Camelia, the Perl 6 bug

IRC log for #cdk, 2008-10-30

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

All times shown according to UTC.

Time Nick Message
07:07 CIA-36 cdk: goglepox * r12882 /cdk/branches/goglepox-jchempaint/src/main/org/op​enscience/cdk/renderer/elements/LineElement.java: Added color to lines
07:53 thomasku joined #cdk
08:00 egonw joined #cdk
08:06 thomasku moin
08:06 zarah hi thomasku
09:06 edrin joined #cdk
09:22 gilleain joined #cdk
10:07 gilleain joined #cdk
10:51 CIA-36 cdk: egonw * r12883 /cdk-xws/trunk/xws-cdk-services/src/org/opensci​ence/cdk/xws/services/SomeCDKFunctionOne.java: Fixed strings
10:51 jpansanel moin
10:52 zarah hi jpansanel
10:52 egonw hi jpansanel
10:52 CIA-36 cdk: egonw * r12884 /cdk-xws/trunk/xws-cdk-client/ (14 files in 8 dirs): Added set up for a demo CDK-XWS client
11:00 edr1n joined #cdk
11:00 egonw hi edr1n
11:01 * egonw is writing a client for CDK function subds
11:01 * egonw is writing a client for CDK function stubs
11:11 egonw <mass xmlns='urn:xmpp:tmp:io-data'>5.0</mass>
11:11 egonw no quite the expected namespace, but a start :)
11:57 egonw cool... debugging a webservice as it is being called :)
13:59 rguha joined #cdk
13:59 rguha hi all
13:59 zarah hi rguha
13:59 gilleain hi
13:59 zarah hi gilleain
13:59 rguha hi gilleain
14:00 rguha egonw, did the issues with the IO bug reports get fixed?
14:10 egonw nope
14:10 egonw only used a workaround for bioclipse
14:10 egonw had no time for it yet
14:10 egonw with getting BC2.0.0 alpha3 out
14:10 egonw or whatever the exact name is
14:10 egonw (just back from coffee, with a 22 inch TFT screen :)
14:11 egonw ask olass how nice it is :)
14:17 rguha I can imagine
14:17 rguha I looked at some the test failures and fixed a few - didn't they address the problem?
14:44 egonw joined #cdk
14:52 egonw joined #cdk
14:53 egonw rguha: I think I will try to revert code to an old state, while preserving the current functionality...
14:54 egonw or so...
14:54 egonw need to carefully look at this...
14:55 rguha ok
14:55 egonw patches, welcome of course :)
14:56 egonw I should write a unit test that actually fails...
14:56 egonw instead of working around the problem
14:56 egonw first I need some CDK webservices going
14:56 egonw was close
14:56 egonw until I received this 22inch screen
14:56 egonw and a bit of static electrocity rebooted my laptop
14:57 rguha ha :)
14:57 rguha if you can point me to a failing test, I can look at it over th eweekend
14:58 egonw ok, hang on
14:58 egonw eclipse is booting
14:59 rguha got a tour of a HTS facility - HTS robotics are sexy :)
15:01 egonw building workspace @ 52%
15:12 gilleain joined #cdk
15:13 egonw joined #cdk
15:14 egonw messing around with my screen
15:14 egonw but it works now
15:14 egonw I only guess my laptop's graphics card does not support two screens :(
15:14 egonw but the flickering is gone
15:14 egonw and I have a huge desktop now :)
15:15 rguha lucky
15:22 egonw rguha: did you try the new bioclipse yet?
15:24 rguha no
15:24 rguha saw the mesasge
15:24 rguha looks nice, but too much stuff to do
15:25 rguha papers are coming into my dreams now :( No escape
15:25 egonw hehehe
15:25 egonw ok
15:25 rguha hopefull after the semester ends I can start catchinbg up
15:25 rguha can you PM me
15:26 egonw PM?
15:26 rguha private message
15:34 rguha egon, did you change MolecularDescriptorTest? Why are some descriptors being reported as not testing private methods?
15:43 egonw no, did not change anything regarding that
15:45 rguha hmm
15:45 CIA-36 cdk: egonw * r12885 /cdk/branches/cdk-1.2.x/src/test/org/ope​nscience/cdk/io/ReaderFactoryTest.java: Added unit test for bug report #2153298
15:46 rguha a few days coverage was 100% for some of the qsar modules
15:46 carsten joined #cdk
15:47 egonw well, maybe those are those tests which got lost?
15:47 rguha hmm, could be
15:48 egonw I don't see many missing methods though...
15:48 egonw a missing TestClass annotation for ChiIndexUtils
15:48 rguha btw, testBug2153298 failure looks like a spelling mistake?
15:49 rguha yes, I hadn't gotten to ChiIndexUtils
15:49 egonw and some methods for DescriptorEngine
15:49 rguha but the descriptor classes were pretty much covered
15:49 rguha right
15:50 egonw sorry, got the test file/format wrong indeed
15:50 rguha I'm comitting the fix for that
15:51 egonw oh, ok
15:51 egonw make sure it fails on line 271
15:51 CIA-36 cdk: rajarshi * r12886 /cdk/branches/cdk-1.2.x/src/main/org/openscienc​e/cdk/io/formats/PubChemCompoundXMLFormat.java: Fixed a misspelling in the format name
15:52 rguha 257 actually (ISimpleChemObjectReader reader = factory.createReader(ins);)
15:52 egonw no, that's actually not a good fix
15:52 egonw it was *not* a typo
15:52 egonw not there, at least
15:52 rguha how so?
15:52 egonw the formats for Compound XML and COmpound*s* XML are actually different :)
15:52 rguha aah
15:52 rguha sorry
15:53 egonw well, that's why we have 'many eyes' :)
15:53 egonw @Test public void testBug2153298() throws Exception {
15:53 egonw String filename = "data/asn/pubchem/cid1145.xml";
15:53 egonw that's a proper fix of the test
15:53 CIA-36 cdk: rajarshi * r12887 /cdk/branches/cdk-1.2.x/src/main/org/openscienc​e/cdk/io/formats/PubChemCompoundXMLFormat.java: It wasn't a misspelling!
15:53 egonw :)
15:54 rguha ok, I now see the real problem
15:57 CIA-36 cdk: egonw * r12888 /cdk-xws/trunk/README: Added note on having to have a copy of CDK
15:58 CIA-36 cdk: egonw * r12889 /cdk-xws/trunk/ (2 files in 2 dirs): OK, sort of got IO working now; next step to actually calculate a mass.
16:02 CIA-36 cdk: rajarshi * r12890 /cdk/branches/cdk-1.2.x/src/test/org/ope​nscience/cdk/io/ReaderFactoryTest.java: Used the appropriate test data file
16:13 gilleain quick question : what is this structure-cdk with the ImageKit? Rich Apodaca's stuff?
16:13 egonw it's a bridge between octet and cdk
16:14 gilleain ohhh.
16:14 gilleain weird. a guy just came to us here to ask why it wasn't working anymore.
16:15 gilleain the reason was : it's a different project to cdk trunk!
16:38 egonw oh, yes... it's using CDK 1.0
16:48 egonw <mass xmlns='urn:xmpp:tmp:io-data​'>36.032207690364004</mass>
16:49 * egonw is happy to announce the first XMPP/IO-DATA CDK webservice is online :)
16:54 CIA-36 cdk: egonw * r12891 /cdk-xws/trunk/xws-cdk-services/ (2 files in 2 dirs): Now actually calculates the mass
16:54 egonw rguha: need to run now
16:54 egonw will be online tomorrow
23:03 CIA-36 cdk: gilleain * r12892 /cdk/branches/gilleain-jchempaint/sr​c/main/org/openscience/cdk/renderer/ (10 files in 4 dirs):
23:03 CIA-36 cdk: - Created a LineBundleElement to handle creating/changing line order.
23:03 CIA-36 cdk: - Moving (back!) towards having translate/scale code in Symbols.
23:03 CIA-36 cdk: - Minor improvement to the calculation of inner ring bonds in Factory.

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