Camelia, the Perl 6 bug

IRC log for #cdk, 2008-07-21

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All times shown according to UTC.

Time Nick Message
00:52 jpansanel joined #cdk
02:05 CIA-33 cdk: rajarshi * r11674 /cdk/trunk/src/main/org/op​enscience/cdk/fingerprint/ (StandardSubstructureSets.java SubstructureFingerprinter.java): Updated code to fix Javadocs. Updated substructure fingerprinter so that it provides a default constructor which uses the standard substructures (which should be expanded)
03:09 CIA-33 cdk: rajarshi * r11675 /cdk/trunk/src/main/org/openscience/​cdk/applications/FingerPrinter.java:
03:09 CIA-33 cdk: Updated fingerprinter to allow the user to choose which fingerprint should be
03:09 CIA-33 cdk: used (normal, extended, graph etc). Also added option to send output to a file.
03:09 CIA-33 cdk: Now the program can only process one file at a time. Also chanegd the format of
03:09 CIA-33 cdk: output to use the molecule title and include a header line with fingerprinter
03:09 CIA-33 cdk: name and size
03:34 CIA-33 cdk: rajarshi * r11676 /cdk/trunk/src/main/org/openscienc​e/cdk/formula/rules/RDBERule.java: Fixed an improper import and cleaned up Javadocs
04:58 bag joined #cdk
04:59 CIA-33 cdk: egonw * r11677 /cdk/branches/egonw-caching/.project: Tuned for branch
05:00 CIA-33 cdk: egonw * r11678 /cdk/branches/egonw-caching/src/m​ain/org/openscience/cdk/caching/ (. CachingAtomContainer.java ICachingAtomContainer.java): First bits of code, does not compile yet
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06:47 thomas_ku moin
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06:52 CIA-33 jmol: hansonr * r9619 /trunk/Jmol/src/org/jmol/ (11 files in 4 dirs): (log message trimmed)
06:52 CIA-33 jmol: 11.5.49 VERSION
06:52 CIA-33 jmol: # bug fix: 11.5.48 is broken for scripts with array definitions such as
06:52 CIA-33 jmol: # p = array(); p[pt] = ....
06:52 CIA-33 jmol: # code: removal of unnecessary/inflexible compilation step involving color parameters
06:52 CIA-33 jmol: # code: major refactoring/simplification of Token
06:52 CIA-33 jmol: # code: refactoring/simplification of Compiler
07:12 rojasm joined #cdk
07:27 jonalv hi
07:27 jonalv anyone know what\s up with org.openscience.cdk.formula.​MolecularFormulaManipulator?
07:27 jonalv My eclipse plugin can\t find it...
07:34 rojasm ?
07:35 rojasm strange. From what project?
07:35 rojasm jonalv
07:37 jonalv bioclipse
07:37 jonalv has it been moved perhaps?
07:37 jonalv or maybe it just isn't exported from the cdk bundle any longer?
07:37 rojasm I don't think so
07:38 rojasm it could be sorry
07:49 jonalv rojasm: Do you know what I can do to fix it?
07:50 rojasm let me 10 min and I see if I have the same problem
07:50 jonalv k
08:00 masak joined #cdk
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08:08 rojasm my svn updating is taking a eternity
08:09 rojasm does someone have the same problems
08:09 rojasm ?
08:11 masak rojasm: it's a sf.net problem
08:12 rojasm so waiting is the best solution
08:13 rojasm La paciena es la madre de la ciencia
08:13 rojasm La paciencia
08:20 masak rojasm: La espera es la madre del aburrimiento ... :)
08:20 rojasm :)
08:21 rojasm right! Your Spanish is perfect
08:21 masak Google Translation
08:21 jonalv was that babelfish?
08:21 jonalv ah
08:21 masak jonalv: I like GT better nowadays
08:22 masak only problem is, it's stuck in Traditional Chinese
08:22 rojasm so google is wise
08:22 jonalv lol
08:22 masak so I first had to translate "Spanish" into Chinese
08:22 masak and then find it in the pull-down menu
08:30 rojasm masak: molecularFormula*Manipulator are moved to cdk.tools.manipulator
08:30 masak rojasm: ok?
08:36 jonalv hm
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13:30 CIA-33 jmol: hansonr * r9620 /trunk/Jmol/src/org/jmol/viewer/ (Eval.java Jmol.properties Token.java): (log message trimmed)
13:30 CIA-33 jmol: 11.5.49 VERSION (b)
13:30 CIA-33 jmol: # bug fix: 11.5.48 is broken for scripts with array definitions such as
13:30 CIA-33 jmol: # p = array(); p[pt] = ....
13:30 CIA-33 jmol: # code: simplification/unification of statement length checking AFTER allowing for variable substitution
13:30 CIA-33 jmol: # code: removal of unnecessary/inflexible compilation step involving color parameters
13:30 CIA-33 jmol: # code: major refactoring/simplification of Token
13:51 CIA-33 jmol: hansonr * r9621 /trunk/Jmol/src/org/jmol/viewer/Eval.java:
14:15 malick joined #cdk
14:21 CIA-33 jmol: hansonr * r9622 /trunk/Jmol/src/org/ (3 files in 3 dirs):
14:21 CIA-33 jmol: 11.5.49 VERSION (c)
14:21 CIA-33 jmol: # bug fix: extra values in measure reporting, and wrong format
14:22 CIA-33 cdk: rajarshi * r11679 /cdk/trunk/src/META-INF/applications.cdkdepends: Added a required dependency
15:12 CIA-33 jmol: hansonr * r9623 /trunk/Jmol/src/org/jmol/viewer/ (Jmol.properties Viewer.java):
15:12 CIA-33 jmol: version=11.5.49 (d)
15:12 CIA-33 jmol: # bug fix: strange "scripted: ?" message with measurements removed
16:46 rojasm joined #cdk
17:23 CIA-33 jmol: nicove * r9624 /trunk/Jmol/src/org/jmol/viewer/Jmol.properties: Version
18:40 egonw joined #cdk
18:44 egonw @msg
18:44 zarah egonw: You have no new messages.
19:16 CIA-33 cdk: egonw * r11680 /cdk/branches/egonw-atowl/src/ma​in/org/openscience/cdk/caching/: Moved to separate branch
19:20 CIA-33 cdk: egonw * r11681 /cdk/branches/egonw-atowl/src/main/org/opensci​ence/cdk/atomtype/mapper/AtomTypeMapper.java: Implemented the AtomTypeMapper
19:37 CIA-33 cdk: egonw * r11682 /cdk-clapps/ (. trunk/): Setting up a CDK command line application project, to invogorate those applications
19:38 bag joined #cdk
19:52 CIA-33 cdk: egonw * r11683 /cdk/branches/egonw-atowl/src/test/org​/openscience/cdk/NewCDKTestCase.java: Added a dummy method, for the rare situation that methods cannot be directly tested... should do this in a better way...
19:52 CIA-33 cdk: egonw * r11684 /cdk/branches/egonw-atowl/src/main/o​rg/openscience/cdk/config/atomtypes/ (OWLAtomTypeHandler.java OWLAtomTypeReader.java): Fixed unit test annotation for the core module
19:56 CIA-33 cdk: egonw * r11685 /cdk/branches/egonw-atowl/s​rc/META-INF/core.datafiles: Fixed missing OWL atom type files
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22:35 CIA-33 cdk: rajarshi * r11686 /cdk/branches/rajarshi-descnames/src/ (2 files in 2 dirs):
22:35 CIA-33 cdk: Updated to include the full set of 79 e-state indices described by Hall & Kier.
22:35 CIA-33 cdk: Since the SMARTS patterns were taken from RDKit, the new BSD license text is
22:35 CIA-33 cdk: included noting that the patterns were included under that licence

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