Camelia, the Perl 6 bug

IRC log for #cdk, 2007-11-28

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All times shown according to UTC.

Time Nick Message
04:31 CIA-16 jmol: hansonr * r8687 /trunk/Jmol/src/org/jmol/viewer/ (5 files):
04:31 CIA-16 jmol: version=11.3.50_dev
04:31 CIA-16 jmol: # bug fix: debug comment in TransformManager
04:31 CIA-16 jmol: # bug fix: hideNotSelected not in state.
05:50 masak joined #cdk
06:28 miguelrojasc1 joined #cdk
06:59 egonw joined #cdk
07:00 egonw moin
07:03 LaserJock hi egonw
07:16 masak moin
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07:49 CIA-16 bioclipse: carl_masak * r4344 /branches/bioclipse2/core/plugins/ (7 files in 5 dirs):
07:49 CIA-16 bioclipse: [net.bioclipse.core]
07:49 CIA-16 bioclipse: [net.bioclipse.ui]
07:49 CIA-16 bioclipse: * moved all ConsoleViews from core to ui
07:55 CIA-16 cdk: miguelrojasch * r9523 / (14 files in 6 dirs): remove MolecularFormula as ChemObject interface in all packages
08:04 steinbeck joined #cdk
08:04 steinbeck moin
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08:53 jpansanel moin
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09:04 CIA-16 bioclipse: carl_masak * r4346 /branches/bioclipse2/core/plugins/ (net.bioclipse.core.spring.osgi/ net.bioclipse.spring.osgi/):
09:15 jpansanel steinbeck : I'll do a presentation at Strasbourg Université in January
09:16 steinbeck jpansanel: very nice. What is it going to be about?
09:17 jpansanel free software development
09:17 jpansanel how to join and interact with a community
09:17 jpansanel the main tools for the development of Free Software
09:18 jpansanel The main advantages and the pitfalls
09:19 jpansanel (A. Varnek seems to be interested to bring more Free Software in the teaching )
09:23 steinbeck ack
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10:14 CIA-16 bioclipse: updatebjarni * r4347 /branches/bioclipse2/core/​plugins/net.bioclipse.r/: Initial import.
10:15 jpansanel net.bioclipse.r : sounds good :)
10:15 CIA-16 bioclipse: updatebjarni * r4348 /branches/bioclipse2/core/plugins/net.bioclipse.r/ (11 files in 6 dirs): Initial import.
10:15 egonw jpansanel: indeed :)
10:16 CIA-16 bioclipse: updatebjarni * r4349 /branches/bioclipse2/core/plugins/n​et.bioclipse.core/src/net/bioclipse​/core/scripting/JsEnvironment.java: Added R related nonsense, to be fixed.
10:17 egonw rojasm: you mean with respect to addIsotope("C") and then another addIsotope("C") ?
10:19 rojasm This problem I had in the begining. Symbol don't make differences between isotopes with different natural abundances.
10:19 rojasm that is the reason because we changed to isotope
10:19 egonw right...
10:19 egonw you need to compare mass number and element
10:20 rojasm yes. But there is not a QueryIsotope in isomor...
10:20 rojasm only QueryAtoms
10:22 egonw why not write a simple dedicated isTheSame(IIsotope one, IIsotope two) ?
10:27 CIA-16 bioclipse: ospjuth * r4350 /branches/bioclipse2/core/plugins/net.bi​oclipse.ui/src/net/bioclipse/ui/wizards/ (. NewQSARRProjectWizard.java): Tried a NewQSARProjectWizard. Does not work, for egon to look at. Please also move from ui plugin.
10:28 rojasm ok. you mean a privat method in MolecularFormula
10:28 egonw yeah, why not...
10:29 rojasm ok
10:29 egonw there is nothing much special about comparing mass number and element
10:29 rojasm that is true
10:31 CIA-16 blueobelisk: pansanel * r201 /structures/trunk/src/polycyclic_aromatics/ (19 files):
10:31 CIA-16 blueobelisk: Some missing translations and synonyms added to index.xml
10:31 CIA-16 blueobelisk: CML files renamed according usual name
10:40 CIA-16 blueobelisk: pansanel * r202 /structures/trunk/src/sulfones/ (3 files):
10:40 CIA-16 blueobelisk: Missing french translations added in index.xml
10:40 CIA-16 blueobelisk: Renaming 4-methylbenzenesulfonic_acid.cml according the trivial name
10:40 CIA-16 bioclipse: updatebjarni * r4351 /branches/bioclipse2/core/plugins/net​.bioclipse.core/META-INF/MANIFEST.MF: Dependency upon r.
10:44 steinbeck left #cdk
10:48 CIA-16 blueobelisk: pansanel * r204 /structures/trunk/src/thioethers/index.xml: French translations added
10:59 CIA-16 bioclipse: ospjuth * r4352 /branches/bioclipse2/core/plugins/net.bioclip​se.ui/src/net/bioclipse/ui/QsarProject.java: Missing project stub for egon.
11:01 CIA-16 blueobelisk: pansanel * r205 /structures/trunk/src/thiols/ (2R_butane-2-thiol.cml R_butane-2-thiol.cml index.xml):
11:01 CIA-16 blueobelisk: French translations added to index.xml
11:01 CIA-16 blueobelisk: Fixing IUPAC name for 2R_butane-2-thiol.cml
11:03 CIA-16 blueobelisk: pansanel * r206 /structures/trunk/src/water/ (index.xml oxidane.cml water.cml):
11:03 CIA-16 blueobelisk: Renaming according trivial name
11:03 CIA-16 blueobelisk: French and German translations added
11:04 CIA-16 blueobelisk: pansanel * r207 /structures/trunk/src/acid_anhydrides/index.xml: Fix translations
11:04 CIA-16 blueobelisk: pansanel * r208 /structures/trunk/src/alcohols/index.xml: Fix translation
11:04 CIA-16 blueobelisk: pansanel * r209 /structures/trunk/src/aldehydes/index.xml: Fix translation
11:05 CIA-16 blueobelisk: pansanel * r210 /structures/trunk/src/alkanes/index.xml: Fix xml
11:05 CIA-16 blueobelisk: pansanel * r211 /structures/trunk/src/alkenes/index.xml: fix xml
11:07 CIA-16 blueobelisk: pansanel * r213 /structures/trunk/src/amines/ (49 files): Renaming many amines according the trivial name
11:08 jpansanel main work before release is finish
11:08 jpansanel :)
12:00 egonw jpansanel: do I still got time for the NL translations?
12:51 Conrad joined #cdk
13:29 CIA-16 bioclipse: carl_masak * r4353 /branches/bioclipse2/core/plugins/n​et.bioclipse.ui/src/net/bioclipse/u​i/views/ScriptingConsoleView.java:
13:29 CIA-16 bioclipse: [ScriptingConsoleView.java]
13:29 CIA-16 bioclipse: * beginnings of multi-line commands support
13:29 CIA-16 bioclipse: * "2 +\n2" now works
13:29 CIA-16 bioclipse: * shortened a few long lines
13:30 CIA-16 bioclipse: carl_masak * r4354 /branches/bioclipse2/core/​plugins/net.bioclipse.ui/ (plugin.xml src/net/bioclipse/ui/Perspective.java):
13:30 CIA-16 bioclipse: [net.bioclipse.ui]
13:30 CIA-16 bioclipse: * corrected a few lingering RhinoConsoleView -> JsConsoleView
13:41 CIA-16 bioclipse: carl_masak * r4355 /branches/bioclipse2/core/plugins/net.b​ioclipse.ui/src/net/bioclipse/ui/views/ (3 files):
13:41 CIA-16 bioclipse: [net.bioclipse.ui.views]
13:41 CIA-16 bioclipse: * method name refactoring
14:02 CIA-16 bioclipse: carl_masak * r4356 /branches/bioclipse2/core/plugins/ (4 files in 2 dirs):
14:02 CIA-16 bioclipse: [net.bioclipse.core.Activator]
14:02 CIA-16 bioclipse: [net.bioclipse.ui]
14:02 CIA-16 bioclipse: * moved creation of sessions from consoles to Activator
14:02 CIA-16 bioclipse: [ScriptingConsoleView.java]
14:02 CIA-16 bioclipse: * now catches fatal exceptions in eval method
14:03 CIA-16 bioclipse: carl_masak * r4357 /branches/bioclipse2/core/plugins/n​et.bioclipse.ui/src/net/bioclipse/u​i/views/ScriptingConsoleView.java:
14:03 CIA-16 bioclipse: [ScriptingConsoleView.java]
14:03 CIA-16 bioclipse: * removed finished TODO
15:00 egonw LaserJock: time?
15:13 CIA-16 bioclipse: carl_masak * r4358 /branches/bioclipse2/core/plugins/net​.bioclipse.core/META-INF/MANIFEST.MF:
15:13 CIA-16 bioclipse: [net.bioclipse.core]
15:13 CIA-16 bioclipse: * now exports net.bioclipse.core
15:13 CIA-16 bioclipse: * because Activator needs to be seen from other packages
15:40 LaserJock egonw: sorry, daylight savings time got me :(
15:40 egonw no worries...
15:41 carsten joined #cdk
15:43 LaserJock egonw: get anything out of it?
15:43 egonw no, not erally...
15:43 egonw was a QA session
15:43 egonw interesting, but not useful without any ppa experience
15:43 LaserJock yeah
15:43 LaserJock egonw: you would rather like a tutorial?
15:44 LaserJock like going from "here's a source package I have" to "here's my PPA repo for everybody to see"?
15:44 egonw yeah, but seen a link for that already
15:45 carsten moin
15:45 egonw hi carsten
15:45 LaserJock egonw: k, these PPA 101 things are a bit difficult to get organized sometimes
15:46 LaserJock it's part Canonical Launchpad developers, part Canonical Launchpad PR, part Ubuntu devs trying to keep things sane ;-)
16:09 carsten joined #cdk
16:28 egonw gone home
16:41 jpansanel egonw : you have some time left for NL translations
16:41 jpansanel I need to look if nothing is broken
17:18 CIA-16 cdk: miguelrojasch * r9524 /branches/miguelrojasch/mf​/src/org/openscience/cdk/ (13 files in 2 dirs): update the IMolecularFormula where now It compares Isotopes(same symbol, naturalAbundance, exactMass) before to add them.
17:20 CIA-16 cdk: miguelrojasch * r9525 /branches/miguelrojasch/mf​/src/org/openscience/cdk/ (18 files in 7 dirs): move all new class related to formula to formula package. Better revision!
17:59 CIA-16 jmol: hansonr * r8688 /trunk/Jmol/src/org/jmol/viewer/ (Jmol.properties Viewer.java): version=11.3.50_dev # bug fix: setting perspective model resets unit cell on
18:10 CIA-16 jmol: hansonr * r8689 /trunk/Jmol/src/org/jmol/viewer/ (Eval.java Jmol.properties): version=11.3.50_dev # bug fix: return command not allowed in simple context
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22:07 CIA-16 cdk: miguelrojasch * r9526 /branches/miguelrojasch/mf​/src/org/openscience/cdk/ (3 files in 2 dirs): remove IMolecularFormula as ChemObject
22:28 CIA-16 cdk: miguelrojasch * r9527 /branches/miguelrojasch/mf​/src/org/openscience/cdk/ (2 files in 2 dirs): updated the IsotopePattern calculator
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