Camelia, the Perl 6 bug

IRC log for #bioclipse, 2007-11-14

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All times shown according to UTC.

Time Nick Message
07:23 egonw joined #bioclipse
08:21 olas joined #bioclipse
08:21 egonw hi olas
08:21 olas hi egonw
08:21 egonw I heard about the swedish volleyball team protesting about some incidence at the Uppsula swimming pool?
08:21 olas What?!
08:21 olas please send URL ASAP
08:22 egonw yeah, something about equal rights...
08:22 egonw yes, mom...
08:22 olas :-)
08:24 egonw http://www.depers.nl/buitenland​/122587/Topless-in-Uppsala.html
08:24 egonw the team is called "Bara Böst"
08:24 egonw and you know my quality of Swedish
08:24 egonw so you known that
08:24 egonw I am not making this up :)
08:25 olas LOL
08:44 olas left #bioclipse
09:06 jonalv joined #bioclipse
09:10 olas joined #bioclipse
09:10 olas jonalv: glöm inte vaccinera dig idag
09:10 olas 9-11
09:10 olas (jag ska gå vid 10.30 ca)
09:19 jonalv var d'är och klikade
09:19 jonalv jättelång kö
09:19 jonalv känns som jag har bättre saker för mig än stå i kö...
09:20 jonalv hm wrong channel perhaps...
09:21 olas oops
10:03 CIA-18 bioclipse: jonalv * r4234 /branches/bioclipse2/bioinformatics/plugins/ (2 files in 2 dirs):
10:04 CIA-18 bioclipse: jonalv * r4235 /branches/bioclipse2/bioinformatics/plugins/ (2 files in 2 dirs):
10:05 CIA-18 bioclipse: jonalv * r4236 /branches/bioclipse2/core/plugins/ (net.bioclipse.core/ net.bioclipse.core.domain/):
10:14 CIA-18 bioclipse: jonalv * r4237 /branches/bioclipse2/core/plugin​s/net.bioclipse.core.business/:
10:22 masak joined #bioclipse
10:39 CIA-18 bioclipse: jonalv * r4238 /branches/bioclipse2/core/plugins/ (net.bioclipse.core.business.tests/ net.bioclipse.core.tests/):
10:49 CIA-18 bioclipse: jonalv * r4239 /branches/bioclipse2/ (21 files in 15 dirs): Assembled misc plugins into core plugin
10:50 CIA-18 bioclipse: jonalv * r4240 /branches/bioclipse2/core/plugins/ (2 files in 2 dirs):
11:00 CIA-18 bioclipse: jonalv * r4241 /branches/bioclipse2/core/p​lugins/net.bioclipse.core/ (3 files in 3 dirs): Added Activator with getPluginUrl method. Is this the way to do it?
11:56 EskilA joined #bioclipse
12:04 edrin joined #bioclipse
12:05 edrin hi
12:29 masak hi edrin
12:41 CIA-18 bioclipse: jonalv * r4242 /branches/bioclipse2/core/plugins/net.bioclips​e.core/src/net/bioclipse/core/Activator.java: cleaned indentation
13:01 edrin joined #bioclipse
13:10 CIA-18 bioclipse: carl_masak * r4243 /branches/bioclipse2/core/plugins/ (3 files in 2 dirs):
13:10 CIA-18 bioclipse: [net.bioclipse.core]
13:10 CIA-18 bioclipse: [net.bioclipse.core.tests]
13:10 CIA-18 bioclipse: * un-staticified Scripting class
13:10 CIA-18 bioclipse: * renamed it to ScriptingEnvironment
13:10 CIA-18 bioclipse: * as per suggestion from jonalv++
13:11 masak jonalv: fixed it
13:39 masak edrin: question about js Context
13:40 masak what's the exact semantics of Context.enter() and Context.exit()?
13:40 masak if I want a new Context, do I need to do Context.exit() before I do Context.enter()?
13:41 masak what happens if I never do Context.exit() on a Context I've entered?
13:42 edrin masak: sorry, i can't help you now because i don't know. i will have to think about it.
13:42 masak edrin: oki
13:42 masak it's just that documentation seems weak on this
13:42 edrin but currently i have many other things here... totaly confused with different things
13:42 masak but I will keep looking
13:42 masak edrin: no problem
13:43 edrin K
13:43 masak will just jugger and see what happens :)
13:52 CIA-18 bioclipse: carl_masak * r4244 /branches/bioclipse2/core/plugins/ (3 files in 2 dirs):
13:52 CIA-18 bioclipse: [net.bioclipse.core]
13:52 CIA-18 bioclipse: * extracted interface ScriptingEnvironment
13:52 CIA-18 bioclipse: * renamed old ScriptingEnvironment JsEnvironment
13:52 CIA-18 bioclipse: [net.bioclipse.core.tests]
13:52 CIA-18 bioclipse: * chased above changes
13:59 jonalv anyone know Biojava?
14:02 olas a little, why?
14:02 masak we're reading up on its OM
14:03 olas :-)
14:03 jonalv I just want to output a RichSequence as a fasta string
14:03 jonalv that should be doable right? Or isn't that what is wanted?
14:03 olas either it's FastaTools.xx or RichSequenceIOTools.xxx
14:03 olas look in net.bioclipse.biojava
14:03 jonalv IOTools? wouldn't that write to file?
14:03 olas write to stream
14:04 olas see the script action I just created
14:04 jonalv what? where?
14:04 olas net.bioclipse.biojava
14:04 olas nm, I'll show you in 10 minutes
14:05 olas IO is not just file
14:05 olas it's Input/Output
14:05 olas but hey, biojava is not trivial
14:05 olas the cookbook is usually helpful
14:05 jonalv no I didn't expect it to be...
14:05 olas http://biojava.org/wiki/BioJava:CookBook
14:06 olas http://biojava.org/wiki/BioJav​a:Cookbook:SeqIO:WriteInFasta
14:06 olas RichSequences usually have similar calls
14:06 jonalv but that writes it to System.out
14:06 jonalv Is that really what I want?
14:07 jonalv I just want to get a string...
14:07 olas do you seriously want me to answer that question?
14:07 olas please look at the API
14:07 olas the cookbook is just to show you what class you should look in
14:07 * jonalv is newbee
14:08 olas /jonalv is no newbee to programming
14:08 olas :-)
14:08 jonalv hm
14:08 olas look in net.bioclipse.biojava
14:08 jonalv but it only contains a jar
14:08 olas I created some ScriptingTools in the scripting package
14:09 olas oops, biojava.ui
14:09 olas wrong plugin
14:09 * olas forgot that we had renamed this
14:09 jonalv oh I see
14:09 olas anyway, I'm on my way down in a few mins
14:09 jonalv k
14:09 olas let's talk more then
14:09 olas left #bioclipse
14:09 jonalv yep
14:11 CIA-18 bioclipse: ospjuth * r4245 /branches/bioclipse2/core/pl​ugins/net.bioclipse.core.ui/ (9 files in 4 dirs): Updates to header and javadoc
14:21 egonw is there anything I can play with yet?
14:21 masak :)
14:22 * jonalv @meeting
14:22 masak gotta go
16:00 olas joined #bioclipse
16:00 olas hi
16:29 olas left #bioclipse
17:49 edrin joined #bioclipse
18:09 edrin joined #bioclipse
18:55 edrin left #bioclipse
20:10 egonw joined #bioclipse

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