Camelia, the Perl 6 bug

IRC log for #bioclipse, 2008-06-23

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All times shown according to UTC.

Time Nick Message
04:11 egonw joined #bioclipse
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07:04 olas joined #bioclipse
07:04 olas hi
07:41 * olas is afk for 1 hour or so
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08:34 CIA-48 bioclipse: biocoder * r5885 /bioclipse2/trunk/plugins/ne​t.bioclipse.chart/testfile: Doing a test to see if file ends up in the right folder
08:45 CIA-48 bioclipse: biocoder * r5886 /bioclipse2/trunk/plugins/net.bioclipse.chart/: Removing the folder because subclipse wont let me choose a preexisting directory to share the project to
08:46 CIA-48 bioclipse: biocoder * r5887 /bioclipse2/trunk/plugins/net.bioclipse.chart/:
08:46 CIA-48 bioclipse: Comitting port of chart to Biocipse 2
08:46 CIA-48 bioclipse: * Improved menus
08:46 CIA-48 bioclipse: * Export to JPEG and PNG
08:47 CIA-48 bioclipse: biocoder * r5888 /bioclipse2/trunk/plugins/net.bioclipse.chart/ (43 files in 17 dirs):
08:47 CIA-48 bioclipse: Comitting port of chart to Biocipse 2
08:47 CIA-48 bioclipse: * Improved menus
08:47 CIA-48 bioclipse: * Export to JPEG and PNG
09:08 edrin joined #bioclipse
09:08 edrin hey
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09:31 CIA-48 bioclipse: biocoder * r5889 /bioclipse2/trunk/plugins/​net.bioclipse.chart/jars/ (24 files): Commiting charts jar files
09:32 EskilA hey edrin
09:44 edrin hello EskilA
09:44 edrin have we met before?
09:44 EskilA yeah
09:44 edrin where are you from?
09:44 EskilA Sweden. I work at Uppsala
09:44 EskilA you?
09:45 edrin munich germany
09:45 EskilA ok
10:43 shk3 joined #bioclipse
10:59 shk3 hi bioclipse developers!
10:59 shk3 I just started to port the first plugin to bc2
10:59 shk3 just wondering about the dependencies.
11:00 shk3 Are there any "core dependencies" I need to add?
11:00 shk3 like to net.bioclipse in bc1?
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11:10 shk3 is there already a cml plugin for bc2?
11:11 jonalv shk3:  Yea just declare dependencies to what you use. Unless olas has some other opinion...
11:13 shk3 first thing I will try is to make a cml plugin which seems not yet to exist
11:13 shk3 any objections?
11:13 jonalv I don't know
11:14 shk3 I will try
11:18 CIA-34 joined #bioclipse
11:19 olas hi again
11:19 olas shk3: please add cml plugin
11:19 olas should be trivial
11:21 shk3 well, trivial...
11:21 shk3 get some errors
11:21 shk3 are there documents about e. g. resource model?
11:22 shk3 extension point net.bioclipse.bioclipseResources isn't found
11:22 shk3 I suppose that changed
11:22 edrin hehe
11:23 jonalv shk3: yea... What was that extension point used for?
11:23 shk3 well, for resources
11:23 shk3 the plugin has a cml resource
11:23 edrin is rhino plugin already ported to bc2?
11:23 jonalv yea but why did they need an extension point?
11:24 jonalv :)
11:24 jonalv never mind it's not there any lnonger...
11:24 edrin i mean, can you run .js files in bc2?
11:24 jonalv edrin: nope, masak could you comment on that?
11:25 shk3 the cmlresource was used e. g. for binding the validation action to it.
11:25 jonalv setOutlier
11:25 shk3 how is this done now?
11:25 jonalv bah :( no sloppy focus on OSX :(
11:26 olas shk3: we use only Eclipse IResources now
11:26 olas the BioResource is no more
11:26 jonalv shk3:  sry I don't undesrtand exactly what "this" is. Maybe someone else does?
11:26 olas parsing is done by editors
11:27 shk3 "this" is how to make a menu item showing only up for a specific resource.
11:27 shk3 sorry for bad wording ...
11:27 olas please see the tutorials
11:27 edrin olas: when is bc2 release planned ?
11:27 jonalv there is a wiki page about that I think.... Right olas?
11:27 olas http://wiki.bioclipse.net/index.php?t​itle=Bioclipse2#Development_tutorials
11:28 shk3 I've opened that one, but can't find the right pieces
11:30 shk3 Some are missing like "How to write an editor" which sound important...
11:35 shk3 ok, http://wiki.bioclipse.net/index.php​?title=How_to_add_menus_and_actions tells me that the contentTypes are used for the popups
11:35 shk3 will try this...
11:36 * shk3 is away for lunch
11:38 olas shk3: that's because the best practices for writing an editor are not really finished
11:39 olas looking at an existing editor in bc2 branch should get you started
11:51 CIA-34 bioclipse: ospjuth * r5890 /bioclipse2/trunk/plugins/net.bioclipse​.pcore/src/net/bioclipse/pcore/editors/ (HitsFilter.java PcoreEditorContributor.java PcorePage.java): Added hits filter to only display mols with pcore hits
11:51 edrin olas: when is bc2 release planned ?
11:51 olas well
11:52 olas first alpha release: approx this or next week
11:52 olas a stable BC2: after the summer, and then for chemoinformatics
11:52 edrin ok
11:53 olas http://wiki.bioclipse.net/index.p​hp?title=Bioclipse2_release_plan
11:53 olas needs some updates though
11:53 olas will do some now
11:55 EskilA joined #bioclipse
11:56 olas ok updated
11:56 olas hmm
11:56 olas update confirmed
12:05 edrin hm..
12:06 olas hm?
12:06 olas edrin: I'm all ears
12:06 edrin sorry, i am confused. bc2 will get the naming of bc1
12:06 edrin meaning 1.3 is bc2 ?
12:07 olas oh
12:07 olas :-)
12:07 olas long discussion
12:07 jonalv edrin: yes and that is something I ahve been saying for a long time now!
12:07 olas ok ok
12:07 olas I know that you dislike it
12:07 jonalv :)
12:07 masak olas: I do, too
12:07 masak I think it would be... simple... to give bc2 a version number of 2.0
12:07 olas and since many people do, I'll call it Bioclipse_2.0.0_alpha
12:07 * edrin did not follow this discussion on the mailing list to the end
12:07 olas is that OK with you all?
12:08 edrin sure
12:08 masak yes
12:08 jonalv olas: Are you asking me if I think calling bc2 for 1.3 is OK? :)
12:08 * olas can't answer because he is afk
12:08 masak :)
12:09 masak jonalv: maybe he'll still give it the version number 1.3, but _call_ it 2.0.0_alpha :)
12:09 jonalv yea, whatever.
12:09 olas I might >:)
12:09 jonalv I have said what I think. That's all I can do.
12:10 masak reminds me of disscussion in "Alice through the looking glass"
12:10 masak http://homepages.tcp.co.uk/~nicholson/alice.html
12:10 masak "The name of the song is called 'Haddocks' Eyes." :)
12:11 jonalv what is the song then?
12:11 masak I was coming to that
12:11 jonalv good, because that's all I am really interested in :)
12:20 CIA-34 bioclipse: jonalv * r5891 /bioclipse/trunk/playground/plugins/​net.bioclipse.expression/src/net/bio​clipse/expression/Calculator.java: Changed supressedVaiables to a Set and added removeSupressedVariable method
12:49 CIA-34 bioclipse: carl_masak * r5892 /bot/trunk/zarah.pl: [zarah] shorter tinurl message
13:04 CIA-34 bioclipse: ospjuth * r5893 /bioclipse2/trunk/plugins/net.bioclips​e.pcore/src/net/bioclipse/pcore/model/ (3 files): Queries now working again after API refactoring.
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13:20 edrin b
13:21 * shk3 is trying to get into bc2
13:21 EskilA I'm currently porting net.bioclipse.statistics to Bioclipse 2, the editor is using a couple of Bioclipse 1 interfaces like BioResource and BioResourceChangeListener, are there any equavilents in Bioclipse 2 that I should use, or should i just remove them?
13:21 shk3 same problem for me right now...
13:21 shk3 trying to figure it all out.
13:22 shk3 I just tried to port the cml validate action
13:22 EskilA ah
13:22 masak EskilA: well, do you need the listeners?
13:22 shk3 I tried using commands (as in http://wiki.bioclipse.net/index.php?titl​e=How_to_add_menus_and_actions#Commands_.28the_new_way.29)
13:22 masak in that case, removing them will be bad, won't it?
13:22 EskilA No, not really
13:22 shk3 it looks like this cannot be restricted to certain file types.
13:22 shk3 correct?
13:22 shk3 EskilA
13:22 shk3 :
13:23 shk3 at least the listiners must have some replacement
13:23 masak EskilA: in that case, just remove them :)
13:23 EskilA YAGNI wins
13:23 EskilA :)
13:23 masak but maybe put a comment in their place
13:24 EskilA yeah, sounds reasonable
13:25 shk3 Is there any documentation on resource stuff?
13:25 shk3 i. e. in my action, how do I get the resource in bc2?
13:26 EskilA do you have some underlying editor to get it from?
13:27 shk3 no
13:27 shk3 the idea is: right click on any cml file and validate it
13:27 shk3 it must not be open in an editor or whatever
13:27 EskilA aha
13:27 EskilA I wouldn't know, i've only ever written views and editors
13:28 jonalv shk3: sounds like you wanna write a manager that manages the parsing :)
13:28 shk3 what's a manager
13:28 shk3 ?
13:28 shk3 the old code is:
13:28 shk3 if (view instanceof BioResourceView) {
13:28 shk3 Object first = BioResourceView.getSelectedResource();
13:28 shk3 if (first instanceof IBioResource) {
13:28 shk3 bioRes = (IBioResource)first;
13:28 shk3 IPersistedResource persRes = bioRes.getPersistedResource();
13:28 shk3 persRes.load();
13:28 shk3 cmlString=new String(persRes.getInMemoryResource());
13:28 shk3 }
13:28 shk3 }
13:28 shk3 So i need something like this
13:28 jonalv that manager can then be published to the scripting environemnt and used from the console
13:28 shk3 just get the resource the context menu was opened on
13:29 shk3 scripting, right
13:29 masak whoa! nopaste...
13:29 shk3 scripting is the big thing in bc2, it seems...
13:29 masak it's definitely a big thing
13:29 jonalv masak: we should give zarah a paste feature :)
13:29 shk3 where to read about it?
13:29 masak shk3: scripting?
13:30 masak hm, the wiki should have some material
13:30 shk3 yeah, the whole concept
13:30 masak I'll go look
13:30 shk3 I understood each action is done via scripting?
13:30 jonalv the bioclipse wiki is really slow right now... :(
13:31 masak shk3: yes, scripting methods are collected into modules called 'Managers'
13:31 jonalv it looks a little bit like this: <http://wiki.bioclipse.net/index.php?tit​le=General_design_model_for_Bioclipse2>
13:31 shk3 ok, there is a How to make a manager tutorial..
13:31 jonalv yea
13:31 jonalv I was looking for that link :)
13:31 shk3 so i read this and the general design model first
13:32 shk3 but first I get a coke
13:32 jonalv good plan
13:32 * shk3 is getting a coke
13:32 masak there is this page: http://wiki.bioclipse.net/index.php?​title=A_Meta_Language_for_Bioclipse
13:32 masak but frankly, I've never understood what this "meta language" is
13:32 masak :/
13:33 masak what language is it a meta language of?
13:33 masak overall, I'd say that page is historically interesting but a bit dated
13:34 masak the current state of affairs is js + managers + console
13:34 masak there's lots of info on js on the web
13:34 edrin coke not healthy, get coke without sugar
13:34 * jonalv is checking out the "How to make a manager" article. It only days some stuff about a threading and links to "Building a recordable plugin". But that article I am hoping is good. so that's where I recommend you to look.
13:35 masak edrin: aspartam not healthy, get water
13:35 jonalv masak: water is booring drink tea
13:35 masak jonalv: tea makes me bounce walls, drink rooibos
13:35 masak the console really needs a proper wiki page
13:36 jonalv masak: bouncing walls is nice when programming but to each his own
13:36 masak actually, I prefer my non-bouncing-walls code
13:36 * jonalv actually drinks water
13:40 shk3 "how to make a manager" is short indeed
13:42 jonalv shk3: Yea I think I should extend it some time...
13:44 CIA-34 bioclipse: biocoder * r5894 /bioclipse2/trunk/plugins/​net.bioclipse.statistics/: Initial import of statistics port.
13:44 CIA-34 bioclipse: biocoder * r5895 /bioclipse2/trunk/plugins/​net.bioclipse.statistics/ (33 files in 12 dirs): Initial import of statistics port.
13:47 shk3 Guys, congratulation for great Bioclipse redesign.
13:47 jonalv shk3: thanks
13:47 shk3 Bad for me that I don't understand it
13:47 jonalv shk3: oh
13:48 jonalv ask away then :)
13:48 shk3 let's stick to the example
13:48 shk3 somehow i need to make the validate a js command
13:48 shk3 and call this from the menu?
13:48 shk3 Is this the idea?
13:49 jonalv hm almost
13:50 CIA-34 bioclipse: ospjuth * r5896 /bioclipse2/trunk/plugins/net.bioclipse.jmol​/src/net/bioclipse/jmol/views/JmolView.java: JmolView can now visualize AtomIndexSelections
13:50 jonalv you make a manager class and instantiaes that. So you have a manager
13:50 shk3 almost sounds good
13:50 jonalv then you call methods on this manager from the gui
13:50 shk3 what is a manager?
13:50 shk3 ah ok, it's a sort of command container?
13:51 jonalv this manager is also published into the javascript environament so that the same methods can be called from there
13:51 jonalv shk3: yea something like that
13:51 EskilA Is there any equivalent to BioResource, or is that just completely done away with?
13:51 shk3 is there an example for a manager?
13:52 jonalv preferably it doesn't have any states just contains the actual business code that does the stuff. And works on objects
13:52 jonalv shk3: there is an example plugin but that doesn't do anything. If you want to see how a mangaer looks I can point you two good examples
13:52 jonalv hang on
13:52 shk3 great
13:54 jonalv http://bioclipse.svn.sourceforge.net/viewvc/b​ioclipse/bioclipse2/trunk/plugins/net.bioclip​se.structuredb/src/net/bioclipse/structuredb/​business/IStructuredbManager.java?view=markup
13:54 jonalv is the interface for the structuredb manager
13:55 jonalv I wrote that so I know how it works :)
13:55 masak jonalv: that reminds me...
13:55 masak createLocalInstance should be createLocalDatabase
13:56 masak same w/ remove...
13:56 jonalv the implementation is at: http://bioclipse.svn.sourceforge.net/viewvc/b​ioclipse/bioclipse2/trunk/plugins/net.bioclip​se.structuredb/src/net/bioclipse/structuredb/​business/StructuredbManager.java?view=markup but that might not be so interesintg
13:56 shk3 ok, so e. g. createStructure is a business method?
13:56 masak shk3: I think all are in a manager
13:56 shk3 and the parameters can be done as needed?
13:57 shk3 And I would call that method from the menu action?
13:57 jonalv if you are more familiar with cdk than with databases I can also recommend: http://bioclipse.svn.sourceforge.net/viewv​c/bioclipse/bioclipse2/trunk/plugins/net.b​ioclipse.cdk.business/src/net/bioclipse/cd​k/business/ICDKManager.java?view=markup
13:57 masak jonalv: you could rename subStructureSearchIterator to substructureIterator
13:58 jonalv shk3: yea when I create a new structure in the structuredb I call that method and it does all the work
13:58 masak jonalv: and subStructureSearch to substructures
13:58 jonalv masak: Maybe we could sit down some day and rename things there toghether?
13:58 masak sure
13:58 masak ooh
13:58 shk3 ok, so where would the resource reading be done?
13:58 shk3 in the action or in the manager?
13:58 jonalv in the manager
13:58 masak jonalv: you can have two manager methods with the same name?
13:59 shk3 so the parameter of the method would be something like a filename or file object?
13:59 masak ah, nvm
13:59 masak only one was published
13:59 jonalv masak:  normal java rules apply
13:59 masak jonalv: I know that. they had different params
14:00 jonalv shk3: yea that's the thing. For it to work good from the scripting environemtn Strings are preferred
14:00 CIA-34 bioclipse: ospjuth * r5897 /bioclipse2/trunk/plugins/ (4 files in 2 dirs): Refactored atomselections by index to core, as not CDK-dependent.
14:00 masak jonalv++ # delete is called 'delete'
14:00 shk3 ok, so I get an idea
14:00 jonalv shk3: that's why I build the structuredb first to be run from the console and then I am gonan build a gui on top of that
14:01 shk3 hm, where is info about the console?
14:01 shk3 or how do I start my manager from there given i've written it?
14:02 jonalv that's explained (although maybe not so well) in the building a recordable manager artible
14:02 jonalv I also recommend starting from the example plugin
14:03 jonalv shk3: But there is an extension point for publishing managaers into the scripting environment
14:05 jonalv shk3: One thing to have in mind is that the javascript commands are run from a sepearate thread so thread safety is an issue with managers (and we really need to look at this becasue I have a felling that right now it just works becasue we are lucky)
14:05 shk3 where can I find the example plugin?
14:07 jonalv </bioclipse2/trunk/_playground_/net.b​ioclipse.springBasedPrototypePlugin>
14:08 shk3 thanks
14:12 CIA-34 bioclipse: ospjuth * r5898 /bioclipse2/trunk/plugins/net.bioclipse.c​dk10.jchempaint/src/net/bioclipse/cdk10/j​chempaint/views/Java2DRendererView.java: Respond to highlighting by indices.
14:12 CIA-34 bioclipse: ospjuth * r5899 /bioclipse2/trunk/plugins/net.bioclipse.jmol​/src/net/bioclipse/jmol/views/JmolView.java: Respond to highlighting by indices.
14:13 CIA-34 bioclipse: ospjuth * r5900 /bioclipse2/trunk/plugins/net.bioclipse.pcore/src​/net/bioclipse/pcore/model/PcoreQueryResult.java: Provide selections as atom indices fro Jmol and 2DView.
14:17 olas left #bioclipse
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14:50 shk3 Is there an example how to call the manager from the command handler?
14:51 jonalv I am not so familiar with the command handler. (I have jsut started gui stuff for structuredb)
14:51 jonalv but what's the problem?
14:52 shk3 the problem is I am not sure what to do...
14:52 shk3 simply create an instance via factory and call the method?
14:52 jonalv okey, uhm no
14:53 shk3 you see, better ask :-)
14:53 jonalv The Spring extender plugin will instantiate all managers from the xml
14:54 jonalv We have up to now used a method on the plugins Activator to get the manager
14:54 jonalv but having a separate factory for them might be an idea
14:55 shk3 ah ok, I tried to adapt the Activator from the example.
14:55 shk3 so I use this.
15:35 jonalv Why can't I compare Double.NaN with Double.NaN and see that they are equal?
15:35 jonalv masak?
15:35 masak jonalv: yes_
15:36 masak yes?
15:36 jonalv masak:  yea what?
15:36 masak NaN != NaN
15:36 masak that's why
15:36 jonalv so what do I do then?
15:36 jonalv what should I do?
15:36 masak you don't compare them, I suppose
15:36 jonalv I have been hunting that bug a couple of hours now!!!!
15:36 masak :)
15:36 jonalv it's totally broken
15:36 jonalv but what could I ddo?
15:36 masak congratulations, you've learned that NaN != NaN
15:37 masak calm down
15:37 masak relax
15:37 masak there is a solution
15:37 jonalv I really need to do that comparison
15:37 masak you can't
15:37 masak or you can, but it will always be false
15:38 jonalv I guess; (Double.Nan + "").equals(Double.NaN + "")
15:38 masak no :)
15:38 masak http://java.sun.com/j2se/1.4.2/doc​s/api/java/lang/Double.html#isNaN()
15:38 masak go forth, and never compare two NaNs again
15:39 jonalv masak: no?
15:39 jonalv it must be
15:39 masak jonalv: well, you _could_ do it that way...
15:39 masak but use mine instead
15:39 jonalv which is?
15:39 masak I just posted it
15:39 masak do you want me to paste the URL again?
15:40 jonalv I didn't understand
15:40 masak http://java.sun.com/j2se/1.4.2/doc​s/api/java/lang/Double.html#isNaN()
15:40 jonalv you just posted an url to Double
15:40 masak yes
15:40 jonalv so?
15:40 masak it's the API documentation
15:40 masak read it
15:40 jonalv read what?
15:40 masak the... text at the page that the URL points to
15:41 masak you are a somewhat difficult person to help
15:41 jonalv yea I am but I am not finding anything about my problem there
15:41 masak then one of us is misunderstanding the other
15:41 masak to me, it seems you need the isNaN method
15:41 jonalv oh there's an isNaN method?
15:41 masak yes!
15:41 jonalv WHUY DON*T YOU JUST SAY THAT???
15:41 masak I told you to go to the page
15:42 masak what more could I do?
15:42 masak the URL pointed right to the isNaN method
15:42 masak and please don't shout
15:42 jonalv nope the URL points to the top of the page
15:42 masak I have much more reason to do so, and I'm calm
15:42 masak http://java.sun.com/j2se/1.4.2/doc​s/api/java/lang/Double.html#isNaN()
15:42 masak see the '#'?
15:42 jonalv nope
15:42 masak no?
15:42 jonalv I clicked the url
15:43 jonalv ended up opn the top of the page
15:43 masak there's a '#' near the end of the URL
15:43 jonalv yea
15:43 jonalv I see that
15:43 jonalv but I didn't read it
15:43 masak good
15:43 masak not so good
15:43 masak if your client is broken, that's too bad :)
15:44 masak it makes it more difficult for us to have a sensible conversation, at least
15:44 jonalv stupid mac
15:44 masak nope
15:44 masak I have a Mac
15:44 masak and '#' works here
15:44 jonalv stupid broken mac
15:44 masak so that's not it
15:44 jonalv what else could it be?
15:44 masak I wonder...
15:44 jonalv it used to work in ubuntu...
15:44 masak yes, strange...
15:45 jonalv hm hang on
15:45 masak (it works here)
15:45 jonalv the last ) wasn't identified as part of the link by my irc client
15:46 jonalv borken shit
15:46 masak ha ha!
15:46 masak have I recommended ERC enough?
15:46 masak it's really nice
15:46 jonalv well yea you even dropped one million of Ctrl+m aklsödfj öajs commands and then left me
15:47 masak jonalv: we can take it slow some time
15:47 masak it's really not that difficult
15:47 jonalv All I want is an irc client. Not one million short keyboard commands
15:47 masak jonalv: oh, be reasonable
15:47 jonalv I have enough of a hard time learning to not use home and end which also are totally borken on mac
15:47 masak Emacs is general, so naturally you don't get a minimal ERC client
15:47 masak jonalv: depends on the app
15:48 masak jonalv: you know, right now you come off as fairly narrow-mindedly unadaptable. try to learn the new platform instead of complaining
15:48 jonalv lol it's astereology on bbc2
15:48 jonalv astrology
15:49 masak jonalv: a tool doesn't get better than you ability to get over your last tool
15:49 masak s/you/your/
15:49 jonalv I ahve been debugging a Nan != NaN problem for 3 hours! (or something like that)
15:50 masak jonalv: you should have asked for help earlier :)
15:50 masak I googled and helped you in 1 minute
15:50 masak that's 2 hours and 59 minutes you could have used for something else
15:51 jonalv well earlier the problem was of the type: why doesn't my application work. And why can't I figure out in which way it doesn't work? :)
15:51 masak now you will remember forever: NaN != NaN
15:51 jonalv and it probably wasn't 3 hours
15:51 masak and also, your IRC client sucks
15:51 jonalv it just feel like that :)
15:52 jonalv yea _why_ aren't there any good irc clients?
15:52 masak I'm happy with mine
15:52 edrin use jabber
15:53 jonalv edrin: isn't jabbar a protocol?
15:53 edrin as irc is
15:53 edrin hm
15:53 edrin you are right
15:53 jonalv edrin: yea, and I am looking for an irc client
15:53 edrin use a jabber (client)
15:54 masak I was going to leave, but this sounds interesting
15:54 jonalv huh? (why are they better?)
15:54 edrin i am using a jabber client right now to type this ;)
15:54 masak ooh!
15:54 masak edrin: which one?
15:54 jonalv uhm I don't thinkI understand this...
15:54 edrin PSI in my case
15:55 edrin well
15:55 edrin jabber servers may have irc gateways
15:55 jonalv oh
15:55 jonalv hang on: may have?
15:55 edrin thus my current irc chat connection looks like this:
15:56 edrin edrin@jabber.org/PSI <-> jabber.org <-> freenet.de <-> irc.freenet.de <-> irc.freenode.net
15:57 jonalv uhm you don't think that seems a bit complicated?
15:57 masak seems clear to me! :)
15:57 edrin it is working
15:57 jonalv yea
15:57 edrin if one server is down or one irc gateway is down, there are alternatives
15:57 jonalv but I fail to see how it helps me
15:59 masak jonalv: why don't you just try PSI?
15:59 jonalv All I want is a simple robust irc client supporting clicking links directly in the text. Nothing fancy
16:00 masak irssi?
16:00 jonalv masak: and how do I find out that long connection thing for me?
16:00 masak experiment.
16:00 masak be a little crazy
16:00 masak try stuff
16:01 masak maybe you can connect directly to irc.freenode.net?
16:01 jonalv I don't have the time. I need to buiold Bioclipse for Brunn before going home
16:02 masak I'll think about which keybindings you need to learn to master ERC
16:02 jonalv cool
16:02 masak I think you mainly got confused because I created separate windows for you to play with
16:03 masak window handling is sort of second nature to me now, so I don't think of someone else having to learn them
16:03 masak hm, basically all there is to it is M-x erc RET
16:03 masak that is, Command-x (or Esc x), type 'erc' and hit Enter
16:04 masak then you probably need to know that C-p and C-n traverses the chat history, not the up and down arrows
16:04 masak if you want the arrows for that, you can rebind easily
16:04 jonalv could we do this IRL?
16:04 masak certainly
16:04 masak tomorrow, then
16:04 * masak goes swimming
16:13 * jonalv is hunting for something to eat
16:25 shk3 for the cml plugin, I need the xom plugin
16:26 shk3 when trying to import this to cml, I can do so, but afterwards I get an "bundle cannot be resolved"
16:26 shk3 anything special in bc2 with this?
16:27 jonalv I don't think there should be...
16:27 jonalv what boundle cannot be resolved?
16:29 shk3 net.bioclipse.xom
16:30 shk3 when I try to add it, it's found
16:36 jonalv hm, I don't think I understand
16:38 shk3 well, when I am on the dependencies tab and do add, it shows up in the list. as soon as i add it, I get an error
16:39 jonalv You ge the error when starting bioclipse right?
16:40 jonalv but no more info than just bundle cannot be resolved?
16:40 jonalv no stacktrace before it?
16:41 shk3 no, I already get it in eclipse
16:41 shk3 as soon as i add the plugin to the dependencies, it has that red thing next to it
16:41 jonalv oh, that's strange
16:42 shk3 indeed
16:42 jonalv no idea
16:49 shk3 hm, ok, removed usage of xom for now.
16:49 shk3 When I start bioclipse, it doesn't ask for workspace.
16:49 shk3 is this ok?
16:56 shk3 ah, ok, need to do a project, then a file
17:07 edrin left #bioclipse
17:54 egonw joined #bioclipse

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