Camelia, the Perl 6 bug

IRC log for #cdk, 2007-11-04

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All times shown according to UTC.

Time Nick Message
01:42 CIA-16 jmol: gutow * r8564 /trunk/Jmol/src/org/openscience/jmol/ap​p/webexport/Testing_Pages_Locally.html: #Update to instructions for testing webexport pages locally to reflect known problems with browser/OS combinations.
08:08 jbrefort joined #cdk
09:05 egonw joined #cdk
10:46 rojasm joined #cdk
10:46 egonw hi rojasm
10:47 rojasm hi egonw
11:03 egonw mm... I'm trying to get the cdknews.org webserver ready again...
11:03 egonw but not sure how...
11:20 egonw ok, up and running again...
11:22 egonw lunch time
12:45 egonw rojasm: did you submit the rest of your code yet?
13:05 rojasm sorry not yet.
13:30 CIA-16 jmol: hansonr * r8565 /trunk/Jmol/src/org/jmol/viewer/ (Eval.java Jmol.properties Token.java):
13:30 CIA-16 jmol: version=11.3.41_dev Jmol math fixes
13:30 CIA-16 jmol: # bug fix: math operations with bond bitsets; % operating on arrays
13:30 CIA-16 jmol: # bug fix: _set variable definition removed
13:30 CIA-16 jmol: # new feature: .type math function
14:19 edrin joined #cdk
14:20 rojasm egonw around?
14:23 egonw yes
14:23 rojasm what is multiplier in atomcontainerSet exactly
14:23 egonw playing with the Wii, but around :)
14:23 rojasm oo
14:23 egonw umm, something to say something like:
14:23 egonw we got 2 acetic acid + 5 water
14:23 rojasm ok
14:24 rojasm thanks
14:28 rojasm Other question! the AtomContainer why should have bonds. So for the example [CH4+][Cl-]
14:28 rojasm we could not put into the AtomContainer
14:28 egonw mom
14:29 rojasm because beetween C and Cl there is not a covalent bonding
14:29 rojasm ok
14:29 egonw yes, but there are not bonds between C and H too...
14:29 egonw what we need here is that the MolecularFormula has the concept of fragments...
14:30 egonw or is this not about MF?
14:30 egonw [CH4+][Cl-] in an IAtomContainer would be no problem...
14:31 rojasm yes
14:32 rojasm ok
14:33 rojasm sorry other questions. In a lot of methods we are using growArray
14:33 rojasm we can not create a class which we can call the method growArry
14:36 egonw no, because it really depends on the implementation...
14:36 egonw really class specific
14:37 rojasm ok
14:37 egonw the methods is just called the same
15:28 dleidert joined #cdk
15:55 CIA-16 bioclipse: carl_masak * r4117 /trunk/playground/plugins/ (3 files in 2 dirs):
15:55 CIA-16 bioclipse: [FunctionBody.java]
15:55 CIA-16 bioclipse: * Renamed parameter types
15:55 CIA-16 bioclipse: [CalculatorBaseTest.java, FunctionsTest.java]
15:55 CIA-16 bioclipse: * Chased above change
15:55 CIA-16 bioclipse: [FunctionsTest.java]
15:55 CIA-16 bioclipse: * Corrected a few tests
15:56 CIA-16 bioclipse: carl_masak * r4118 /trunk/playground/plugins/net.bioclipse.expressi​on/src/net/bioclipse/expression/Calculator.java:
15:56 CIA-16 bioclipse: [Calculator.java]
15:56 CIA-16 bioclipse: * Fixed bug in method parameterList
15:56 CIA-16 bioclipse: * Implemented colon preprocessing
16:03 CIA-16 cdk: egonw * r9356 /branches/egonw/ibondorder/sr​c/org/openscience/cdk/tools/ (ValencyChecker.java manipulator/BondManipulator.java): Added convenience methods to compare bond orders
16:03 CIA-16 cdk: egonw * r9358 /branches/egonw/ibondorder/src/org/openscienc​e/cdk/tools/manipulator/BondManipulator.java: Added a few convenience methods
16:04 CIA-16 cdk: egonw * r9359 /branches/egonw/ibondorder​/src/org/openscience/cdk/ (24 files in 13 dirs): More compile error fixes
16:12 CIA-16 bioclipse: carl_masak * r4119 /trunk/playground/plugins/net.bioclip​se.expression.tests/src/net/bioclipse​/expression/tests/FunctionsTest.java:
16:12 CIA-16 bioclipse: [FunctionsTest.java]
16:12 CIA-16 bioclipse: * Wrote long comment on three unsatisfiable tests.
18:31 CIA-16 cdk: miguelrojasch * r9360 /branches/miguelrojasch/mf​/src/org/openscience/cdk/ (16 files in 7 dirs): added all contents below to MolecularFormula class: Set, test, debug, nonotify.
18:42 CIA-16 bioclipse: edrin_t * r4120 /trunk/xws-component/src/ne​t/bioclipse/xws/component/ (Component.java modules/IqAdHocCommands.java): minor changes/bugfix
18:48 CIA-16 bioclipse: edrin_t * r4121 /trunk/xws-client/:
18:48 CIA-16 bioclipse: Initial import.
18:48 CIA-16 bioclipse: The work is not functional yet!
18:50 CIA-16 bioclipse: edrin_t * r4122 /trunk/xws-client/ (43 files in 14 dirs):
18:50 CIA-16 bioclipse: Initial import.
18:50 CIA-16 bioclipse: The work is not functional yet!
19:33 egonw joined #cdk
21:18 CIA-16 cdk: egonw * r9361 /trunk/cdk/src/org/openscience/cdk/test/too​ls/manipulator/RingSetManipulatorTest.java: Added missing license+copyright info
21:18 CIA-16 cdk: egonw * r9362 /trunk/cdk/src/org/openscience/cdk/test/ (2 files in 2 dirs): Added missing JUnit test
21:18 CIA-16 cdk: egonw * r9363 /trunk/cdk/src/org/openscience/c​dk/smiles/SmilesGenerator.java: Use the CDK atom type list based aromaticity detector
21:19 CIA-16 cdk: egonw * r9364 /trunk/cdk/src/org/openscience/cdk/t​est/smiles/SmilesGeneratorTest.java: Proper assert methods
21:20 CIA-16 cdk: egonw * r9366 /trunk/cdk/src/org/openscience/cdk/test/aromat​icity/CDKHueckelAromaticityDetectorTest.java: 1.works, so removed AT dumping;2. better testing;3. fixed C.plus recognition
22:04 CIA-16 jmol: hansonr * r8566 /trunk/Jmol/src/org/jmol/viewer/ (Eval.java Jmol.properties Token.java): 11.3.41 math operations standardized
22:07 CIA-16 jmol: hansonr * r8567 /trunk/Jmol/src/org/jmol/viewer/Jmol.properties: 11.3.41 VERSION
22:34 CIA-16 jmol: hansonr * r8568 /trunk/Jmol/src/org/jmol/viewer/ (FileManager.java StateManager.java): 11.3.41 -- set DefaultDirectory fix

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