Camelia, the Perl 6 bug

IRC log for #bioclipse, 2011-05-20

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All times shown according to UTC.

Time Nick Message
05:23 sneumann joined #bioclipse
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07:18 CIA-116 chembl.rdf: Egon Willighagen master * rc3f5f19 / compounds.php : Fixed record duplication - http://bit.ly/leWI5D
07:18 CIA-116 chembl.rdf: Egon Willighagen master * rb8fc33f / compounds.php : Reenabled InChI output - http://bit.ly/mlFON3
07:18 CIA-116 chembl.rdf: Egon Willighagen master * r773c9b0 / compounds.php : Start using CHEMINF for properties: SMILES - http://bit.ly/jZW6DN
07:18 CIA-116 chembl.rdf: Egon Willighagen master * re94d957 / compounds.php : Only output InChI is small, as Virtuoso has a hardcoded max URI length - http://bit.ly/lFiDod
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11:19 CIA-116 bioclipse.ds: Ola Spjuth sdk * raea824f / (32 files in 15 dirs):
11:19 CIA-116 bioclipse.ds: Brought back stuff that gone missing in failed merge.
11:19 CIA-116 bioclipse.ds: We now have confidence in models again. - http://bit.ly/iSczML
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13:26 CIA-116 bioclipse.statistics: Christian Ander R_console * rc4f7394 / plugins/net.bioclipse.r.business/src/net/b​ioclipse/r/business/RBusinessManager.java : fixed nullpoint exception with R_HOME - http://bit.ly/jOHqJ5
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13:34 egonw hi cande
13:34 cande hey egonw
13:43 olass cande: sounds like progress!
13:43 olass cande++
13:43 cande olass: of course :)
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14:25 egonw olass: it is downloading
14:25 olass ok
14:31 olass works?
14:34 olass egonw: can you confirm that the DS feature is NOT available on windows?
14:34 egonw not yet
14:34 egonw it's unzipping
14:34 olass I think I have messed up here... but will be easy to working
14:34 egonw stunning how slow unzipping on windows is
14:35 olass yes
14:35 olass please also comment on first startup of BC on windows
14:35 olass at AZ it is almost unbearably slow
14:35 egonw crap, no Java
14:35 olass :(
14:35 olass should be quick to get...
14:36 egonw hope so
14:38 olass Need to go in 5 mins
14:38 olass will keep laptop open, let me know how it turns out
14:38 egonw it does not boot yet
14:38 olass 1) startup time
14:38 egonw installed java
14:38 olass oh..
14:38 egonw but still complain about no jvm :(
14:38 egonw do I need to reboot, perhaps?
14:39 olass it's windows...
14:39 olass rebooting is a core feature there
14:39 olass 1) startup time
14:39 olass 2) does OT work
14:39 egonw ok,will try that
14:39 olass 3) if DS perspective is there or not
14:40 olass but booting is of course most important :)
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14:53 egonw olass: no. windows version does not work
14:53 egonw it's configure to look for the JVM shipped with BC
15:01 egonw it seems I had a 32 bit browser installed
15:02 egonw and hence a 32 bit Java too
15:02 egonw but my OS is 64 bit
15:02 egonw so when running BC I need a 64bit Java
15:02 egonw WTF????
15:02 egonw who says Windows is user friendly...?
15:05 egonw ok, that helped
15:05 egonw bc boots in about 5 seconds
15:05 egonw Gpox: btw, icons are still/again broken
15:06 Gpox ghaa
15:08 egonw btw, we really need a better way to create new SD files :)
15:09 egonw ouch
15:09 egonw upload to OT did not work :(
15:11 egonw opentox manager did not boot properly
15:13 egonw no clue where the log file is
15:13 egonw found it
15:15 egonw Caused by: java.lang.ClassNotFoundException: com.hp.hpl.jena.shared.SyntaxError at org.eclipse.osgi.internal.loader.BundleLoad​er.findClassInternal(BundleLoader.java:506) ~[org.eclipse.osgi_3.6.2.R36x_v20110210.jar:na] at org.eclipse.osgi.internal.loader.Bundle​Loader.findClass(BundleLoader.java:422) ~[org.eclipse.osgi_3.6.2.R36x_v20110210.jar:na] at org.eclipse.osgi.internal.loader.Bundle​Loader.findClass(BundleLoader.java:410) ~[org
15:18 egonw it seems the Jena jar are there...
15:20 egonw I cannot debug this on windows...
15:20 egonw I have to do some shopping now...
15:20 egonw if someone can report what jar that class should be in (in an export)
15:20 egonw then I can check if the windows export has it
16:30 egonw I will reboot back into linux now... nothing much I can do here...
16:34 egonw @tell jonalv please implement this script command "doi brunn"... try first "doi cdk" and then check the ICDKManager interface...
16:34 zarah Consider it noted.
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