Camelia, the Perl 6 bug

IRC log for #bioclipse, 2009-06-18

| Channels | #bioclipse index | Today | | Search | Google Search | Plain-Text | summary

All times shown according to UTC.

Time Nick Message
06:20 egonw joined #bioclipse
06:46 Gpox joined #bioclipse
06:51 CIA-53 bioclipse: egonw * r11400 /bioclipse2/trunk/plugins/net.bioclipse.​doc.developers/makeExtensionsHTML.perl: Line wrapped to 80 chars
06:52 Gpoks joined #bioclipse
06:52 CIA-53 bioclipse: egonw * r11401 /bioclipse2/trunk/plugins/ (7 files in 5 dirs): Added unit tests for the core and chemoinformatics features for finding missing copyright statements (implements #1058)
06:53 CIA-53 bioclipse: egonw * r11402 /bioclipse2/trunk/plugins/net.bioclipse​.gist/src/net/bioclipse/gist/business/ (IJavaGistManager.java IJavaScriptGistManager.java): Added missing copyright/license statements
06:54 CIA-53 bioclipse: egonw * r11403 /bioclipse2/trunk/plugins/net.bioclip​se.scripting.ui/src/net/bioclipse/scr​ipting/ui/views/JsConsoleView.java: Added reference to calling 'doi' an a manager, instead of just a manager method (fixes #1293)
06:54 zarah bug #1293 | http://tinyurl.com/nhk7lq
06:54 CIA-53 bioclipse: egonw * r11404 /bioclipse2/trunk/plugins/net.​bioclipse.jmol.cdk/plugin.xml: Fixed id of chemoinfo perspective
06:55 CIA-53 bioclipse: egonw * r11405 /bioclipse2/trunk/ (3 files in 3 dirs): Added Jmol views as contribution to the cheminfo perspective (fixes #1203)
06:55 zarah bug #1203 | http://tinyurl.com/kk78jx
07:05 CIA-53 bioclipse: egonw * r11406 /bioclipse2/trunk/plugins/net.bioclipse.​doc.developers/makeExtensionsHTML.perl: Catch xpath installation problems (addresses #1191)
07:05 zarah bug #1191 | http://tinyurl.com/laj6lt
07:44 steinbeck joined #bioclipse
07:55 jonalv joined #bioclipse
07:59 masak joined #bioclipse
08:04 CIA-53 bioclipse: goglepox * r11407 /bioclipse2/trunk/plugins/net.bioclipse​.cdk.jchempaint/src/net/bioclipse/cdk/j​chempaint/editor/JChemPaintEditor.java: Mark editor dirty if molecule do not have a resource
08:04 CIA-53 bioclipse: goglepox * r11408 /bioclipse2/trunk/plugins/net.​bioclipse.cdk.jchempaint.view/ (4 files in 3 dirs):
08:04 CIA-53 bioclipse: Added contextmenu to JChemPaintView to open viewd molecule in editor.
08:04 CIA-53 bioclipse: Fixes bug #1275
08:04 zarah bug #1275 | http://tinyurl.com/kvvnxy
08:14 olass joined #bioclipse
08:23 CIA-53 bioclipse: jonalv * r11409 /bioclipse2/trunk/plugins/net.bioclip​se.core/src/net/bioclipse/core/domain​/props/BioObjectPropertySource.java: layout
08:26 masak egonw: re 'where does it suggest XHTML?' -- no suggestions, it comes right out and asserts XHTML. http://chem-bla-ics.blogspot.com/ -- view source, first line, the DOCTYPE.
08:26 zarah masak's link is also http://tinyurl.com/5epoc2
08:26 egonw http://pele.farmbio.uu.se/cgi-bin/bugz​illa/chart.cgi?category=-All-&date​from=&dateto=&gt=1&label0=​CLOSED&label1=FIXED&label2=All Open&labelgt=Grand Total&line0=23&line1=24&line2=32&name=32&subca​tegory=-All-&action=wrap&width=800&height=450
08:26 zarah egonw's link is also http://tinyurl.com/lyy6gt
08:26 egonw masak: ah... that only indicates a goal... but as said... it should not claim that in the first place...
08:26 egonw maybe I used that at some point to validate the RDFa in the HTML
08:27 masak egonw: WTF, 'only indicates a goal'? the hell it does!
08:27 egonw masak: better look at egonw.github.com
08:27 masak egonw: if you have XHTML as a doctype and don't validate, conforming clients are _required_ not to show your page at all!
08:28 egonw fortunately, there are 0 conforming web browsers
08:28 masak still, the hypocrisy remains.
08:28 egonw but, again... I agree that it should not claim that
08:28 egonw masak: complain with Google Blogger
08:29 egonw they make the templates
08:29 masak egonw: I think I will.
08:29 egonw at least my blog it not in PDF
08:29 egonw seriously...
08:29 * masak doesn't say anything to that
08:29 egonw if you want to learn from me how it is done...
08:29 egonw checkout out my HTML+RDFa homepage I just pasted the URL of
08:29 masak okie.
08:30 egonw that one I do have full control over
08:30 egonw blogger is certainly not perfect... never said that
08:31 masak egonw: maybe you should go really hard-core, and do your pages like this: http://mumble.net/~campbell/blag.txt
08:31 zarah masak's link is also http://tinyurl.com/3czqut
08:32 olass_ joined #bioclipse
08:32 egonw masak: .txt ?
08:32 egonw I did see some projects on ASCII MathML...
08:33 egonw but now your over reacting
08:33 masak egonw: you didn't post a URL, you said 'egonw.github.com'. I found this: http://github.com/egonw/eg​onw.github.com/tree/master
08:33 zarah masak's link is also http://tinyurl.com/nhsc8z
08:33 masak an empty README file.
08:33 egonw yes, the http:// was implied
08:33 egonw damn, are you going semantic on me now ?
08:33 masak egonw: no, just in a picky mood.
08:34 masak egonw: I wasn't trying to be deliberately obtuse, just didn't find what you meant.
08:34 masak _because_ you didn't post a real URL. :)
08:34 masak egonw: ping -- meeting now.
08:34 jonalv egonw: meeting
08:35 egonw egonw.github.com -> http://egonw.github.com
08:35 egonw wasn't that cryptic
08:35 egonw ack
08:35 masak egonw: no, not in hindsight.
08:35 masak but an URL would have been simpler.
08:35 masak egonw: congratulations, that page validates! :)
08:35 egonw :)
08:36 egonw ah, and now have a go on it with RDF extractors...
09:40 CIA-53 bioclipse: carl_masak * r11410 /bot/trunk/zarah.pl:
09:40 CIA-53 bioclipse: [zarah] uses fewer exclamation marks
09:40 CIA-53 bioclipse: The stoic calm was inspired by the phenny++ bot on #perl6.
09:48 zarah joined #bioclipse
10:47 egonw joined #bioclipse
11:16 olass joined #bioclipse
11:21 mgerlich joined #bioclipse
11:21 CIA-53 bioclipse: jonalv * r11411 /bioclipse2/trunk/plugins/net.biocl​ipse.structuredb/src/net/bioclipse/​structuredb/domain/DBMolecule.java: DBMolecule must have getSMILES and getCML methods (at least adding those are the easiest way to solve persisting of those valuies...)
11:29 CIA-53 bioclipse: egonw * r11412 /bioclipse2/trunk/plugins/net.bioclipse.​doc.developers/makeExtensionsHTML.perl: Fixed code to now sort of actually work (testing if code runs is only enough testing, if it actually covered all code)
11:31 masak @pz repeating
11:31 zarah masak: Zarro boogs found.
11:44 egonw ah... which reminds me...
11:44 zarah egonw: You have new messages. Write '/msg zarah @messages' to read them.
11:44 egonw where is the code that does the Outline...
11:45 egonw I hate all those 'unknown's
11:45 egonw unneeded
11:45 CIA-53 bioclipse: goglepox * r11413 /bioclipse2/trunk/plugins/ (2 files in 2 dirs):
11:45 CIA-53 bioclipse: Adding drag from PeriodicTableView and drop text on JChemPaintEditor
11:45 CIA-53 bioclipse: Fixes bug #600
11:45 zarah bug #600 | http://tinyurl.com/l3hm83
12:36 olass joined #bioclipse
12:42 jonalv olass: hm one thing we forgeot was help and documentation. Maybe there are some blockers in that area?
12:42 olass hmm, maybe
12:42 olass ttl
12:56 jonalv olass:
12:56 jonalv @bug 1235
12:56 olass yes
12:56 zarah http://pele.farmbio.uu.se/cgi-bi​n/bugzilla/show_bug.cgi?id=1235
12:56 jonalv please have a look
12:57 olass will do
12:57 jonalv olass:
12:57 jonalv @bug 1241
12:57 jonalv too
12:57 zarah http://pele.farmbio.uu.se/cgi-bi​n/bugzilla/show_bug.cgi?id=1241
13:00 * masak just realized that all copyright headers in the Bioclipse codebase start with '/**', and are thus parsed as JavaDoc comments
13:16 olass_ joined #bioclipse
13:20 jonalv masak: LOL that can't be good
13:21 jonalv olass:
13:21 jonalv @bug 1240 too
13:21 zarah http://pele.farmbio.uu.se/cgi-bi​n/bugzilla/show_bug.cgi?id=1240
13:23 egonw masak: that reminds me of my new unit test
13:24 egonw there are *many* source files without any copyright headers
13:24 egonw whether in JavaDoc format or otherwise
13:24 masak jonalv: no, it's not good.
13:24 masak jonalv: JavaDoc will be parsed by HTML converters and the like.
13:24 masak they will be very sad.
13:25 masak for example, you cannot just write a literal '<' in JavaDoc.
13:26 jonalv olass:
13:26 egonw masak: feel free to write a unit test in AbstractFeatureTest
13:26 jonalv @bug 765
13:26 zarah http://pele.farmbio.uu.se/cgi-b​in/bugzilla/show_bug.cgi?id=765
13:26 jonalv is a definite blocker if you ask me
13:26 olass_ jonalv: agreed
13:26 masak egonw: I'll consider it.
13:26 olass_ marking it
13:26 olass_ I have quite some blockers like this
13:27 olass_ need to fix them all on monday, and planning to do so
13:27 jonalv olass_: good
13:32 CIA-53 bioclipse: ospjuth * r11414 /bioclipse2/trunk/plugins/net.biocl​ipse.ds/src/net/bioclipse/ds/busine​ss/BaseDSPropertyCalculator.java: Changed toString() in TestRun to get bug 1226 a boost.
13:32 zarah bug #1226 | http://tinyurl.com/n5xkga
13:36 CIA-53 bioclipse: carl_masak * r11415 /bioclipse2/trunk/plugins/net.bioclipse.script​ing/src/net/bioclipse/scripting/JsThread.java:
13:36 CIA-53 bioclipse: [JsThread] added 3s delay before killing thread
13:36 CIA-53 bioclipse: Also added an apologetic comment and removed superfluous imports and
13:36 CIA-53 bioclipse: braces.
14:15 CIA-53 bioclipse: jonalv * r11416 /bioclipse2/trunk/plugins/n​et.bioclipse.ui/splash.bmp: New splash screen for Bioclipse 2.0
14:27 CIA-53 bioclipse: carl_masak * r11417 /bioclipse2/trunk/plugins/net.bioclipse​.scripting.ui/src/net/bioclipse/scripti​ng/ui/views/ScriptingConsoleView.java:
14:27 CIA-53 bioclipse: [ScriptingConsoleView] "Paste" support for Windows
14:27 CIA-53 bioclipse: Testing e.character doesn't work on Windows, but e.keyCode seems to.
18:15 egonw joined #bioclipse
19:24 sneumann_ joined #bioclipse
19:44 sneumann_ joined #bioclipse
20:30 sneumann_ joined #bioclipse
20:54 steinbeck joined #bioclipse

| Channels | #bioclipse index | Today | | Search | Google Search | Plain-Text | summary