Perl 6 - the future is here, just unevenly distributed

IRC log for #bioclipse, 2015-05-28

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All times shown according to UTC.

Time Nick Message
05:27 sneumann joined #bioclipse
07:30 zaetnick joined #bioclipse
07:56 Gpox joined #bioclipse
08:33 jonalv joined #bioclipse
09:13 Gpox joined #bioclipse
12:41 zaetnick joined #bioclipse
13:09 egonw joined #bioclipse
13:10 commitbot joined #bioclipse
13:10 commitbot [bioclipse.rdf] egonw pushed 1 new commit to develop: http://git.io/vknqr
13:10 commitbot bioclipse.rdf/develop da64472 Egon Willighagen: Bumped all versions to 2.6.2
13:10 commitbot left #bioclipse
13:16 egonw Gpox: ping...
13:16 Gpox egonw: pong
13:16 egonw is is possible that the Bioclipse 2.6.2 nightly build insists on version 2.6.1 of the RDF feature?
13:16 egonw how/where can I check that?
13:19 Gpox in the feature and budle directories
13:21 egonw and in the bioclipse.core repos?
13:24 egonw (the problem we face here is causing a dependency on net.bioclipse.rdf 2.6.1
13:24 egonw (.2013something)
13:25 egonw I am trying to debug where that is coming from...
13:25 egonw because, as usual, the error message doesn't help much :/
13:28 jonalv joined #bioclipse
13:29 commitbot joined #bioclipse
13:29 commitbot [bioclipse.rdf] egonw pushed 1 new commit to develop: https://github.com/bioclipse/bioclipse.rdf/commit/6164486dfd5fb2f4218a69aa3125987abc255fba
13:29 commitbot bioclipse.rdf/develop 6164486 Egon Willighagen: Removed (far outdates) version deps for Apache Jena
13:29 commitbot left #bioclipse
13:29 egonw Gpox: I pushed two commits about wrong versioning...
13:29 egonw those could have caused the installation of RDF-based features (LDF, OWLAPI)
13:30 egonw so, may not be Bioclipse from nightly download site at all
13:40 Gpox I am not sure how it picks that version
13:41 Gpox make sure to disable http://update.bioclipse.net in updatesites and it should not be found I think
13:50 egonw well, but then we could not install the feature at all :)
13:53 egonw btw, this is the exception we get:
13:53 egonw An error occurred while collecting items to be installed
13:53 egonw session context was:(profile=Bioclipse, phase=org.eclipse.equinox.internal.p2.engine.phases.Collect, operand=, action=).
13:53 egonw No repository found containing: osgi.bundle,net.bioclipse.align.kalign.ws,2.6.1.v201308300839
13:53 egonw No repository found containing: osgi.bundle,net.bioclipse.bioinformatics,2.6.1.v201308071352
13:53 egonw No repository found containing: org.eclipse.update.feature,net.bioclipse.bioinformatics_feature,2.6.1.v201308300839
13:53 egonw No repository found containing: osgi.bundle,net.bioclipse.biojava,2.6.1.v201308071352
13:53 egonw No repository found containing: osgi.bundle,net.bioclipse.biojava.business,2.6.1.v201308071352
13:53 egonw No repository found containing: osgi.bundle,net.bioclipse.biojava.ui,2.6.1.v201308071352
13:53 egonw No repository found containing: osgi.bundle,net.bioclipse.biows,2.6.1.v201308071352
13:53 egonw No repository found containing: osgi.bundle,org.eclipse.core.runtime.compatibility.auth,3.2.300.v20120523-2004
13:53 egonw which is different from before...
13:54 egonw no longer a complaint about bioclipse.rdf 2.6.1 !!!
13:54 egonw :)
13:54 egonw ok, next up: where does this dependency for the Bioinformatics feature come from...
13:54 egonw so, I reckon the problem was that some of the RDF plugins depended on too old Apache Jena plugins...
13:55 egonw latest patch
13:55 egonw that was easier...
13:55 egonw that's my copy/pasting bad
13:55 egonw the LDF and OWLAPI features depend on the bioinformatics.rdf feature
13:55 egonw for no reason
13:56 egonw +1 for the Uppsala team for inventing Bioclipse
13:56 egonw not the easiest platform, but brilliant nevertheless
13:57 egonw Gpox++
13:57 commitbot joined #bioclipse
13:57 commitbot [bioclipse.rdf] egonw pushed 1 new commit to develop: http://git.io/vknuo
13:57 commitbot bioclipse.rdf/develop ae7af69 Egon Willighagen: Removed spurious dependencies
13:57 commitbot left #bioclipse
13:58 egonw for again being a listening ear
13:58 egonw a sparring partner is so important, to bounce your ideas against
13:58 egonw afk now
14:30 zaetnick joined #bioclipse
15:42 egonw Gpox: confirmed: the problem is fixed now
15:43 Gpox egonw: good
15:45 egonw are you OK if I push update to bioclipse.rdf directly, or should I (re)continue using pull requests?
15:53 Gpox yes, that is ok
17:55 zaetnick joined #bioclipse

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