Camelia, the Perl 6 bug

IRC log for #bioclipse, 2008-11-12

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All times shown according to UTC.

Time Nick Message
06:53 Gpox joined #bioclipse
06:54 masak joined #bioclipse
07:24 Gpox joined #bioclipse
08:09 egonw joined #bioclipse
08:31 egonw moin
08:31 zarah hi egonw
08:32 masak y0
08:32 zarah hi masak
08:32 masak zarah: you don't need to salute everone, you know.
08:32 zarah masak: are you making fun of me?
08:32 masak zarah: a little.
08:32 zarah masak: please rephrase or stop trying to be witty :)
08:33 egonw so your commit about bug #12
08:33 masak ok :)
08:35 masak egonw: well, I added bug-to-URL capabilities to Smart Girl, as you suggested. but currently, it recognizes only the exact format 'bug NN' -- I should probably add '#' to that. also, it only triggers on commit bot utterances.
08:35 masak maybe that's too restrictive?
08:35 masak I don't want zarah to blabber, is all.
08:36 egonw no, happy with it to only react on CIA-53
08:36 egonw CIA-bla
08:36 masak goodie.
08:36 egonw yes, the hash would be good
08:37 CIA-53 bioclipse: carl_masak * r7614 /bot/trunk/zarah.pl: [zarah] now also accepts "bug #NN"
08:37 egonw so your commit about bug #12
08:37 egonw crap
08:37 egonw zarah: reboot
08:37 egonw zarah: die
08:37 masak zarah: reboot
08:38 zarah joined #bioclipse
08:38 egonw saw your commit about bug #12
08:38 egonw ok...
08:38 masak egonw: but if you expect a response to that,
08:38 egonw oh right
08:38 egonw ok, ok
08:38 egonw the does it...
08:38 masak I don't think you understood what I said about zarah only responding to CIA-NN
08:39 egonw I have officially a *very* *bad* day
08:39 masak egonw: sorry to hear that.
08:39 egonw no, just short term memory issues
08:40 masak egonw: but do feel free to throw in some "bug #12"-like things in commit comments :)
08:41 egonw yes, working on that
08:44 masak http://nopaste.snit.ch/14545
08:44 stain imagine.. bug #12!
08:45 masak no matter how many times you try, she still won't listen :)
08:45 stain either you're spoilt having very few bugs, or you have pulled up some good old dusty stuff
08:45 masak stain: we just reset our bug db
08:45 egonw stain: no, we just switched to bugzilla
08:45 stain "Look, we have no bugs!"
08:45 egonw and did not copy all old bugs
08:45 stain you switched *to* bugzilla? :)
08:45 egonw yes
08:45 egonw from SourceForge
08:45 masak stain: :)
08:45 stain well, ok!
08:45 stain then I understand ;)
08:46 masak stain: there are degrees in hell.
08:46 egonw Eclipse Mylyn integration is great
08:46 stain I just love Jira.. I can't go back
08:46 egonw masak: celsius?
08:46 * masak looks up Jira
08:46 masak egonw: must be Farenheit, no?
08:46 egonw opensource? ubuntu package?
08:46 stain http://www.mygrid.org.uk/dev/issues/sec​ure/IssueNavigator.jspa?reset=true&​&pid=10040&status=1&sorter/​field=issuekey&sorter/order=DESC
08:46 zarah stain's link is also http://tinyurl.com/6z8yku
08:47 masak http://www.atlassian.com/software/jira/
08:47 zarah masak's link is also http://tinyurl.com/7bd56
08:47 * masak kinda likes RT, too.
08:47 masak email integration is great.
08:47 stain emails would be to disruptive for me.. I filter away the emails from Jira ;)
08:48 stain RT is all right, isn't it.. but more for support, right?
08:49 masak stain: not at all.
08:49 masak stain: definitely for bugs and feature requests.
08:50 masak http://bestpractical.com/rt/
09:01 jonalv joined #bioclipse
09:02 jonalv hi
09:02 zarah hi jonalv
09:02 zarah jonalv: You have new messages. Write '@messages' to read them.
09:02 jonalv @messages
09:02 zarah jonalv: 1 h 37 m 49 s ago, masak said http://chem-bla-ics.blogspot.com/20​08/10/embedding-gists-in-blogs.html
09:04 masak hi jonalv
09:04 jonalv masak: hi
09:22 CIA-53 bioclipse: carl_masak * r7615 /bot/trunk/zarah.pl: [zarah] now treats "me", "me.", "me.." etc identically in "tell me..."
09:36 CIA-53 bioclipse: carl_masak * r7616 /bot/trunk/zarah.pl: [zarah] refactoring of @tell, @ask and @ping. these now work the same way
09:37 zarah joined #bioclipse
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09:38 CIA-53 bioclipse: carl_masak * r7617 /bot/trunk/zarah.pl: [zarah] fixed typo
09:38 zarah joined #bioclipse
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09:51 jonalv egonw: I have problems with non compiling IJChemPaintManager... :(
09:59 jonalv egonw: ping
10:06 egonw pong
10:06 egonw was in a meeting
10:06 jonalv okey
10:07 jonalv egonw: but what's up with IJCempaintManager?
10:08 jonalv it seems to have made it's way into the central parts of Bioclipse dependencies + it doesn't compile...
10:08 egonw mom
10:09 egonw no, should not be a central dep at all...
10:09 egonw where did you find that dep... I need to fix that then
10:09 egonw no idea where that came from... :(
10:10 jonalv I haven't followed it up but it got it'sef into my default set of plugins...
10:24 jonalv zarah: tell masak Did you even try your last console hack on your computer before commiting? Now tab completions i borken on mac's too... :(
10:24 zarah Consider it noted.
10:25 CIA-53 bioclipse: egonw * r7618 /bioclipse2/trunk/plugins/net.biocl​ipse.core.tests/src/net/bioclipse/c​ore/tests/AbstractManagerTest.java: Refactored out general methods
10:44 egonw jonalv: can reproduce the compile problem
10:44 egonw jonalv: but I cannot reproduce any core plugin to depend on IJChemPaintManager
10:45 jonalv egonw: uhm perhaps it wasn't a core plugin. is it in the chemoinformatics fetarue?
10:46 egonw yes
10:47 jonalv that's probably what I did then
10:48 jonalv anyway, you are fixing the compile problem I trust? :)
10:48 * jonalv -> lunch
10:48 egonw yes
10:48 egonw commit pending
10:49 CIA-53 bioclipse: egonw * r7619 /bioclipse2/trunk/plugins/net.bioclipse.cdk.​jchempaint.business/src/net/bioclipse/cdk/jc​hempaint/business/IJChemPaintManager.java: Fixed for class name change; Eclipse must have overlooked that when I had it rename the class
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12:10 malick joined #bioclipse
12:25 egonw jonalv: ping
12:26 jonalv egonw: pong
12:26 egonw is there a IBioclipseManager.getImplementedInterface()
12:26 egonw that would return ICDKManager.class for CDKManager?
12:26 egonw that would be damn useful
12:26 jonalv I don't know
12:26 egonw now I need to rely on class name conventions
12:27 jonalv hm
12:27 jonalv perhaps add one?
12:27 egonw which is fine, but just not convenient
12:27 egonw yeah, might do
12:31 edrin joined #bioclipse
12:41 egonw jonalv: ping
12:42 jonalv egonw: pong :)
12:42 egonw :)
12:42 egonw what was that third parameter, IRunnable?
12:42 jonalv ah yea
12:42 egonw mmm...
12:42 egonw where do I find that?
12:42 egonw which plugin?
12:42 jonalv We want to add a possibility to run code usign the gui thread after the job has finnisehd
12:43 egonw yes, I know
12:43 jonalv For updating...
12:43 egonw but cannot find IRunnable
12:43 jonalv oh
12:43 jonalv hang on
12:44 jonalv that should be java.lang.Runnable
12:44 jonalv not IRunnable
12:44 egonw ah, ok
12:44 egonw good
12:46 egonw zarah: here comes
12:46 zarah egonw: excuse me?
12:47 egonw zarah: well, do your thing
12:47 zarah egonw: please rephrase or stop trying to be witty :)
12:47 egonw CIA-53: you too, please
12:48 CIA-53 bioclipse: egonw * r7620 /bioclipse2/trunk/plugins/net.biocl​ipse.core.tests/src/net/bioclipse/c​ore/tests/AbstractManagerTest.java: Added second API test for managers (addresses bug #112)
12:48 zarah http://pele.farmbio.uu.se/cgi-b​in/bugzilla/show_bug.cgi?id=112
12:48 egonw zarah: tack
12:48 zarah you're welcome, egonw :)
12:55 CIA-53 bioclipse: egonw * r7621 /bioclipse2/trunk/plugins/net.biocl​ipse.core.tests/src/net/bioclipse/c​ore/tests/AbstractManagerTest.java: Fixed gettting names of classes: don't getClass on a Class
12:59 CIA-53 bioclipse: egonw * r7622 /bioclipse2/trunk/plugins/net.biocli​pse.cdk.business/src/net/bioclipse/c​dk/business/CDKManagerHelper.java: Removed output to STDOUT
13:00 CIA-53 bioclipse: egonw * r7623 /bioclipse2/trunk/plugins/net.biocl​ipse.core.tests/src/net/bioclipse/c​ore/tests/AbstractManagerTest.java: Removed output to STDOUT
13:03 jonalv zarah: pelezilla
13:03 zarah [Bug 77] paths in windows slash problems http://tinyurl.com/578aen
13:03 zarah [Bug 78] CR/LF problems on windows       http://tinyurl.com/6eznsa
13:03 zarah [Bug 70] Faulty instanceof as IMolecu... http://tinyurl.com/5u7vag
13:03 zarah [Bug 73] Bioclipse 2.0.0 final is not... http://tinyurl.com/6phlff
13:03 zarah [Bug 113] The js console says "unexpe... http://tinyurl.com/5hey86
13:03 zarah Entire list at http://tinyurl.com/59wwod
13:04 egonw @pelezilla cheminformatics
13:04 zarah [Bug 17] Chemoinformatics is so 90-ti... http://tinyurl.com/66wrxc
13:04 zarah [Bug 49] Cheminformatics icons           http://tinyurl.com/5prvut
13:04 zarah [Bug 56] Set up feature for CDK-Debug    http://tinyurl.com/6e28yk
13:04 zarah Entire list at http://tinyurl.com/5wucw4
13:05 egonw @pelezilla egonw
13:05 zarah [Bug 90] missing unit test for saveCM... http://tinyurl.com/6l8aeo
13:05 zarah [Bug 91] missing unit test for saveMD... http://tinyurl.com/6saofw
13:05 zarah [Bug 94] missing unit test for create... http://tinyurl.com/674rgn
13:05 zarah [Bug 106] missing manager unit test f... http://tinyurl.com/5s4wyd
13:05 zarah [Bug 29] Backups as Git on server        http://tinyurl.com/6rcqk8
13:05 zarah Entire list at http://tinyurl.com/5kjqxt
13:06 egonw @pelezilla #117
13:07 zarah Cannot detect feed type
13:07 jonalv @pelezilla "#117"
13:07 zarah Cannot detect feed type
13:10 edrin hi
13:10 zarah hi edrin
13:17 CIA-53 bioclipse: egonw * r7624 /bioclipse2/trunk/plugins/net.biocl​ipse.core.tests/src/net/bioclipse/c​ore/tests/AbstractManagerTest.java: Implemented last two API pattern tests (closes #112)
13:20 egonw Gpox: ping
13:20 egonw meeting in my room?
13:20 egonw do you bring you laptop?
13:21 Gpox ok
13:26 edrin jonalv: i have seen commits from masak. did he fix the newline problem of the console?
13:27 jonalv edrin: no he tried to but totally broke it instead... :(
13:27 edrin ic
13:27 edrin happend to me
13:27 edrin when i tried it
13:27 edrin *also
13:28 jonalv I whish I knew why he commited it though...
13:28 jonalv :/
13:28 edrin heh
13:58 egonw jonalv, edrin: solution is easy
13:58 egonw revert his patches and commit
13:58 egonw then file a bug report pointing to the reverts
13:59 jonalv egonw: yea I guess. I haven't felt it important enough but if someone does then please so it :)
14:01 CIA-53 bioclipse: egonw * r7625 /bioclipse2/trunk/plugins/ (3 files in 3 dirs): Have it extend AbstractManagerTest
14:07 edrin well... in my opinion it's not worth it to revert. it was corrupt before, too...
14:08 edrin egonw: did you have to read thing through ?
14:08 egonw nope, sorry
14:08 egonw family arrived at our place last nite, and really, really tired
14:09 edrin ok :)
14:30 CIA-53 bioclipse: egonw * r7626 /bioclipse2/trunk/plugins/ (5 files in 3 dirs): Moved depictSybylAtomTypes to cdkdebug (closes #28)
14:42 egonw brb
14:44 egonw joined #bioclipse
15:09 CIA-53 bioclipse: egonw * r7627 /bioclipse2/trunk/plugins/net.bioclipse.jmol.tes​t/src/net/bioclipse/jmol/test/CoverageTest.java: Removed @Override annotation
15:13 CIA-53 bioclipse: egonw * r7628 /bioclipse2/trunk/plugins/ (31 files in 17 dirs): Added two test suites: for cml and ui.business
15:37 egonw jonalv: btw, did you know your gist made it to FriendFeed: http://friendfeed.com/rooms/bioclipse
15:37 zarah egonw's link is also http://tinyurl.com/6bbxz5
15:37 jonalv nope I did not
15:43 CIA-53 bioclipse: egonw * r7629 /bioclipse2/trunk/ (3 files in 2 dirs): Added method to output the CDK atom types
15:51 CIA-53 bioclipse: egonw * r7630 /bioclipse2/trunk/plugins/net.​bioclipse.scripting.ui.tests/ (15 files in 8 dirs): Added test suite for scripting.ui
15:53 jonalv Brunn is borken I am have a live demo planned tomorrow...
15:54 jonalv It\s not show stopeer borken but it's not 100% working either...
15:54 jonalv :(
15:56 egonw indeed
15:56 egonw anything I can do?
15:56 jonalv probably not
15:57 * jonalv hates Hibernate!
15:57 egonw ummm... same here
15:57 egonw didn't I tell you so?
15:57 jonalv egonw: no...
15:57 CIA-53 bioclipse: egonw * r7631 /bioclipse2/trunk/plugins/ (3 files in 3 dirs): Added scripting.ui coverage test
15:57 egonw ok, hereby I do...
15:57 egonw don't use Hibernate
15:57 egonw it sucks
15:58 egonw yes, *very* *bad* timing to say so, I know
15:58 egonw sorry about that
15:59 egonw never mind me
15:59 egonw anyway... I hate it too
15:59 egonw tried it in Cologne...
15:59 egonw made some progress, but really cumbersome
16:00 jonalv Brunn is based on Hibernate... ;/
16:01 egonw well, there are worse things...
16:11 CIA-53 bioclipse: egonw * r7632 /bioclipse2/trunk/plugins/net.bioclipse.ui.busi​ness.tests/src/net/bioclipse/ui/business/tests/ (JmolManagerTest.java UIManagerTest.java): More reasonable name
16:12 CIA-53 bioclipse: egonw * r7633 /bioclipse2/trunk/plugins/net.bioclipse​.core.tests/src/net/bioclipse/core/test​s/coverage/AbstractCoverageTest.java: Fixed message for recent rename
16:13 CIA-53 bioclipse: egonw * r7634 /bioclipse2/trunk/plugins/ (4 files in 3 dirs): Added TestClasses annotation
16:44 jonalv egonw: Can you recommend something else instead of Hibernate?
16:45 jonalv egonw: I can: ibatis
16:45 CIA-53 bioclipse: egonw * r7635 /bioclipse2/trunk/plugins/net.biocli​pse.cdk.debug/src/net/bioclipse/cdkd​ebug/business/CDKDebugManager.java: Reworked code to not stop perception after the first fail
16:45 jonalv This is why I am using iBaits for structuredb
16:45 egonw I'd go for MyChem or PgChem
16:45 jonalv sure it means working with two different ORMs at the same time but it's worth it. I really hate Hibernate!
16:45 CIA-53 bioclipse: carl_masak * r7636 /bot/trunk/zarah.pl: [zarah] now @plan and @replan change last-worked-on task
16:46 zarah joined #bioclipse
16:46 egonw you have to show me the details about iBatis
16:48 jonalv egonw: sure
16:54 zarah joined #bioclipse
16:54 CIA-53 bioclipse: carl_masak * r7637 /bot/trunk/zarah.pl: [zarah] fixed slight bug in last commit
16:54 egonw have to run to catch the bus
16:54 egonw bbol
17:01 CIA-53 bioclipse: carl_masak * r7638 /bot/trunk/zarah.pl: [zarah] now matches "fixes" and "closes" as synonyms for "bug" in "bug #NN"
17:08 CIA-53 bioclipse: carl_masak * r7639 /bot/trunk/zarah.pl: [zarah] now un-sets last-worked-on when user deletes a task
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