Camelia, the Perl 6 bug

IRC log for #bioclipse, 2009-04-10

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All times shown according to UTC.

Time Nick Message
05:46 egonw joined #bioclipse
06:41 olass joined #bioclipse
06:41 olass hi egonw
06:42 egonw moin
06:42 zarah saluton egonw
07:16 CIA-58 bioclipse: ospjuth * r9752 /bioclipse2/trunk/plugins/net.bioclipse.r/ (META-INF/MANIFEST.MF build.properties): Updated version and build.props for including R in experimental feature beta4.
07:16 CIA-58 bioclipse: ospjuth * r9753 /bioclipse2/trunk/features/net.biocli​pse.experimental_feature/feature.xml: Added R to exp feature.
07:20 CIA-58 bioclipse: ospjuth * r9754 /bioclipse2/trunk/features/net.bioclipse_feature/: Removed deprecated feature. Solves #534.
07:28 egonw olass: please put the RDF feature also on the exp site
07:28 egonw olass: I guess we could use a wiki page on what goes onto which update site?
07:28 olass yes
07:29 olass is the RDF feature working?
07:29 olass is there a wiki page for it?
07:29 egonw yes
07:29 egonw no
07:29 olass I'd like to test it :)
07:29 egonw there are gists
07:29 egonw mom
07:29 olass I sure will
07:29 olass put it on update site
07:29 egonw http://delicious.com/tag/b​ioclipse+gist+manager:rdf
07:29 olass exp
07:29 zarah egonw's link is also http://tinyurl.com/ce7evb
07:31 olass egonw: what feature?
07:31 olass rdf or chemrdf or both?
07:34 egonw rdf
07:40 olass what is chemrdf?
07:43 egonw things around chemical RDF/OWL stuff
07:43 egonw where the RDF feature is more general
07:43 egonw and provides the groundwork
07:43 egonw which can be used for other stuff too
07:43 egonw like bioinfo
07:44 egonw so, chemrdf will depend on the cheminfo feature
08:38 olass egonw: how do I get the two zest plugins?
08:38 olass are they in our svn?
08:38 egonw that should only be in chemrdf
08:38 egonw which rdf feature plugin is still depending on it?
08:38 * egonw checks...
08:38 olass rdf.ui
08:39 egonw ACk
08:39 egonw I'll remove that from the rdf feature
08:39 olass ok
08:40 egonw sorry about that
08:40 egonw ummm
08:40 egonw I don't see it in my rdf_feature feature.xml
08:40 olass never said it was
08:40 olass but checked it out
08:40 olass rdf.ui sounds like an rdf plugin
08:41 olass chemrdf.ui sounds like a chemrdf plugin :)
08:41 egonw try
08:41 egonw true
08:41 olass ok, removing it
08:41 egonw but rdf.ui is not finished yet
08:41 egonw hahaha... use branches, you idiot
08:41 egonw egonw: yes, true :)
08:41 egonw http://bioclipse.svn.sourceforge.net/viewvc/biocl​ipse/bioclipse2/trunk/features/net.bioclipse.rdf_​feature/feature.xml?revision=9355&view=markup
08:41 zarah egonw's link is also http://tinyurl.com/d3ypzt
08:41 egonw olass: are you up to date?
08:42 egonw the rdf feature.xml does not seem to list rdf.ui
08:42 egonw not here, not on SVN
08:42 olass that's what I said
08:42 olass [10:43] < egonw> I don't see it in my rdf_feature feature.xml
08:42 olass [10:43] < olass> never said it was
08:42 egonw ah
08:42 olass tried to fix the rdf.ui deps to try that too :)
08:42 olass but ok
08:42 egonw ah, ok
08:42 olass now removed
08:42 egonw I think I now understand
08:43 olass egonw: could you do me a favor?
08:43 egonw finish the VRNT? sure, trying to
08:43 olass download bioclipse beta4 from SF, unpack it, and install all plugins from update site
08:43 egonw ok, hang on
08:43 olass Lars reported a failure on linux
08:44 olass hmm, SF lists 0 downloads... that can't be correct
08:44 egonw it has a delay
08:44 egonw the logs from the mirrors need to be analyzed
08:45 egonw and first moved to the central location
08:45 * egonw is downloading
09:01 egonw it boots fine
09:01 egonw nicely picks up my workspace
09:01 egonw (which I now have in a git repos)
09:01 egonw running update now
09:01 egonw 36%
09:07 egonw it's now installing htem
09:09 egonw olass: no problems encountered
09:09 egonw it's rebooted with all the wizzles and bells
09:10 olass excellent
09:13 olass egonw: shouldn't gist.load(..) be gist.download(..) ?
09:14 olass I mean, that is that it does, downloading the gist to a local file...
09:14 egonw there is no local Gist website, is there?
09:14 olass I mean, that is that it does, downloading the gist to a local file...
09:14 olass you disagree?
09:14 egonw yes, it loads it to your local computer?
09:14 egonw would you download something from a remote mysql database?
09:14 olass yes
09:15 olass if saving to a local file, yes
09:15 olass I load it into memory
09:15 olass I downloadit to file
09:15 egonw mmm.... interesting
09:15 olass I'm just saying
09:15 egonw well, I'm fine with both
09:16 olass gist.load might be confusing in the sense that people expect it to load a gist from file into bioclipse
09:16 olass and not download it from the web into a file
09:16 egonw well, you cannot load a gist from a local file
09:16 egonw that's the thing
09:16 egonw then it is merely a Javascript
09:16 egonw or .mol file
09:16 egonw or .whatever
09:17 egonw a 'Gist' is something that is on gist.github.com
09:18 olass exactly my point!
09:18 olass but when you download a gist, it becomes a file
09:18 egonw and it no longer is a gist
09:18 olass if you would load it into memory only from the GIST website, then load would be appropriate
09:19 olass egonw: exactly
09:19 olass hence download transforms the gist to a file
09:19 egonw yes, I think I undestand what your impression on 'load' and 'download' is...
09:19 egonw I never experienced such semantic feelings
09:20 olass I do it all the time :)
09:20 olass semantic feelings
09:20 olass lol
09:20 egonw we should use OWL to synchronize manager APIs
09:20 egonw provide a unified meaning to these things
09:21 egonw so that manager APIs can be consistent
09:22 olass would be nice
09:23 olass the gist runs
09:23 olass 72430
09:23 olass what does it do?
09:25 olass would be nice with documentation in the GIST
09:25 olass a header, explaining what it does
09:26 egonw mom
09:29 egonw nice, these betas...
09:29 egonw plenty of bug filing
09:31 olass what did you do to get the stacktrace in 861?
09:31 egonw ./bioclipse
09:32 olass without updates?
09:32 olass fresh dl?
09:32 egonw fresh download
09:32 egonw possible with updates from update site
09:32 olass then it's not a fresh dl
09:32 olass could you try with a fresh dl?
09:32 egonw ah, ok...
09:32 egonw fresh dl not as compared to local tweaks
09:32 egonw the updates are freshly download too, you know :)
09:33 olass fresh + fresh
09:33 olass :)
09:33 egonw only after update
09:38 olass what did you update?
09:38 egonw what listed in Bioclipse
09:38 egonw everything
09:38 olass :(
09:38 olass then impossile to tell
09:40 egonw sure, try every feature of the update site one by one
09:40 olass thanks
09:41 egonw :)
09:41 olass let me know :)
09:43 egonw it seems net.bioclipse.spectrum is the problem
09:44 egonw reassigned to Stefan
09:45 egonw olass: clocking 3 minutes 55 seconds
09:45 egonw was not that much work
09:45 olass great
09:45 egonw egonw++
09:45 zarah shame on you, egonw, giving yourself karma like that
09:45 olass egonw++ //you deserved it
09:45 olass gotta go now
09:45 olass happy easter!
09:45 egonw same here!
09:45 olass glad påsk
09:45 egonw precis
09:46 egonw glad påsk
12:10 ChanServ joined #bioclipse
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12:44 egonw @pz groovy
12:44 zarah egonw: I couldn't find anything on 'groovy' in the database.
13:13 egonw it's getting quite here...
13:22 CIA-52 joined #bioclipse
14:24 maclean joined #bioclipse
20:02 jonalv joined #bioclipse

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