Camelia, the Perl 6 bug

IRC log for #cdk, 2008-02-14

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All times shown according to UTC.

Time Nick Message
00:09 CIA-31 cdk: miguelrojasch * r10098 /branches/miguelrojasch/reaction/s​rc/org/openscience/cdk/reaction/ty​pe/AdductionProtonPBReaction.java: added constraints which is possible for IBond.Order.TRIPLE order too
00:14 CIA-31 cdk: miguelrojasch * r10099 /branches/miguelrojasch/reaction/s​rc/org/openscience/cdk/reaction/ty​pe/AdductionProtonPBReaction.java: applied constraints for LonePair.
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07:55 CIA-31 cdk: miguelrojasch * r10100 /branches/miguelrojasch/removemfa/src/o​rg/openscience/cdk/test/reaction/type/ (6 files): spell correction
08:14 CIA-31 cdk: miguelrojasch * r10101 /branches/miguelrojasch/react​ion/src/org/openscience/cdk/ (18 files in 4 dirs): changed name reaction class of HydrogenRearrangement* to RadicalSiteHr*
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09:46 CIA-31 bioclipse: jonalv * r4885 /branches/bioclipse2/core/pl​ugins/net.bioclipse.logging/ (4 files in 3 dirs): Removed log4j from net.bioclipse.logging there is a (newer) version in the target platform. Using that instead.
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10:19 CIA-31 cdk: miguelrojasch * r10102 /branches/miguelrojasch/reaction/src​/org/openscience/cdk/reaction/type/ (4 files): added bond to be removed as REACTIVE_CENTER
10:46 jpansanel moin
10:52 CIA-31 cdk: miguelrojasch * r10103 /branches/miguelrojasch/react​ion/src/org/openscience/cdk/ (9 files in 3 dirs): new reactions for radical site rearrangement centered for R movements
11:08 CIA-31 cdk: miguelrojasch * r10104 /branches/miguelrojasch/reaction/src​/org/openscience/cdk/reaction/type/ (3 files): constraining about the charge total in adduction process.
11:10 CIA-31 cdk: miguelrojasch * r10105 /branches/miguelrojasch/reaction/s​rc/org/openscience/cdk/reaction/ty​pe/AdductionProtonPBReaction.java: constraining about the charge total in adduction process.
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12:08 CIA-31 cdk: egonw * r10106 /branches/miguelrojasch/reaction/s​rc/org/openscience/cdk/reaction/ty​pe/HomolyticCleavageReaction.java: Added some coding comments
12:09 CIA-31 cdk: egonw * r10107 /branches/miguelrojasch/react​ion/src/org/openscience/cdk/ (3 files in 3 dirs): Added three atom types: Na, H.radical and N.plus.sp3.radical
12:17 rojasm egonw: UNSET from CDKConstants?
12:17 egonw yes, aka NULL
12:18 egonw meetings
12:42 CIA-31 bioclipse: Annzi * r4886 /branches/bioclipse2/chemoinf​ormatics/net.bioclipse.moss/ (2 files in 2 dirs): removed net.bioclipse.cdk.ui dependency
13:29 CIA-31 cdk: miguelrojasch * r10108 /branches/miguelrojasch/reaction/src​/org/openscience/cdk/reaction/type/ (2 files): checking if the formalCharge is UNSET
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13:51 thomas_ku moin
14:02 CIA-31 cdk: miguelrojasch * r10109 /branches/miguelrojasch/react​ion/src/org/openscience/cdk/ (6 files in 2 dirs): checking if the formalCharge is UNSET, atoms with ACTIVE_CENTER.
14:36 CIA-31 cdk: miguelrojasch * r10110 /branches/miguelrojasch/reaction/src​/org/openscience/cdk/reaction/type/ (8 files): checking if the formalCharge is UNSET
14:40 CIA-31 cdk: miguelrojasch * r10111 /branches/miguelrojasch/reaction/src/o​rg/openscience/cdk/reaction/mechanism/ (RemovingSEofBMechanism.java RemovingSEofNBMechanism.java): Some spelling
14:52 CIA-31 cdk: miguelrojasch * r10112 /branches/miguelrojasch/reaction/src/org/openscien​ce/cdk/reaction/type/TautomerizationReaction.java: checking if the formalCharge is UNSET
14:53 CIA-31 cdk: miguelrojasch * r10113 /branches/miguelrojasch/reaction/src/org/openscien​ce/cdk/test/atomtype/ReactionStructuresTest.java: Test atomtype perception for R fragments which fails.
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15:39 MarkFiers egonw.. do you know http://www.xml-cml.org/ is down.. or is that a known feature?
15:42 egonw I think I heard Peter say something about that...
15:42 egonw that is, I think they are aware of it
15:43 MarkFiers ok...good, then.. but if I refer to it in biomoby objects, I'd like to know that it, at least most of the time, is a valid url
15:44 egonw good point...
15:44 egonw please ask Peter... as reply to his email on the metware list, for example...
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15:57 man-di joined #cdk
15:58 man-di hello all
15:58 man-di egonw: have you got my mail?
15:59 egonw yeah, I have
15:59 egonw of last weekend right?
15:59 egonw or a new one?
16:00 egonw will look at that shortly...
16:00 egonw e.g. will checking for other jars names...
16:00 egonw but not sure yet when...
16:00 egonw is there any of that blocking .deb building?
16:03 man-di yes, last weekend
16:03 man-di no
16:03 man-di not that
16:04 man-di there is some other issue, but I havent sorted that out yet
16:04 man-di will mail you when I have
16:04 egonw btw, feel free the post issues in the bug track system
16:05 egonw wanted to do that for the email you sent last weekend, but haven't found time for that yet...
16:05 man-di egonw: another bug tracker...
16:05 man-di egonw: I track already too many of them...
16:06 egonw :)
16:06 man-di would be great if you could do that
16:06 egonw yeah, that idea of LaunchPad to link things is not bad...
16:06 egonw have not tried it...
16:06 egonw but autoreporting or autoforwarding upstream would be great
16:06 egonw will do
16:07 * man-di thinks launchpad is awfull
16:08 egonw I've only really tried the blueprint system...
16:08 egonw and I really like that...
16:09 egonw community tracking of development process
16:09 egonw SF does not have something similar...
16:09 egonw you're not the only one that hates it...
16:09 egonw what bits do you hate about it (that I missed) ?
16:10 man-di the user interface
16:10 CIA-31 jmol: hansonr * r8994 /trunk/Jmol/src/org/jmol/ (4 files in 2 dirs): version=11.5.7_dev # new feature: explicit "SELECT NONE" must be given for label defaults to be set
16:14 egonw ah.. ok, fair
16:14 egonw I'm not easily annoyed by interfaces...
16:14 egonw otherwise I would have hated SF/Alioth too
16:17 man-di egonw: I have used launchpad for a while to work on debian/ubuntu java packages
16:18 * man-di still likes command like tools and mail interfaces more, all is scriptable then.
16:18 egonw :)
16:18 egonw yeah, not sure how well LP deals with things like #closes in ChangeLogs
16:19 egonw or similar things in commits, as used by KDE
16:19 man-di LP has "LP: #XXXXXX"
16:19 man-di similar to Debian BTS
16:19 CIA-31 cdk: miguelrojasch * r10114 /branches/miguelrojasch/react​ion/src/org/openscience/cdk/ (14 files in 3 dirs): Changed the name of Rearrangement*2Reaction to Rearrangement*Reaction. Check if the formal charge is UNSET
16:19 man-di but all their rules around it are suspect to me
16:20 egonw what rules?
16:21 man-di when to set bug status and which one
16:21 man-di Ubuntu is too full of rules
16:22 egonw ah, ic...
16:22 egonw not been at that level yet
16:22 egonw only reported bugs...
16:22 egonw we don't plan to use it for the CDK... maybe for CDK packaging?
16:22 egonw but since you don't like it, I guess not :)
16:24 CIA-31 jmol: hansonr * r8995 /trunk/Jmol/src/org/jmol/ (shape/Labels.java viewer/Jmol.properties): 11.5.7 VERSION
16:24 CIA-31 jmol: hansonr * r8996 /branches/v11_4/Jmol/src/org/jmol/ (4 files in 2 dirs):
16:24 CIA-31 jmol: 11.4.RC5 VERSION
16:24 CIA-31 jmol: # bug fix: explicit "SELECT NONE" must be given for label defaults to be set
16:26 man-di egonw: for packaging you can either use debian bts or my personal email address
16:26 CIA-31 jmol: hansonr * r8997 /branches/v11_4/Jmol/src/o​rg/jmol/shape/Labels.java:
16:26 CIA-31 jmol: 11.4.RC5 version
16:26 CIA-31 jmol: # bug fix: explicit "SELECT NONE" must be given for label defaults to be set
16:28 egonw ack
16:32 man-di egonw: I like the non-formal way for this as its normally more productive and faster
16:33 egonw absolutely...
16:33 egonw the formal way just make me remember :)
16:33 egonw make sure I don't forget about it, that is...
16:34 man-di I will ping you when I think I should
16:34 egonw please do :)
16:35 man-di going home now
16:35 man-di cu later
16:36 egonw bye
16:37 CIA-31 bioclipse: Annzi * r4887 /branches/bioclipse2/chemoinf​ormatics/net.bioclipse.moss/ (9 files in 3 dirs):
16:37 CIA-31 bioclipse: Modification in parameter settings and mining is done
16:37 CIA-31 bioclipse: when hitting the finish button
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17:00 man-di back
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18:56 CIA-31 jmol: nicove * r8998 /trunk/Jmol/src/org/jmol/viewer/Jmol.properties: Version
19:02 CIA-31 jmol: nicove * r8999 /branches/v11_4/Jmol/src/org/​jmol/viewer/Jmol.properties: Version
19:32 man-di hmmm
19:33 man-di in cdk optional parts seem not to be optional
19:46 man-di can someone tell me where I can get org.xmcml.* upstream from?
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