Camelia, the Perl 6 bug

IRC log for #bioclipse, 2009-01-21

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All times shown according to UTC.

Time Nick Message
07:37 Gpox joined #bioclipse
08:30 jonalv joined #bioclipse
08:37 jonalv oh hai
08:37 zarah jonalv: where have you been? I've been worried.
08:37 jonalv zarah: courses :)
08:37 zarah jonalv: I did not understand that
08:37 jonalv zarah: never mind
08:37 * zarah never minds
08:38 jonalv zarah: seen masak?
08:38 zarah masak was last seen 13 h 40 m 36 s ago in #november-wiki saying 'November hackathon time!'
08:39 jonalv oh, so I guess masak was up all night hackathoning November then...
08:53 edrin joined #bioclipse
09:13 egonw joined #bioclipse
09:19 shk3 joined #bioclipse
09:21 edrin hi
09:21 zarah saluton edrin
09:21 egonw moin
09:21 zarah hi egonw
09:22 edrin hi zarah
09:22 edrin hi
09:22 zarah ni hao edrin
09:25 shk3_ joined #bioclipse
09:25 edrin1 joined #bioclipse
09:26 edrin hi
09:26 edrin hi
09:26 edrin jonalv: in my plugin, what is the easiest way to write to the js console from my manager?
09:26 edrin left #bioclipse
09:26 zarah ni hao edrin
09:26 zarah hi edrin
09:27 jonalv edrin1: the easiest way is proabbly to use the Activator in net.bioclikpse.scripting to get the js manager and the use it's method
09:28 jonalv The beutiful way is probably to use Spring to inject a reference to that manager straight into your manager and then just use that one directly without going through the Activator
09:29 jonalv edrin
09:29 edrin1 yes
09:29 edrin1 jonalv: ok
09:30 edrin1 jonalv: i guess it is probably a good idea to just push stuff mentioned in managers into the js console?
09:31 jonalv edrin1: how do you eman?
09:31 jonalv |mean
09:31 edrin1 for example, if my plugin has something to tell to the user from time to time... it should probably write it to its own view
09:31 edrin1 otherwise it might get very confusing
09:33 jonalv uhm yea sounds good. Waht was the other option?
09:33 edrin1 to have multiple consoles
09:33 edrin1 at least if a plugin needs one
09:34 edrin1 jonalv: do you use the net.bioclipse.rhino plugin?
09:34 jonalv edrin1: no not really. I might be running it but I am not really using it no
09:34 edrin1 jonalv: what editor do you use then?
09:35 jonalv I think that maybe the js-console should only be used for js stuff...
09:35 edrin1 or do you not use many scripts?
09:35 edrin1 jonalv: yes, that's what i think, too
09:35 jonalv moslty I run js from the console
09:36 jonalv but when I do test scripts I use that "buggy abandoned editor"
09:36 edrin1 jonalv: but for example if you have two js scripts running in parallel, each of them should rather print to its own console, otherwise you might get mixed content...
09:37 jonalv edrin1: well I think you should talk to masak about this
09:37 edrin1 ok
09:37 edrin1 shk3_: i made the webservices plugin to compile again
09:37 jonalv I am trying to get him in here...
09:37 masak joined #bioclipse
09:37 masak oh hai
09:37 shk3_ thanks
09:37 zarah ni hao masak
09:37 edrin1 shk3_: the manager is not working for me right now, but i think i can fix this later most likely, at least it compiles
09:38 edrin1 shk3_: but the wizard is working and one can import almost any database entry from embl with it :)
09:38 shk3_ great
09:38 masak I understand there is some scripting discussion going on here.
09:38 edrin1 just click on "New" and select the WSDbfetch wizard
09:39 edrin1 masak: i was just wondering where to print js stuff
09:39 jonalv yes edrin1 had some point about multiple javascripts
09:40 masak jonalv: multiple scripts? I see.
09:40 edrin1 for example when calling a manager call it should of course print to the js console where it was called from
09:40 masak aye
09:41 masak but note that it's all manager calls
09:41 masak even from the GUI
09:41 edrin1 on the other hand it would be confusing if a manager call that is called from another plugin, for example from GUI, or from an executed .js file, it might be confusing if all write to the same console
09:41 masak that's the entire point
09:41 masak it would, yes
09:42 masak hm.
09:42 edrin1 for example, you type some stuff regarding chemistry in the js console, and then you read "xmpp connection broken" there
09:42 masak right. that shouldn't happen.
09:43 masak so, we need a mechanism for GUI things to tell the js environment to special-case them.
09:43 edrin1 or you type your script and then click some menu button of some plugin, and it writes to your console
09:43 masak maybe we need two js environments.
09:43 CIA-30 bioclipse: jonalv * r8402 /bioclipse2/trunk/plugins/net.bioclipse.script​ing/src/net/bioclipse/scripting/JsThread.java: Failing JavaScript executions now will pop up an error message. This sort of dissapeared after my branch was merged into trunk. (Ooops)
09:43 edrin1 yes, for example a log-only js console... right now i use the eclipse console to do xws debug console
09:44 jonalv I sort of liked the idea with different fonts or perhaps different colors...
09:44 masak edrin1: that sounds sane.
09:44 edrin1 jonalv: and what if some participant prints "200 lines" ?
09:44 masak jonalv: I don't.
09:44 edrin1 i dont too
09:45 jonalv so instead you want 200 consoles?
09:45 masak jonalv: no...
09:45 edrin1 no
09:46 jonalv nice to see you two agree on something...
09:46 edrin1 maybe "log" info could be printed to a normal eclipse console, and a plugin can decide if it wants it own or if it wants to use an instance managed by "core"
09:46 masak jonalv: :)
09:46 edrin1 while the  instance managed by "core" is again not the js console itself
09:47 edrin1 just to keep stuff small
09:47 masak edrin1: I have little problem letting the more obscure exceptions go directly to the logs.
09:47 edrin1 masak: the exception of log?
09:47 edrin1 did not get this
09:48 masak edrin1: we have files to which we log things.
09:48 edrin1 ah
09:48 masak edrin1: instead of always printing every exception...
09:48 edrin1 no, i do not mean the log in general
09:48 masak I can imagine use just logging some of them.
09:49 edrin1 masak: sure, the manager would have to decide, if exceptions should be thrown or if exceptions are directed to the log
09:49 edrin1 like
09:49 edrin1 void doThis() {
09:49 edrin1 try {} catch() { log(e) }
09:50 edrin1 and if thrown to the console:
09:50 edrin1 void doThis() throws ExceptionX {
09:50 edrin1 then the manager developer can decide what is good info for console user and what not
09:51 edrin1 masak: it might be also useful to have mutiple js consoles in parallel?
09:51 masak edrin1: no, I don't think so.
09:52 masak Eclipse doesn't really support multiple views of the same type.
09:52 masak AND it's confusing.
09:52 edrin1 with tabs maybe?
09:52 masak yes :)
09:52 masak I was thinking the same thing.
09:52 edrin1 anyway, not a must
09:52 masak but not this week.
09:52 edrin1 sure
09:52 masak I'll give the idea some thought.
09:53 edrin1 masak: right now the rhino js editor is printing to an eclipse console the output, but it's not optimal anyway right now
09:53 masak ok.
09:53 edrin1 masak: do you want the rhino editor in the bioclipse thing in friday?
09:54 masak I've heard people asking that.
09:54 masak since it's a beta, I don't see the problem.
09:54 masak but for 2.0, I think we should have one editor.
09:54 edrin1 ok
09:55 masak so until then, we'll have to discuss how to arrange things.
09:55 edrin1 ok
09:55 masak edrin1: I haven't looked much at your editor, so I'm unable to evaluate it.
09:55 masak but I understand that you created it because you felt some things were lacking from the first one.
09:55 edrin1 it's not much powerful
09:56 edrin1 i think it was buggy
09:56 masak the old one?
09:56 edrin1 for me the coloring sometimes worked and sometimes not i think
09:56 edrin1 yes
09:57 edrin1 + the future aspect that the "rhino" editor is extensible ;)
09:57 masak edrin1: how does it tie into the whole manager thing?
09:57 edrin1 masak: afaik it should be able to use all of them
09:57 masak ok.
09:58 masak does it, currently?
09:58 edrin1 i think so
09:58 edrin1 you can try
09:58 masak I mean, are the managers imported?
09:58 masak I will.
10:13 CIA-30 bioclipse: egonw * r8403 /bioclipse2/trunk/cdk-externals/trunk/ (3 files in 2 dirs): Simple event model for notifications of change
10:38 CIA-30 bioclipse: egonw * r8404 /bioclipse2/trunk/cdk-externals/trunk/ (2 files in 2 dirs): Split up structure changes, in those that imply coordinate changes too, and those which do not (such as atom symbol or bond order changes)
10:41 egonw Gpox: please have a look at patches 8404 and 8403
10:51 maclean joined #bioclipse
10:51 maclean saluton
10:52 masak saluton!
10:54 masak maclean: kiel vi fartas hodiau? mi preskau kaptis malvarmumon, sed ankorau ne malsanas.
10:55 maclean huh. Errr..."yes"?
10:55 masak :)
10:56 masak it's "how are you today? I almost caught a cold, but am not yet sick."
10:57 maclean Ahh. traduku.net got me part the way there. it didn't know the words hodiau (which I guessed) or ankorau
10:57 maclean odd.
10:57 masak it probably stumbles on those because they need hats.
10:57 masak hodiaŭ, ankoraŭ
10:57 masak luinch &
12:06 * masak iz back
12:07 edrin1 left #bioclipse
12:18 CIA-30 bioclipse: jonalv * r8405 /bioclipse2/trunk/plugins/net.bioclipse.script​ing/src/net/bioclipse/scripting/JsThread.java: Nolw only sends up one dialog when a JS-script throws an exception
12:21 jonalv zarah: seen olass
12:21 zarah olass was last seen 19 h 39 m 17 s ago in #bioclipse saying 'true'
12:45 jonalv Does anyobe know anything about where olass is?
12:55 masak jonalv: yes. I know he's _not_ here.
12:55 masak :P
12:55 jonalv masak: very helpful you are
12:56 masak jonalv: I'll send you the invoice.
12:59 maclean weird. I was going to say that he's not at the ebi, either. Even less helpful...
12:59 egonw and he's not here either...
12:59 masak now we've ruled out three places. we're getting somewhere.
12:59 maclean only an inifinity of other places, assuming a continuous olas-space.
13:00 masak that's scary.
13:00 egonw maybe he did get the flue I carried around last week
13:06 * masak pictures egonw carrying around a big chimney
13:06 maclean dammit!
13:06 masak haha
13:06 maclean quit thinking my thoughts
13:06 masak :D
13:07 egonw hahahah :(
13:07 egonw masak: that took you long to look that up in the dict
13:07 masak egonw: no, I just hesitated a lot.
13:07 egonw ah, why?
13:07 egonw scared I might have you the flu too?
13:07 masak I'm quite familiar with the word, since I've been helping my mother translate things relating to crematoria.
13:08 masak egonw: no, it was just such an obscure joke.
13:08 masak hesitation is proportional to obscurity.
13:18 masak maclean: re #249, which would you prefer? double backslashes, or forward slashes?
13:18 maclean @bug 249
13:18 maclean @pele 249
13:18 zarah http://tinyurl.com/9kfjaf
13:18 maclean aha
13:18 jonalv maclean: why not both?
13:19 * masak adds @bug command
13:19 masak jonalv: the question is what drag-and-drop should produce.
13:19 jonalv masak: uhm right. never mind
13:20 maclean Well, I don't care what it looks like, so long as it works. So it can look non-natural, and work behind the scenes if that's easy to do...
13:20 jonalv no
13:20 maclean no?
13:20 masak I think we concluded that both / and \\ work on Windows.
13:20 masak just not \
13:20 masak because that's an escape char.
13:20 jonalv yes, "no"
13:21 masak jonalv: "yes, 'no'"?
13:21 maclean ah, I see.
13:21 masak hm, '/' is shorter...
13:21 maclean in that case, I would vote for "/"
13:21 masak _and_ it'll be consistent across systems. yes.
13:21 jonalv no it should not look non natural and no I don't think that is easier to do
13:22 masak jonalv: :)
13:22 masak well, why didn't you just _say_ so? :P
13:22 jonalv masak: I did
13:22 jonalv ...at least I thought I did
13:29 Gpox joined #bioclipse
13:59 jonalv olass: ping
13:59 jonalv >(
14:04 CIA-31 joined #bioclipse
14:04 masak CIA-31: where have you been? I've been worried.
14:29 CIA-31 bioclipse: egonw * r8407 /bioclipse2/trunk/plugins/net.bioclipse.cdk.busine​ss/src/net/bioclipse/cdk/business/CDKManager.java: Replaced ResourcesPlugin with ResourcePathTransformer: proper way of getting an IFile from a pathString
14:40 olass joined #bioclipse
14:41 egonw ha, there's the lost lamb
14:41 olass telenor had tech problems
14:42 olass so been without internet most day
14:43 egonw if only you had git, you could now just dump all your work :)
14:43 jonalv egonw: I am afraid he still can do that... :/
14:44 egonw hahahaha
14:44 egonw one big monolitic 'fixed lots of bugs' commit :)
14:44 olass nope
14:44 olass been busy anyway learning pharmacology
14:45 olass will be a techer on monday and it seemd like a good opportunity to actually prepare for it
14:45 egonw :)
14:45 olass been learning about agonists, antagonists, pharma kinetics etc
14:45 masak me too!
14:45 olass pretty basic stuff but never calculated on it before
14:45 egonw sounds good
14:45 egonw I never learned about these things...
14:45 egonw just seen them...
14:46 masak olass: p = [A] / ([A] + p_d)
14:46 egonw but always forget what an agonist is, and antagonist
14:46 masak oh, the agony...
14:46 egonw masak: no latex support in your IRC client?
14:46 olass well, within a year I will get my PhD in pharmacology so it seems like I should know this :-)
14:46 olass emacs?
14:46 olass probably
14:46 masak egonw: no, nice idea though.
14:46 egonw masak: right... but is agony caused by inhibition?
14:47 masak egonw: hm. I'm not knowledgeable enough to know that.
14:47 egonw well, the course will teach that
14:47 masak aye.
14:51 CIA-31 bioclipse: carl_masak * r8408 /bioclipse2/trunk/plugins/net.bioclipse​.scripting.ui/src/net/bioclipse/scripti​ng/ui/views/ScriptingConsoleView.java: [ScriptingConsoleView] convert backslashes to forward slashes (bug #249)
14:51 zarah bug #249 | http://tinyurl.com/9kfjaf
14:51 masak jonalv++ promised to test the fix.
14:53 egonw olass: can't get NewWizards to show up in the chemoinfo perspective...
14:53 egonw using the code used in the DefaultPerspective...
14:53 egonw any suggestions, tips, ...
14:53 olass mom
14:53 olass looking
14:54 egonw //Add NewWizards shortcuts
14:54 egonw -        layout.addNewWizardShortcut("net.bioclipse.ch​emoinformatics.wizards.NewMDLMolfileWizard");
14:54 olass yes
14:54 olass that is what I would suggest
14:55 olass does it not work?
14:55 olass check ID
14:57 olass if you want the wizard to appear on context menu in Navigator, you need to define this in plugin.xml as a "commonWizard"
14:57 olass search eclipse help for commonwizard for syntax
15:08 egonw ok, thanx!
15:08 egonw checked the ID
15:08 egonw will check up on commonWizard now
15:18 olass egonw: did it work to export and run after you changed to "do not unpack" plugins?
15:18 egonw export works...
15:19 egonw run not tried
15:19 egonw OK, new wizards show up now :)
15:20 olass egonw: please do not set things to unpack if you have not verified that it works that way
15:20 olass sorry, to not unpac
15:20 olass might be a reason for it, right?
15:20 egonw it runs via features
15:20 olass I know
15:20 egonw not tried to run a full export...
15:20 egonw will try that asap
15:20 olass good
15:21 olass just to confirm it works
15:21 * olass wants jars as well)
15:21 olass just saw some commits and wanted to ask if it really worked
15:21 egonw ok, so how did I export again? just bioclipse_feature and cheminfo_feature?
15:22 egonw the proper way, that is...
15:22 jonalv is there a way to create an SDF file from within Bioclipse using only js commandos?
15:22 jonalv |commands
15:23 maclean joined #bioclipse
15:23 jonalv maclean: o/
15:23 maclean \o
15:24 CIA-31 bioclipse: egonw * r8409 /bioclipse2/trunk/plugins/net.bioc​lipse.chemoinformatics/plugin.xml: Marked new wizards as suitable for navigator (makes them actually show up in the ChemInfo perspective)
15:30 maclean jonalv : sooo. ?
15:31 edrin1 joined #bioclipse
15:31 edrin1 hi
15:31 zarah privet edrin1
15:32 edrin1 again
15:35 egonw olass: can you please update: http://wiki.bioclipse.net/index.php​?title=Package_and_deploy_Bioclipse
15:35 zarah egonw's link is also http://tinyurl.com/9to2db
15:35 egonw when you have time for it
15:37 maclean is it possible to do it on a mac now?
15:38 egonw export?
15:38 egonw isn't that what Ola has been doing all the time?
15:39 maclean I guess. I've never tried it. Perhaps I should.
15:39 maclean It would be more convenient for actually using bc. For actual stuff.
15:40 olass egonw: yup
15:40 olass will update that
15:40 olass works fine on mac
15:45 maclean jonalv : I can test bug #249 tomorrow, if needed.
15:45 jonalv @bug 249
15:45 jonalv zarah: ping
15:45 zarah jonalv: pong
15:45 jonalv zarah: restart
15:46 masak :)
15:46 zarah joined #bioclipse
15:46 jonalv @bug 249
15:46 zarah http://tinyurl.com/9kfjaf
15:46 maclean er, the slashes one.
15:47 jonalv aha, yea I have already tried it and it is working so fee lfree to check it and close it when you have the time...
15:47 maclean oki
15:49 * maclean is now reading the IAQ referenced in that class. hmmm.
15:55 egonw olass: ping
15:55 egonw export via bioclipse.product fails
15:56 olass log says?
15:57 egonw pkg conflict: require-Bundle org.springframework.bundle.spring.aop
15:57 egonw bundle n.b.usermanager failed to resolve:
15:57 egonw (in reversed order)
15:59 * jonalv considers writing '/quit "poof"'
16:00 olass egonw: we ran into that yesterday
16:00 olass and solved it
16:00 egonw oh...
16:01 egonw I *did* svn update this morning
16:01 olass thought we committed it...
16:01 olass mom
16:02 olass oops
16:02 olass missing commit
16:02 olass coming up now
16:02 egonw ok :)
16:02 edrin1 egonw: in the taverna xws/:xmpp activity, it should work with any service, right?
16:02 CIA-31 bioclipse: ospjuth * r8410 /bioclipse2/trunk/plugins/net.bioclip​se.usermanager/META-INF/MANIFEST.MF: Updated deps, removed aop reference (seems to work anyway).
16:03 egonw edrin1: yes
16:03 edrin1 does taverna have some "extraction tools" for xml documents?
16:03 egonw it does not check if the passed input is valid, and leaves that to the function/service itself
16:03 egonw yes
16:03 edrin1 like a xpath activity or something
16:03 egonw xpath, yes
16:03 edrin1 ah, good
16:04 edrin1 ok, seminar now
16:04 edrin1 cu
16:04 egonw oh... it's 17:00 already ?!?!
16:05 maclean ahhhh. so 'l = new ArrayList<String() {{ add(""); }}' eq 'l = new ArrayList<String>(); l.add("")'
16:05 jonalv maclean: yup :)
16:06 masak maclean: nice, isn't it? :)
16:06 maclean veerrry cleeeverr.
16:06 maclean 'nice'. hmmm. maybe.
16:07 masak it's a static constructor block inside an anonymous class declaration block.
16:07 masak nothing fancy, just business as usual.
16:07 maclean Hah.
16:07 masak helps make the tedium of Java a bit more bearable.
16:08 CIA-31 bioclipse: ospjuth * r8411 /bioclipse2/trunk/plugins/ (11 files in 5 dirs): Moved sample contentprovider to structuredb plugin. Now the 3 bogus object shows up in DatabaseView.
16:09 olass jonalv: try now
16:09 masak oh, s/static constructor block/static initialization block/. sorry.
16:12 jonalv yep now it works. ospjuth++
16:28 egonw export+run works
16:28 egonw olass: export+run works
16:28 olass good
16:32 egonw the 'ui' manager is not part of the beta?
16:33 olass it should be
16:33 olass http://wiki.bioclipse.net/index.php​?title=Package_and_deploy_Bioclipse is updated now
16:33 zarah olass's link is also http://tinyurl.com/9to2db
16:33 olass egonw: will add it if it's missing
16:33 egonw it's not found in the export of bioclipse_feature + chemoinfo_feature
16:33 egonw according to the JS console
16:34 egonw shall I file a bug report?
16:34 olass hmm
16:34 egonw or are  you on it right now?
16:34 olass it is in bioclipse_feature here
16:34 egonw DEBUG - org.mozilla.javascript.EcmaError: ReferenceError: "ui" is not defined. (unnamed script#8)
16:34 egonw at org.mozilla.javascript.ScriptRuntime.c​onstructError(ScriptRuntime.java:3557)
16:34 olass not listed in your bioclipse_feature?
16:35 egonw I see ui.business
16:35 olass that shouldbe it
16:35 olass else file a bug for masak
16:36 olass (I think he did that manager, but could be jonalv too)
16:36 olass well, give the bug to me
16:36 olass I'll fix it
16:40 jonalv egonw: are you trying to use the ui manager from the console?
16:40 egonw yes
16:40 egonw worked in the past
16:40 egonw used in several gists
16:40 jonalv that's rather strange I think...
16:40 egonw to open new resources
16:40 egonw e.g. gist 48101
16:40 egonw why?
16:41 jonalv that manager is in core
16:41 egonw ui.open("/Virtual/aceticAcid.mol") // should open JChemPaint
16:41 egonw rather useful for demo purposes
16:41 egonw and cheat sheets alioke
16:41 egonw and cheat sheets alike
16:41 jonalv yea
16:41 jonalv I have the ui manager when I start Bioclipse
16:42 egonw yes, but not in the export I just did
16:42 jonalv But it's not in your export?
16:42 egonw right
16:42 jonalv I wonder why that is...
16:45 egonw @bug 274
16:45 zarah http://tinyurl.com/7y8yqd
16:46 egonw @pz 274
16:46 zarah http://tinyurl.com/7y8yqd
16:46 shk3_ any pressing issues for the bioclipse beta I could work on?
16:46 egonw ok :)
16:46 egonw shk3_: failing unit tests for managers
16:46 maclean hmmm. egonw: in http://gist.github.com/48130 - is that meant to be cdx.perceiveCDKAtomTypes ? CDX?
16:46 olass egonw, jonalv: plugin.xml is not in build.props in ui.business
16:46 olass committing now
16:47 egonw yes, cdx...
16:47 egonw formerly known as cdkdebug.
16:47 maclean ahhh. had a feeling.
16:47 CIA-31 bioclipse: ospjuth * r8412 /bioclipse2/trunk/plugins/net.biocl​ipse.ui.business/build.properties: plugin.xml added to build.props.
16:47 egonw blah...
16:48 egonw olass: just finished adding all the debug info...
16:48 egonw logs etc...
16:48 jonalv egonw: have you thought any more on how we will want to do with all cdk parts and managers...
16:48 olass @pz 274
16:48 zarah http://tinyurl.com/7y8yqd
16:48 egonw and you fixed it without looking at it :(
16:48 egonw just wasted 15 minutes of my life :(
16:48 olass well
16:48 maclean well, if it happens again, it's documented
16:48 olass I have spent DAYS/HOURS on similar things earlier
16:48 egonw jonalv: yes, I love to have different managers contribute to the same namespace
16:49 olass and my experience: build.props is a source of eror when package/export fails
16:49 egonw good to remember
16:49 olass it's SO easy to miss something there
16:49 egonw just had one too...
16:49 olass like an aded icon
16:49 olass added
16:49 egonw missing icons/ from build.props :)
16:49 olass easy to miss
16:49 olass even when testing
16:50 egonw which I have not commited yet :)
16:50 egonw because of the bug report :)
16:50 egonw ok, going home now
16:51 CIA-31 bioclipse: egonw * r8413 /bioclipse2/trunk/plugins/net.bioclip​se.chemoinformatics/build.properties: Added mising icons/ in build.props :)
16:56 jonalv I am giving up now for today. olass I think I know how to do that databases view but I am not very sure I will have it ready for friday... :(
16:56 olass jonalv: do the best you can
16:56 * jonalv quit poof
16:57 olass shk3: how are things going with speclipse release?
16:57 olass shk3: did you manage to get a dynamic insertion into the introduction page?
16:57 olass shk3_
16:58 olass jonalv quit poof?
16:58 olass I still see you!
16:58 shk3_ speclipse should be ready
16:58 olass great
16:58 shk3_ I did not manage the dynamic insertion
16:58 shk3_ just doesn't work
16:58 shk3_ the current bioclipse welcome screen defines so-called anchors
16:58 olass do you have a wiki page on speclipse?
16:58 shk3_ which are the point to insert
16:59 shk3_ but it didn't work for me
16:59 olass would like a tutorial so I can try it out
16:59 olass shk3_: ok
16:59 shk3_ http://wiki.bioclipse.net/​index.php?title=Speclipse
16:59 olass and a cheatshet too
16:59 zarah shk3_'s link is also http://tinyurl.com/5vumof
16:59 shk3_ I added the show welcome to help at least
16:59 olass you have a cheatsheet?
16:59 shk3_ I will have another look at the dynamic insertion
17:00 shk3_ only for nmrshiftdb submit
17:00 olass great
17:00 shk3_ but I will do one for the rest
17:00 olass that would be valuable IMO
17:00 shk3_ should be ready tomorrow
17:00 olass good
17:00 olass then I can try it following the step by step cheatsheet
17:00 olass and verify that it works here too
17:02 shk3_ I updated the dependencies for speclipse to the new ...B... version
17:02 olass shk3_: please make sure you have built the update site with Eclipse 3.4.1
17:03 shk3_ as long as these do not exist, you might need to downgrade them
17:03 olass that might be important
17:03 olass B version?
17:03 olass what is that?
17:03 shk3_ I run 3.4.1
17:03 shk3_ the one we are supposed to do on friday
17:04 shk3_ 2.0.0.B20090123
17:04 shk3_ to be exactly
17:09 shk3_ a cheatsheet is alway in a spectrum, right?
17:10 shk3_ it can't be in a feature, I suppose
17:17 CIA-31 bioclipse: shk3 * r8414 /bioclipse2/trunk/plugins/net.b​ioclipse.nmrshiftdb/plugin.xml: better wording
17:43 edrin1 left #bioclipse
17:51 maclean joined #bioclipse
17:52 maclean olass : is it possible? how?
17:52 olass maclean: is what possible?
17:52 olass cheatsheet in a plugin you mean?
17:52 olass yes
17:53 olass features is just a versioned collection of plugin
17:53 maclean no, sorry, opening jcp editor
17:53 olass hmm
17:53 olass ui.open("path") I think
17:53 olass not sure though
17:53 maclean yes, but, but.
17:53 maclean you have to have "path"
17:53 maclean you can't open a fresh, blank editor.
17:53 olass oh
17:54 maclean (maybe I should have made that clear in the feature req.)
17:54 olass file a bug
17:54 maclean what?
17:54 maclean @bug 269
17:54 zarah http://tinyurl.com/9guo9x
17:54 maclean you just commented on it...
17:56 olass please comment on it that you want to open a new blank editor (if I understood you correctly)
17:57 olass and otehr options to open that you could think about
17:57 olass ok, gotta run off now
17:57 olass see you tomorrow
17:57 olass bye
18:39 egonw joined #bioclipse
18:40 egonw moin
18:40 zarah saluton egonw
18:47 ilbot2 joined #bioclipse
18:47 Topic for #bioclipseis now An open source workbench for chem- and bioinformatics - http://www.bioclipse.net/ | BioclipseWiki => http://wiki.bioclipse.net/ !! | logs => http://colabti.org/irclogge​r/irclogger_logs/bioclipse & http://moritz.faui2k3.org/irc​log/out.pl?channel=bioclipse || Bioclipse2 alpha released! See http://bioclipse.blogspot.com/
19:19 CIA-31 bioclipse: shk3 * r8415 /bioclipse2/trunk/plugins/net.bioclipse.nm​rshiftdb/cheatsheets/SubmitCheatSheet.xml: updated installation instruction
19:31 CIA-31 bioclipse: egonw * r8416 /bioclipse2/trunk/plugins/net.bioclipse.ch​emoinformatics/src/net/bioclipse/chemoinfo​rmatics/ChemoinformaticsPerspective.java: Don't encourage MDL molfile
19:43 CIA-31 bioclipse: egonw * r8417 /bioclipse2/trunk/plugins/net.bio​clipse.jmol.cdk/build.properties: Added missing icons/ to build.properties
19:44 CIA-31 bioclipse: egonw * r8418 /bioclipse2/trunk/plugins/net.bioclipse.jmol.cdk​/src/net/bioclipse/jmol/cdk/views/JmolView.java: Fixed ID wrt plugin.xml
20:15 CIA-31 bioclipse: shk3 * r8419 /bioclipse2/trunk/plugins/net.bioclipse.spectrum/ (6 files in 5 dirs): working on more cheatsheets
22:14 CIA-31 bioclipse: edrin_t * r8420 / (2 files in 2 dirs): xx

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