Camelia, the Perl 6 bug

IRC log for #cdk, 2008-05-28

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All times shown according to UTC.

Time Nick Message
04:25 jbrefort joined #cdk
04:37 egonw joined #cdk
04:55 CIA-31 cdk: egonw * r11185 /cdk/trunk/src/main/org/openscience/cd​k/atomtype/EStateAtomTypeMatcher.java: Added a keyword
05:18 CIA-31 cdk: egonw * r11186 /cdk/trunk/doc/javadoc/build.xml: Fixed generation of the keyword list: remove reference to removed directory
05:22 CIA-31 cdk: egonw * r11187 /cdk/trunk/ (META-INF/MANIFEST.MF jar/xercesImpl-2.9.0.jar):
05:22 CIA-31 cdk: Added a Xerces jar again, because OS/X has a problematic XML parser in the JVM
05:22 CIA-31 cdk: (closes #1975004). It is not a build dependency, but just added for making
05:22 CIA-31 cdk: Bioclipse2 development easier, and therefore added to the Eclipse project's
05:22 CIA-31 cdk: MANIFEST.MF
05:23 rojasm joined #cdk
05:23 rojasm moin
05:23 egonw hi rojasm
05:24 rojasm hi egonw
05:34 rojasm going to Uni
05:34 rojasm see you
06:06 CIA-31 cdk: egonw * r11188 /cdk/trunk/src/test/org/openscience/cdk/qsar/​descriptors/atomic/AtomicDescriptorTest.java: Use a hydrogen, so that the RDF descriptors don't fail on it
06:06 CIA-31 cdk: egonw * r11189 /cdk/trunk/src/test/org/openscie​nce/cdk/qsar/descriptors/atomic/ (5 files): Added tests to ensure that it returns NaN for non-hydrogen atoms
06:06 rojasm joined #cdk
06:07 CIA-31 cdk: egonw * r11190 /cdk/trunk/src/main/org/openscie​nce/cdk/qsar/descriptors/atomic/ (5 files): Return NaN instead of throwing an exception for non-hydrogens
06:07 CIA-31 cdk: egonw * r11191 /cdk/trunk/src/test/org/openscie​nce/cdk/qsar/descriptors/atomic/ (5 files): Removed debug to STDOUT
06:07 rojasm moin
06:07 egonw welcome back :)
06:10 * egonw just discovered that one can also autocomplete classes in the JavaDoc...
06:10 egonw and that that even automagically adds {@link } bits...
06:10 rojasm hi thank! it was not difficult ;) only 10 minuts pedaling
06:10 egonw really nice :)
06:12 rojasm maybe wir should write some thing that for each new class we can use a general patch to create it
06:12 rojasm left #cdk
06:13 rojasm joined #cdk
06:14 egonw sorry, did not get what you meant with that last suggestion...
06:16 egonw bbl
06:18 rojasm I was thinking that we could have a standard way to create a new java class depending what is its module which
06:18 rojasm as a muster that put all automatically
06:32 malick joined #cdk
06:36 egonw sorry... still don't get it
06:47 CIA-31 cdk: miguelrojasch * r11192 /cdk/branches/miguelrojasch-ReactionOnto​logy/src/main/org/openscience/cdk/tools/ (IonizationPotentialTool.java ProtonAffinityTool.java): added model for bond orbitals family in prediction IP and ProtonAffinity
06:50 CIA-31 jmol: hansonr * r9437 /trunk/Jmol/src/org/jmol/viewer/ (Eval.java Jmol.properties TransformManager.java Viewer.java): version=11.5.39_dev # show orientation moveto # just the moveTo; no comments
06:54 rojasm do you remember some group working as well with a RCP-eclipse workflow who were using cdk to create the smiles and They were in Cologne to hack some bugs?
06:55 rojasm I don't remember the name of the program but is was some thing like Taverna a workflow
06:56 egonw KNIME
06:56 egonw .org
06:57 rojasm yes
06:57 rojasm they had some muster when they create a new class
06:57 rojasm and this muster was depending of this necessities
06:58 rojasm I think
06:58 rojasm with also JAVADOC included automatically
07:00 egonw muster?
07:01 rojasm template! maybe is better word
07:03 egonw ah, right
07:03 egonw they did have some code to create template code for a KNIME plugin
07:03 rojasm yes!
07:03 rojasm If we could have some thing similar for each module for example
07:03 egonw rojasm: bbl, will go to PRI now...
07:03 rojasm not problem
07:04 egonw interesting idea...
07:04 egonw bye
07:04 thomas_ku joined #cdk
07:04 thomas_ku moin
07:05 rojasm moin
08:09 jonalv joined #cdk
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08:39 jchlkng left #cdk
08:42 egonw joined #cdk
08:52 malick left #cdk
08:52 malick joined #cdk
10:05 CIA-31 bioclipse: jonalv * r5716 /bioclipse2/trunk/plugins/net.bioclipse.str​ucturedb.tests/tests/net/bioclipse/structur​edb/persistency/dao/StructureDaoTest.java: rewrote a test to make sure fingerprints survives a trip to the database. I probably tested it somewhere but I wanted to make sure...
10:06 CIA-31 bioclipse: jonalv * r5717 /bioclipse2/trunk/plugins/ne​t.bioclipse.structuredb/src/ (5 files in 3 dirs): Work on select statement performing a bitwise AND for the fingerprint substructure search. For the moment it's not going great... :(
10:20 jbrefort joined #cdk
10:47 egonw joined #cdk
11:46 jpansanel moin
11:57 CIA-31 cdk: egonw * r11193 /cdk/trunk/ (9 files in 5 dirs): First draft on diffing IChemObject's.
12:30 CIA-31 bioclipse: jonalv * r5718 /bioclipse2/trunk/plugins/ (6 files in 5 dirs): My tests pass. I think I have moved the fingerprint check down into the database layer correctly but it went way too easy so there is probably some problem left...
12:36 egonw joined #cdk
12:51 CIA-31 bioclipse: egonw * r5719 /bioclipse2/trunk/plugins/: Set up svn:externals for org.opscience.cdk
13:11 CIA-31 bioclipse: ospjuth * r5720 /bioclipse2/trunk/plugins/net.bioclip​se.cdk10.sdfeditor/build.properties: Updated build.properties for export.
13:12 CIA-31 bioclipse: ospjuth * r5721 /bioclipse2/trunk/plugins/net.bi​oclipse.cdk10/build.properties: Updated build.properties for export.
15:55 carsten joined #cdk
16:10 CIA-31 jmol: aherraez * r9438 /trunk/Jmol/src/org/jmol/translat​ion/JmolApplet/JmolApplet-es.po: Spanish
16:11 CIA-31 cdk: egonw * r11194 /cdk/trunk/src/META-INF/ (3 files): Added missing dependency files
17:04 CIA-31 cdk: ospjuth * r11195 /cdk/trunk/src/ (2 files in 2 dirs): Added testfile and test for bug 1974826.
19:37 rojasm joined #cdk

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