Camelia, the Perl 6 bug

IRC log for #cdk, 2009-04-20

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All times shown according to UTC.

Time Nick Message
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08:57 CIA-58 cdk: goglepox * r14556 /cdk/branches/jchempaint-primary/src/main/org/​openscience/cdk/controller/ControllerHub.java: Adds the first bond to a single atom at an angle
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09:32 CIA-58 cdk: shk3 * r14557 /cdk/branches/jchempaint-primary/src/main​/org/openscience/cdk/controller/undoredo/ (IUndoRedoFactory.java LoadNewModelEdit.java): working on file opening in applet (still buggy)
09:32 CIA-58 cdk: shk3 * r14558 /jchempaint/trunk/src/main/​org/openscience/jchempaint/ (5 files in 4 dirs): working on file opening in applet (still buggy)
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12:32 CIA-58 cdk: shk3 * r14559 / (2 files in 2 dirs): open in applet now works
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12:36 egonw welcome all to the CDK workshop online coverage
12:40 rguha joined #cdk
12:41 egonw ha rguha!
12:41 egonw just in time :)
12:41 rguha egonw: hi
12:41 egonw Chris is about the end his WS intro slides
12:41 rguha how's the workshop?
12:41 egonw should be in his blog
12:41 egonw just stared
12:41 egonw started
12:41 rguha aah, cool. I though I missed eveyrthing while I was asleep :)
12:43 egonw I'm up now...
12:43 egonw so I hope someone else will take over coverage
12:44 rojasm joined #cdk
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12:48 steinbeck joined #cdk
12:49 egonw hi steinbeck
12:49 steinbeck Hi Egon
12:49 egonw who will do the coverage?
12:49 steinbeck Can you sudo apt-get xchat?
12:51 fargo joined #cdk
12:52 steinbeck Hi Rajarshi
12:53 olass joined #cdk
12:53 olass hello
12:53 zarah saluton olass
12:53 olass zarah: dz
12:53 shk3 joined #cdk
12:53 zarah you're welcome, olass :)
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12:53 jonalv three cheers for CDK
12:53 olass zarah: you are the smart one
12:53 zarah hooray! hooray! hooray! :)
12:53 zarah olass: no, YOU'RE the smart one!
12:54 steinbeck Yes, meeee
12:54 olass zarah: thanks
12:54 zarah you're welcome, olass :)
12:54 steinbeck rguha: you are online now on the screen
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13:05 rguha steinbeck: hi
13:05 steinbeck Hi Rajarshi
13:06 egonw joined #cdk
13:06 rguha nice blog post, looks like an exciting workshop
13:06 steinbeck thanks
13:07 rguha have to get to the offic, bbl
13:14 JimD CDK needs ant 1.7, osx has 1.6 :-(.
13:15 JimD Are there Maven2 binaries for 1.2.1 anywhere?
13:32 rajarshi joined #cdk
13:34 egonw needed: ant 1.7.1
13:39 julio what is the advantage of Groovy versus Eclipse?
13:42 egonw taste
13:42 egonw not so much advantage
13:42 egonw except what I said to Miguel
13:42 egonw I can edit and run groovy files from the command line
13:42 egonw without having to run a full Eclipse
13:42 egonw and therefore easily integrate with .e.g. Makefiles
13:43 egonw rajarshi: ping
13:44 rajarshi egonw, hi
13:44 egonw hi
13:44 zarah hello egonw, you fantastic person you
13:44 egonw can you please check perhaps about the wiki?
13:44 egonw why Jim cannot edit the wiki
13:44 egonw while being a CDK devel registered
13:44 rajarshi ok, hold on
13:45 rajarshi what is jim's ID?
13:47 rajarshi hmm, i'm not in the admin group for the wiki
13:47 egonw grmph
13:48 egonw http://chem-bla-ics.blogspot.com/2009/04/​my-cdk-workshop-2009-course-material.html
13:48 zarah egonw's link is also http://tinyurl.com/clh57v
13:48 JimD @rguha re: wiki problem, my id is jimdowning
13:48 rajarshi JimD, thanks, but I don't think I can fix it since I don't have admin rights
13:54 rajarshi JimD, can you try it now and se if it works/
13:57 egonw rajarshi: does it work?
13:57 rajarshi one sec
13:57 egonw looking into how to give rajarshi permissions
13:57 rajarshi i got it
13:58 rajarshi JimD, I think it should work now. can you give it a try
13:59 olass bloch
13:59 olass @gg bloch
14:00 zarah olass: http://www.blochworld.com/
14:03 egonw my session is over
14:03 egonw Mark starts of on CDK & Oracle databases
14:08 egonw rajarshi: can you please email me with the details of what step you had to take to make it work?
14:09 rajarshi ok (but does it work?)
14:09 egonw JimD: ping
14:12 egonw rajarshi, steinbeck: rojasm and I were talking about a planet CDK...
14:12 egonw I have set up http://pele.farmbio.uu.se/planetcdk/
14:12 zarah egonw's link is also http://tinyurl.com/ceezzh
14:12 rajarshi indeed, bery handy
14:12 egonw but we have not decided on strictly CDK
14:12 egonw so, using tags...
14:12 egonw or just all blogs by CDK developers/users
14:13 egonw (if generally on topic)
14:13 steinbeck :-)
14:13 rajarshi i think tags would be best - my blog doesn't alwyas talk about CDK
14:13 rajarshi :)
14:13 steinbeck sound ok - altough I'm fine with the scope of BlueObelisk
14:13 steinbeck Not too big to also give me the CDK stuff
14:13 rajarshi hmm, good point
14:14 egonw rojasm?
14:15 rojasm yes
14:16 egonw rojasm: can you explain your use case?
14:16 egonw steinbeck: I guess not all CDK-related blogs are BO blogs?
14:19 steinbeck egonw: absolutely right. I was trying to say that the cut set (non-cdk-bo and cdk-bo) is large enough
14:19 rojasm well  some times I found an interesting way to combine severals algorithms of cdk. This code I store for my self in a file or I blog it. But I think I could be interesting to have a specific place to set it.
14:20 egonw Oracle bought Sun, thus Java and MySQL
14:20 rojasm And a cdk-blog I could be great IDEA
14:21 rojasm which picks up blogs with specific tags
14:21 olass as well as blochs?
14:21 olass ;)
14:21 rajarshi i like the idea of easily viewing cdk related posts
14:22 rajarshi it's just another entry in google reader
14:22 egonw OK, so, tag-based it is?
14:22 rajarshi btw, the planet cdk doesn't see to have a atom feed? Google reader fails to subscribe
14:22 rajarshi i think tag based is best
14:23 egonw add the subfolder to it
14:23 egonw pele/planetcdk/atom.xml
14:23 egonw need to fix that
14:24 rajarshi title says Planet Bioclipse
14:24 egonw yes, need to fix that too :)
14:24 rajarshi and what's the tag to aggregate cdk posts?
14:25 rojasm chemistry-development-kit ??
14:25 rajarshi something short? maybe cdk :)
14:26 egonw no, I will need RSS feeds
14:26 egonw so, each blogger will just pass a URL with a tag of his choice
14:34 rajarshi here's my link http://blog.rguha.net/?s=cdk
14:34 egonw FP exercise:
14:34 egonw www.ebi.ac.uk/~markr
14:35 egonw FingerprintExercise.java
14:35 egonw rajarshi: thanx
14:35 rajarshi np
14:39 egonw meahwhile, lot's of activity at Duxford Imperial War Museum
14:39 egonw air plane museum
14:39 egonw http://duxford.iwm.org.uk/
14:39 egonw whihc is nearby
14:39 egonw lot's of plane flying by
14:44 JimD Wiki fixed, thanx
14:45 rajarshi great
14:46 rajarshi JimD, have you played much with Clojure?
14:47 JimD A bit of play, and we're developing Lensfield in it
14:47 JimD Not as much cheminfs in it as you've done.
14:47 rajarshi what is lensfield?
14:48 rajarshi i'm still trying to come up with a good use case to really make use of clojure
14:48 JimD A software we're writing to make it easier for informaticians to go from raw data to Linked Open Data.
14:48 rajarshi aah
14:48 rajarshi any links?
14:48 JimD Bundles up the Jumbo converters, some triplestore functionality etc etc.
14:49 JimD http://code.google.com/p/lensf​ield/wiki/LensfieldCljRoadmap is pretty much all there is so far.
14:49 zarah JimD's link is also http://tinyurl.com/cd6aum
14:49 rajarshi thanks
14:49 JimD btw - any pointers on how to render a molecule to a PNG?
14:51 rajarshi http://rguha.net/code/java/#guhautils
14:52 JimD rajarshi - cheers.
14:52 rajarshi problem is 1..2.x or trunk does not include updated rendering code :(
14:52 JimD Ah.
14:52 rajarshi hence the special CDK jar file
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15:31 jonalv olass++ //good use of two screens
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15:53 egonw ola mentions: http://delicious.com/tag/bioclipse+gist+cdkws2009
15:53 zarah egonw's link is also http://tinyurl.com/clpk96
16:29 jonalv is there no Mac version of Knime?
16:29 egonw [18:29:01] <egonw> what's your account name?
16:29 egonw [18:29:07] <egonw> with proper upper/downer casing?
16:33 egonw thorsten has started his talk on KNIME.org
16:40 egonw rajarshi: can you check your blog?
16:40 egonw Planet CDK says 'no data'
16:40 egonw and I cannot open the RSS feed you gave either
16:44 rajarshi egonw, hmm, not sure how I get an rss feed of query results
16:53 egonw steinbeck: I'm still working on putting the photos inthe wiki
16:53 egonw but need them somewhat smalled
16:53 egonw due to a 2MB file size limit
16:53 egonw and need to install gimp/krita for that
16:54 egonw but wireless is being bloody slow
16:56 jonalv egonw: I could fix the photo if you want...
16:56 egonw no, it's almost done
16:57 egonw but thanx :)
17:10 egonw bernd and thorsten demo the KNIME SDK
17:10 egonw which has some plugins for Eclipse IDE to develop KNIME plugin
17:10 egonw +s
17:10 egonw I really want that for Bioclipse too
17:19 egonw rajarshi: I don't know either...
17:19 egonw rajarshi: do you want me to add the full feed?
17:19 egonw or shall I wait for you to figure itout?
17:19 egonw I'm pretty sure I have seen such work with wordpress
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17:21 rajarshi egonw, for now the full feed is probably easiest. Quick google searches haven't shown me how I can get an RSS feed of search results
17:22 egonw ack
17:22 egonw http://blog.rguha.net/?feed=rss2&amp;s=cdk ?
17:22 zarah egonw's link is also http://tinyurl.com/cwpxl3
17:22 egonw can you check that?
17:23 egonw I think that seems to do the job
17:23 rajarshi cool, it seems to wkr
17:23 egonw ok
17:35 rajarshi nice pics, any others coming up?
17:37 egonw maybe
17:37 egonw sorry to say that we are going offline now
17:38 egonw I will not live cover the beers we are going to have now
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17:38 egonw :)
17:38 rajarshi :)
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