Camelia, the Perl 6 bug

IRC log for #bioclipse, 2008-03-19

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All times shown according to UTC.

Time Nick Message
07:33 |thomas_ku| joined #bioclipse
08:19 egonw joined #bioclipse
08:32 olas joined #bioclipse
08:43 Annzi joined #bioclipse
08:52 jonalv joined #bioclipse
09:00 masak joined #bioclipse
09:13 EskilA joined #bioclipse
09:39 egonw_ joined #bioclipse
10:02 CIA-22 bioclipse: carl_masak * r5119 /bioclipse2/trunk/plugins/net.bioclipse.core​/src/net/bioclipse/core/domain/BioList.java:
10:02 CIA-22 bioclipse: [BioList.java]
10:02 CIA-22 bioclipse: * removed unused imports
10:02 CIA-22 bioclipse: * fixed generic type hiding
10:04 CIA-22 bioclipse: carl_masak * r5120 /bioclipse2/trunk/plugins/net.bioclip​se.core/src/net/bioclipse/recording/ (3 files):
10:04 CIA-22 bioclipse: [IRecordingAdvice.java]
10:04 CIA-22 bioclipse: [JsScriptGenerator.java]
10:04 CIA-22 bioclipse: [ManagerObjectRecord.java]
10:04 CIA-22 bioclipse: * removed unused imports
10:14 * olas is off for early lunch
10:20 CIA-22 bioclipse: Annzi * r5121 /bioclipse2/trunk/plugins/net.bioclipse.moss/ (8 files in 3 dirs): Help and help function were added and some new parameter settings
10:30 * jonalv @lunch
10:53 CIA-22 bioclipse: carl_masak * r5122 /bioclipse2/trunk/plugins/net.bioclipse.logging/​src/net/bioclipse/logging/PluginLogManager.java:
10:53 CIA-22 bioclipse: [PluginLogManager.java]
10:53 CIA-22 bioclipse: * added type parametrization
11:00 de_maas joined #bioclipse
11:02 * masak @ lunch
11:35 masak joined #bioclipse
11:48 olas joined #bioclipse
11:52 CIA-22 bioclipse: carl_masak * r5123 /bioclipse2/trunk/plugins/net.bioclip​se.biojava.business/src/net/bioclipse​/biojava/business/BiojavaHelper.java:
11:52 CIA-22 bioclipse: [BioJavaHelper.java]
11:52 CIA-22 bioclipse: * removed use of Iterator and raw types
12:04 jonalv joined #bioclipse
12:10 CIA-22 bioclipse: jonalv * r5124 /bioclipse2/trunk/plugins/net.bioclipse.analysis/ (build.properties src/net/bioclipse/analysis/Activator.java): removed unused imports and fixed a warning in build.properties
12:12 CIA-22 bioclipse: jonalv * r5125 /bioclipse2/trunk/plugins/net.bioclipse.bi​ojava.business/src/net/bioclipse/biojava/ (4 files in 2 dirs): organized imports
12:13 CIA-22 bioclipse: jonalv * r5126 /bioclipse2/trunk/plugins/net.bioclipse.biojava.bu​siness.tests/tests/net/bioclipse/biojava/business/ (BiojavaHelperTest.java BiojavaManagerTest.java): organzed imports
12:16 CIA-22 bioclipse: carl_masak * r5127 /bioclipse2/trunk/plugins/net.bioclipse​.biojava.ui/src/net/bioclipse/biojava/u​i/views/SequenceContentProvider.java:
12:16 CIA-22 bioclipse: [SequenceContentProvider.java]
12:16 CIA-22 bioclipse: * whitespace issues
12:16 CIA-22 bioclipse: * removed auto-generated comments
12:20 CIA-22 bioclipse: carl_masak * r5128 /bioclipse2/trunk/plugins/net.bioclipse.​core.tests/net.bioclipse.recording/net/b​ioclipse/core/domain/BioListTest.java:
12:20 CIA-22 bioclipse: [BioListTest.java]
12:20 CIA-22 bioclipse: * removed error-causing @Override
12:20 CIA-22 bioclipse: * removed unread instance variable
12:26 CIA-22 bioclipse: carl_masak * r5129 /bioclipse2/trunk/plugins/net.bioclipse.​biojava.ui/src/net/bioclipse/biojava/ui/ (8 files in 3 dirs):
12:26 CIA-22 bioclipse: [net.bioclipse.biojava.ui]
12:26 CIA-22 bioclipse: * removed unused imports
12:26 CIA-22 bioclipse: * removed unused instance variables
12:26 CIA-22 bioclipse: * removed unused private methods
12:26 CIA-22 bioclipse: * removed auto-generated TODO comments
12:26 egonw maybe interest here?
12:27 egonw anyone going to submit a Google Summer of Code project proposal on Bioclipse + Taverna integration for the OMII-UK project?
12:28 * jonalv has no idea
12:29 * egonw can recommend it
12:29 jonalv what is the OMII-UK project?
12:30 egonw the money behind some/much of the Taverna development
12:31 CIA-22 bioclipse: carl_masak * r5130 /bioclipse2/trunk/plugins/net.bioclipse.ui/src/net​/bioclipse/ui/wizards/NewQSARRProjectWizard.java:
12:31 CIA-22 bioclipse: [NewQSARRProjectWizard.java]
12:31 CIA-22 bioclipse: * commented out unused imports and instance variables
13:04 CIA-22 bioclipse: ospjuth * r5131 /bioclipse2/trunk/plugins/net.bioclipse.bio​java.business/META-INF/spring/context.xml: Reverting 5115 as it overwrote biojava spring context.
13:13 CIA-22 bioclipse: jonalv * r5132 /bioclipse2/trunk/plugins/net.bioclipse.bioja​va.business/META-INF/spring/context-osgi.xml: reverted borken coomit I made earlier. Things should work now... :)
13:26 CIA-22 bioclipse: carl_masak * r5133 /bioclipse2/trunk/plugins/net.bi​oclipse.ui/src/net/bioclipse/ui/ (2 files in 2 dirs):
13:26 CIA-22 bioclipse: [KeywordSourceViewerConfig.java]
13:26 CIA-22 bioclipse: [FileImportWizard.java]
13:26 CIA-22 bioclipse: * removed unused imports
13:29 CIA-22 bioclipse: jonalv * r5134 /bioclipse2/trunk/plugins/net.bioclipse.scripting​/src/net/bioclipse/scripting/JsEnvironment.java: jsscriptingconsole should not crash and burn if not getting all service objects from now on
13:36 CIA-22 bioclipse: ospjuth * r5135 /bioclipse2/trunk/plugins/net.bioclipse.moss/ (5 files in 5 dirs): Refactored job execution to action from performFinish(). Added stub to a job, no progress bar so far.
13:41 CIA-22 bioclipse: ospjuth * r5136 /bioclipse2/trunk/plugins/net.bioc​lipse.moss/src/net/bioclipse/moss/​popup/actions/RunMossAction.java: Added a progress bar for MossAction.
14:08 olas hmm
14:23 CIA-22 bioclipse: carl_masak * r5137 /bioclipse2/trunk/plugins/net.bioclipse.ui/src/n​et/bioclipse/ui/views/ScriptingConsoleView.java:
14:23 CIA-22 bioclipse: [ScriptingConsoleView.java]
14:23 CIA-22 bioclipse: * removed line break solution
14:23 CIA-22 bioclipse: * added screening for non-printable characters
14:31 CIA-22 bioclipse: carl_masak * r5138 /bioclipse2/trunk/plugins/net.bioclipse.ui/src/n​et/bioclipse/ui/views/ScriptingConsoleView.java:
14:31 CIA-22 bioclipse: [ScriptingConsoleView.java]
14:31 CIA-22 bioclipse: * trying another way
14:37 CIA-22 bioclipse: carl_masak * r5139 /bioclipse2/trunk/plugins/net.bioclipse.ui/src/n​et/bioclipse/ui/views/ScriptingConsoleView.java:
14:37 CIA-22 bioclipse: [ScriptingConsoleView.java]
14:37 CIA-22 bioclipse: * strings are immutable
14:37 CIA-22 bioclipse: * need to assign to s to make it work
14:37 CIA-22 bioclipse: * removed unused instance variable
14:51 EskilA joined #bioclipse
15:27 egonw_ joined #bioclipse
16:29 rojasm left #bioclipse
16:35 CIA-22 bioclipse: jonalv * r5140 /bioclipse2/trunk/plugins/ (8 files in 5 dirs): further work on refactoring usermanager and it's tests
17:58 CIA-22 bioclipse: jonalv * r5141 /bioclipse2/trunk/plugins/ (9 files in 8 dirs): more work on Usermanager and tests.
18:45 egonw joined #bioclipse
19:15 Annzi left #bioclipse
21:02 CIA-22 bioclipse: rklancer * r5142 /bioclipse2/trunk/plugins/n​et.bioclipse.log4jconfig/: Initial import.
21:04 CIA-22 bioclipse: rklancer * r5143 /bioclipse2/trunk/plugins/​net.bioclipse.log4jconfig/ (5 files in 2 dirs): Initial import. NOW REQUIRED FOR MOST LOGGING TO WORK. Fragment project that puts log4j.properties file in log4j's file search path so log4j can configure itself without intervention.
21:06 CIA-22 bioclipse: rklancer * r5144 /bioclipse2/trunk/plugins/net.b​ioclipse.ui/bioclipse.product: Adds newly created net.bioclipse.log4jconfig fragment to product configuration.
21:16 CIA-22 bioclipse: rklancer * r5145 /bioclipse2/trunk/plugins/net.bioclipse.​ui/src/net/bioclipse/ui/Activator.java: Updated to reflect new fragment project method of logging configuration. Used better method for Spring extender startup.
22:04 CIA-22 bioclipse: rklancer * r5146 /bioclipse2/trunk/plugins/​net.bioclipse.log4jconfig/ (6 files in 2 dirs):
22:30 CIA-22 bioclipse: rklancer * r5147 /bioclipse2/trunk/plugins/​net.bioclipse.log4jconfig/ (5 files in 2 dirs): Spelling errors.

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