Camelia, the Perl 6 bug

IRC log for #bioclipse, 2009-01-26

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All times shown according to UTC.

Time Nick Message
01:17 CIA-54 joined #bioclipse
05:26 masak joined #bioclipse
08:06 Gpox joined #bioclipse
08:31 olass joined #bioclipse
08:32 olass moin
08:32 zarah privet olass
08:32 * olass is teaching today
08:32 olass will be here now and then
08:32 masak :)
08:32 olass zarah: could you tell people this if they ask for me?
08:32 zarah olass: please rephrase or stop trying to be witty :)
08:32 olass zarah: I was not trying to be wiity
08:33 zarah olass: excuse me?
08:33 olass zarah: you are excused
08:33 zarah olass: oh, thank you, thank you!
08:33 olass :-)
08:33 masak olass: so, like an @away command?
08:33 olass @autorespond
08:33 olass yes
08:33 olass like an @away
08:33 olass (I guess)
08:33 olass or
08:33 masak ok.
08:34 olass just answer that when people ask for a person
08:34 olass @whereis masak
08:34 olass masak is teaching
08:34 olass like that
08:34 masak hm.
08:34 olass and you can set your own status
08:34 olass @status teching
08:34 olass @status off or lunch
08:34 masak which is likely to become inaccurate really fast.
08:35 olass hmm, true
08:35 olass nevermind then
08:35 masak an @away command which is cleared the next time the person says something seems good.
08:35 masak simple to write, easy to grasp.
08:36 masak Smart Girl'd tell everyone once where the person is, and then shut up.
08:46 * olass is no smart girl
08:49 masak zarah: no, YOU'RE the smart one!
08:49 zarah masak: no, YOU are the smart one! :)
08:49 masak zarah: oh, shut up. :)
08:49 zarah masak: :)
08:57 edrin joined #bioclipse
08:57 edrin hi
08:57 zarah ni hao edrin
08:58 edrin olass: available?
09:05 masak edrin: olas is teaching.
09:10 shk3 joined #bioclipse
09:21 sneumann joined #bioclipse
09:36 shk3 trying to install the extensible markup language support
09:36 shk3 gives me
09:36 shk3 Eclipse XML Editors and Tools (3.0.2.v200809120241-7F2ENKCwum6y6I7yPZPz0PesY7SI) requires feature "org.eclipse.platform (3.4.0)", or compatible.
09:37 shk3 in bioclipse 2.0.0.B...
09:37 shk3 can anybody confirm this?
09:41 olass shk3: I have not tested
09:41 olass but I assume you need to install WTP as well
09:41 olass and if egonw did not include that in the feature (which I doubt) then you need to add eclipse.org update site as well to the Bioclipse list of update sites
09:42 olass maybe we should remove that feature until egonw has updated a support WTP plugin for Bioclipse
09:42 olass or we have extended the target platform (but I am not so eager to do this as that increases download size)
09:42 olass edrin: hi
09:43 olass I'm here for 15 more mins
09:43 edrin hi ola
09:43 edrin noticed, hivpred is down
09:43 olass oh
09:46 shk3 from wtp site, only eclipse xml editors and tool 3.0.3 is available.
09:46 shk3 Our feature seems to need 3.0.2
09:47 olass strange
09:47 olass even if you unclick "show only latest version"?
09:56 shk3 mom
10:02 shk3 Eclipse XML Editors and Tools (3.0.2.v200809120241-7F2ENKCwum6y6I7yPZPz0PesY7SI) requires feature "org.eclipse.platform (3.4.0)", or compatible.
10:02 shk3 that seems to be the reason
10:02 shk3 but can't find that on any update site right now
10:17 de__maas joined #bioclipse
10:21 de__maas left #bioclipse
11:03 maclean joined #bioclipse
12:07 olass edrin: around?
12:07 olass edrin: just remembered, egonw is in UK this week
12:15 maclean joined #bioclipse
12:18 edrin olass: ah ok
12:18 edrin at christophs lab?
12:20 olass think so
12:20 olass not sure
12:24 edrin1 joined #bioclipse
12:31 olass edrin1: you seen this?
12:31 olass http://thomaskratz.blogspot.com/2009/01​/xmpp-in-client-server-application.html
12:31 zarah olass's link is also http://tinyurl.com/bt8zg6
12:32 olass ah
12:32 olass egon commented on it :-)
12:41 edrin1 yes, didn't know
12:41 edrin1 there continuously is post of this
12:47 olass yup
12:52 sneumann joined #bioclipse
13:17 de__maas1 joined #bioclipse
13:20 maclean joined #bioclipse
13:45 shk3 it turns out the nmrshiftdb plugin from the update site doesn't run
13:45 shk3 it's installed,
13:45 shk3 but not activated when running bc.
13:45 shk3 I checked all dependencies
13:45 shk3 all plugins are there
13:45 olass maclean: please comment on @bug 288
13:46 shk3 does somebody have any other idea why a plugin could not run?
13:46 maclean @bug 288
13:46 zarah http://tinyurl.com/bh5ebu
13:46 olass maclean: where did you stumble upon these jars?
13:46 maclean in the downloaded version
13:46 maclean osx
13:46 olass shk3: sorry, no
13:46 olass hmm, I don't see it here...
13:47 maclean it's related to @bug 287
13:47 maclean olass: weird.
13:47 olass very
13:47 maclean It occurred to me (after I sumbitted the bug...) that it might be due to updates?
13:47 olass maclean: was this before a site update?
13:48 maclean (see above) :)
13:48 olass does speclipse hold old jars?
13:48 maclean no : it was after updates.
13:48 olass I checked bioclipse update sites
13:48 olass and no old jars (v ersion A there)
13:48 maclean I could try deleting and looking before/after updates.
13:49 olass could you please?
13:49 maclean oki
13:49 olass this is important
13:49 * olass us unzipping again
13:50 olass no duplicates here
13:50 olass not in the one I uploaded anyway
13:50 olass have not downloaded from SF
13:50 olass (hopfully I uploaded the correct version)
13:50 olass maclean: please let me know
13:50 maclean d/l -ed , unpacking
13:52 maclean olass : hmm no dups in the download
13:52 olass ok
13:52 olass good :-)
13:53 maclean hmmm. it might have been picking up the online-update site from my checked-out bioclipse.
13:54 maclean I get the same thing as shk3 did earlier when I go to 'features to install'
13:54 maclean "Eclipse XML Editors and Tools (3.0.2.v200809120241-7F2ENKCwum6y6I7yPZPz0PesY7SI) requires feature "org.eclipse.platform (3.4.0)", or compatible."
13:55 maclean After using the "Help->Search For New Features" menu item.
13:55 olass mom
13:56 * olass have not tried the xml feature
13:56 maclean Neither did I. I just checked the "Bioclipse Update Site" box...
13:56 maclean And it gave me that error in the Wizard.
13:59 olass hmm
13:59 olass that means to install all features
13:59 olass including xml
13:59 olass which doesn't seem to work
13:59 olass will remove it and file a bug for egonw
14:00 maclean oh, right, doh.
14:02 olass pz
14:02 olass @pz
14:02 zarah olass: Pelezilla is at http://pele.farmbio.uu.se/​cgi-bin/bugzilla/index.cgi
14:03 olass ok, see bugs.bioclipse.net
14:03 olass now operational
14:05 maclean oh yes, so 'tis.
14:11 sneumann joined #bioclipse
14:16 olass Gpox: I have rendering problems in the SDFEditor
14:16 olass are you working on this?
14:23 Gpox no. What kind of problems?
14:36 olass Gpox: ok, filing a bug
14:37 olass problem in short: structures are not rendered (=empty)
14:40 CIA-54 bioclipse: goglepox * r8498 /bioclipse2/trunk/plugins/net.bioclipse.​cdk.ui.sdfeditor/src/net/bioclipse/cdk/u​i/sdfeditor/editor/MoleculesEditor.java: Relays setFocus to control in MoleculesEditor (fixes bug #291)
14:40 zarah bug #291 | http://tinyurl.com/acc52f
14:48 de__maas1 left #bioclipse
14:53 olass Gpox: @bug 293
14:56 Gpox exactly how do you want them to be rendered?
14:56 Gpox should i generate 2d-coordinates for them or what?
14:57 Gpox becaus right now every coordinate is 0.0000
14:57 olass oh
14:57 olass ok
14:58 olass Gpox: I see
15:00 maclean :)
15:02 maclean could be an option somewhere, I suppose. "Generate 2D coords for sdf files"...
15:09 maclean_ joined #bioclipse
15:21 olass yes
15:21 olass filed a bug
15:33 olass how do I redirect all output of a cmd from stdout to file?
15:33 olass in bash
15:34 olass > is enough?
15:38 maclean_ yes
15:39 maclean_ but there is 1> and 2> I think for stdout, and stderr
15:39 olass what is tee then?
15:39 maclean_ what does it do? it makes a 'T'  in the pipe, sending a copy to a file
15:40 maclean_ er, or somthing. reading the man page
15:40 maclean_ .echo "hello" | tee "test.txt"
15:40 maclean_ hello
15:40 maclean_ .cat test.txt
15:40 maclean_ hello
15:40 maclean_ .
15:40 zarah oh hai maclean_
15:40 zarah hi maclean_
15:41 maclean_ hi zarah, I am "maclean" in a thin disguise.
18:25 CIA-54 bioclipse: shk3 * r8499 /bioclipse2/trunk/plugins/​net.bioclipse.nmrshiftdb/ (6 files in 3 dirs): there was something which prevented this plugin from running in export, but I don't know what
18:26 edrin1 left #bioclipse
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