bio2rdf-svncommits Mailing List for bio2rdf (Page 33)
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From: <p_a...@us...> - 2008-12-12 01:55:21
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Revision: 192
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=192&view=rev
Author: p_ansell
Date: 2008-12-12 01:55:17 +0000 (Fri, 12 Dec 2008)
Log Message:
-----------
bump version and fix minor issue with providerconfigurations being converted to rdf
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/src/org/bio2rdf/ProviderConfiguration.java
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
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From: <p_a...@us...> - 2008-12-12 00:22:07
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Revision: 191
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=191&view=rev
Author: p_ansell
Date: 2008-12-12 00:21:58 +0000 (Fri, 12 Dec 2008)
Log Message:
-----------
tag 0.3_beta1 release
Added Paths:
-----------
tags/0.3_beta1/
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From: <p_a...@us...> - 2008-12-12 00:19:58
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Revision: 190
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=190&view=rev
Author: p_ansell
Date: 2008-12-12 00:19:54 +0000 (Fri, 12 Dec 2008)
Log Message:
-----------
move uri's in rdf rule class to static part and minor fix to properties file
Modified Paths:
--------------
trunk/src/war/WEB-INF/src/org/bio2rdf/RdfNormalisationRule.java
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
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From: <p_a...@us...> - 2008-12-11 23:22:09
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Revision: 189
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=189&view=rev
Author: p_ansell
Date: 2008-12-11 22:05:44 +0000 (Thu, 11 Dec 2008)
Log Message:
-----------
add in rdf output of custom queries and rdf rules
Modified Paths:
--------------
trunk/src/war/WEB-INF/src/org/bio2rdf/CustomQuery.java
trunk/src/war/WEB-INF/src/org/bio2rdf/RdfNormalisationRule.java
trunk/src/war/WEB-INF/src/org/bio2rdf/Settings.java
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
trunk/src/war/debug-configuration.jsp
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From: <p_a...@us...> - 2008-12-11 06:05:13
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Revision: 188
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=188&view=rev
Author: p_ansell
Date: 2008-12-11 06:05:10 +0000 (Thu, 11 Dec 2008)
Log Message:
-----------
add in method for avoiding continuous request circles by interdependent mirrors which will appear in the near future
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/src/log4j.properties
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/bio2rdf.properties
trunk/src/war/WEB-INF/urlrewrite.xml
trunk/src/war/atlas2rdf.jsp
trunk/src/war/jsp-bio2rdf/namespacecounts.jsp
trunk/src/war/mquter-index.html
trunk/src/war/quebec-index.html
trunk/src/war/robots.txt
trunk/src/war/sitemap.xml
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From: <p_a...@us...> - 2008-12-10 00:06:06
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Revision: 187
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=187&view=rev
Author: p_ansell
Date: 2008-12-10 00:06:01 +0000 (Wed, 10 Dec 2008)
Log Message:
-----------
add in rewrite rules for the configuration URI's
Modified Paths:
--------------
trunk/src/war/WEB-INF/urlrewrite.xml
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From: <p_a...@us...> - 2008-12-09 22:57:20
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Revision: 186
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=186&view=rev
Author: p_ansell
Date: 2008-12-09 22:57:16 +0000 (Tue, 09 Dec 2008)
Log Message:
-----------
add a few sample neurocommons links for geneid, go, mesh and pubmed
Modified Paths:
--------------
trunk/src/war/WEB-INF/src/log4j.properties
trunk/src/war/WEB-INF/src/org/bio2rdf/RdfFetcher.java
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
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From: <p_a...@us...> - 2008-12-09 02:55:31
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Revision: 185
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=185&view=rev
Author: p_ansell
Date: 2008-12-09 02:55:21 +0000 (Tue, 09 Dec 2008)
Log Message:
-----------
add in configurable timeout so that there aren't unnecessary timeouts for the public proxies at bio2rdf.mquter.qut.edu.au and quebec.bio2rdf.org as they will be guaranteed to respond before the local installation timeout occurs
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
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From: <p_a...@us...> - 2008-12-09 02:27:37
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Revision: 184
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=184&view=rev
Author: p_ansell
Date: 2008-12-09 02:27:32 +0000 (Tue, 09 Dec 2008)
Log Message:
-----------
hide the quebec sparql endpoints behind the quebec.bio2rdf.org front in preparation for distributing the package simultaneously and using it on that host
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
trunk/src/war/includes-images/title2.jpg
Added Paths:
-----------
trunk/src/war/quebec-index.html
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From: <p_a...@us...> - 2008-12-02 05:35:01
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Revision: 183
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=183&view=rev
Author: p_ansell
Date: 2008-12-02 05:34:52 +0000 (Tue, 02 Dec 2008)
Log Message:
-----------
add fix for golabels that will work with virtuoso 5.0.9 without the optionals patch
Modified Paths:
--------------
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
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From: <p_a...@us...> - 2008-12-02 04:27:07
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Revision: 182
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=182&view=rev
Author: p_ansell
Date: 2008-12-02 04:27:02 +0000 (Tue, 02 Dec 2008)
Log Message:
-----------
add another property for xmlEncoded_inputUrlEncoded_* properties so that the raw RDF/XML strings can contain proper URI's that are still xml escaped
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/src/log4j.properties
trunk/src/war/WEB-INF/src/org/bio2rdf/RdfFetchController.java
trunk/src/war/WEB-INF/src/org/bio2rdf/SparqlQueryCreator.java
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
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From: <p_a...@us...> - 2008-12-01 21:24:43
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Revision: 181
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=181&view=rev
Author: p_ansell
Date: 2008-12-01 21:24:38 +0000 (Mon, 01 Dec 2008)
Log Message:
-----------
add more cases that might occur
Modified Paths:
--------------
trunk/src/util/perl/cleanupdata.pl
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From: <p_a...@us...> - 2008-12-01 21:14:45
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Revision: 180
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=180&view=rev
Author: p_ansell
Date: 2008-12-01 21:14:41 +0000 (Mon, 01 Dec 2008)
Log Message:
-----------
update cleanup script
Modified Paths:
--------------
trunk/src/util/perl/cleanupdata.pl
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From: <p_a...@us...> - 2008-11-27 02:23:31
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Revision: 179
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=179&view=rev
Author: p_ansell
Date: 2008-11-27 02:23:26 +0000 (Thu, 27 Nov 2008)
Log Message:
-----------
fix countlinksns regex and lower logging levels and fix settings.toString(RepositoryConnection) so it uses the non-broken sesame rdf/xml writer
Modified Paths:
--------------
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/bio2rdf.properties
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From: <p_a...@us...> - 2008-11-26 03:08:16
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Revision: 178
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=178&view=rev
Author: p_ansell
Date: 2008-11-26 03:08:11 +0000 (Wed, 26 Nov 2008)
Log Message:
-----------
remove old protege project file
Removed Paths:
-------------
trunk/src/war/bio2rdf.pprj
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From: <p_a...@us...> - 2008-11-26 03:07:48
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Revision: 177
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=177&view=rev
Author: p_ansell
Date: 2008-11-26 03:07:23 +0000 (Wed, 26 Nov 2008)
Log Message:
-----------
fix biopatml issue date
Modified Paths:
--------------
trunk/src/war/biopatml.owl
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From: <p_a...@us...> - 2008-11-26 02:42:34
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Revision: 176
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=176&view=rev
Author: p_ansell
Date: 2008-11-26 02:42:26 +0000 (Wed, 26 Nov 2008)
Log Message:
-----------
fix prosite-biopatml rdf:type value and add in the bug number for the sesame bug
Modified Paths:
--------------
trunk/src/util/perl/prosite-biopatml2rdf.pl
trunk/src/war/error-sesame-output.jsp
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From: <p_a...@us...> - 2008-11-26 02:41:00
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Revision: 175
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=175&view=rev
Author: p_ansell
Date: 2008-11-26 02:40:51 +0000 (Wed, 26 Nov 2008)
Log Message:
-----------
add biopatml and terms ontologies
Added Paths:
-----------
trunk/src/war/biopatml.owl
trunk/src/war/terms.owl
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From: <p_a...@us...> - 2008-11-25 21:17:35
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Revision: 174
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=174&view=rev
Author: p_ansell
Date: 2008-11-25 21:17:32 +0000 (Tue, 25 Nov 2008)
Log Message:
-----------
properly implement test page
Modified Paths:
--------------
trunk/src/war/error-sesame-output.jsp
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From: <p_a...@us...> - 2008-11-25 21:05:27
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Revision: 173
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=173&view=rev
Author: p_ansell
Date: 2008-11-25 21:05:19 +0000 (Tue, 25 Nov 2008)
Log Message:
-----------
avoid broken sesame pretty printer for rdf/xml
Modified Paths:
--------------
trunk/src/war/WEB-INF/urlrewrite.xml
trunk/src/war/atlas2rdf.jsp
Added Paths:
-----------
trunk/src/war/error-sesame-output.jsp
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From: <p_a...@us...> - 2008-11-25 09:33:23
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Revision: 172
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=172&view=rev
Author: p_ansell
Date: 2008-11-25 09:33:19 +0000 (Tue, 25 Nov 2008)
Log Message:
-----------
make provider configurations output to rdf
Modified Paths:
--------------
trunk/src/war/WEB-INF/src/org/bio2rdf/ProviderConfiguration.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/bio2rdf.properties
trunk/src/war/WEB-INF/urlrewrite.xml
trunk/src/war/atlas2rdf.jsp
trunk/src/war/debug-configuration.jsp
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From: <p_a...@us...> - 2008-11-25 02:21:18
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Revision: 171
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=171&view=rev
Author: p_ansell
Date: 2008-11-25 02:21:16 +0000 (Tue, 25 Nov 2008)
Log Message:
-----------
backport the ontology template additions
Modified Paths:
--------------
branches/0.2/src/util/perl/cleanupdata.pl
branches/0.2/src/war/WEB-INF/src/log4j.properties
branches/0.2/src/war/WEB-INF/src/org/bio2rdf/Settings.java
branches/0.2/src/war/WEB-INF/src/org/bio2rdf/SparqlQueryCreator.java
branches/0.2/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
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From: <p_a...@us...> - 2008-11-25 02:18:50
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Revision: 170
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=170&view=rev
Author: p_ansell
Date: 2008-11-25 02:18:49 +0000 (Tue, 25 Nov 2008)
Log Message:
-----------
changes to support the use of different protocols other than sparql to use for getting data, and commit unworking jsp script for sindice search
Modified Paths:
--------------
trunk/src/util/perl/cleanupdata.pl
trunk/src/war/WEB-INF/src/log4j.properties
trunk/src/war/WEB-INF/src/org/bio2rdf/BlacklistController.java
trunk/src/war/WEB-INF/src/org/bio2rdf/RdfFetcherSparqlQueryRunnable.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/bio2rdf.properties
trunk/src/war/atlas2rdf.jsp
trunk/src/war/bio2rdf.owl
trunk/src/war/jsp-bio2rdf/namespacecounts.jsp
trunk/src/war/jsp-bio2rdf/swoogle-search2rdf.jsp
trunk/src/war/redirectToId.jsp
Added Paths:
-----------
trunk/src/war/WEB-INF/src/org/bio2rdf/RdfFetchController.java
trunk/src/war/WEB-INF/src/org/bio2rdf/RdfFetcherQueryRunnable.java
trunk/src/war/WEB-INF/src/org/bio2rdf/RdfFetcherUriQueryRunnable.java
trunk/src/war/jsp-bio2rdf/sindice-search2rdf.jsp
Removed Paths:
-------------
trunk/src/war/WEB-INF/src/org/bio2rdf/SparqlRdfFetchController.java
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From: <p_a...@us...> - 2008-11-23 08:29:46
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Revision: 169
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=169&view=rev
Author: p_ansell
Date: 2008-11-23 08:29:36 +0000 (Sun, 23 Nov 2008)
Log Message:
-----------
make atlas2rdf.jsp put statements into a temporary sesame repository then spit them back out again for one of the 0.3 milestones
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/SparqlQueryCreator.java
trunk/src/war/WEB-INF/src/org/bio2rdf/SparqlRdfFetchController.java
trunk/src/war/atlas2rdf.jsp
Added Paths:
-----------
trunk/src/war/WEB-INF/lib/log4j-1.2.15.jar
trunk/src/war/WEB-INF/lib/openrdf-sesame-2.2.1-onejar.jar
trunk/src/war/WEB-INF/lib/slf4j-api-1.5.6.jar
trunk/src/war/WEB-INF/lib/slf4j-log4j12-1.5.6.jar
Removed Paths:
-------------
trunk/src/war/WEB-INF/lib/log4j-1.2.9.jar
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From: <p_a...@us...> - 2008-11-23 06:37:42
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Revision: 168
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=168&view=rev
Author: p_ansell
Date: 2008-11-23 06:37:32 +0000 (Sun, 23 Nov 2008)
Log Message:
-----------
branch out version 0.2 before starting to work on 0.3 using sesame for internally handling RDF instead of doing everything with strings
Added Paths:
-----------
branches/0.2/
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