Camelia, the Perl 6 bug

IRC log for #bioclipse, 2008-06-27

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All times shown according to UTC.

Time Nick Message
06:42 egonw joined #bioclipse
07:28 olas joined #bioclipse
07:28 olas moin
07:30 egonw hi olas
07:30 egonw well, might mark myself as present actually...
07:33 olas :-)
07:33 EskilA joined #bioclipse
07:39 Gpox joined #bioclipse
07:48 EskilA joined #bioclipse
07:50 jonalv joined #bioclipse
07:59 stain joined #bioclipse
08:00 malick joined #bioclipse
08:14 shk3 joined #bioclipse
08:16 stain joined #bioclipse
08:34 CIA-34 bioclipse: ospjuth * r5965 /bioclipse2/trunk/plugins/net.bioclipse.ui/ (6 files in 3 dirs): Renamed perspective to DefaultPerspective, name='Default'. Also some small changes to intropage.
08:38 masak joined #bioclipse
08:39 CIA-34 bioclipse: ospjuth * r5966 /bioclipse2/trunk/plugins/net​.bioclipse.cdk.ui/plugin.xml: Updated ID of Java2DView. Note: ID should in almost all cases be same as class to simplify things!
08:41 rojasm joined #bioclipse
09:20 CIA-34 bioclipse: ospjuth * r5967 /bioclipse2/trunk/plugins/net.bioclipse.pcore/ (7 files in 5 dirs): Added PcorePerspective, NewPcoreQueryWizard, and pcore icon.
09:30 CIA-34 bioclipse: ospjuth * r5968 /bioclipse2/trunk/plugins/net.bioclipse.jmol​/src/net/bioclipse/jmol/views/JmolView.java: Debug for solving show conformer 1 bonds bug.
09:42 CIA-34 bioclipse: biocoder * r5969 /bioclipse2/trunk/plugins/net.biocli​pse.statistics/src/net/bioclipse/sta​tistics/editors/MatrixEditor.java: Minor: Changed method call to ChartUtils.ScatterPlot
09:46 CIA-34 bioclipse: carl_masak * r5970 /bioclipse2/trunk/plugins/net.bioc​lipse.cml/src/net/bioclipse/cml/ha​ndlers/CMLValidationHandler.java: [CMLValidationHandler] removed superfluous @Override
09:47 jonalv shk3: ping
09:47 masak shk3: you seem to be running the wrong version of the Java standard in Eclipse
09:48 masak shk3: you're running 1.6, while the bc2 project postulates 1.5
09:49 olas shk3: please remove all java 1.6 code, deps, and prefs
09:49 olas seriously, it's very annoying that people from time to time commit with Java 1.6
09:49 olas do people not read conventions?
09:49 olas how should we get people to read it?
09:49 masak olas: there, there
09:50 masak we don't want to scare away our committers :)
09:50 olas true
09:50 jonalv olas: calm down. I think it's a question of informing people who doesn't follow.
09:50 * masak pats shk3 on the head
09:50 olas I have spent a lot of time writing dev articles on the wiki
09:50 olas and people still ask questions clearly solved in them
09:51 olas so the problem is: the information is out there
09:51 masak not everyone reads everything
09:51 jonalv yea and they are great! It's just a question of reading them and directing people to them
09:51 olas but people don't know about it
09:51 olas I guess we donät reach people with that info
09:51 olas and I guess we just will keep pointing people to the wiki
09:51 masak olas: we'll add an @about command to zarah
09:51 olas (which by the way needs some major cleanup as bioclipse 1.x is soon abandoned)
09:52 olas masak: cool!
09:52 olas some shortcuts we can send to people?
09:52 * olas will have lunch now
09:52 olas ttl
09:53 edrin joined #bioclipse
09:54 CIA-34 bioclipse: jonalv * r5971 /bioclipse2/trunk/plugins/net.bioclipse.bi​ojava.business.tests/META-INF/MANIFEST.MF: set singleton=true in net.bioclipse.biojava.business.tests. It seems Eclipse 3.4 want's that for soem strange reason...
10:01 CIA-34 bioclipse: biocoder * r5972 /bioclipse2/trunk/plugins/net.bi​oclipse.chart/src/net/bioclipse/ (11 files in 5 dirs):
10:01 CIA-34 bioclipse: MVC:ifying Chart
10:01 CIA-34 bioclipse: Fixed: Several charts now work with point selection
10:15 EskilA Several meaning multiple, not different kinds  :O
10:25 olas EskilA: nice commit
10:25 EskilA thanks, still have to sort out how to deal with data coming from several data sources :)
10:26 olas glad you're on it
11:12 CIA-34 bioclipse: ospjuth * r5973 /bioclipse2/trunk/plugins/net.bioc​lipse.cdk10.jchempaint/plugin.xml: Contribute 2DView to PcorePerspective if available.
11:12 CIA-34 bioclipse: ospjuth * r5974 /bioclipse2/trunk/plugins/ne​t.bioclipse.jmol/plugin.xml: Contribute Jmol to PcorePerspective if available.
11:13 CIA-34 bioclipse: ospjuth * r5975 /bioclipse2/trunk/plugins/net.bioclipse.pcore/​src/net/bioclipse/pcore/PcorePerspective.java: PcorePerspective now correctly positions initial views and editor.
11:19 CIA-34 bioclipse: ospjuth * r5976 /bioclipse2/trunk/plugins/net.biocl​ipse.pcore/src/net/bioclipse/pcore/​wizards/NewPcoreQueryWizard.java: Fixed path in PcoreWizard. Now file generation works.
11:41 CIA-34 bioclipse: jonalv * r5977 /bioclipse2/trunk/net.bioclipse.ta​rget.platform/eclipse-equinox33/: Removed equinox from target platform. We don't seem to use it.
11:43 edrin hello
11:43 edrin can you access this article and mail it to me? http://www.ncbi.nlm.nih.gov/pubmed/18281461?​ordinalpos=19&itool=EntrezSystem2.PEntre​z.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSum
11:53 olas will try
11:53 olas ok
11:54 olas sent
11:54 olas j.w@gmx
12:01 CIA-34 bioclipse: ospjuth * r5978 /bioclipse2/trunk/plugins/net.bioclipse.pcore/ (7 files in 4 dirs): Added new icons, produce hitsets on match, updated provider to show hitsets contents with icons.
12:02 CIA-34 bioclipse: ospjuth * r5979 /bioclipse2/trunk/plugins/net.bio​clipse.pcore/icons/conformer.gif: Updated icon to just be a bit different.
12:07 edrin thank you!
12:34 edrin me gone!
12:34 edrin left #bioclipse
12:41 CIA-34 bioclipse: ospjuth * r5980 /bioclipse2/trunk/plugins/net.bioclipse​.pcore/src/net/bioclipse/pcore/editors/ (5 files in 2 dirs): Workaround when tabs have multiple selectionproviders, as in pcoreeditor. Uses an intermediate selectionprovider, as proposed in http://www.eclipse.org/articles/Arti​cle-WorkbenchSelections/article.html.
12:50 olas also updated wiki with info on this
12:50 olas olas++
12:50 olas 'Shame on you olas...'
12:50 olas :-)
12:51 masak haha
12:51 * olas must run off and deliver a "fräs" to Mek
12:51 masak ah, the infamous "fras" delivery trick
12:51 olas http://sv.wikipedia.org/wiki/Fr%C3%A4s
12:52 masak a "milling cutter"
12:52 olas is that so?
12:53 olas aah
12:53 olas http://en.wikipedia.org/wiki/Milling_cutter
12:53 * olas used the milling cutter yesterday with much success
12:53 * olas is afk
13:42 CIA-34 bioclipse: carl_masak * r5981 /bot/trunk/zarah.pl: [zarah] prevented bot from starting if there are undefined functions in actions table
13:43 masak I _am_ coding on bc2 too, not just the bot :)
13:58 CIA-34 bioclipse: biocoder * r5982 /bioclipse2/trunk/plugins/net.bi​oclipse.chart/src/net/bioclipse/ (6 files in 5 dirs):
13:58 CIA-34 bioclipse: Removed unused classes MatrixChartingActionDelegate and NewAction
13:58 CIA-34 bioclipse: Moved image writing functionality to ImageWriter
13:58 CIA-34 bioclipse: Created interface ChartActionFactory so that view action creation can be made extensible.
13:59 CIA-34 bioclipse: biocoder * r5983 /bioclipse2/trunk/plugins/net.bioc​lipse.chart/META-INF/MANIFEST.MF: Removed no longer existing export-packages
14:03 EskilA olas++
14:04 jonalv names
14:04 jonalv olas ping
14:10 egonw joined #bioclipse
14:13 jonalv olas ping
14:20 olas jonalv: pong
14:21 jonalv olas: vi har stora problem
14:21 jonalv har du uppdaterat ngt åp senaste tiden?
14:22 jonalv saker är plötsligt trassiga
14:22 jonalv hm right english here...
14:22 jonalv Things are borken
14:23 jonalv I wonder what happened...
14:24 olas I have no idea
14:28 jonalv have you even seen it yet? :)
14:29 olas checking out
14:29 olas takes time
14:30 jonalv yea :)
14:34 olas ok, compiling
14:36 CIA-34 bioclipse: jonalv * r5984 /bioclipse2/trunk/net.bioclipse.t​arget.platform/eclipse-equinox33/ (85 files in 5 dirs): reinsterted equinox 3.3 seems as it seems we used a logging plugin from it after all...
15:12 CIA-34 bioclipse: carl_masak * r5985 /bioclipse2/trunk/plugins/net.bioclipse.ui/src/n​et/bioclipse/ui/views/ScriptingConsoleView.java: (log message trimmed)
15:12 CIA-34 bioclipse: [ScriptingConcoleView]
15:12 CIA-34 bioclipse: * better, clearer JavaDoc
15:12 CIA-34 bioclipse: * extracted method putCursorOnCommandLine()
15:12 CIA-34 bioclipse: * the whole path of files is dnd'd now, not just name
15:12 CIA-34 bioclipse: * now you can no longer dnd things into non-writeable
15:12 CIA-34 bioclipse:  part of console
15:28 olas egonw: around?
15:31 CIA-34 bioclipse: jonalv * r5986 /bioclipse2/branches/withSpring_1.0.2/ (22 files in 17 dirs): Created branch for Spring-DM 1.0.2. There are a few logging issues and some lacking spring boundles here... (In other words: Nothing works...)
15:33 egonw olas: yes
15:33 olas I disconnected my projects from SVN
15:33 olas is there a way to reconnect them?
15:33 olas or do I need to check out again?
15:36 olas left #bioclipse
15:37 olas joined #bioclipse
15:37 * olas is on IRC from inside eclipse ganymede now
15:37 masak olas: yes, I think you need to re-checkout
15:37 olas ok
15:37 * olas hates subversive
15:39 olas joined #bioclipse
15:48 olas egonw: priv chat says you are not available
15:48 olas can't write to you
15:50 olas egonw?
15:51 olas left #bioclipse
15:51 olas joined #bioclipse
15:51 olas egonw:?
15:52 egonw ah...
15:52 egonw mom
15:52 egonw will skype
15:53 * olas is uninstalling subversive
15:54 CIA-34 bioclipse: carl_masak * r5987 /bioclipse2/trunk/plugins/net.bioclipse.ui/src/n​et/bioclipse/ui/views/ScriptingConsoleView.java:
15:54 CIA-34 bioclipse: [ScriptingConsoleView]
15:54 CIA-34 bioclipse: * dnd now respects any quote chars that are already present
15:54 CIA-34 bioclipse:  around the cursor
15:54 olas nice
15:59 CIA-34 bioclipse: carl_masak * r5988 /bot/trunk/zarah.pl: added global_greeting
16:00 egonw has zarah been spotted onlne already?
16:01 olas ;-)
16:03 CIA-34 bioclipse: carl_masak * r5989 /bot/trunk/zarah.pl: [zarah] 'implemented' tell, ask, messages
16:04 CIA-34 bioclipse: carl_masak * r5990 /bot/trunk/zarah.pl: [zarah] changed 'unsupported' message
16:10 CIA-34 bioclipse: carl_masak * r5991 /bot/trunk/zarah.pl: [zarah] implemented attempt at 'restart'
16:12 CIA-34 bioclipse: carl_masak * r5992 /bot/trunk/zarah.pl: [zarah] stubbed 'google', 'seen', and 'slap'
16:15 CIA-34 bioclipse: carl_masak * r5993 /bot/trunk/zarah.pl: [zarah] tried another method for quitting
16:18 CIA-34 bioclipse: carl_masak * r5994 /bot/trunk/zarah.pl: [zarah] bot now starts a bot after quitting/updating
16:21 CIA-34 bioclipse: carl_masak * r5995 /bot/trunk/zarah.pl: [zarah] tried disgraceful disconnect instead
16:28 CIA-34 bioclipse: carl_masak * r5996 /bot/trunk/zarah.pl: [zarah] now tries to reconnect if connection dropped
16:32 CIA-34 bioclipse: carl_masak * r5997 /bot/trunk/zarah.pl: [zarah] yet another attempt to disconnect
16:35 CIA-34 bioclipse: carl_masak * r5998 /bot/trunk/zarah.pl: [zarah] yet another attempt to disconnect
16:40 CIA-34 bioclipse: carl_masak * r5999 /bot/trunk/zarah.pl: [zarah] trying to launch a background process with Run::IPC
16:40 egonw ha, 6000?
16:42 jonalv egonw: oh, you are right! That wasn't the reason though. It's to do with getting the test code to the server. We do it through svn... :)
16:46 masak yes, we have no ulterior motives whatsoever :)
16:55 CIA-34 bioclipse: carl_masak * r6000 /bot/trunk/zarah.pl:
16:55 CIA-34 bioclipse: [zarah] attempting to start process in background
16:55 CIA-34 bioclipse: (this is commit 6000. go bioclipse++!)
16:57 egonw :)
16:58 CIA-34 bioclipse: carl_masak * r6001 /bot/trunk/zarah.pl: [zarah] tweaked run() call syntax -- see if this works
17:04 CIA-34 bioclipse: ospjuth * r6002 /bioclipse2/trunk/plugins/net.bioclipse.jmol​/src/net/bioclipse/jmol/views/JmolView.java: A try to skp reloading molecules when browsing among conformers.
17:04 olas left #bioclipse
17:14 CIA-34 bioclipse: carl_masak * r6003 /bot/trunk/zarah.pl: [zarah] deferred starting using `at`
17:27 CIA-34 bioclipse: carl_masak * r6004 /bot/trunk/zarah.pl: [zarah] added import of DateTime module

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