Camelia, the Perl 6 bug

IRC log for #bioclipse, 2010-12-10

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All times shown according to UTC.

Time Nick Message
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08:48 CIA-13 bioclipse.core: Christian Ander 2.4.x * r583d0fe / plugins/net.bioclipse.scripting.ui/src/net/biocli​pse/scripting/ui/views/ScriptingConsoleView.java : Fixed bug 256: JavaScripting Console, line width same as editor. - http://bit.ly/heXHWg
08:48 zarah bug #0256 | http://tinyurl.com/3aesr4l
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08:58 egonw 2.6.0 before or after x-mas?
08:58 egonw what about a start with 2.5.0 releases? the core builds, right?
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09:01 sneumann_ is now known as sneumann
09:18 olass egonw: we'll see if there is time before X-mas..
09:18 olass but that was the aim, yes
09:18 egonw what's the state?
09:18 olass 2.5.1 and later are devel releases
09:18 egonw are there big obstacles?
09:18 egonw olass: indeed
09:18 olass time
09:19 egonw wow... never heard about time being a problem
09:19 olass hehe
09:19 egonw I always thought you cannot have enough of that stuff
09:19 olass that's when you are young
09:29 jonalv oh hai
09:29 zarah privet jonalv
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09:49 CIA-13 bioclipse.core: jonalv HEADLESS * rdf5f051 / plugins/net.bioclipse.ui.bu​siness/META-INF/MANIFEST.MF : added missing comma - http://bit.ly/f30e3v
09:55 CIA-13 bioclipse.cheminformatics: jonalv HEADLESS * r21f4e39 / plugins/net.bioclipse.cdk.ui​.tests/META-INF/MANIFEST.MF : removed unused (and wrong) dep - http://bit.ly/gXwjcg
09:56 jonalv can someone direct me to the bioclipse.core tests? Which should I run?
09:56 Gpox there is a .launch file that is run on pele
09:57 Gpox or maybe two
09:57 jonalv Gpox: can I use those from Eclispe?
09:57 Gpox yes
09:57 jonalv how?
09:57 jonalv it just opens in the standard text editor
09:58 Gpox right click it and run, you will get a new entry in Run Configuration that is linke to the file
09:58 jonalv hm fancy
10:06 CIA-13 bioclipse.core: jonalv HEADLESS * r50ff177 / plugins/net.bioclipse.browser.test​s/src/net/bioclipse/browser/tests/​JavaBrowserManagerPluginTest.java : IBioObject and BioclipseException has moved - http://bit.ly/eUWngx
10:11 jonalv egonw: hate to bother you but which files should I run in order to start the cheminformatics tests?
10:12 egonw AllSomethingTests
10:12 jonalv egonw: do you remember what ChemoinformaticsUtilsPluginTests is then?
10:12 * jonalv is guessing he should not run that...
10:12 egonw no, not immediately
10:17 jonalv hm that was not so easy to get running on HEADLESS
10:18 jonalv I can start Bioclispe with chemoinfoartics feature and run cdk.fromSMILES on the HEADLESS branhc at least. That is something... :)
10:18 egonw jonalv++
10:18 jonalv Gpox: when do you think we can get the cheminformatics tests running on hudson?
10:18 egonw well done!
10:18 egonw all, headless?
10:19 jonalv egonw: it's the headless branch yea, it's not headless though. It's standard Bioclispe still
10:19 egonw something like : ./bioclipseCLI -e "cdk.fromSMILES(\"CCC\")"
10:19 egonw ?
10:19 egonw ah, OK
10:19 jonalv I am just reparing the bruises from the heavy refacgtoring
10:19 jonalv it's running eclispe 2.6 though
10:19 egonw yes, important
10:19 jonalv |3.6
10:20 jonalv at least that is what Gpox++ said he fixed
10:20 jonalv :)
10:20 jonalv egonw: but you have a point I think I will try to do some work on the bsl-runner
10:25 egonw really, that will rock!
10:25 jonalv hm Gpox seems you have made commits to the BSL runner? How do I start it now? :)
10:25 egonw you will get so many karma points for that
10:26 egonw jonalv++
10:26 egonw just another preemptive one
10:34 * jonalv @ lunch
10:58 egonw great set of RDF in life sciences proceedings: http://arxiv.org/find/grp_cs/1/rn:+​SWAT4LS/0/1/0/all/0/1?per_page=100
11:02 olass egonw: is the PCM-LODD paper online now?
11:02 egonw no
11:02 egonw the proceedings version is
11:02 olass but not the "real"
11:03 egonw probably next week
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13:25 CIA-13 bioclipse.bslrunner: Arvid Berg master * r016ba07 / (2 files in 2 dirs):
13:25 CIA-13 bioclipse.bslrunner: Fixed product definition in plugin.xml
13:25 CIA-13 bioclipse.bslrunner: This fixes the broblem of an ever changing plugin.xml file.
13:25 CIA-13 bioclipse.bslrunner: It apears that the solution is in the extension id that is composed from plugin-name and product extension id in product-file and the appName property. - http://bit.ly/fjVt4S
13:35 egonw masak: no comment on Gpox's broblems?
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14:13 jonalv oh hai
14:13 zarah saluton jonalv
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14:24 CIA-13 bioclipse.core: Christian Ander 2.4.x * rd8f3af5 / plugins/net.bioclipse.scripting.ui/src/net/bi​oclipse/scripting/ui/views/JsConsoleView.java : Fixed Bug# 1956: JavaScript console now prints JavaScript Arrays. - http://bit.ly/fP7fPo
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14:26 egonw cande: since you are working in 2.4.x, will there be a 2.4.2 update?
14:27 jonalv egonw, cande: Good point. My feeling is: no
14:28 jonalv cande, masak: Maybe you two should move those patches to master?
14:28 masak maybe.
14:29 olass +1
14:30 masak "move" as in "copy", I guess.
14:30 masak we could always publish revert commits on 2.4.x
14:31 jonalv masak: ah yea move as in cherry/pick I think
14:31 jonalv |cherry-pick
14:31 cande i want a cherry
14:31 masak mmm. cherries.
14:37 CIA-13 bioclipse.core: jonalv HEADLESS * r936657c / (2 files in 2 dirs):
14:37 CIA-13 bioclipse.core: get rid of eclipse ui dep
14:37 CIA-13 bioclipse.core: instead of pop up[ dialog warn in JavaScript consoel about restating Bioclispe after cancelling JavaScripts - http://bit.ly/fDLXej
14:37 CIA-13 bioclipse.core: jonalv HEADLESS * red3e716 / plugins/net.bioclipse.core/src/net​/bioclipse/managers/business/JavaS​criptManagerMethodDispatcher.java : this method can be public and static - http://bit.ly/i3ANln
14:37 CIA-13 bioclipse.core: jonalv HEADLESS * r1df9928 / (7 files in 6 dirs): moved MonitorContainer to core.api - http://bit.ly/hlsVSb
14:37 CIA-13 bioclipse.core: jonalv HEADLESS * r19a3218 / (7 files in 7 dirs): removed net.bc.core dep from net.bc.scripting - http://bit.ly/gaE9sF
14:38 jonalv Gpox: in which branch do we want general bug fixes
14:38 jonalv ?
14:40 Gpox master i supose
14:44 olass yes, until we go into feature freeze for 2.6
14:44 olass but we are not there yet
14:45 Gpox these are bug fixes
14:45 CIA-13 bioclipse.ds: Ola Spjuth master * r859fd40 / (2 files in 2 dirs):
14:45 CIA-13 bioclipse.ds: Remove explicit H on DS RUN.
14:45 CIA-13 bioclipse.ds: Also turn off external generators on editor close. - http://bit.ly/esjwLh
14:46 jonalv Gpox: but pele builds from master right?
14:46 Gpox pele dose not build anythin right now but when it dose yes
14:48 CIA-13 bioclipse.core: Christian Ander master * r3eaad50 / plugins/net.bioclipse.scripting.ui/src/net/biocli​pse/scripting/ui/views/ScriptingConsoleView.java : Fixed Bug 507, wrap text for JavaConsoleView. - http://bit.ly/hEsXLv
14:48 zarah bug #0507 | http://tinyurl.com/35mpt6h
14:48 CIA-13 bioclipse.core: Christian Ander master * r4f236e3 / plugins/net.bioclipse.scripting.ui/src/net/biocli​pse/scripting/ui/views/ScriptingConsoleView.java : Fixed bug 256: JavaScripting Console, line width same as editor. - http://bit.ly/eELvYt
14:48 CIA-13 bioclipse.core: Christian Ander master * r5b5bbed / plugins/net.bioclipse.scripting.ui/src/net/bi​oclipse/scripting/ui/views/JsConsoleView.java : Fixed Bug# 1956: JavaScript console now prints JavaScript Arrays. - http://bit.ly/gPwQwb
14:48 zarah bug #0256 | http://tinyurl.com/3aesr4l
14:52 cande left #bioclipse
15:00 egonw nobel prize winners visit uppsala on monday http://info.uu.se/kalender.nsf/ak​tivitet/2010-12-13.2010.ars.html
15:01 egonw Lokal: The Svedbergsalen, BMC (B8)
15:01 egonw mån 13 dec kl 10.30
15:01 jonalv hm the bioclipse manager does ui stuff :(
15:05 egonw sorry?
15:05 egonw split up?
15:08 jonalv egonw: yea we need something like that sooner or later...
15:20 egonw bioclipse.foo()
15:20 egonw ui.foo()
15:25 jonalv egonw: yup
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16:02 edrin hi
16:02 zarah saluton edrin
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16:16 CIA-13 bioclipse.core: jonalv HEADLESS * re75bf81 / (16 files in 13 dirs): moved advices out of bc.core and bc.ui - http://bit.ly/eqoHXZ
16:16 * jonalv is goign to go watch his sister sing now
16:16 jonalv have fun! :)
16:17 jonalv (h and listen to as well of corse)
16:17 egonw have fun!
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21:41 edrin hi again
22:10 egonw hi edrin
22:10 edrin hi egonw
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23:00 jonalv good night
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