Camelia, the Perl 6 bug

IRC log for #cdk, 2008-01-22

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All times shown according to UTC.

Time Nick Message
02:31 CIA-18 cdk: dleidert * r146 /trunk/chemical-mime-data/ (ChangeLog HACKING THANKS src/chemical-mime-database.xml.in): (log message trimmed)
02:31 CIA-18 cdk: 2008-01-22 Daniel Leidert <daniel.leidert@wgdd.de>
02:31 CIA-18 cdk:  * src/chemical-mime-database.xml.in: Comments cleanup to comply with
02:31 CIA-18 cdk:  GNOME/fd.o naming scheme. Thanks to Krzysztof KosiÅ~Dski for the
02:31 CIA-18 cdk:  patch. Removed the acronym tags for XML.
02:31 CIA-18 cdk:  (chemical/x-galactic-spc): Added an online resource for the format
02:31 CIA-18 cdk:  specification.
03:02 CIA-18 cdk: dleidert * r147 /trunk/chemical-mime-data/ (3 files in 3 dirs): (log message trimmed)
03:02 CIA-18 cdk: 2008-01-22 Daniel Leidert <daniel.leidert@wgdd.de>
03:02 CIA-18 cdk:  * src/chemical-mime-database.xml.in (chemical/x-inchi)
03:02 CIA-18 cdk:  (chemical/x-inchi-xml): Tried to improve/fix wording of comment.
03:02 CIA-18 cdk:  * xsl/cmd_website.xsl (comment.acronym.check): Removed the test on
03:02 CIA-18 cdk:  expanded acronyms in the comment. This should not happen following the
03:02 CIA-18 cdk:  current naming scheme conventions. Added a warning for acronyms not
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07:02 egonw rojasm: brb
07:02 egonw going to reboot my KDE into 4.0 mode...
07:09 egonw joined #cdk
07:09 rojasm egonw. How is it? I am trying too
07:09 rojasm :)
07:09 egonw not bad at all
07:09 egonw see my KDE blog:
07:10 egonw http://kemistry-desktop.blogspot.com/200​8/01/kde-400-no-yukuake-for-kubuntu.html
07:10 egonw the comments have been very useful!
07:11 rojasm ok. I will take account. thanks
07:13 egonw rojasm: btw, did you see my emails on the reaction branch?
07:14 egonw I think things are really getting in order now...
07:14 rojasm sorry not yet
07:14 egonw next, step is those unit tests for the compounds created in IReactionProcess's
07:14 egonw which you plan to write
07:14 egonw then we can discuss radical atom types
07:14 rojasm yes I started with them
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07:38 egonw rojasm: using KDE4 now?
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08:31 rojasm egonw. In your block about yakauke after the descrompresion tar xvjf yakuake-2.9-beta1.tar.bz2 of the mirror 1 or 2. I don't have any directory with cd yakuake-2.9-beta1/build!! :(
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09:40 CIA-18 bioclipse: carl_masak * r4744 /branches/bioclipse2/core/plugins/net​.bioclipse.scripting/src/net/bioclips​e/scripting/ScriptingException.java:
09:40 CIA-18 bioclipse: [ScriptingException.java]
09:40 CIA-18 bioclipse: * Added a constructor which wraps exceptions.
09:40 CIA-18 bioclipse: * Added a serial version ID.
10:06 CIA-18 bioclipse: carl_masak * r4745 /branches/bioclipse2/core/plugins/n​et.bioclipse.scripting/src/net/bioc​lipse/scripting/JsEnvironment.java:
10:06 CIA-18 bioclipse: [JsEnvironment.java]
10:06 CIA-18 bioclipse: * Nice formatting of ScriptingExceptions
10:22 CIA-18 bioclipse: jonalv * r4746 /branches/bioclipse2/ (6 files in 5 dirs): Removed ScriptingException, now throws IllegalArgumentException instead
10:23 CIA-18 bioclipse: carl_masak * r4747 /branches/bioclipse2/core/plugins/n​et.bioclipse.ui/src/net/bioclipse/u​i/views/ScriptingConsoleView.java:
10:23 CIA-18 bioclipse: [ScriptingConsoleView.java]
10:23 CIA-18 bioclipse: * reinstated commented-out update line
10:23 CIA-18 bioclipse: * here's the problem:
10:23 CIA-18 bioclipse: ** without this line, the view does not scroll down after a command
10:23 CIA-18 bioclipse: ** with this line, the view updates too frequently on X11 systems
10:24 CIA-18 bioclipse: carl_masak * r4748 /branches/bioclipse2/bioinformatics/plugins​/net.bioclipse.biojava.business/src/net/bio​clipse/biojava/domain/BiojavaSequence.java:
10:24 CIA-18 bioclipse: [BiojavaSequence.java]
10:24 CIA-18 bioclipse: * removed unused imports
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10:36 CIA-18 bioclipse: ospjuth * r4749 /branches/bioclipse2/bioinformatics/plugins/n​et.bioclipse.biojava.ui/src/net/bioclipse/bio​java/ui/views/SequenceContentProvider.java: Get BiojavaManager from biojava.business.activator. Solves 1875106.
10:39 CIA-18 bioclipse: jonalv * r4750 /branches/bioclipse2/bioinformatics/plugin​s/net.bioclipse.biojava.business/src/net/b​ioclipse/biojava/business/Activator.java: Changed timeout from 30 secs to 10 secs and now throw IllegalstateException if the biojavamanager can't be found instead of just writing a message to standard out
10:47 CIA-18 bioclipse: carl_masak * r4751 /branches/bioclipse2/core/plugins/net.bioclipse.u​i/src/net/bioclipse/ui/views/JsConsoleView.java:
10:47 CIA-18 bioclipse: [JsConsoleView.java]
10:47 CIA-18 bioclipse: * fixed exponential-time bug in regular exception
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12:15 CIA-18 bioclipse: ospjuth * r4752 /branches/bioclipse2/core/plugi​ns/net.bioclipse.ui/plugin.xml: Removed deprecated QSAR-nature.
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13:04 egonw rojasm: apt-get install yakuaka-kde4
13:08 egonw yakuake that is
13:14 rojasm oo
13:18 rojasm OOO thanks egonw. My yakuake is running again
13:18 rojasm :)
13:31 egonw yeah, that was in the comments of my blog
13:35 rojasm But you could just add into the same new that now it is possible with the new release for yauake-kde4
13:35 egonw yes, I could indeed
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14:28 CIA-18 bioclipse: ospjuth * r4753 /branches/bioclipse2/bioinformatics/plug​ins/net.bioclipse.biojava.business.tests​/tests/net/bioclipse/biojava/business/ (BiojavaHelperTest.java BiojavaManagerTest.java): Added some tests for BiojavaHelper
14:29 CIA-18 bioclipse: ospjuth * r4754 /branches/bioclipse2/bioinformatics/p​lugins/net.bioclipse.biojava.business​/src/net/bioclipse/biojava/business/ (BiojavaHelper.java BiojavaManager.java IBiojavaManager.java): Added BiojavaHelper with tools for Biojava. Also extended the manager with functionality.
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14:32 _thomas_k moin
14:33 CIA-18 bioclipse: ospjuth * r4755 /branches/bioclipse2/bioinformatics/plugins/net.​bioclipse.biojava.business.tests/tests/net/biocl​ipse/biojava/business/BiojavaManagerTest.java: Some cleanup.
14:34 CIA-18 bioclipse: ospjuth * r4756 /branches/bioclipse2/bioinformatics​/plugins/net.bioclipse.biojava.ui/ (10 files in 3 dirs): Added actions for translation and transctiption.
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15:07 CIA-18 bioclipse: jonalv * r4757 /branches/bioclipse2/bioinformatics/plugins/​net.bioclipse.biojava.business/src/net/biocl​ipse/biojava/business/BiojavaManager.java: Added causing Exception to stack trace
15:21 CIA-18 cdk: egonw * r9943 /trunk/cdk/src/org/openscience​/cdk/test/ChemObjectTest.java: Fixed method name to make the coverage tool happy
15:24 CIA-18 cdk: egonw * r9944 /trunk/cdk/src/org/openscience​/cdk/tools/DataFeatures.java: A class with only constants does not require unit tests (or should it? If so, how should it be tested?
15:25 * egonw is going home
15:25 egonw bye
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16:15 CIA-18 bioclipse: jonalv * r4758 /branches/bioclipse2/_playground_/net.​bioclipse.springBasedPrototypePlugin/: Initial import.
16:17 CIA-18 bioclipse: jonalv * r4759 /branches/bioclipse2/_playground_/net.​bioclipse.springBasedPrototypePlugin/ (17 files in 8 dirs): An "empty plugin" to be used as a base for plugins using Spring to contribute with managers. It contains a working ExampleManager
16:30 CIA-18 bioclipse: carl_masak * r4760 /trunk/playground/plugins/net.bioclipse.base2​/src/net/bioclipse/base2/views/TreeView.java:
16:30 CIA-18 bioclipse: [TreeView.java]
16:30 CIA-18 bioclipse: * early attempts at a context menu
16:32 CIA-18 bioclipse: ospjuth * r4761 /branches/bioclipse2/bioinformatics​/plugins/net.bioclipse.biojava.ui/ (8 files in 2 dirs): Added some actions for translation back and forth.
16:32 CIA-18 bioclipse: ospjuth * r4762 /branches/bioclipse2/bioinformatics/plugi​ns/net.bioclipse.biojava.business.tests/ (2 files in 2 dirs): Added tests for new sequence creation.
16:34 CIA-18 bioclipse: ospjuth * r4763 /branches/bioclipse2/bioinformatics/p​lugins/net.bioclipse.biojava.business​/src/net/bioclipse/biojava/business/ (BiojavaManager.java IBiojavaManager.java): Implemented new sequence construction from plain text, fasta, and name + plain text.
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