bio2rdf-svncommits Mailing List for bio2rdf (Page 32)
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From: <p_a...@us...> - 2009-03-18 01:13:10
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Revision: 217
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=217&view=rev
Author: p_ansell
Date: 2009-03-18 01:13:07 +0000 (Wed, 18 Mar 2009)
Log Message:
-----------
update commons-lang
Added Paths:
-----------
trunk/src/war/WEB-INF/lib/commons-lang-2.4.jar
Removed Paths:
-------------
trunk/src/war/WEB-INF/lib/commons-lang-2.0.jar
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From: <p_a...@us...> - 2009-03-18 01:05:56
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Revision: 216
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=216&view=rev
Author: p_ansell
Date: 2009-03-18 01:05:40 +0000 (Wed, 18 Mar 2009)
Log Message:
-----------
update sesame
Added Paths:
-----------
trunk/src/war/WEB-INF/lib/openrdf-sesame-2.2.4-onejar.jar
Removed Paths:
-------------
trunk/src/war/WEB-INF/lib/openrdf-sesame-2.2.1-onejar.jar
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From: <p_a...@us...> - 2009-03-16 06:12:10
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Revision: 215
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=215&view=rev
Author: p_ansell
Date: 2009-03-16 06:12:00 +0000 (Mon, 16 Mar 2009)
Log Message:
-----------
add some other rdfisers and modify properties file
Modified Paths:
--------------
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
Added Paths:
-----------
trunk/src/util/perl/go2n3.pl
trunk/src/util/perl/mysql2n3.pl
trunk/src/util/shell/go-wget.sh
trunk/src/util/shell/go2mysql.sh
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From: <p_a...@us...> - 2009-03-16 06:10:55
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Revision: 214
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=214&view=rev
Author: p_ansell
Date: 2009-03-16 06:10:42 +0000 (Mon, 16 Mar 2009)
Log Message:
-----------
fix transunits rdfiser
Modified Paths:
--------------
trunk/src/util/python/ecocyc-transunits2rdf.py
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From: <p_a...@us...> - 2009-03-16 06:06:10
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Revision: 213
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=213&view=rev
Author: p_ansell
Date: 2009-03-16 06:06:02 +0000 (Mon, 16 Mar 2009)
Log Message:
-----------
add new ecocyc rdfisers
Modified Paths:
--------------
trunk/src/util/python/ecocyc-load-commands.txt
Added Paths:
-----------
trunk/src/util/python/ecocyc-genes2rdf.py
trunk/src/util/python/ecocyc-pathways2rdf.py
trunk/src/util/python/ecocyc-proteinfeatures2rdf.py
trunk/src/util/python/ecocyc-proteins2rdf.py
trunk/src/util/python/ecocyc-transunits2rdf.py
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From: <p_a...@us...> - 2009-03-13 09:18:10
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Revision: 212
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=212&view=rev
Author: p_ansell
Date: 2009-03-13 09:18:09 +0000 (Fri, 13 Mar 2009)
Log Message:
-----------
minor updates for usability
Modified Paths:
--------------
trunk/src/war/WEB-INF/src/log4j.properties
trunk/src/war/errorstats.jsp
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From: <p_a...@us...> - 2009-03-13 09:08:10
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Revision: 211
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=211&view=rev
Author: p_ansell
Date: 2009-03-13 09:07:57 +0000 (Fri, 13 Mar 2009)
Log Message:
-----------
add statistics gathering capabilities
Modified Paths:
--------------
trunk/src/war/WEB-INF/src/org/bio2rdf/BlacklistController.java
trunk/src/war/WEB-INF/src/org/bio2rdf/RdfFetcherQueryRunnable.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/bio2rdfpipes.jsp
Added Paths:
-----------
trunk/src/war/WEB-INF/src/org/bio2rdf/BlacklistEntry.java
trunk/src/war/WEB-INF/src/org/bio2rdf/QueryDebug.java
trunk/src/war/errorstats.jsp
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From: <p_a...@us...> - 2009-03-10 06:01:23
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Revision: 210
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=210&view=rev
Author: p_ansell
Date: 2009-03-10 06:01:01 +0000 (Tue, 10 Mar 2009)
Log Message:
-----------
add pdb data query provider
Modified Paths:
--------------
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
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From: <p_a...@us...> - 2009-03-10 04:55:16
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Revision: 209
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=209&view=rev
Author: p_ansell
Date: 2009-03-10 04:54:50 +0000 (Tue, 10 Mar 2009)
Log Message:
-----------
adjust the pipes list and fix html providers configuration for uniprot
Modified Paths:
--------------
trunk/src/war/WEB-INF/src/constructbio2rdf.pipe
trunk/src/war/WEB-INF/src/log4j.properties
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
trunk/src/war/WEB-INF/src/pipes.list
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From: <p_a...@us...> - 2009-03-10 04:35:34
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Revision: 208
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=208&view=rev
Author: p_ansell
Date: 2009-03-10 04:35:25 +0000 (Tue, 10 Mar 2009)
Log Message:
-----------
add working introductory pipes functionality
Modified Paths:
--------------
trunk/src/war/WEB-INF/src/log4j.properties
trunk/src/war/WEB-INF/urlrewrite.xml
trunk/src/war/atlas2rdf.jsp
Added Paths:
-----------
trunk/src/war/WEB-INF/lib/commons-httpclient-3.1.jar
trunk/src/war/WEB-INF/lib/jcs-1.3.jar
trunk/src/war/WEB-INF/src/cache.ccf
trunk/src/war/WEB-INF/src/constructbio2rdf.pipe
trunk/src/war/bio2rdfpipes.jsp
Removed Paths:
-------------
trunk/src/war/WEB-INF/lib/commons-httpclient-3.0.1.jar
trunk/src/war/WEB-INF/src/mixingfoaf.pipe
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From: <p_a...@us...> - 2009-03-09 11:08:46
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Revision: 207
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=207&view=rev
Author: p_ansell
Date: 2009-03-09 11:08:34 +0000 (Mon, 09 Mar 2009)
Log Message:
-----------
experiment with adding DERI semanticwebpipes using version 0.7.0 jar file
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
trunk/src/war/atlas2rdf.jsp
Added Paths:
-----------
trunk/src/war/WEB-INF/lib/pipes-0.7.0.jar
trunk/src/war/WEB-INF/lib/xstream-1.3.1.jar
trunk/src/war/WEB-INF/src/mixingfoaf.pipe
trunk/src/war/WEB-INF/src/pipes.list
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From: <p_a...@us...> - 2009-03-09 00:20:54
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Revision: 206
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=206&view=rev
Author: p_ansell
Date: 2009-03-09 00:20:47 +0000 (Mon, 09 Mar 2009)
Log Message:
-----------
add properties subversion id to atlas2rdf.jsp and hence the output
Modified Paths:
--------------
trunk/src/war/atlas2rdf.jsp
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From: <p_a...@us...> - 2009-03-09 00:17:44
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Revision: 205
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=205&view=rev
Author: p_ansell
Date: 2009-03-09 00:17:35 +0000 (Mon, 09 Mar 2009)
Log Message:
-----------
add properties and some documentation items
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/src/org/bio2rdf/Settings.java
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
Added Paths:
-----------
trunk/docs/
trunk/docs/architecture.pdf
trunk/docs/architecture.svg
trunk/docs/processflow-page1.png
trunk/docs/processflow-privateandpublic.svg
trunk/docs/processflow.svg
trunk/src/util/python/ecocyc-load-commands.txt
trunk/src/util/sql/
trunk/src/util/sql/create_virtuoso_index.sql
Property Changed:
----------------
trunk/dist/
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
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From: <p_a...@us...> - 2009-03-09 00:02:32
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Revision: 204
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=204&view=rev
Author: p_ansell
Date: 2009-03-09 00:02:30 +0000 (Mon, 09 Mar 2009)
Log Message:
-----------
add ecocyc rdf and license providers and remove deri neurocommons mirror
Modified Paths:
--------------
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
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From: <p_a...@us...> - 2009-03-06 04:57:44
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Revision: 203
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=203&view=rev
Author: p_ansell
Date: 2009-03-06 04:57:38 +0000 (Fri, 06 Mar 2009)
Log Message:
-----------
add promoters.dat rdfiser and minor change to regulation.dat rdfiser
Modified Paths:
--------------
trunk/src/util/python/ecocyc-regulation2rdf.py
Added Paths:
-----------
trunk/src/util/python/ecocyc-promoters2rdf.py
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From: <p_a...@us...> - 2009-03-06 04:24:35
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Revision: 202
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=202&view=rev
Author: p_ansell
Date: 2009-03-06 04:24:23 +0000 (Fri, 06 Mar 2009)
Log Message:
-----------
add regulation.dat ecocyc rdfiser
Added Paths:
-----------
trunk/src/util/python/ecocyc-regulation2rdf.py
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From: <p_a...@us...> - 2009-03-06 02:48:14
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Revision: 201
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=201&view=rev
Author: p_ansell
Date: 2009-03-06 02:48:08 +0000 (Fri, 06 Mar 2009)
Log Message:
-----------
fix minor data bug
Modified Paths:
--------------
trunk/src/util/python/ecocyc-regulons2rdf.py
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From: <p_a...@us...> - 2009-03-05 08:15:38
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Revision: 200
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=200&view=rev
Author: p_ansell
Date: 2009-03-05 08:15:34 +0000 (Thu, 05 Mar 2009)
Log Message:
-----------
add regulons.dat rdfiser
Added Paths:
-----------
trunk/src/util/python/ecocyc-regulons2rdf.py
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From: <p_a...@us...> - 2009-03-05 07:04:53
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Revision: 199
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=199&view=rev
Author: p_ansell
Date: 2009-03-05 07:04:47 +0000 (Thu, 05 Mar 2009)
Log Message:
-----------
add some more field extractions from dnabindsites relating to the position and size of the binding site
Modified Paths:
--------------
trunk/src/util/python/ecocyc-dnabindsites2rdf.py
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From: <p_a...@us...> - 2009-03-05 06:53:26
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Revision: 198
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=198&view=rev
Author: p_ansell
Date: 2009-03-05 06:53:17 +0000 (Thu, 05 Mar 2009)
Log Message:
-----------
move to more accurate names so there will be one python script for each ecocyc file ideally
Added Paths:
-----------
trunk/src/util/python/ecocyc-dnabindsites2rdf.py
trunk/src/util/python/ecocyc-genelinks2rdf.py
Removed Paths:
-------------
trunk/src/util/python/ecocyc-multilines2rdf.py
trunk/src/util/python/ecocyc-tab2rdf.py
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From: <p_a...@us...> - 2009-03-05 06:51:01
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Revision: 197
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=197&view=rev
Author: p_ansell
Date: 2009-03-05 06:50:59 +0000 (Thu, 05 Mar 2009)
Log Message:
-----------
add rdfiser for gene-links.dat from ecocyc
Added Paths:
-----------
trunk/src/util/python/ecocyc-tab2rdf.py
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From: <p_a...@us...> - 2009-03-05 03:47:23
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Revision: 196
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=196&view=rev
Author: p_ansell
Date: 2009-03-05 03:47:19 +0000 (Thu, 05 Mar 2009)
Log Message:
-----------
add ecocyc rdfiser for dnabindingsites.dat, and possibly for other files with the same basic format
Added Paths:
-----------
trunk/src/util/python/
trunk/src/util/python/ecocyc-multilines2rdf.py
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From: <p_a...@us...> - 2009-03-01 23:26:40
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Revision: 195
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=195&view=rev
Author: p_ansell
Date: 2009-03-01 23:26:38 +0000 (Sun, 01 Mar 2009)
Log Message:
-----------
more updates, including pubmed stylesheet and regulondb transformations to rdf
Modified Paths:
--------------
trunk/src/util/perl/bio-tab2rdf.pl
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
trunk/src/war/xsl-sources/pubchem.xsl
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From: <p_a...@us...> - 2009-02-26 03:33:34
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Revision: 194
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=194&view=rev
Author: p_ansell
Date: 2009-02-26 03:33:30 +0000 (Thu, 26 Feb 2009)
Log Message:
-----------
commit latest changes including numerous neurocommons datasources and configuration changes
Modified Paths:
--------------
trunk/build.xml
trunk/src/war/WEB-INF/src/log4j.properties
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
trunk/src/war/bio2rdf.owl
trunk/src/war/index.html
trunk/src/war/jsp-bio2rdf/kegg-search-http2rdf.jsp
trunk/src/war/mquter-index.html
trunk/src/war/quebec-index.html
trunk/src/war/terms.owl
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From: <p_a...@us...> - 2008-12-16 03:25:19
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Revision: 193
http://bio2rdf.svn.sourceforge.net/bio2rdf/?rev=193&view=rev
Author: p_ansell
Date: 2008-12-16 03:25:09 +0000 (Tue, 16 Dec 2008)
Log Message:
-----------
fix robots.txt for download directory and fix some html providers in properties file
Modified Paths:
--------------
trunk/src/war/WEB-INF/src/org/bio2rdf/bio2rdf.properties
trunk/src/war/robots.txt
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