Thread: [Bio2rdf-svncommits] SF.net SVN: bio2rdf:[657] trunk (Page 3)
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From: <p_a...@us...> - 2009-08-03 23:39:26
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Revision: 657
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=657&view=rev
Author: p_ansell
Date: 2009-08-03 23:39:18 +0000 (Mon, 03 Aug 2009)
Log Message:
-----------
bump to 0.7.0 release
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/src/org/bio2rdf/HtmlPageRenderer.java
trunk/src/war/WEB-INF/templates/proptable.vm
trunk/src/war/debug-configuration.jsp
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From: <p_a...@us...> - 2009-08-10 01:18:16
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Revision: 666
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=666&view=rev
Author: p_ansell
Date: 2009-08-10 01:18:05 +0000 (Mon, 10 Aug 2009)
Log Message:
-----------
update statistics functionality so that we can distinguish between software versions used to submit statistics, and centralise creation of SimpleDateFormat objects... would use a final static but SimpleDateFormat isn't threadsafe!
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/src/org/bio2rdf/StatisticsEntry.java
trunk/src/war/WEB-INF/src/org/bio2rdf/Utilities.java
trunk/src/war/atlas2rdf.jsp
trunk/src/war/errorstats.jsp
trunk/src/war/serverstats.jsp
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From: <p_a...@us...> - 2009-08-12 04:51:06
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Revision: 672
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=672&view=rev
Author: p_ansell
Date: 2009-08-12 04:51:00 +0000 (Wed, 12 Aug 2009)
Log Message:
-----------
bump version for release and update serverstats page and configuration and reduce the logging levels to decent values
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/src/log4j.properties
trunk/src/war/WEB-INF/src/org/bio2rdf/BlacklistController.java
trunk/src/war/debug-configuration.jsp
trunk/src/war/serverstats.jsp
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From: <p_a...@us...> - 2009-08-12 07:33:04
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Revision: 676
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=676&view=rev
Author: p_ansell
Date: 2009-08-12 07:32:58 +0000 (Wed, 12 Aug 2009)
Log Message:
-----------
fix issue with pageoffset not being applied correctly to endpoint URL's
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/src/org/bio2rdf/SparqlQueryCreator.java
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From: <p_a...@us...> - 2009-08-12 23:47:17
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Revision: 678
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=678&view=rev
Author: p_ansell
Date: 2009-08-12 23:47:06 +0000 (Wed, 12 Aug 2009)
Log Message:
-----------
add statistics schema information
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/src/org/bio2rdf/StatisticsEntry.java
trunk/src/war/WEB-INF/urlrewrite.xml
trunk/src/war/internalschema.jsp
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From: <p_a...@us...> - 2009-08-15 08:49:57
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Revision: 682
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=682&view=rev
Author: p_ansell
Date: 2009-08-15 08:49:38 +0000 (Sat, 15 Aug 2009)
Log Message:
-----------
large changes aimed at making the templating system extensible with direct integration into the native functions in specified ways
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/base-bio2rdf-profiles-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-providers-config.n3
trunk/src/war/WEB-INF/src/log4j.properties
trunk/src/war/WEB-INF/src/org/bio2rdf/CustomQuery.java
trunk/src/war/WEB-INF/src/org/bio2rdf/RdfFetchController.java
trunk/src/war/WEB-INF/src/org/bio2rdf/Settings.java
trunk/src/war/WEB-INF/src/org/bio2rdf/SparqlQueryCreator.java
trunk/src/war/WEB-INF/src/org/bio2rdf/Utilities.java
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
trunk/src/war/WEB-INF/templates/page.vm
trunk/src/war/atlas2rdf.jsp
Added Paths:
-----------
trunk/src/war/WEB-INF/src/org/bio2rdf/Template.java
trunk/src/war/test-template-use.jsp
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From: <p_a...@us...> - 2009-09-04 03:07:59
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Revision: 699
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=699&view=rev
Author: p_ansell
Date: 2009-09-04 03:07:49 +0000 (Fri, 04 Sep 2009)
Log Message:
-----------
add support for hardcoded hostname and contextpath so that users can use reverse proxies with both the default ROOT webapp and other webapps, non-reverse proxies are not affected by this change
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/src/org/bio2rdf/HtmlPageRenderer.java
trunk/src/war/WEB-INF/src/org/bio2rdf/Settings.java
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
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From: <p_a...@us...> - 2009-09-05 08:28:50
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Revision: 704
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=704&view=rev
Author: p_ansell
Date: 2009-09-05 08:28:44 +0000 (Sat, 05 Sep 2009)
Log Message:
-----------
add nmrshiftdb providers and queries and namespaces and rdfrules
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/base-bio2rdf-namespaceentries-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-providers-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-queries-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-rdfrules-config.n3
trunk/src/war/WEB-INF/src/org/bio2rdf/SparqlQueryCreator.java
trunk/src/war/WEB-INF/src/org/bio2rdf/Utilities.java
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
trunk/src/war/WEB-INF/templates/page.vm
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From: <p_a...@us...> - 2009-09-07 00:34:32
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Revision: 712
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=712&view=rev
Author: p_ansell
Date: 2009-09-07 00:34:14 +0000 (Mon, 07 Sep 2009)
Log Message:
-----------
fix the implicit include system so that it doesn't implicitly include resources that are excluded by default. anything excluded by default must be explicitly included before it will be utilised now
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/src/log4j.properties
trunk/src/war/WEB-INF/src/org/bio2rdf/Settings.java
trunk/src/war/WEB-INF/src/org/bio2rdf/Utilities.java
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
trunk/src/war/WEB-INF/test-configuration.n3
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From: <p_a...@us...> - 2009-09-07 01:24:27
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Revision: 713
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=713&view=rev
Author: p_ansell
Date: 2009-09-07 01:24:17 +0000 (Mon, 07 Sep 2009)
Log Message:
-----------
add the use all endpoints for provider into the build.xml file so people know it is something they have to decide about
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/src/log4j.properties
trunk/src/war/WEB-INF/src/org/bio2rdf/CustomQuery.java
trunk/src/war/WEB-INF/src/org/bio2rdf/Settings.java
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
trunk/src/war/secured/configurationeditor/create_new.jsp
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From: <p_a...@us...> - 2009-09-13 00:26:48
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Revision: 723
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=723&view=rev
Author: p_ansell
Date: 2009-09-13 00:26:43 +0000 (Sun, 13 Sep 2009)
Log Message:
-----------
add sharednames config as sample use of software to create a non-Bio2RDF resolver
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/carleton-configuration.n3
trunk/src/war/WEB-INF/src/log4j.properties
Added Paths:
-----------
trunk/src/war/WEB-INF/sharednames-configuration.n3
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From: <p_a...@us...> - 2009-09-13 00:41:22
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Revision: 724
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=724&view=rev
Author: p_ansell
Date: 2009-09-13 00:41:14 +0000 (Sun, 13 Sep 2009)
Log Message:
-----------
move PROJECT_HOME_URL to build.xml file to allow replacement of it easily
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
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From: <p_a...@us...> - 2009-09-13 02:09:15
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Revision: 725
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=725&view=rev
Author: p_ansell
Date: 2009-09-13 02:09:06 +0000 (Sun, 13 Sep 2009)
Log Message:
-----------
change over configuration API from 1 to 2 as part of changing http://bio2rdf.org/ns/CONFIGNAMESPACE* to http://purl.org/queryall/CONFIGNAMESPACE*
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/base-bio2rdf-namespaceentries-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-profiles-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-providers-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-queries-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-rdfrules-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-ruletests-config.n3
trunk/src/war/WEB-INF/carleton-configuration.n3
trunk/src/war/WEB-INF/my-local-configuration-example.n3
trunk/src/war/WEB-INF/sharednames-configuration.n3
trunk/src/war/WEB-INF/src/log4j.properties
trunk/src/war/WEB-INF/src/org/bio2rdf/Settings.java
trunk/src/war/WEB-INF/src/org/bio2rdf/SparqlQueryCreator.java
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
trunk/src/war/WEB-INF/test-configuration.n3
trunk/src/war/WEB-INF/urlrewrite.xml
trunk/src/war/debug-configuration.jsp
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From: <p_a...@us...> - 2009-09-21 01:36:41
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Revision: 739
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=739&view=rev
Author: p_ansell
Date: 2009-09-21 01:36:27 +0000 (Mon, 21 Sep 2009)
Log Message:
-----------
add a basic ProvenanceRecord class for use with the editor, and add backup configuration support to avoid huge issues when a server that contains the most up to date configuration goes down. revert to using local files if possible in that case
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/src/org/bio2rdf/CustomQuery.java
trunk/src/war/WEB-INF/src/org/bio2rdf/RdfFetchController.java
trunk/src/war/WEB-INF/src/org/bio2rdf/Settings.java
trunk/src/war/WEB-INF/src/org/bio2rdf/StatisticsEntry.java
trunk/src/war/WEB-INF/src/org/bio2rdf/Utilities.java
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
trunk/src/war/atlas2rdf.jsp
trunk/src/war/secured/configurationeditor/create_new.jsp
Added Paths:
-----------
trunk/src/war/WEB-INF/src/org/bio2rdf/ProvenanceRecord.java
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From: <p_a...@us...> - 2009-10-25 22:00:47
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Revision: 756
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=756&view=rev
Author: p_ansell
Date: 2009-10-25 22:00:37 +0000 (Sun, 25 Oct 2009)
Log Message:
-----------
updates
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/base-bio2rdf-profiles-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-queries-config.n3
trunk/src/war/WEB-INF/carleton-configuration.n3
trunk/src/war/WEB-INF/src/log4j.properties
trunk/src/war/WEB-INF/src/org/bio2rdf/Utilities.java
trunk/src/war/WEB-INF/urlrewrite.xml
trunk/src/war/atlas2rdf.jsp
trunk/src/war/debug-configuration.jsp
trunk/src/war/internalschema.jsp
trunk/src/war/multifetch.jsp
trunk/src/war/serverstats.jsp
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From: <p_a...@us...> - 2009-10-26 00:48:47
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Revision: 757
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=757&view=rev
Author: p_ansell
Date: 2009-10-26 00:48:41 +0000 (Mon, 26 Oct 2009)
Log Message:
-----------
straighten out a few things, and add a new default profile for web users that selects between the public mirrors and doesn't perform SPARQL queries directly
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/base-bio2rdf-profiles-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-providers-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-queries-config.n3
trunk/src/war/WEB-INF/src/org/bio2rdf/CustomQuery.java
trunk/src/war/WEB-INF/src/org/bio2rdf/Settings.java
trunk/src/war/debug-configuration.jsp
trunk/src/war/namespaceproviders.jsp
trunk/src/war/profiles.jsp
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From: <p_a...@us...> - 2009-10-26 01:10:41
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Revision: 760
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=760&view=rev
Author: p_ansell
Date: 2009-10-26 01:10:26 +0000 (Mon, 26 Oct 2009)
Log Message:
-----------
lock the basic profile down a bit more so there is no ambiguity as to whether it uses other queries or providers, but it can still use as many rdfrules as are eventually defined for the matching providers
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/base-bio2rdf-profiles-config.n3
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From: <p_a...@us...> - 2009-10-29 01:50:56
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Revision: 771
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=771&view=rev
Author: p_ansell
Date: 2009-10-29 01:50:49 +0000 (Thu, 29 Oct 2009)
Log Message:
-----------
add medicare drugs provider
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/base-bio2rdf-namespaceentries-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-providers-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-queries-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-rdfrules-config.n3
trunk/src/war/WEB-INF/src/log4j.properties
trunk/src/war/WEB-INF/src/org/bio2rdf/CustomQuery.java
trunk/src/war/WEB-INF/src/org/bio2rdf/RdfFetchController.java
trunk/src/war/WEB-INF/src/org/bio2rdf/Settings.java
trunk/src/war/atlas2rdf.jsp
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From: <p_a...@us...> - 2009-11-03 00:51:48
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Revision: 773
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=773&view=rev
Author: p_ansell
Date: 2009-11-03 00:51:39 +0000 (Tue, 03 Nov 2009)
Log Message:
-----------
add another provider in for doi using the nmrshiftdb endpoint, and add in support for the nmrshiftdb_peak namespace
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/base-bio2rdf-namespaceentries-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-providers-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-queries-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-rdfrules-config.n3
trunk/src/war/WEB-INF/src/log4j.properties
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
trunk/src/war/WEB-INF/web-production-template.xml
trunk/src/war/manualrefresh.jsp
Added Paths:
-----------
trunk/src/war/META-INF/context.xml
trunk/src/war/WEB-INF/test-simplest-configuration.n3
trunk/src/war/WEB-INF/web-production-template-qutesoe.xml
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From: <p_a...@us...> - 2009-11-18 04:19:42
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Revision: 785
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=785&view=rev
Author: p_ansell
Date: 2009-11-18 04:19:35 +0000 (Wed, 18 Nov 2009)
Log Message:
-----------
add nextbio to the list of uniprot HTML redirect providers
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/base-bio2rdf-profiles-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-providers-config.n3
trunk/src/war/WEB-INF/src/log4j.properties
trunk/src/war/WEB-INF/src/org/bio2rdf/Settings.java
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From: <p_a...@us...> - 2009-11-18 20:32:41
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Revision: 786
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=786&view=rev
Author: p_ansell
Date: 2009-11-18 20:32:28 +0000 (Wed, 18 Nov 2009)
Log Message:
-----------
configuration changes to cleanup the profile system
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/base-bio2rdf-profiles-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-providers-config.n3
trunk/src/war/namespaceproviders.jsp
trunk/src/war/profiles.jsp
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From: <p_a...@us...> - 2009-11-19 01:19:47
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Revision: 790
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=790&view=rev
Author: p_ansell
Date: 2009-11-19 01:19:39 +0000 (Thu, 19 Nov 2009)
Log Message:
-----------
more updates... autogeneration of include stub providers and queries working
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/base-bio2rdf-providers-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-queries-config.n3
trunk/src/war/WEB-INF/src/org/bio2rdf/Settings.java
trunk/src/war/WEB-INF/src/org/bio2rdf/SparqlQueryCreator.java
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
trunk/src/war/namespaceproviders.jsp
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From: <p_a...@us...> - 2009-11-20 00:40:43
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Revision: 794
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=794&view=rev
Author: p_ansell
Date: 2009-11-20 00:40:34 +0000 (Fri, 20 Nov 2009)
Log Message:
-----------
add ensembl license provider, and include new configuration files into the build.xml file
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/base-bio2rdf-providers-licenses-config.n3
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From: <p_a...@us...> - 2009-11-24 22:33:40
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Revision: 796
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=796&view=rev
Author: p_ansell
Date: 2009-11-24 22:33:31 +0000 (Tue, 24 Nov 2009)
Log Message:
-----------
update some work from yesterday related to a special mashup
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/base-bio2rdf-providers-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-providers-licenses-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-queries-config.n3
trunk/src/war/WEB-INF/src/log4j.properties
trunk/src/war/WEB-INF/src/org/bio2rdf/RdfFetcherQueryRunnable.java
trunk/src/war/WEB-INF/src/org/bio2rdf/Utilities.java
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
trunk/src/war/WEB-INF/urlrewrite.xml
trunk/src/war/atlas2rdf.jsp
trunk/src/war/blacklisterror.jsp
trunk/src/war/multifetch.jsp
trunk/src/war/robots.txt
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From: <p_a...@us...> - 2009-12-09 22:28:42
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Revision: 813
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=813&view=rev
Author: p_ansell
Date: 2009-12-09 22:28:35 +0000 (Wed, 09 Dec 2009)
Log Message:
-----------
_ontology to _resource
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/autogenerated-bio2rdf-query-insert-providers-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-providers-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-queries-config.n3
trunk/src/war/WEB-INF/base-bio2rdf-rdfrules-config.n3
trunk/src/war/WEB-INF/src/log4j.properties
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
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