Camelia, the Perl 6 bug

IRC log for #bioclipse, 2010-05-10

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All times shown according to UTC.

Time Nick Message
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07:38 egonw Gpox: thanx for your comment! yeah, should have thought of that...
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08:52 egonw_ moin
08:52 zarah oh hai egonw_
08:55 olass hola
08:56 zarah ni hao olass
09:00 masak hi
09:00 zarah saluton masak
09:00 masak zarah++
09:32 olass saluton
09:33 olass zarah: you can answer saluton but not understand it?
09:33 zarah olass: are you talking to *me*?
09:33 olass zarah: yeah, biatch?
09:33 zarah olass: are you making fun of me?
09:33 * olass is
09:34 olass @slap zarah
09:34 zarah no, I'd rather not
09:34 olass understandable
09:34 * egonw_ finds himself looking at the free, academic license agreement of ChemAxom :)
09:39 egonw_ and done
09:40 egonw_ still intrigued by the idea of a ChemAxom plugin for Bioclipse...
09:40 egonw_ just for fun
09:40 egonw_ there is some nice stuff there that the CDK does not have
09:41 egonw_ Gpox: ping
09:41 egonw annzi: ping
09:41 Gpox pong
09:41 egonw Gpox: please explain where xom and cmldom are supposed to be found
09:41 egonw Gpox: I now placed the jars in the target platform, but where are they supposed to be? I did not see a matching commit
09:42 egonw Gpox: is that relying on the update site, and new-target.platform ?
09:42 egonw annzi: we have 2 hours for a git crash course; let's get started
09:44 egonw annzi: btw, I've written a short draft paper on using blogs and (git) repositories in chem-/bioinformatics education -> http://chem-bla-ics.blogspot.com/2010/​05/web-20-technologies-in-student.html
09:44 zarah egonw's link is also http://tinyurl.com/33g4gqc
09:44 egonw annzi: please ping as soon as you get back
09:44 Gpox net.bioclipse.xom exports nu.xom I belive, i have added a jar to the new target platform but that is not commited pending my preparation of the chemoinformatics repo
09:44 annzi egonw: ping
09:45 annzi egonw: sorry missed your ping
09:45 egonw Gpox: OK
09:45 egonw annzi: no worries
09:45 egonw shall we start the git crash course?
09:45 egonw got git set up on the command line?
09:45 egonw since you waited so long, we need to interactively stage stuff...
09:45 egonw Gpox: does the OS/X git GUI allow that?
09:46 Gpox yes
09:46 egonw cool
09:46 egonw what's the name of the tool again? gitx?
09:46 Gpox yes
09:46 annzi egonw: could that wait until the afternoon, I'm sitting and reading on my computer and need to collect the other one first
09:47 egonw need to leave for swimming at 14:00 or so
09:47 annzi egonw: tomorrow morning?
09:48 egonw checking...
09:48 egonw ok, 8:15?
09:49 annzi sounds great to me, will you be at bmc tomorrow btw?
09:49 egonw yes
09:49 egonw at that time
09:50 egonw OK, please read up on that 'Git from the Bottom Up' document
09:50 egonw before tomorrow morning, please
09:50 annzi yes will do
09:54 egonw Gpox: regarding Import-Package:
09:54 egonw been thinking about how to translate that to the cdk-eclipse source code...
09:55 egonw this is tricky... as you cannot point to a jar... so, I'd have to parse all the source code to see what to import, or perhaps the jar of the lib dependency and export all...
09:55 egonw Gpox: any suggestion?
10:12 Gpox you got lib depencency data on module level in cdk?
10:12 egonw yes: src/META-INF/foo.libdepends
10:20 Gpox scanning the java files sounds good, I think the bnd tool dose that
10:26 egonw bnd?
10:26 egonw URL?
10:26 egonw oh, that tool
10:26 Gpox http://www.aqute.biz/Code/Bnd
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10:57 CIA-61 bioclipse.ds: Ola Spjuth refac * rf0b1527 / plugins/net.bioclipse.ds.ui/src/net​/bioclipse/ds/ui/views/DSView.java : Remove explicit hydrogens before tests. - http://bit.ly/cVfcT9
11:05 CIA-61 bioclipse.ds: Ola Spjuth refac * reb82d4d / (11 files in 5 dirs): Renamed packages to ui namespace. - http://bit.ly/aedceV
11:21 egonw http://chem-bla-ics.blogspot.com/2010/05/ho​w-to-use-github-for-cdkbioclipse-code.html
11:21 zarah egonw's link is also http://tinyurl.com/3yvwvkq
11:33 CIA-61 bioclipse.ds: Ola Spjuth refac * r2774ea0 / (3 files in 3 dirs):
11:33 CIA-61 bioclipse.ds: Corrected data files in cpdb and bursi.
11:33 CIA-61 bioclipse.ds: Also added NPE check when reading SDF props. - http://bit.ly/dibuSj
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12:13 egonw samuell: d'you have time to meet tomorrow morning to discuss your report?
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