| Time |
S |
Nick |
Message |
| 05:15 |
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| 06:46 |
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| 07:39 |
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| 07:39 |
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| 07:41 |
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masak joined #bioclipse |
| 07:43 |
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jonalv joined #bioclipse |
| 07:44 |
|
jonalv |
moin |
| 07:44 |
|
zarah |
hi jonalv |
| 08:03 |
|
masak |
hi jonalv |
| 08:11 |
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egonw joined #bioclipse |
| 08:11 |
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edrin joined #bioclipse |
| 08:14 |
|
CIA-49 |
bioclipse: ospjuth * r6294 /bioclipse2/trunk/plugins/net.bioclipse.cdk.business.test/ (2 files in 2 dirs): Some test editing for the Jumbo bug. |
| 08:16 |
|
CIA-49 |
bioclipse: jonalv * r6295 /bot/trunk/zarah.pl: [zarah] answers ehlo! |
| 08:16 |
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zarah joined #bioclipse |
| 08:18 |
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olas joined #bioclipse |
| 08:18 |
|
olas |
hi all |
| 08:18 |
|
zarah |
hi olas |
| 08:27 |
|
edrin |
hi olas |
| 08:27 |
|
olas |
hi edrin |
| 08:32 |
|
CIA-49 |
bioclipse: ospjuth * r6296 /bioclipse2/trunk/plugins/net.bioclipse.cdk.ui/src/net/bioclipse/cdk/ui/views/Java2DRendererView.java: Replaced the getAdapter with the one from cdk10. Still not working, but a start. Needs some work by egonw, see bug 2027732. |
| 08:33 |
|
CIA-49 |
bioclipse: ospjuth * r6297 /bioclipse2/trunk/plugins/net.bioclipse.cdk.business/src/net/bioclipse/cdk/domain/ (CDKChemObject.java ChemObjectPropertySource.java): Copied CDKChemObject as they are needed by cdk as well. |
| 08:33 |
|
CIA-49 |
bioclipse: ospjuth * r6298 /bioclipse2/trunk/plugins/net.bioclipse.qsar/src/net/bioclipse/qsar/builder/ (QSARBuilderREF.java QSARNatureREF.java): Removed obsolete classes. |
| 08:34 |
|
CIA-49 |
bioclipse: ospjuth * r6299 /bioclipse2/trunk/plugins/net.bioclipse.scripting.ui/plugin.xml: Scripting.ui now contributes JSConsole via a perspectiveContribution. |
| 08:35 |
|
CIA-49 |
bioclipse: ospjuth * r6300 /bioclipse2/trunk/features/net.bioclipse-feature/feature.xml: Removed commons.logging. This might be a mistake, but at least solves race problem on startup. |
| 08:41 |
|
olas |
masak: are all bugs on SF group 2.0-alpha assigned to you still valid or could some be closed? |
| 08:42 |
|
masak |
olas: hold on, will check |
| 08:47 |
|
masak |
olas: there. I redirected one to you for closing. the js editor one is half complete. also, I'd like to check the prio 9 bug and see if I can do something about it. |
| 08:48 |
|
olas |
what is it about? |
| 08:59 |
|
masak |
it's about `structuredb.delete( db, l )` not working in the js console |
| 09:06 |
|
|
shk3 joined #bioclipse |
| 09:06 |
|
CIA-49 |
bioclipse: ospjuth * r6301 /bioclipse2/trunk/plugins/net.bioclipse.qsar/ (26 files in 5 dirs): Updated copyright and license. |
| 09:09 |
|
CIA-49 |
bioclipse: carl_masak * r6302 /bioclipse2/trunk/plugins/ (5 files in 3 dirs): |
| 09:09 |
|
CIA-49 |
bioclipse: [net.bioclipse.structuredb] |
| 09:09 |
|
CIA-49 |
bioclipse: [net.bioclipse.structuredb.tests] |
| 09:09 |
|
CIA-49 |
bioclipse: * renamed the two methods delete(db, label) and |
| 09:09 |
|
CIA-49 |
bioclipse: delete(db, structure) into deleteLabel and |
| 09:09 |
|
CIA-49 |
bioclipse: deleteStructure, respectively. seems to be |
| 09:09 |
|
CIA-49 |
bioclipse: interference from js with the name 'delete' |
| 09:15 |
|
masak |
fixed it :) |
| 09:17 |
|
olas |
masak++ |
| 09:20 |
|
CIA-49 |
bioclipse: ospjuth * r6303 /bioclipse2/trunk/plugins/net.bioclipse.jmol/src/net/bioclipse/jmol/ (adapter/cdk/CdkJmolAdapter.java views/JmolComposite.java): Updated copyright. |
| 09:24 |
|
olas |
masak: jag lägger till lite copyright innan du ersätter... ok? |
| 09:24 |
|
masak |
oki |
| 09:30 |
|
masak |
I have a new philosophy. it's bit harsh, but it's good to keep in mind |
| 09:30 |
|
CIA-49 |
bioclipse: carl_masak * r6304 /bioclipse2/trunk/plugins/net.bioclipse.cdk10.jchempaint/src/net/bioclipse/cdk10/jchempaint/outline/JCPOutlinePage.java: |
| 09:30 |
|
CIA-49 |
bioclipse: [JCPOutlinePage] |
| 09:30 |
|
CIA-49 |
bioclipse: * removed unused imports |
| 09:30 |
|
CIA-49 |
bioclipse: * replaced block of commented-out code with |
| 09:30 |
|
CIA-49 |
bioclipse: comment on where to find fresh code |
| 09:30 |
|
masak |
don't comment out code. |
| 09:30 |
|
CIA-49 |
bioclipse: ospjuth * r6305 /bioclipse2/trunk/plugins/net.bioclipse.ui/ (31 files in 9 dirs): Updated copyright and license on files missing this information. People might want to add themselves in contributors section, that is manual work. |
| 09:32 |
|
CIA-49 |
bioclipse: ospjuth * r6306 /bioclipse2/trunk/plugins/net.bioclipse.usermanager/ (3 files in 2 dirs): Added missing copyright statements. |
| 09:32 |
|
CIA-49 |
bioclipse: ospjuth * r6307 /bioclipse2/trunk/plugins/net.bioclipse.usermanager.tests/ (4 files in 3 dirs): Added missing copyright statements. |
| 09:35 |
|
CIA-49 |
bioclipse: carl_masak * r6308 /bioclipse2/trunk/plugins/net.bioclipse.biojava.business/src/net/bioclipse/biojava/business/BiojavaManager.java: |
| 09:35 |
|
CIA-49 |
bioclipse: [BiojavaManager] |
| 09:35 |
|
CIA-49 |
bioclipse: * better comments and javadoc |
| 09:35 |
|
CIA-49 |
bioclipse: * whitespace |
| 09:35 |
|
masak |
olas: let me know when you're done |
| 09:39 |
|
olas |
true |
| 09:39 |
|
olas |
will do so |
| 09:40 |
|
olas |
masak: you never add license to your classes? |
| 09:41 |
|
masak |
olas: no, I've never gotten into the habit |
| 09:41 |
|
masak |
sorry :/ |
| 09:41 |
|
olas |
ok |
| 09:41 |
|
olas |
will add a standard one |
| 09:41 |
|
olas |
it's an eclipse preference |
| 09:41 |
|
olas |
btw |
| 09:41 |
|
masak |
yes, I know |
| 09:42 |
|
olas |
hence: it's not a habit, it's a preference you have not set |
| 09:42 |
|
olas |
jonalv: you're pretty bad at this as well |
| 09:43 |
|
* masak |
sets preference |
| 09:43 |
|
masak |
I know I looked at it when I sent out the style files |
| 09:44 |
|
* olas |
is adding a lot of license/copyright statements |
| 09:44 |
|
CIA-49 |
bioclipse: ospjuth * r6309 /bioclipse2/trunk/plugins/ (29 files in 15 dirs): Added missing license and copyright statements. |
| 09:44 |
|
masak |
olas: if you ask me, the "Contributors" part of the License comment is not very valuable |
| 09:45 |
|
CIA-49 |
bioclipse: ospjuth * r6310 /bioclipse2/trunk/features/net.bioclipse.sampledata/ (.project feature.xml): Replaced ID. |
| 09:45 |
|
olas |
in what respect? |
| 09:45 |
|
olas |
if you are a contributor, you have copyright |
| 09:45 |
|
olas |
at least partial |
| 09:46 |
|
olas |
which means people should consult you with issues regarding licensing |
| 09:46 |
|
masak |
it's information that needs constant updating |
| 09:46 |
|
olas |
I know |
| 09:46 |
|
masak |
and not very useful |
| 09:46 |
|
olas |
what do you propose as alternative? |
| 09:46 |
|
masak |
yes, nothing |
| 09:46 |
|
olas |
so just write: Copyright Bioclispe contributors and others? |
| 09:47 |
|
masak |
yes. the rights belong to the project, and that includes all contributors |
| 10:10 |
|
shk3 |
sorry, but this isn't quite right. "the project" ist not a legal entity and can therefore not own rights. |
| 10:10 |
|
shk3 |
plus the so-called moral right cannot be transferred anyway. |
| 10:10 |
|
shk3 |
So in our case the people working on a separable piece are joint owners. |
| 10:40 |
|
|
egonw joined #bioclipse |
| 10:46 |
|
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malick joined #bioclipse |
| 10:57 |
|
CIA-49 |
bioclipse: ospjuth * r6311 /bioclipse2/trunk/features/net.bioclipse.sampledata/build.properties: Added missing license and copyright statements. |
| 10:58 |
|
CIA-49 |
bioclipse: ospjuth * r6312 /bioclipse2/trunk/plugins/net.bioclipse.r/ (5 files in 2 dirs): Added missing license and copyright statements. |
| 11:03 |
|
CIA-49 |
bioclipse: ospjuth * r6313 /bioclipse2/trunk/plugins/ (52 files in 10 dirs): Added missing license and copyright statements. |
| 11:07 |
|
CIA-49 |
bioclipse: ospjuth * r6314 /bioclipse2/trunk/plugins/ (58 files in 15 dirs): Added missing license and copyright statements. |
| 11:11 |
|
CIA-49 |
bioclipse: ospjuth * r6315 /bioclipse2/trunk/plugins/ (53 files in 28 dirs): Added missing license and copyright statements. |
| 11:19 |
|
CIA-49 |
bioclipse: jonalv * r6316 /bioclipse2/trunk/plugins/ (5 files in 3 dirs): Introduced create job advice on cdk manager methods. This needs to be tested! :) |
| 11:40 |
|
olas |
jonalv: how to test? |
| 11:40 |
|
jonalv |
olas: I need hwlp... :( |
| 11:40 |
|
jonalv |
I am stuck... |
| 11:40 |
|
olas |
oh no |
| 11:40 |
|
* olas |
is on his way |
| 11:40 |
|
jonalv |
freaking dependenioces are killing me |
| 11:41 |
|
CIA-49 |
bioclipse: ospjuth * r6317 /bioclipse2/trunk/plugins/net.bioclipse.analysis/ (3 files in 3 dirs): Added missing license and copyright statements. |
| 11:42 |
|
masak |
olas: could you have a look at this before I commit? |
| 11:42 |
|
masak |
http://paste2.org/p/53202 |
| 11:42 |
|
zarah |
masak's link is also http://tinyurl.com/6mlmd6 |
| 11:42 |
|
masak |
zarah: you're shortening links sometimes even though they are short already |
| 11:42 |
|
zarah |
masak: I did not understand that |
| 11:45 |
|
masak |
zarah: restart, please |
| 11:45 |
|
CIA-49 |
bioclipse: carl_masak * r6318 /bot/trunk/zarah.pl: [zarah] increased lower URL shortening length limit |
| 11:45 |
|
|
zarah joined #bioclipse |
| 11:46 |
|
masak |
http://paste2.org/p/53202 |
| 11:46 |
|
masak |
zarah++ |
| 11:54 |
|
masak |
olas: how does it look? do you want a paste with a list of the files affected? |
| 12:03 |
|
masak |
major commit coming |
| 12:04 |
|
masak |
I'd recommend that everyone update after this one. |
| 12:09 |
|
* olas |
will update after this one |
| 12:09 |
|
olas |
just tell me when |
| 12:10 |
|
olas |
jonalv: about the install on linux |
| 12:10 |
|
olas |
did you postpone that? |
| 12:10 |
|
jonalv |
don't know :) |
| 12:10 |
|
CIA-49 |
bioclipse: carl_masak * r6319 /bioclipse2/trunk/plugins/ (167 files in 45 dirs): added copyright statements to Java files in our own plugins |
| 12:11 |
|
masak |
there you go. |
| 12:11 |
|
olas |
danke |
| 12:11 |
|
olas |
but |
| 12:11 |
|
olas |
there will be more, right? |
| 12:11 |
|
masak |
a little, yes :) |
| 12:11 |
|
jonalv |
masak++ //looks like a cool thing |
| 12:11 |
|
masak |
maybe in half an hour |
| 12:11 |
|
olas |
masak++ |
| 12:11 |
|
masak |
dz |
| 12:11 |
|
masak |
it was fun to write |
| 12:11 |
|
* olas |
wishes he was as wise in the ways of science as masak |
| 12:12 |
|
masak |
science! |
| 12:12 |
|
olas |
"A duck!" |
| 12:13 |
|
olas |
masak: are you good with XSLT? |
| 12:13 |
|
masak |
olas: frankly, yes :) |
| 12:13 |
|
olas |
I have an open bug from bc1 |
| 12:13 |
|
olas |
nice |
| 12:13 |
|
* olas |
is coming over again |
| 12:13 |
|
masak |
heh |
| 12:23 |
|
olas |
masak: http://www.linuxdevices.com/ar[…]AT4973246138.html |
| 12:23 |
|
zarah |
olas's link is also http://tinyurl.com/5zylyc |
| 12:23 |
|
CIA-49 |
bioclipse: jonalv * r6320 /bioclipse2/trunk/plugins/net.bioclipse.scripting/src/net/bioclipse/scripting/ (JsThread.java ScriptingThread.java): Created base class ScriptingThread to be used for "scripting worker" threads |
| 12:23 |
|
masak |
olas: looks relevant |
| 12:23 |
|
olas |
hmm |
| 12:23 |
|
olas |
on second thoughts, maybe not |
| 12:25 |
|
olas |
masak: have you worked with docbook xsl? |
| 12:25 |
|
olas |
http://www.xml.com/lpt/a/1265 |
| 12:25 |
|
|
malic1 joined #bioclipse |
| 12:25 |
|
masak |
olas: no |
| 12:25 |
|
olas |
looks interesting |
| 12:26 |
|
masak |
it looks like normal XSL :) |
| 12:29 |
|
CIA-49 |
bioclipse: jonalv * r6321 /bioclipse2/trunk/plugins/ (14 files in 7 dirs): Moved create job advice from core into ui. Hopefully this will work better. (Although it wouldn't suprise me if it will end up in some scripting plugin finally...) |
| 12:30 |
|
shk3 |
hi all |
| 12:30 |
|
zarah |
hi shk3 |
| 12:30 |
|
shk3 |
some questions |
| 12:30 |
|
shk3 |
anybody has a minute? |
| 12:31 |
|
olas |
fire off |
| 12:32 |
|
shk3 |
ok, i am trying to do the create coordinates stuff |
| 12:32 |
|
shk3 |
this should be in the context menu, right? |
| 12:33 |
|
shk3 |
so i need a menu item for all molecule files. |
| 12:33 |
|
shk3 |
Is there a definition for this? |
| 12:33 |
|
shk3 |
in net.bc.cdk10.ui there is a molecule content |
| 12:34 |
|
shk3 |
but this is only for sdf and cml? |
| 12:34 |
|
shk3 |
the editors are directly called via file extensions? |
| 12:34 |
|
shk3 |
so how to define the visibility of the menu item? |
| 12:35 |
|
CIA-49 |
bioclipse: jonalv * r6322 /bioclipse2/trunk/plugins/net.bioclipse.core/src/net/bioclipse/core/business/ (CreateJobAdvice.java ICreateJobAdvice.java): hm here comes hte CreateJobAdvice and it's interface. It's strange that they didn't join my last commit... :) |
| 12:37 |
|
masak |
olas: those on #eclipse thought that this might be a starting point for finding out more about the XSLT stuff |
| 12:37 |
|
masak |
http://wiki.eclipse.org/Platform-releng-faq |
| 12:37 |
|
zarah |
masak's link is also http://tinyurl.com/29q8v2 |
| 12:44 |
|
shk3 |
olas: what do you think? |
| 12:46 |
|
masak |
olas: looks good? http://paste2.org/p/53214 |
| 12:46 |
|
olas |
mom |
| 12:47 |
|
masak |
I really like to work this way! |
| 12:47 |
|
masak |
\o/ |
| 12:47 |
|
olas |
:-) |
| 12:47 |
|
olas |
looks good |
| 12:47 |
|
olas |
but you are the master |
| 12:47 |
|
masak |
committing, then |
| 12:47 |
|
masak |
I'm no master |
| 12:47 |
|
masak |
I just try stuff |
| 12:47 |
|
olas |
right |
| 12:48 |
|
olas |
but you have more exp than I regarding this |
| 12:48 |
|
masak |
exhibitionism? |
| 12:48 |
|
olas |
that too |
| 12:48 |
|
olas |
also experience |
| 12:48 |
|
masak |
anyhoo, here comes a commit |
| 12:48 |
|
olas |
could be exponentialism as well |
| 12:49 |
|
masak |
exports |
| 12:49 |
|
olas |
expertise |
| 12:49 |
|
masak |
expressionism |
| 12:49 |
|
olas |
expansion |
| 12:50 |
|
olas |
expectations (I like that one!) |
| 12:50 |
|
masak |
explanations |
| 12:50 |
|
* olas |
is waiting for the commit |
| 12:50 |
|
masak |
it's on its way |
| 12:51 |
|
masak |
committing 166 files takes a while |
| 12:51 |
|
olas |
masak: I know I'm bothering you a lot today |
| 12:51 |
|
olas |
sorry about that (I know you are not feeling too well) |
| 12:52 |
|
masak |
as long as the tasks are fun... |
| 12:52 |
|
olas |
:-) |
| 12:52 |
|
masak |
olas: I'm in a bit of pain, that's all |
| 12:52 |
|
masak |
no worries |
| 12:52 |
|
olas |
you want painkillers? (got some in my bag) |
| 12:52 |
|
olas |
(I think) |
| 12:52 |
|
masak |
olas: hm, drugs... interesting suggestion |
| 12:52 |
|
masak |
I'll think about it |
| 12:53 |
|
olas |
just ask |
| 12:53 |
|
masak |
"just say yes" :) |
| 12:53 |
|
olas |
we are in drug design, we should use as many as possible |
| 12:53 |
|
olas |
(right?) |
| 12:53 |
|
masak |
true |
| 12:53 |
|
masak |
"eating our own dogfood" |
| 12:53 |
|
olas |
zarah: should we use as many drugs as possible? |
| 12:53 |
|
zarah |
olas: excuse me? |
| 12:53 |
|
masak |
haha |
| 12:53 |
|
olas |
oh, sorry |
| 12:54 |
|
masak |
zarah: drugs, for or against? |
| 12:54 |
|
zarah |
masak: please rephrase or stop trying to be witty :) |
| 12:54 |
|
masak |
oki |
| 12:54 |
|
olas |
zarah: could you please speed up SF? |
| 12:54 |
|
zarah |
olas: I'm just a bot, you expect me to understand that? |
| 12:54 |
|
CIA-49 |
bioclipse: carl_masak * r6323 /bioclipse2/trunk/plugins/ (166 files in 59 dirs): updated copyright notes on Java files |
| 12:54 |
|
olas |
understand, yes. Fix, no |
| 12:54 |
|
masak |
there we go |
| 12:54 |
|
olas |
great |
| 12:54 |
|
* olas |
is updating |
| 13:02 |
|
CIA-49 |
bioclipse: carl_masak * r6324 /bot/trunk/zarah.pl: [zarah] "no you are the cute one" |
| 13:02 |
|
masak |
zarah: update |
| 13:02 |
|
|
zarah joined #bioclipse |
| 13:03 |
|
masak |
zarah++ |
| 13:03 |
|
masak |
@dz |
| 13:03 |
|
zarah |
you're welcome, masak :) |
| 13:03 |
|
masak |
@dz |
| 13:03 |
|
zarah |
you're welcome, masak :) |
| 13:03 |
|
masak |
@dz |
| 13:03 |
|
zarah |
no, YOU'RE the cute one! :) |
| 13:03 |
|
masak |
zarah: no, you're the cute one! |
| 13:03 |
|
zarah |
masak: no, YOU'RE the cute one! :) |
| 13:03 |
|
zarah |
masak: please rephrase or stop trying to be witty :) |
| 13:03 |
|
masak |
oops |
| 13:03 |
|
olas |
shk3: sorry |
| 13:03 |
|
olas |
was lost in space for a while |
| 13:03 |
|
olas |
your questions are important |
| 13:05 |
|
masak |
@restart |
| 13:06 |
|
|
zarah joined #bioclipse |
| 13:06 |
|
CIA-49 |
bioclipse: carl_masak * r6325 /bot/trunk/zarah.pl: [zarah] now does not get confused by cuteness messages |
| 13:06 |
|
masak |
zarah: no, you're the cute one! |
| 13:06 |
|
zarah |
masak: no, YOU'RE the cute one! |
| 13:06 |
|
masak |
:) |
| 13:34 |
|
masak |
zarah: no, YOU'RE the cute one! |
| 13:34 |
|
zarah |
masak: no, YOU'RE the cute one! |
| 13:34 |
|
masak |
zarah: no, YOU'RE the cute one! |
| 13:34 |
|
zarah |
masak: no, YOU'RE the cute one! :) |
| 13:34 |
|
masak |
zarah: no, YOU'RE the cute one! :) |
| 13:34 |
|
zarah |
masak: no, YOU'RE the cute one! :) |
| 13:34 |
|
masak |
:) |
| 13:34 |
|
jonalv |
@dz |
| 13:34 |
|
zarah |
no, YOU'RE the cute one! :) |
| 13:35 |
|
jonalv |
no, YOU'RE the cute one! |
| 13:35 |
|
zarah |
jonalv: no, YOU'RE the cute one! |
| 13:35 |
|
olas |
zarah: shut up |
| 13:35 |
|
zarah |
olas: eh... wha'? |
| 13:35 |
|
jonalv |
no, YOU'RE the cute one! |
| 13:35 |
|
zarah |
jonalv: no, YOU'RE the cute one! :) |
| 13:35 |
|
olas |
zarah: that means: STOP IT! |
| 13:35 |
|
zarah |
olas: I did not understand that |
| 13:35 |
|
masak |
:) |
| 13:35 |
|
masak |
zarah: no, YOU'RE the cute one! :) |
| 13:35 |
|
zarah |
masak: no, YOU'RE the cute one! :) |
| 13:35 |
|
olas |
zarah: you are the stupid one |
| 13:35 |
|
zarah |
olas: no, YOU'RE the stupid one! :) |
| 13:36 |
|
olas |
god damn it |
| 13:36 |
|
masak |
hahaha |
| 13:36 |
|
jonalv |
zarah++ |
| 13:36 |
|
masak |
zarah++ |
| 13:36 |
|
olas |
masak-- for implementing such a feature |
| 13:36 |
|
masak |
:D :D :D |
| 13:36 |
|
jonalv |
masak++ |
| 13:36 |
|
jonalv |
this made my day :) |
| 13:36 |
|
masak |
mine too |
| 13:37 |
|
masak |
Perl++ |
| 13:37 |
|
* olas |
doesn't like zarah anymore |
| 13:37 |
|
* olas |
doesn't like Perl either anymore |
| 13:37 |
|
olas |
:-( |
| 13:37 |
|
masak |
zarah: you're the Perly one! |
| 13:37 |
|
zarah |
masak: no, YOU'RE the Perly one! :) |
| 13:37 |
|
olas |
actually really funny |
| 13:40 |
|
olas |
jonalv: structuredb does not compile |
| 13:40 |
|
olas |
neither does quickimage |
| 13:41 |
|
olas |
hmm |
| 13:41 |
|
CIA-49 |
bioclipse: carl_masak * r6326 /bot/trunk/zarah.pl: [zarah] more varied "cute one" message |
| 13:41 |
|
olas |
@restart |
| 13:42 |
|
jonalv |
olas: structuredb doesn't have my priority this week |
| 13:42 |
|
olas |
good |
| 13:42 |
|
masak |
@restart |
| 13:42 |
|
|
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| 13:43 |
|
jonalv |
no, YOU'RE the cute one! |
| 13:43 |
|
zarah |
jonalv: no, YOU are the cute one! :) |
| 13:43 |
|
jonalv |
no, YOU'RE the cute one! |
| 13:43 |
|
zarah |
jonalv: no, YOU are the cute one! |
| 13:43 |
|
olas |
varied? |
| 13:43 |
|
masak |
no, YOU are the cute one! |
| 13:43 |
|
zarah |
masak: no, YOU are the cute one! |
| 13:43 |
|
jonalv |
no, YOU'RE the cute one! |
| 13:43 |
|
zarah |
jonalv: no, YOU'RE the cute one! |
| 13:43 |
|
masak |
well, slightly varied |
| 13:43 |
|
olas |
(very slightly) |
| 13:44 |
|
olas |
shk3: around? |
| 13:45 |
|
shk3 |
yes |
| 13:45 |
|
olas |
http://wiki.bioclipse.net/inde[…]menus_and_actions |
| 13:45 |
|
zarah |
olas's link is also http://tinyurl.com/55gl83 |
| 13:45 |
|
shk3 |
i know that |
| 13:45 |
|
olas |
did you read that? |
| 13:45 |
|
olas |
ok |
| 13:45 |
|
shk3 |
but i am unsure about the file types right now |
| 13:46 |
|
olas |
what is missing? |
| 13:46 |
|
olas |
ok |
| 13:46 |
|
olas |
we should define contentTypes |
| 13:46 |
|
olas |
I am not sure about this either |
| 13:46 |
|
olas |
we need to figure it out |
| 13:46 |
|
olas |
I will attack it too |
| 13:47 |
|
shk3 |
the is no molecule content type right now? |
| 13:47 |
|
olas |
no |
| 13:47 |
|
olas |
and should not be |
| 13:47 |
|
olas |
(IMO) |
| 13:47 |
|
olas |
perhaps a CDKMoleculeType |
| 13:47 |
|
olas |
I am not sure about that |
| 13:47 |
|
shk3 |
me neither |
| 13:48 |
|
olas |
or even MDLMolfileCOntentType |
| 13:48 |
|
shk3 |
I try the actions on mol files first |
| 13:48 |
|
olas |
great |
| 13:48 |
|
olas |
I will try to open Jmol if cml file with 3D and JCP if cml file with 2D |
| 13:49 |
|
CIA-49 |
bioclipse: carl_masak * r6327 /bot/trunk/zarah.pl: [zarah] now tires of "cute one" exchanges after some time |
| 13:50 |
|
|
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| 13:53 |
|
CIA-49 |
bioclipse: goglepox * r6328 /bioclipse2/trunk/plugins/net.bioclipse.core/src/net/bioclipse/core/ (3 files in 2 dirs): Fixed exception complaining that .project does not exist for project Virutal |
| 13:56 |
|
olas |
shk3: is there a root object in all cml files? |
| 13:56 |
|
olas |
like <molecule> |
| 13:56 |
|
olas |
molecule cml files that is |
| 14:05 |
|
shk3 |
not sure right now |
| 14:05 |
|
shk3 |
often there is <cml> |
| 14:05 |
|
shk3 |
but starting with <molecule> should be all right as well |
| 14:12 |
|
jonalv |
olas: There are many TODO in the cdk manager and there are many methods that doesn\t do anything with the monitors... :( |
| 14:13 |
|
jonalv |
olas: And 0 methods supports cancel... |
| 14:21 |
|
CIA-49 |
bioclipse: carl_masak * r6329 /bot/trunk/zarah.pl: [zarah] added @message |
| 14:22 |
|
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| 14:28 |
|
CIA-49 |
bioclipse: ospjuth * r6330 /bioclipse2/trunk/plugins/net.bioclipse.cdk10.ui/plugin.xml: Commented out SDFile navigator content. In fact, cdk10.ui should not be used at all as it has no used functionality for now. |
| 14:37 |
|
CIA-49 |
bioclipse: carl_masak * r6331 /bot/trunk/zarah.pl: [zarah] now greets meklund whenever he enters a channel |
| 14:38 |
|
|
zarah joined #bioclipse |
| 14:55 |
|
CIA-49 |
bioclipse: jonalv * r6332 /bioclipse2/trunk/plugins/ (4 files in 2 dirs): |
| 14:55 |
|
CIA-49 |
bioclipse: Moved ConsoleProgressmonitor over to ui.jobs |
| 14:55 |
|
CIA-49 |
bioclipse: For the moment consoleprogressmonitor is used a bit eager. We need to think through how and where we want to have it if at all. |
| 15:25 |
|
CIA-49 |
bioclipse: carl_masak * r6333 /bioclipse2/trunk/plugins/net.bioclipse.ui/src/net/bioclipse/ui/ (Activator.java ApplicationWorkbenchAdvisor.java): |
| 15:25 |
|
CIA-49 |
bioclipse: [Activator] |
| 15:25 |
|
CIA-49 |
bioclipse: [ApplicationWorkbenchAdvisor] |
| 15:25 |
|
CIA-49 |
bioclipse: * tidied up indentation, line length and idioms |
| 15:34 |
|
CIA-49 |
bioclipse: carl_masak * r6334 /bioclipse2/trunk/plugins/net.bioclipse.cdk.business/src/net/bioclipse/cdk/business/ (CDKManager.java ICDKManager.java): |
| 15:34 |
|
CIA-49 |
bioclipse: [ICDKManager] |
| 15:34 |
|
CIA-49 |
bioclipse: [CDKManager] |
| 15:34 |
|
CIA-49 |
bioclipse: * fromString -> fromCml |
| 15:43 |
|
CIA-49 |
bioclipse: carl_masak * r6335 /bioclipse2/trunk/plugins/net.bioclipse.scripting.ui/src/net/bioclipse/scripting/ui/views/ScriptingConsoleView.java: |
| 15:43 |
|
CIA-49 |
bioclipse: [ScriptingConsoleView] fixed a bug which made the final quote |
| 15:43 |
|
CIA-49 |
bioclipse: ('"') not appear when dragging-and-dropping a file into the |
| 15:43 |
|
CIA-49 |
bioclipse: console |
| 15:56 |
|
CIA-49 |
bioclipse: jonalv * r6336 /bioclipse2/trunk/plugins/net.bioclipse.ui/src/net/bioclipse/ui/jobs/ (3 files): Removed consoleprogressmonitor. It was more problems than it was worth. |
| 16:07 |
|
shk3 |
one more question |
| 16:07 |
|
shk3 |
anybody willing to answer? |
| 16:08 |
|
shk3 |
jonalv, masak? |
| 16:08 |
|
jonalv |
oh |
| 16:08 |
|
jonalv |
sure if I know the answer :) |
| 16:09 |
|
shk3 |
ok, I want to write this generate2d action |
| 16:09 |
|
shk3 |
problem: |
| 16:09 |
|
shk3 |
how is parsing done? |
| 16:10 |
|
shk3 |
I just get the selection |
| 16:10 |
|
shk3 |
so I have to look if it is mol, cml... |
| 16:10 |
|
shk3 |
and do the parsing? |
| 16:10 |
|
jonalv |
You should really ask olas about that. I don'r know the policy... |
| 16:10 |
|
shk3 |
ok, will do that tomorrow |
| 16:10 |
|
jonalv |
he left though... :( |
| 16:11 |
|
shk3 |
no problem |
| 16:11 |
|
shk3 |
will leave myself |
| 16:11 |
|
shk3 |
soon |
| 17:20 |
|
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| 18:08 |
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| 22:15 |
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