Camelia, the Perl 6 bug

IRC log for #bioclipse, 2008-09-10

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All times shown according to UTC.

Time Nick Message
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06:57 CIA-30 bioclipse: egonw * r6927 /bioclipse2/trunk/externals/: Follow the CDK 1.2.x branch, not trunk
07:40 olas joined #bioclipse
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07:50 jonalv moin
07:50 zarah hi jonalv
08:14 shk3 hi jonalv
08:18 egonw joined #bioclipse
08:22 jonalv hm is it only me or does org.openscience.cdk not compile any longer?
08:25 egonw what error?
08:26 egonw I did do a 'ant clean dist-all test-dist-all dist-large' before I commited... :(
08:26 jonalv egonw: org.openscience.cdk.controller.Controller2DModel row 70
08:26 jonalv UndoAdapter cannot be resolved to a type
08:27 egonw mmm
08:28 egonw that should have been copied in the merge with cdk-1.2.x
08:28 egonw which indicates that your svn:externals has not been updated?
08:28 egonw it should no longer point to cdk/trunk/
08:28 egonw but to cdk/branches/cdk-1.2.x
08:28 egonw [08:57] <CIA-30> bioclipse: egonw * r6927 /bioclipse2/trunk/externals/: Follow the CDK 1.2.x branch, not trunk
08:28 jonalv uhm I just updated...
08:28 jonalv I thought just updateing should work...
08:29 jonalv doesn't svn handle that?
08:29 egonw I think it did for me...
08:29 egonw but maybe not...
08:29 egonw maybe delete the org.openscience.cdk
08:30 egonw and then have svn redo the svn:externals
08:30 jonalv the svn:externals proerty seems right anyway...
08:30 jonalv yea I guess I will do that...
08:30 jonalv Probably should send out a mail about that...
08:33 jonalv egonw: Eclipse claims that the project is from cdk/branches/cdk-1.2.x but I will try redoing it...
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08:41 jonalv egonw: http://cdk.svn.sourceforge.net/viewvc/cdk/cdk/b​ranches/cdk-1.2.x/src/main/org/openscience/cdk/​controller/Controller2DModel.java?view=markup
08:42 jonalv egonw: I don't think it's a svn:externals problem...
08:46 egonw mmm indeed...
08:46 egonw mom
09:12 egonw jonalv: working on it...
09:12 jonalv egonw: sounds good
09:13 egonw a file copy never made it into the repos
09:13 egonw forgot to add it :(
09:14 jonalv aha
09:14 egonw need to figure out the svn:ignore equiv for git ...
09:22 CIA-30 bioclipse: carl_masak * r6928 /bioclipse2/trunk/plugins/​net.bioclipse.biojava.ui/ (5 files in 3 dirs):
09:22 CIA-30 bioclipse: [net.bioclipse.biojava.ui]
09:22 CIA-30 bioclipse: * Added outline to the AlignmentEditor
09:22 CIA-30 bioclipse: * It doesn't work yet
09:33 egonw OK, I think I finally managed to get it added in between other things...
09:34 egonw jonalv: commited; please update
09:34 egonw will now be afk for at least an hour
09:35 * jonalv is updating
09:36 olas egonw: heard about the new jumbo?
09:36 egonw no
09:37 jonalv now it at least compiles... egonw++
09:37 egonw you?
09:37 egonw jonalv: ok, excellent
09:37 olas not a word
09:37 egonw sorry abou the missing class
09:37 egonw will be back this afternoon
09:37 egonw bye for now
09:37 egonw olas: ask Jim...
09:38 jonalv it's not like I can do very much before cml works anyway...
09:38 egonw can't be of much help until later this afternoon
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11:32 CIA-30 bioclipse: goglepox * r6929 /bioclipse2/trunk/plugins/ (7 files in 4 dirs): MoleculesEditor now has a JCP tab and JCP rendering looks nicer
11:44 olas grrrrooovy Gpox++
11:51 jonalv uhm my Bioclipse log file is 32M!!!!!!!
11:52 jonalv maybe just maybe we shouldn't just append but actually clear it when Bioclipse is restarted?
11:55 olas can this not be controlled with log4j?
11:55 olas to have a max size?
12:12 Gpox what behavior do you want?
12:19 olas log file should not be larger than X Mb
12:21 Gpox anything else rolling files, overwrite ?
12:38 jonalv I think I just want the logging file from the latest run to be saved
12:38 jonalv at least I want a new log file each time Bioclipse is started
12:47 olas I'm not sure about that
12:47 olas please write on bioclipse-devel about this
13:53 egonw joined #bioclipse
14:06 CIA-30 bioclipse: ospjuth * r6930 /bioclipse2/trunk/plugins/net.bioclipse.​statistics/src/net/bioclipse/statistics/ (editors/MatrixEditor.java model/MatrixResource.java): Made matrixeditor try to recognize comma-separated, tab-separated, and whitespace-separated values. Quite untested though. Also added an IResourceChangedListener on MatrixEditor to refresh if underlying file changes.
14:06 CIA-30 bioclipse: ospjuth * r6931 /bioclipse2/trunk/plugins/net.bioclipse.qsar.ui/sr​c/net/bioclipse/qsar/ui/builder/QSARBuilder.java:
14:06 CIA-30 bioclipse: QsarBuilder now calculates all selected descriptors for all selected molecules
14:06 CIA-30 bioclipse: in 'qsar.xml' (editable via QsarEditor). It saves values in folder 'processed'
14:06 CIA-30 bioclipse: where all molecules are serialized to CML with descriptor values included. The
14:07 CIA-30 bioclipse: Builder also generates a CSV dataset ('dataset.csv') that can be opened with
14:07 CIA-30 bioclipse: MatrixEditor.
16:30 CIA-30 bioclipse: ospjuth * r6937 /bioclipse2/trunk/plugins/net.bioclipse.qsar.ui/ (4 files in 2 dirs): Use an overridden labelprovider for EMF observables that provides some images and makes labels more informative. Updated RightViewer to use EMF.edit.observables.
16:33 jonalv Maven hates me!
16:33 jonalv I have Maven!
16:34 jonalv and I hate it!
16:36 jonalv sometimes I look at lol cats...
16:44 olas cu tomorrow
16:44 olas bye all
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17:15 CIA-30 bioclipse: shk3 * r6938 /bioclipse2/trunk/plugins/net.bioclipse.bibtex/: Initial import.
17:19 CIA-30 bioclipse: shk3 * r6939 /bioclipse2/trunk/plugins/net.bioclipse.bibtex/ (32 files in 15 dirs): Initial import.
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17:39 jonalv I am out of here!
17:39 jonalv cya
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