source code in the bioclipse.xws4j plugin/repository ?
10:07 Gpox yes. just not import if from net.bioclipse.xws4j/externals if you checkout net.sf.xws4j from svn
10:18 edrin ah, ok, now i got it
10:19 edrin Gpox: another question might be able to answer: is net.sf.xws4j depending on bioclipse? (I know I SHOULD know, since I created it)
10:20 edrin egonw: actually this sounds quite promising, since there seems to be already an eclipse xws4j plugin :)
10:21 egonw good
10:21 egonw OK, I suggest to now get into contact with what's-his-name
10:21 egonw and let him do his thing
10:21 egonw make sure to discuss things with him
10:27 edrin yes, sure
10:27 * egonw got to get stuff done downtown
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14:58 egonw edrin: ping
14:58 edrin hi egon
14:59 egonw if we update the XEP anyway, I love to see support for defining the allowed root element, in addition to mere namespace
14:59 egonw this with RDF in mind
14:59 edrin yes, sure
14:59 egonw but it is generally useful
14:59 egonw we discussed this at some point
15:00 egonw do we have a xws4j/xep-0244 mailing list?
15:02 edrin no but there is a normal xws4j users mailing list
15:02 edrin we can use it, not many people are subscribed there anyway
15:03 edrin and there is ws-xmpp@xmpp.org
15:03 egonw oh, right... yes, let's use that ws-xmpp ML
15:03 edrin which was used for XEP-0244 discussion previously
15:03 edrin ok
15:03 egonw indeed
15:30 egonw Gpox: ping
15:30 egonw Gpox: you wrote the implicit hydrogen drawing, right?
15:30 egonw Gpox: do you think that can be ported into the BasicAtomGenerator?
15:30 Gpox egonw: probably, don't remember
15:31 egonw I had a look at it, but can't get my head around it... I guess holiday tiredness
15:32 egonw I'm currently 'porting
15:32 egonw I'm currently 'porting' the ArrowElement to renderbasic
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18:45 CIA-120 bioclipse.xws4j: Arvid Berg master * r96be8f8 / features/net.bioclipse.xws4j_feature/feature.xml : Added required bundles to feature - http://bit.ly/nz3yap
18:45 CIA-120 bioclipse.xws4j: Arvid Berg master * r0612bf1 / (2 files in 2 dirs):
18:45 CIA-120 bioclipse.xws4j: Changed to slf4j
18:45 CIA-120 bioclipse.xws4j: to avoid conflict with included libraries - http://bit.ly/raDuhk
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19:02 egonw_ hi jonalv!
19:02 egonw_ back from holiday?
19:02 egonw_ is now known as egonw
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19:02 jonalv egonw_: I am going to start working on wednseday :)
19:02 zarah jonalv: You have new messages. Write '/msg zarah @messages' to read them.
19:02 jonalv zarah: just tell me..
19:02 zarah jonalv: 4 d 11 h 24 m 54 s ago, olass said Grattis på födelsedagen!
19:03 jonalv ah lol
19:03 jonalv egonw_: I ahve a long list of mails to go through which I ahve collected. A few links from you as well
19:03 jonalv :)
19:04 egonw yeah... that's the task of senior researchers... flood the young ones with random reading material
19:04 egonw 33% is good, rest is just related :)
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19:18 jonalv1 egonw: yea I guess. And thanks by the way!
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20:32 edrin egonw: is there a reason to use github and not sourceforge's Git?
20:50 egonw yeah, github is much, much easier :)
20:57 edrin egonw: in what way is it easier?
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