Camelia, the Perl 6 bug

IRC log for #bioclipse, 2008-05-13

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All times shown according to UTC.

Time Nick Message
01:01 Dr_Z joined #bioclipse
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06:34 egonw joined #bioclipse
07:02 malick joined #bioclipse
07:23 masak joined #bioclipse
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07:50 olas joined #bioclipse
07:50 olas hi
07:50 masak moin
07:51 jonalv ehlo
07:55 edrin joined #bioclipse
07:55 edrin ident regen
07:55 edrin hm......
07:55 masak :)
07:55 olas hi edrin
07:56 edrin hi olas
07:58 edrin how is it going?
07:58 olas not bad
07:59 olas extremely much to do
07:59 olas so business as usual :-)
07:59 olas no, actually it's going quite well
07:59 olas will you have time to posrt some XMPP stuff to Bioclipse2 soon?
08:00 olas looking forward to scripting XMPP in Javascript in Bioclipse2 :-)
08:06 edrin i think the XEP will be ready soon
08:06 edrin then i will update the lib and i will write a plugin, too
08:08 edrin strange: the kaspersky anti-virus reports a trojan horse when i want to go to http://nature.com
08:09 olas haha
08:09 olas natural virus
08:12 edrin egonw: did you have time for the XEP ?
08:12 egonw edrin: sorry no...
08:12 egonw too summery here in NL...
08:12 egonw will print it, and read it tonite
08:12 edrin hehe
08:13 edrin have to work now, cu later
08:18 olas cya edrin
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12:00 jonalv okey, suprise! cdk is not compiling. "Package 'org.openscience.cdk.renderer.progz' does not exist in this plug-in" egonw? :)
12:00 egonw :)
12:00 egonw umm... yes
12:00 egonw hang on
12:01 * jonalv is hanging on :)
12:01 * egonw is updating things
12:01 egonw cdk trunk/ will soon get more stable...
12:02 jonalv sounds great
12:17 egonw jonalv: only cdk.ui has compile issues, correct?
12:17 jonalv uhm no
12:21 egonw oh, crap...
12:21 egonw eclipse is not understanding the differences between .cdk and .cdk10
12:21 egonw :(
12:22 egonw ummm who added the dependency for cdk.ui on cdk10.jchempaint ??
12:22 egonw no wonder Eclipse messes up :)
12:29 egonw ah, and I have an idea who added that line...
12:29 egonw olas: around?
12:31 masak he's here with us
12:31 masak probably back at his own computer in a minute
12:35 egonw jonalv: please ping me when olas gets back
12:35 egonw because I can't fix the CDK update stuff without his presence...
12:36 egonw olas: what you need to do, is move all the SDF code from cdk.io to cdk10.io
12:36 egonw because you depend on cdk10 classes...
12:36 egonw where .io = .ui
12:36 egonw (incorrect offset of keys: +1 right)
12:46 olas pong
12:46 olas egonw: I'm rewriting cdk10.JCP
12:46 olas sorry for no commits so far
12:47 egonw olas: am I correct in the analysis that the SDFeditor uses the old JChemPaint code?
12:47 olas have refactored some
12:47 olas yes
12:47 olas for adding the JCP page
12:47 egonw then it needs to go into cdk10.ui
12:47 egonw cdk.ui cannot depend on cdk10.jchempaint
12:47 olas what we need is the new JCP
12:47 olas and why not?
12:48 egonw because cdk10 and cdk both provide IChemObject's...
12:48 olas I know
12:48 egonw and lots of more same classes with different APIs...
12:48 olas well, there WILL be trouble with 2 CDK versions
12:48 * egonw made good progress with JCP in CDK trunk/ clean up
12:48 olas great
12:49 egonw https://blueprints.launchpad.net/cd​k/+spec/cleanup-old-jchempaint-code
12:49 olas Let me refactore some more and I'll get back soon
12:49 olas will commit some
12:49 egonw olas: ok
12:57 egonw masak: how did you create that tabless code style XML?
12:57 egonw sounds damn useful for the CDK too
12:59 masak egonw: not sure that was me
12:59 egonw just that Export... button?
12:59 masak egonw: yes
12:59 masak after you change the tab policy, of course
12:59 masak :)
12:59 egonw :)
12:59 egonw where do I 'import' the tabless.xml?
13:00 egonw also at code templates?
13:00 masak hm, think so
13:00 masak I'll go check
13:00 egonw thanx
13:00 masak Code Style > Formatter
13:00 masak there's an import button there
13:01 masak the corresponding export button is in the Edit... dialog
13:01 masak ironically, the resulting XML was so ugly and wihtout formatting that I had to post-process it in vim before sending it out
13:25 egonw hahahah
13:41 CIA-45 bioclipse: carl_masak * r5614 /bioclipse2/trunk/plugins/net.bioclipse.scripting​/src/net/bioclipse/scripting/JsEnvironment.java: [js console] better error message on parameter mismatch
14:22 malick joined #bioclipse
15:02 CIA-45 bioclipse: ospjuth * r5615 /bioclipse2/trunk/plugins/net​.bioclipse.cdk10.sdfeditor/: Initial import.
15:03 CIA-45 bioclipse: ospjuth * r5616 /bioclipse2/trunk/plugins/ne​t.bioclipse.cdk10.sdfeditor/ (26 files in 9 dirs): Initial import. Refactored out SDFEditor as based on CDK10 for JCP page.
15:04 CIA-45 bioclipse: ospjuth * r5617 /bioclipse2/trunk/plugins/net.bioclipse.cdk.ui/ (5 files in 4 dirs): Refactored out SDFEditor as it used CDK10 code.
15:05 CIA-45 bioclipse: ospjuth * r5618 /bioclipse2/trunk/plugins/net.bioc​lipse.cdk.ui/META-INF/MANIFEST.MF: Exported views package for tests.
15:08 CIA-45 bioclipse: ospjuth * r5619 /bioclipse2/trunk/plugins/net.bioclipse.cdk10.​jchempaint/src/net/bioclipse/cdk10/jchempaint/ (outline/JCPOutlinePage.java ui/editor/JCPPage.java): Rewrite of JCPPage to support inclusion in other editors as a page.
15:14 malick left #bioclipse
15:49 CIA-45 bioclipse: jonalv * r5620 /bioclipse2/trunk/plugins/ (3 files in 2 dirs): changed name from containsSubstructure to fingerPrintMatches because that is what the method does
15:52 CIA-45 bioclipse: jonalv * r5621 /bioclipse2/trunk/plugins/ (12 files in 7 dirs): tests and code for structure iterator and fingerprintsearch. I of course (as always when doing some sort of lazy loading from an ORM) get a session closed exception when trying to iterate over all structures
16:46 CIA-45 bioclipse: ospjuth * r5622 /bioclipse2/trunk/plugins/net.bioclipse.cd​k10.jchempaint/src/net/bioclipse/cdk10/jch​empaint/ui/editor/MDLMolfileEditor.java: Fixed for JCPPage updates.
16:51 edrin left #bioclipse
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