Camelia, the Perl 6 bug

IRC log for #cdk, 2008-05-13

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All times shown according to UTC.

Time Nick Message
04:29 CIA-31 cdk: egonw * r10988 /cdk/trunk/src/main/org/openscien​ce/cdk/inchi/InChIGenerator.java: Fixed a NPE caused by mass number now being an Object instead of native
04:53 CIA-31 cdk: egonw * r10989 /cdk/trunk/src/main/org/openscience/c​dk/smiles/DeduceBondSystemTool.java: Fixed a NPE caused by formal charge now being an Object instead of native
04:57 CIA-31 cdk: egonw * r10990 /cdk/trunk/src/META-INF/test-charges.libdepends: Added missing depends
05:00 CIA-31 cdk: egonw * r10991 /cdk/trunk/src/main/org/openscience/cdk/f​ormula/MolecularFormulaManipulator.java: Fixed a NPE caused by natural abundance now being an Object instead of native
05:22 jbrefort joined #cdk
06:30 carsten joined #cdk
06:34 egonw joined #cdk
06:57 egonw bbl
07:02 malick joined #cdk
07:23 masak joined #cdk
07:49 jonalv joined #cdk
07:56 jpansanel moin
07:59 jonalv hi jpansanel
07:59 jonalv did you see my mail?
08:09 jpansanel yes
08:09 jpansanel yesterday night
08:09 jpansanel I did not have the time to reply
08:09 jpansanel I'm trying to do it quickly
09:49 rojasm joined #cdk
09:50 rojasm moin
09:58 egonw hi rojasm
09:58 egonw bbl
09:58 egonw lunch now
10:11 carsten joined #cdk
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11:14 thomas_ku moin
11:21 egonw hi thomas_ku
11:30 rojasm egonw I have a list with molecules which files when the method LonePairElectronChecker.saturate is applied
11:30 egonw huh?
11:31 rojasm from the Nist database
11:32 rojasm joined #cdk
11:32 rojasm too much sorry
11:32 rojasm exactly is:
11:32 rojasm java.lang.NullPointerException
11:32 rojasm at org.openscience.cdk.tools.LonePairElectronChec​ker.saturate(LonePairElectronChecker.java:113)
11:33 egonw mom
11:33 rojasm And now I am compailing a list with structure which the parser to smiles is not working
11:35 egonw ah... mom
11:36 egonw let me check
11:51 jonalv joined #cdk
13:41 CIA-31 bioclipse: carl_masak * r5614 /bioclipse2/trunk/plugins/net.bioclipse.scripting​/src/net/bioclipse/scripting/JsEnvironment.java: [js console] better error message on parameter mismatch
13:44 carsten joined #cdk
14:22 malick joined #cdk
15:02 CIA-31 bioclipse: ospjuth * r5615 /bioclipse2/trunk/plugins/net​.bioclipse.cdk10.sdfeditor/: Initial import.
15:03 CIA-31 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-31 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-31 bioclipse: ospjuth * r5618 /bioclipse2/trunk/plugins/net.bioc​lipse.cdk.ui/META-INF/MANIFEST.MF: Exported views package for tests.
15:08 CIA-31 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.
15:15 malick left #cdk
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15:49 CIA-31 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-31 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-31 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.
17:38 egonw joined #cdk
21:25 CIA-31 jmol: hansonr * r9375 /trunk/Jmol/src/org/jmol/ (9 files in 5 dirs):
21:25 CIA-31 jmol: version=11.5.37 bug fixes: ellipsoids, rockets, javascript
21:25 CIA-31 jmol: # bug fix: ellipsoids for applied symmetry causes odd shapes (s8.cif)
21:25 CIA-31 jmol: # bug fix: security for no mayscript may cause problem with measure callback
21:25 CIA-31 jmol: # bug fix: rocket positions after translateselected

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