Camelia, the Perl 6 bug

IRC log for #bioclipse, 2008-11-25

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All times shown according to UTC.

Time Nick Message
06:05 thomas_ku joined #bioclipse
06:53 Gpox joined #bioclipse
06:57 Gpoks joined #bioclipse
06:59 Gpox zarah: you awake?
06:59 zarah Gpox: you've just exceeded my capabilities :/
08:38 CIA-53 bioclipse: goglepox * r7828 /bioclipse2/trunk/plugins/net.bioclipse.cdk.jchem​paint.view/src/net/bioclipse/cdk/jchempaint/view/ (JChemPaintWidget.java SWTRenderer.java): Switched to using AffineTransform for translating and scaling
08:38 CIA-53 bioclipse: goglepox * r7829 /bioclipse2/trunk/plugins/net.bioclipse​.cdk.jchempaint.view/src/net/bioclipse/​cdk/jchempaint/view/SWTRenderer.java:
08:38 CIA-53 bioclipse: Changed how scaling is used,
08:38 CIA-53 bioclipse: you can not translate a width or height only scale,
08:38 CIA-53 bioclipse: so x,y are translated and width height is scaled.
08:39 CIA-53 bioclipse: goglepox * r7830 /bioclipse2/trunk/plugins/net.bioclipse.​cdk.jchempaint.view/src/net/bioclipse/cd​k/jchempaint/view/JChemPaintWidget.java: Shows the AtomContainer bounds for debuging
08:39 CIA-53 bioclipse: goglepox * r7831 /bioclipse2/trunk/plugins/net.bioclipse​.cdk.jchempaint.view/src/net/bioclipse/​cdk/jchempaint/view/SWTRenderer.java:
08:39 CIA-53 bioclipse: Renamed visitXXX() to visit(XXXElement)
08:39 CIA-53 bioclipse: and implemented reflection to lookup visit method
08:46 CIA-53 bioclipse: goglepox * r7832 /bioclipse2/trunk/plugins/net.bioclipse.cdk.​jchempaint/src/net/bioclipse/cdk/jchempaint/ (2 files in 2 dirs): Added popupmenu to JChemPaintEditor no contributions yet
08:52 edrin joined #bioclipse
09:12 jonalv joined #bioclipse
09:25 jonalv moin
09:25 zarah hi jonalv
09:46 edrin hi
09:46 edrin hi jonalv
09:46 zarah hi edrin
09:54 jonalv hi edrin
10:02 edrin no egon today?
10:15 jonalv it's his daughters birthday I think
10:22 edrin ah
10:22 edrin ic
10:22 edrin how old?
10:22 jonalv uhm was it 5?
11:00 charlgren joined #bioclipse
12:13 gilleain joined #bioclipse
12:26 shk3 joined #bioclipse
14:02 masak joined #bioclipse
14:21 jonalv masak: hi
14:21 CIA-53 bioclipse: goglepox * r7833 /bioclipse2/trunk/plugins/net.bioclipse.cdk.ui.sdf​editor/src/net/bioclipse/cdk/ui/sdfeditor/editor/ (4 files): Molecules editor works better for large files, no jmol tab as it don't work well with large files
14:22 jonalv Gpox: no jmol tab? Is this permanent?
14:23 Gpox no just temporary
14:24 jonalv good :)
14:24 masak jonalv: y0
14:25 jonalv masak: what's up?
14:25 jonalv rm -rf
14:27 masak jonalv: you deleted Gpox!
14:27 jonalv muhahaha
14:27 masak jonalv: I'm a bit groggy today...
14:27 masak jonalv: you?
14:27 jonalv masak: huh what have you been doing?
14:27 masak jonalv: sleeping...
14:28 jonalv yea I am tired. It's dark and snowy
14:28 masak aye
14:28 jonalv tiggers don't like this time of the year
14:28 masak nay
14:28 masak I'll try earnestly to do a sleep-cycle reebot tonight.
14:29 masak I'll need it for the word tests tomorrow.
14:29 masak (and for not missing class)
14:29 jonalv sounds like a plan
14:29 masak mhm
14:29 masak drapes down, hit sack at 11pm, meditate, sleep fast, up at 5.
14:30 masak I think I'll make it.
14:35 jonalv nice
14:35 edrin hi masak
14:35 edrin is js console fully functional again?
14:38 masak hi edrin
14:38 masak it is for me. is it for you?
14:38 masak I know there are outstanding bugs, but they are for Windows
14:40 edrin did not check, will do so tonight
14:41 edrin what bug is outstanding?
14:41 edrin are there still "\n" replacements that did not were replaced by Java newline systems variable?
14:42 edrin ( Bad english)
14:42 masak edrin: I don't know.
14:42 masak ISTR not everything was entirely fixed
14:42 masak on Windows
14:45 edrin lok
14:45 edrin ok
14:46 edrin these JUnit tests, how do I write such a thing?
14:46 jonalv masak: are you saying that there are known bugs on windows?
14:46 edrin the JUnit tests are driven against the managers only, right?
14:46 jonalv edrin: A JUnit test in general or these new Bioclipse manager specific JUnit tests?
14:47 masak jonalv: aye.
14:47 masak or suspected bugs, at least
14:47 jonalv masak: but you will fix that?
14:47 edrin jonalv: the Bioclipse2 release JUnit tests
14:47 masak jonalv: if/when I figure out how, sure
14:48 jonalv edrin: I think the best way is to have a lok at how it's done for the cdk manager
14:48 jonalv or have you already looked at that code_
14:48 jonalv I have also written a somewhat different solution for structuredb...
14:49 jonalv it's for you wsdf4j (was that sort of right?) ?
15:15 edrin jonalv: no, i would fix the webservices plugin
15:16 edrin because it is not working
15:16 jonalv uhm the webservices pluign?
15:16 jonalv is there a manager?
15:16 edrin i dont know
15:16 edrin is JUnit test only required for the manager?
15:19 jonalv The only thing that we are enforcing are JUnit tests for published manager methods yes
15:19 edrin ah ok
15:27 masak http://www.inf.unisi.ch/ph​d/wettel/codecity-wof.html
15:27 zarah masak's link is also http://tinyurl.com/5deogj
15:32 gilleain cool.
15:39 masak Jmol has a few high buildings, whatever that means.
15:40 gilleain God classes.
15:40 gilleain Or God/Brain classes.
15:40 gilleain (apparently :)
15:41 masak :)
15:41 gilleain the highest is org.jmol.viewer.Viewer
15:41 gilleain which I guess calls most of the other classes.
15:41 masak aye.
15:42 gilleain you can download the tool, it's usable, if a bit slow.
15:50 gilleain oh, and it crashed. oh well, back to work.
15:51 masak GUIs--
15:52 gilleain (OpenGL runnning on X on a mac, on top of smalltalk)--
15:55 gilleain huh. if NOM = number of methods and NOA = number of accessors, then skyscrapers = (NOM, noa), parking lots = (nom, NOA), and office buildings are (NOM, NOA). I feel that's all clear now :)
15:55 masak heh :)
15:58 gilleain wow, the presentation even shows a time-series view of a code-city as a project evolves. that would be great.
16:00 gilleain http://www.slideshare.net/wettel/visual-​exploration-of-largescale-system-evoluti​on-presentation-687858?type=powerpoint
16:00 zarah gilleain's link is also http://tinyurl.com/5lz4oj
16:12 Julio joined #bioclipse
16:13 Julio left #bioclipse
16:55 masak (code cities)++
16:57 gilleain I just made one for cdk.
16:58 gilleain SMARTSParserConstants is a parking lot.
16:58 gilleain GeometryTools is a skyscraper.
16:58 masak many attributes, few methods?
16:58 gilleain parking lots = accessor righ
16:58 gilleain ^rich
16:59 masak right.
16:59 masak accessors.
16:59 gilleain will put up image
16:59 masak so, in essence, structs.
16:59 gilleain yup
17:00 gilleain Renderer2DModel is the largest office building (mixture of accessors and methods)
17:00 masak sounds reasonable.
17:14 edrin joined #bioclipse
17:15 edrin stain: how far progressed is Taverna(2)?
17:41 stain edrin: 2.0 will be released before Christmas
17:42 stain or what do you mean..?
17:42 edrin stain: yes, right
17:43 stain 2.0b1 is out
17:43 edrin ok
17:43 edrin can i have the link to the beta
17:43 edrin ?
17:43 stain note that for plugin develoeprs and people like yourself you'll probably want to use Tom's platformstuff which should be in a better shape by February
17:44 stain http://www.mygrid.org.uk/tools/taverna/taverna-2/
17:44 zarah stain's link is also http://tinyurl.com/6jsret
17:44 stain so we'll reshape some of the API stuff after Christmas
17:44 stain but the workbench should by then only improve gradually
17:45 stain we'll remove the rightclicks one by one.. ;)
17:48 stain ok, have to get of me train
18:35 edrin stain: ok
18:35 edrin thx
19:02 edrin left #bioclipse
19:04 CIA-32 joined #bioclipse
20:25 masak joined #bioclipse

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