Camelia, the Perl 6 bug

IRC log for #bioclipse, 2010-03-05

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All times shown according to UTC.

Time Nick Message
06:09 sneumann joined #bioclipse
06:45 egonw_ joined #bioclipse
08:07 Gpox joined #bioclipse
08:24 egonw_ Gpox: ping
08:25 sneumann joined #bioclipse
08:54 Gpox egonw: pong
08:54 zarah Gpox: You have new messages. Write '/msg zarah @messages' to read them.
08:54 olass joined #bioclipse
08:57 egonw Gpox: I see that there are updates for Hudson
08:57 egonw Gpox: I also note that the 8080/hudson has the admin enabled...
08:58 egonw Gpox: any idea how we can 'publish' read-only build reports?
08:59 egonw and I see that the SVN and Maven plugins require an updated Hudson
08:59 egonw or perhaps that's just the updates for those plugins...
08:59 egonw that's not entirely clear to me from the webpage
09:00 Gpox it is probably that the update is for a newer version of hudson
09:07 egonw would make sense
09:08 egonw can you show me around a bit on the web frontend?
09:08 egonw I see the build results...
09:08 egonw dark clouds, etc
09:08 egonw but cannot find the build report itself
09:12 egonw Gpox: installed HTML reporting module
09:13 egonw added to the target_platform build
09:13 egonw will issue a rebuild now, ok?
09:13 Gpox ok
09:14 egonw oh, and how do I add a user?
09:14 Gpox failed
09:14 egonw I'm now anomymous :)
09:14 egonw yes, I noticed that
09:14 egonw after 3.9 secs :)
09:14 jonalv joined #bioclipse
09:14 Gpox it is trying to tag the git repo
09:14 egonw Gpox: the log is interesting :)
09:14 jonalv oh haia
09:15 egonw Gpox: indeed :)
09:15 olass o/
09:15 egonw and anonymous doesn't have user.email defined :)
09:15 egonw or user.name :)
09:15 egonw hi olass, jonalv!
09:15 egonw jonalv: check my blog, thanx for the great work!
09:15 egonw jonalv++
09:15 egonw jonalv++
09:15 egonw olass: please check my email on the chembl manager with the method you requested
09:15 jonalv egonw: yea I have just read your blog :) egonw++
09:16 olass egonw: yes, saw it. thx
09:16 * egonw is slowly waking up :)
09:16 jonalv egonw: it would be nice to have one more proof of concept though and get sequences to work too...
09:16 egonw yes, agreed...
09:16 egonw jonalv: it all depends on ui.open to work
09:16 * Gpox got a fix for that
09:17 jonalv egonw: yup, it all boils down to the sequence editor
09:17 * Gpox testing it now
09:17 egonw so, basically the editors to accept not only file input (as Ola explained to me via mail)
09:17 jonalv Gpox: oh najs
09:17 olass yes, that is the key
09:17 egonw Gpox: fix for the git tagging ?
09:17 Gpox ui.open
09:17 egonw oh, cool
09:19 egonw Gpox: please do give me a pointer on how to set up a user account on hudson, so that I can get the tagging to work
09:19 Gpox i have no idea
09:19 egonw Gpox: and for now, can you please trigger a build with your account?
09:19 egonw Gpox: ok, no worries...
09:20 egonw @google hudson add new account
09:20 zarah egonw: http://wiki.apache.org/general/Hudson
09:20 egonw http://wiki.apache.org/general/Hudson​#How_do_I_setup_a_new_user_on_Hudson.3F
09:20 zarah egonw's link is also http://tinyurl.com/yfe5cjw
09:21 Gpox but I belive it is trying to tag git://github.com/olas/bioclipse.core.git which it has read only access to
09:21 egonw yes, I see it failed for you too :)
09:21 egonw lovely :)
09:22 egonw well, we do not want this tagging anyway...
09:22 egonw not at this moment yet
09:31 egonw Gpox: cannot find how to disable tagging
09:32 egonw Gpox: where does Hudson keep the local git checkouts?
09:34 Gpox /var/hudson some where I would guess
09:34 egonw ack
10:08 jonalv Gpox: did you fix that ui.open for sequences now?
10:10 Gpox no, problem with text editor and non file editor input
10:10 jonalv Gpox: oh, I didn't relaise it was a text editor...
10:10 Gpox it got a source tab
10:11 jonalv oh
10:11 jonalv ah
10:11 jonalv hehe
10:11 jonalv Gpox: so temp file?
10:20 Gpox maybe not, jsut need to find where the document provider is comming from or the lack of one to be more precise
10:24 jonalv Gpox: okey
12:05 egonw_ joined #bioclipse
12:13 sneumann joined #bioclipse
12:51 _ilbot2 joined #bioclipse
12:51 Topic for #bioclipseis now An open source workbench for chem- and bioinformatics - http://www.bioclipse.net/ | BioclipseWiki => http://wiki.bioclipse.net/ !! | logs => http://colabti.org/irclogge​r/irclogger_logs/bioclipse & http://moritz.faui2k3.org/irc​log/out.pl?channel=bioclipse || Bioclipse2 beta released! See http://bioclipse.blogspot.com/ || http://www.youtube.com/watch?v=ZUBQknWUEYU
13:27 samuell joined #bioclipse
14:11 egonw_ joined #bioclipse
14:25 CIA-57 org.openscience.cdk: Egon Willighagen master * rd6017e6 / (61 files in 58 dirs): Uploaded bundles for CDK 1.3.3 - http://bit.ly/bUoi4h
14:57 egonw__ joined #bioclipse
14:58 CIA-57 org.openscience.cdk: Egon Willighagen cdk-jchempaint * rff1395f / (62 files in 59 dirs): Uploaded CDK-JChemPaint 7 - http://bit.ly/aEC1xk
15:50 egonw Gpox: ping
15:50 Gpox egonw: pong
15:50 egonw Gpox: what was that git command line again, to apply a patch while fixing subdirs ?
15:52 * Gpox looking it up on the wave
15:52 egonw ah, right :)
15:52 Gpox git am --direcotry
15:52 Gpox git am --directory=...
15:53 egonw found the wave
15:53 egonw forgot that you put it there
16:10 egonw all: please switch org.openscience.cdk repos to the bioclipse2.4 branch
16:20 * egonw is routing CDK debug info to the Bioclipse Logger :)
16:20 egonw I hope :)
16:27 egonw mmm...
16:28 egonw :(
16:31 egonw OK, by impl is bad
16:31 * egonw just loves the debug facility of eclipse :)
16:36 egonw cool, it works
16:40 CIA-57 bioclipse.cheminformatics: Egon Willighagen master * r6a68d49 / (2 files in 2 dirs): Logging output from the CDK is now routed into the Bioclipse logging framework - http://bit.ly/c0wpcs
17:06 CIA-57 bioclipse.cheminformatics: Egon Willighagen master * r2d2b96d / plugins/net.bioclipse.cdk.business/src/ne​t/bioclipse/cdk/business/ICDKManager.java : Removed a method from the published interface (fixes #1840) - http://bit.ly/9OZ8tG
17:06 zarah bug #1840 | http://tinyurl.com/yf8388z
17:18 CIA-57 bioclipse.cheminformatics: Egon Willighagen master * r86c302c / plugins/net.bioclipse.cdk.business/src/ne​t/bioclipse/cdk/business/ICDKManager.java : Added a note on the return type of the method (fixes #1847) - http://bit.ly/cmOG3a
17:18 zarah bug #1847 | http://tinyurl.com/yjho3q3
17:22 samuell joined #bioclipse
19:30 CIA-57 bioclipse.cheminformatics: Egon Willighagen master * r5075590 / plugins/net.bioclipse.cdk.business/src/ne​t/bioclipse/cdk/business/ICDKManager.java : Added comment on what the method returns (fixes #1845) - http://bit.ly/bDix5G
19:30 zarah bug #1845 | http://tinyurl.com/yk4a66e
19:30 CIA-57 bioclipse.cheminformatics: Egon Willighagen master * rde2de96 / plugins/net.bioclipse.cdk.business/src/ne​t/bioclipse/cdk/business/ICDKManager.java : Unpublished two methods that should not be called from the JS environment (fixes #1843) - http://bit.ly/cuVnGc
19:30 zarah bug #1843 | http://tinyurl.com/ydwrcog
20:31 CIA-57 bioclipse.cheminformatics: Egon Willighagen master * r609f688 / plugins/net.bioclipse.cdk.business.te​st/src/net/bioclipse/cdk/business/tes​t/AbstractCDKManagerPluginTest.java : Updated numbers as fingerprints have changed - http://bit.ly/drbQtp
20:31 CIA-57 bioclipse.cheminformatics: Egon Willighagen master * ra1778f6 / (4 files in 3 dirs): Return ICDKMolecule instead of IMolecule (fixes #1381) - http://bit.ly/aHdnfB
20:31 zarah bug #1381 | http://tinyurl.com/y8fwlks

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