[MOBY-guts] biomoby commit
Lonny Montoya
lxm at pub.open-bio.org
Thu Mar 16 03:37:53 UTC 2006
lxm
Wed Mar 15 22:37:53 EST 2006
Update of /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies
In directory pub.open-bio.org:/tmp/cvs-serv1748
Modified Files:
flybase-genequery gramene-query lin ncbi-megablast pubmed
sgd-quicksearch tair-mapviewer tair-seqviewer wormbase-query
Removed Files:
flybase-genequery.n3 gramene-query.n3 ncbi-megablast.n3
pubmed.n3 sgd-quicksearch.n3 tair-mapviewer.n3
tair-seqviewer.n3 wormbase-query.n3
Log Message:
made several changes to the formatting of the rdf files for the proxy resources,
changed to use the rdf shortcut format,
changed to use the xml entity definitions for attribute expansion,
changed to use the moby entity as the default xml namespace,
these changes should make future maintenance of these files much easier,
things (uris) will only need to be changed in one place in the files
also, removed the n3 versions of the files as these versions have not been
maintained recently and are a few versions behind the rdf files
s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies flybase-genequery,1.10,1.11 gramene-query,1.9,1.10 lin,1.4,1.5 ncbi-megablast,1.7,1.8 pubmed,1.8,1.9 sgd-quicksearch,1.9,1.10 tair-mapviewer,1.7,1.8 tair-seqviewer,1.8,1.9 wormbase-query,1.7,1.8 flybase-genequery.n3,1.8,NONE gramene-query.n3,1.7,NONE ncbi-megablast.n3,1.7,NONE pubmed.n3,1.7,NONE sgd-quicksearch.n3,1.8,NONE tair-mapviewer.n3,1.7,NONE tair-seqviewer.n3,1.8,NONE wormbase-query.n3,1.7,NONE
===================================================================
RCS file: /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/flybase-genequery,v
retrieving revision 1.10
retrieving revision 1.11
diff -u -r1.10 -r1.11
--- /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/flybase-genequery 2006/02/09 22:37:02 1.10
+++ /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/flybase-genequery 2006/03/16 03:37:53 1.11
@@ -1,29 +1,41 @@
-<rdf:RDF
- xmlns:ex="http://www.semanticmoby.org/examples/proxies/"
- xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
- xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
- xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
- xmlns:owl="http://www.w3.org/2002/07/owl#"
- xmlns:moby="http://www.semanticmoby.org/ontologies/core/" >
- <rdf:Description rdf:about="http://www.semanticmoby.org/examples/proxies/flybase-genequery">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Resource"/>
- <moby:name>FlyBase Gene Query</moby:name>
- <moby:providerName>Flybase</moby:providerName>
- <moby:providerAboutURI>http://flybase.bio.indiana.edu</moby:providerAboutURI>
- <moby:oneLineDescription>FlyBase gene query form at flybase.bio.indiana.edu</moby:oneLineDescription>
- <moby:inputURI>http://flybase.bio.indiana.edu/genes/fbgquery.hform</moby:inputURI>
- <moby:metadata>http://www.semanticmoby.org/examples/proxies/flybase-genequery-metadata.txt</moby:metadata>
- <moby:operatesOn rdf:nodeID="A0"/>
- </rdf:Description>
- <rdf:Description rdf:nodeID="A0">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Graph"/>
- <moby:hasMapping rdf:nodeID="A1"/>
- </rdf:Description>
- <rdf:Description rdf:nodeID="A1">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Subject"/>
- <moby:mapsTo rdf:nodeID="A2"/>
- </rdf:Description>
- <rdf:Description rdf:nodeID="A2">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Object"/>
- </rdf:Description>
+<?xml version="1.0" encoding="UTF-8"?>
+
+<!DOCTYPE rdf:RDF [
+ <!ENTITY rdf "http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+ <!ENTITY rdfs "http://www.w3.org/2000/01/rdf-schema#">
+ <!ENTITY xsd "http://www.w3.org/2001/XMLSchema#">
+ <!ENTITY owl "http://www.w3.org/2002/07/owl#">
+ <!ENTITY proxy "http://www.semanticmoby.org/examples/proxies/">
+ <!ENTITY moby "http://www.semanticmoby.org/ontologies/core/">
+]>
+
+<rdf:RDF xmlns:rdf = "&rdf;"
+ xmlns:rdfs = "&rdfs;"
+ xmlns:xsd = "&xsd;"
+ xmlns:owl = "&owl;"
+ xmlns:proxy = "&proxy;"
+ xmlns = "&moby;">
+
+ <Resource rdf:about="&proxy;flybase-genequery">
+ <name>FlyBase Gene Query</name>
+ <aboutURI>http://flybase.bio.indiana.edu/.data/docs/refman/refman-C.html#C3</aboutURI>
+ <providerName>Flybase</providerName>
+ <providerAboutURI>http://flybase.bio.indiana.edu</providerAboutURI>
+ <oneLineDescription>FlyBase gene query form at flybase.bio.indiana.edu</oneLineDescription>
+ <inputURI>http://flybase.bio.indiana.edu/genes/fbgquery.hform</inputURI>
+ <metadata>http://www.semanticmoby.org/examples/proxies/flybase-genequery-metadata.txt</metadata>
+ <operatesOn rdf:nodeID="A0"/>
+ </Resource>
+
+ <Graph rdf:nodeID="A0">
+ <hasMapping rdf:nodeID="A1"/>
+ </Graph>
+
+ <Subject rdf:nodeID="A1">
+ <mapsTo rdf:nodeID="A2"/>
+ </Subject>
+
+ <Object rdf:nodeID="A2">
+ </Object>
+
</rdf:RDF>
===================================================================
RCS file: /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/gramene-query,v
retrieving revision 1.9
retrieving revision 1.10
diff -u -r1.9 -r1.10
--- /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/gramene-query 2006/02/09 22:37:02 1.9
+++ /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/gramene-query 2006/03/16 03:37:53 1.10
@@ -1,29 +1,41 @@
-<rdf:RDF
- xmlns:ex="http://www.semanticmoby.org/examples/proxies/"
- xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
- xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
- xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
- xmlns:owl="http://www.w3.org/2002/07/owl#"
- xmlns:moby="http://www.semanticmoby.org/ontologies/core/">
- <rdf:Description rdf:about="http://www.semanticmoby.org/examples/proxies/gramene-query">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Resource"/>
- <moby:name>Gramene Query</moby:name>
- <moby:providerName>Gramene</moby:providerName>
- <moby:providerAboutURI>http://www.gramene.org</moby:providerAboutURI>
- <moby:oneLineDescription>Cereal grains database query at gramene.org</moby:oneLineDescription>
- <moby:inputURI>http://www.gramene.org/</moby:inputURI>
- <moby:metadata>http://www.semanticmoby.org/examples/proxies/gramene-query-metadata.txt</moby:metadata>
- <moby:operatesOn rdf:nodeID="A2"/>
- </rdf:Description>
- <rdf:Description rdf:nodeID="A0">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Subject"/>
- <moby:mapsTo rdf:nodeID="A1"/>
- </rdf:Description>
- <rdf:Description rdf:nodeID="A2">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Graph"/>
- <moby:hasMapping rdf:nodeID="A0"/>
- </rdf:Description>
- <rdf:Description rdf:nodeID="A1">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Object"/>
- </rdf:Description>
+<?xml version="1.0" encoding="UTF-8"?>
+
+<!DOCTYPE rdf:RDF [
+ <!ENTITY rdf "http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+ <!ENTITY rdfs "http://www.w3.org/2000/01/rdf-schema#">
+ <!ENTITY xsd "http://www.w3.org/2001/XMLSchema#">
+ <!ENTITY owl "http://www.w3.org/2002/07/owl#">
+ <!ENTITY proxy "http://www.semanticmoby.org/examples/proxies/">
+ <!ENTITY moby "http://www.semanticmoby.org/ontologies/core/">
+]>
+
+<rdf:RDF xmlns:rdf = "&rdf;"
+ xmlns:rdfs = "&rdfs;"
+ xmlns:xsd = "&xsd;"
+ xmlns:owl = "&owl;"
+ xmlns:proxy = "&proxy;"
+ xmlns = "&moby;">
+
+ <Resource rdf:about="&proxy;gramene-query">
+ <name>Gramene Query</name>
+ <aboutURI>http://www.gramene.org/about/index.html</aboutURI>
+ <providerName>Gramene</providerName>
+ <providerAboutURI>http://www.gramene.org</providerAboutURI>
+ <oneLineDescription>Cereal grains database query at gramene.org</oneLineDescription>
+ <inputURI>http://www.gramene.org/</inputURI>
+ <metadata>http://www.semanticmoby.org/examples/proxies/gramene-query-metadata.txt</metadata>
+ <operatesOn rdf:nodeID="A0"/>
+ </Resource>
+
+ <Graph rdf:nodeID="A0">
+ <hasMapping rdf:nodeID="A1"/>
+ </Graph>
+
+ <Subject rdf:nodeID="A1">
+ <mapsTo rdf:nodeID="A2"/>
+ </Subject>
+
+ <Object rdf:nodeID="A2">
+ </Object>
+
</rdf:RDF>
===================================================================
RCS file: /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/lin,v
retrieving revision 1.4
retrieving revision 1.5
diff -u -r1.4 -r1.5
--- /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/lin 2006/02/09 22:37:02 1.4
+++ /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/lin 2006/03/16 03:37:53 1.5
@@ -5,40 +5,37 @@
<!ENTITY rdfs "http://www.w3.org/2000/01/rdf-schema#">
<!ENTITY xsd "http://www.w3.org/2001/XMLSchema#">
<!ENTITY owl "http://www.w3.org/2002/07/owl#">
- <!ENTITY moby "http://www.semanticmoby.org/ontologies/core/">
<!ENTITY proxy "http://www.semanticmoby.org/examples/proxies/">
+ <!ENTITY moby "http://www.semanticmoby.org/ontologies/core/">
]>
<rdf:RDF xmlns:rdf = "&rdf;"
xmlns:rdfs = "&rdfs;"
xmlns:xsd = "&xsd;"
xmlns:owl = "&owl;"
- xmlns:moby = "&moby;"
- xmlns:proxy = "&proxy;">
+ xmlns:proxy = "&proxy;"
+ xmlns = "&moby;">
+
+ <Resource rdf:about="&proxy;lin">
+ <name>Legume Information Network</name>
+ <aboutURI>http://lin.ncgr.org/help/index.html</aboutURI>
+ <providerName>The Legume Information System</providerName>
+ <providerAboutURI>http://www.comparative-legumes.org</providerAboutURI>
+ <oneLineDescription>A Proxy to the Legume Information Network</oneLineDescription>
+ <inputURI>http://lin.ncgr.org</inputURI>
+ <metadata>http://www.semanticmoby.org/examples/proxies/lin-metadata.txt</metadata>
+ <operatesOn rdf:nodeID="A0"/>
+ </Resource>
+
+ <Graph rdf:nodeID="A0">
+ <hasMapping rdf:nodeID="A1"/>
+ </Graph>
+
+ <Subject rdf:nodeID="A1">
+ <mapsTo rdf:nodeID="A2"/>
+ </Subject>
- <rdf:Description rdf:about="&proxy;lin">
- <rdf:type rdf:resource="&moby;Resource"/>
- <moby:name>Legume Information Network</moby:name>
- <moby:providerName>The Legume Information System</moby:providerName>
- <moby:providerAboutURI>http://www.comparative-legumes.org</moby:providerAboutURI>
- <moby:oneLineDescription>A Proxy to the Legume Information Network</moby:oneLineDescription>
- <moby:inputURI>http://lin.ncgr.org</moby:inputURI>
- <moby:metadata>http://www.semanticmoby.org/examples/proxies/lin-metadata.txt</moby:metadata>
- <moby:operatesOn rdf:nodeID="A0"/>
- </rdf:Description>
-
- <rdf:Description rdf:nodeID="A0">
- <rdf:type rdf:resource="&moby;Graph"/>
- <moby:hasMapping rdf:nodeID="A1"/>
- </rdf:Description>
-
- <rdf:Description rdf:nodeID="A1">
- <rdf:type rdf:resource="&moby;Subject"/>
- <moby:mapsTo rdf:nodeID="A2"/>
- </rdf:Description>
-
- <rdf:Description rdf:nodeID="A2">
- <rdf:type rdf:resource="&moby;Object"/>
- </rdf:Description>
+ <Object rdf:nodeID="A2">
+ </Object>
</rdf:RDF>
===================================================================
RCS file: /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/ncbi-megablast,v
retrieving revision 1.7
retrieving revision 1.8
diff -u -r1.7 -r1.8
--- /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/ncbi-megablast 2005/12/13 23:10:24 1.7
+++ /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/ncbi-megablast 2006/03/16 03:37:53 1.8
@@ -1,29 +1,41 @@
-<rdf:RDF
- xmlns:ex="http://www.semanticmoby.org/examples/proxies/"
- xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
- xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
- xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
- xmlns:owl="http://www.w3.org/2002/07/owl#"
- xmlns:moby="http://www.semanticmoby.org/ontologies/core/" >
- <rdf:Description rdf:nodeID="A0">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Graph"/>
- <moby:hasMapping rdf:nodeID="A1"/>
- </rdf:Description>
- <rdf:Description rdf:nodeID="A2">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Object"/>
- </rdf:Description>
- <rdf:Description rdf:nodeID="A1">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Subject"/>
- <moby:mapsTo rdf:nodeID="A2"/>
- </rdf:Description>
- <rdf:Description rdf:about="http://www.semanticmoby.org/examples/proxies/ncbi-megablast">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Resource"/>
- <moby:name>NCBI Mega BLAST</moby:name>
- <moby:providerName>NCBI</moby:providerName>
- <moby:providerAboutURI>http://www.ncbi.nlm.nih.gov</moby:providerAboutURI>
- <moby:oneLineDescription>NCBI MegaBlast resource provided by NCBI</moby:oneLineDescription>
- <moby:inputURI>http://www.ncbi.nlm.nih.gov/BLAST/Blast.cgi?CMD=Web&LAYOUT=TwoWindows&AUTO_FORMAT=Semiauto&ALIGNMENTS=50&ALIGNMENT_VIEW=Tabular&CLIENT=web&DATABASE=nr&DESCRIPTIONS=100&ENTREZ_QUERY=%28none%29&EXPECT=10&FILTER=L&FORMAT_OBJECT=Alignment&FORMAT_TYPE=HTML&NCBI_GI=on&PAGE=MegaBlast&SERVICE=plain&SET_DEFAULTS.x=34&SET_DEFAULTS.y=8&SHOW_OVERVIEW=on&END_OF_HTTPGET=Yes&SHOW_LINKOUT=yes&GET_SEQUENCE=yes&PERC_IDENT=None,1,-2</moby:inputURI>
- <moby:metadata>http://www.semanticmoby.org/examples/proxies/ncbi-megablast-metadata.txt</moby:metadata>
- <moby:operatesOn rdf:nodeID="A0"/>
- </rdf:Description>
+<?xml version="1.0" encoding="UTF-8"?>
+
+<!DOCTYPE rdf:RDF [
+ <!ENTITY rdf "http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+ <!ENTITY rdfs "http://www.w3.org/2000/01/rdf-schema#">
+ <!ENTITY xsd "http://www.w3.org/2001/XMLSchema#">
+ <!ENTITY owl "http://www.w3.org/2002/07/owl#">
+ <!ENTITY proxy "http://www.semanticmoby.org/examples/proxies/">
+ <!ENTITY moby "http://www.semanticmoby.org/ontologies/core/">
+]>
+
+<rdf:RDF xmlns:rdf = "&rdf;"
+ xmlns:rdfs = "&rdfs;"
+ xmlns:xsd = "&xsd;"
+ xmlns:owl = "&owl;"
+ xmlns:proxy = "&proxy;"
+ xmlns = "&moby;">
+
+ <Resource rdf:about="&proxy;ncbi-megablast">
+ <name>NCBI Mega BLAST</name>
+ <aboutURI>http://www.ncbi.nlm.nih.gov/blast/megablast.shtml</aboutURI>
+ <providerName>NCBI</providerName>
+ <providerAboutURI>http://www.ncbi.nlm.nih.gov</providerAboutURI>
+ <oneLineDescription>NCBI MegaBlast resource provided by NCBI</oneLineDescription>
+ <inputURI>http://www.ncbi.nlm.nih.gov/BLAST/Blast.cgi?CMD=Web&LAYOUT=TwoWindows&AUTO_FORMAT=Semiauto&ALIGNMENTS=50&ALIGNMENT_VIEW=Tabular&CLIENT=web&DATABASE=nr&DESCRIPTIONS=100&ENTREZ_QUERY=%28none%29&EXPECT=10&FILTER=L&FORMAT_OBJECT=Alignment&FORMAT_TYPE=HTML&NCBI_GI=on&PAGE=MegaBlast&SERVICE=plain&SET_DEFAULTS.x=34&SET_DEFAULTS.y=8&SHOW_OVERVIEW=on&END_OF_HTTPGET=Yes&SHOW_LINKOUT=yes&GET_SEQUENCE=yes&PERC_IDENT=None,1,-2</inputURI>
+ <metadata>http://www.semanticmoby.org/examples/proxies/ncbi-megablast-metadata.txt</metadata>
+ <operatesOn rdf:nodeID="A0"/>
+ </Resource>
+
+ <Graph rdf:nodeID="A0">
+ <hasMapping rdf:nodeID="A1"/>
+ </Graph>
+
+ <Subject rdf:nodeID="A1">
+ <mapsTo rdf:nodeID="A2"/>
+ </Subject>
+
+ <Object rdf:nodeID="A2">
+ </Object>
+
</rdf:RDF>
===================================================================
RCS file: /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/pubmed,v
retrieving revision 1.8
retrieving revision 1.9
diff -u -r1.8 -r1.9
--- /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/pubmed 2006/02/09 22:37:02 1.8
+++ /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/pubmed 2006/03/16 03:37:53 1.9
@@ -1,29 +1,41 @@
-<rdf:RDF
- xmlns:ex="http://www.semanticmoby.org/examples/proxies/"
- xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
- xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
- xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
- xmlns:owl="http://www.w3.org/2002/07/owl#"
- xmlns:moby="http://www.semanticmoby.org/ontologies/core/">
- <rdf:Description rdf:nodeID="A0">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Graph"/>
- <moby:hasMapping rdf:nodeID="A1"/>
- </rdf:Description>
- <rdf:Description rdf:about="http://www.semanticmoby.org/examples/proxies/pubmed">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Resource"/>
- <moby:name>PubMed</moby:name>
- <moby:providerName>NCBI</moby:providerName>
- <moby:providerAboutURI>http://www.ncbi.nlm.nih.gov</moby:providerAboutURI>
- <moby:oneLineDescription>Entrez PubMed resource provided by NCBI</moby:oneLineDescription>
- <moby:inputURI>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?</moby:inputURI>
- <moby:metadata>http://www.semanticmoby.org/examples/proxies/pubmed-metadata.txt</moby:metadata>
- <moby:operatesOn rdf:nodeID="A0"/>
- </rdf:Description>
- <rdf:Description rdf:nodeID="A1">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Subject"/>
- <moby:mapsTo rdf:nodeID="A2"/>
- </rdf:Description>
- <rdf:Description rdf:nodeID="A2">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Object"/>
- </rdf:Description>
+<?xml version="1.0" encoding="UTF-8"?>
+
+<!DOCTYPE rdf:RDF [
+ <!ENTITY rdf "http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+ <!ENTITY rdfs "http://www.w3.org/2000/01/rdf-schema#">
+ <!ENTITY xsd "http://www.w3.org/2001/XMLSchema#">
+ <!ENTITY owl "http://www.w3.org/2002/07/owl#">
+ <!ENTITY proxy "http://www.semanticmoby.org/examples/proxies/">
+ <!ENTITY moby "http://www.semanticmoby.org/ontologies/core/">
+]>
+
+<rdf:RDF xmlns:rdf = "&rdf;"
+ xmlns:rdfs = "&rdfs;"
+ xmlns:xsd = "&xsd;"
+ xmlns:owl = "&owl;"
+ xmlns:proxy = "&proxy;"
+ xmlns = "&moby;">
+
+ <Resource rdf:about="&proxy;pubmed">
+ <name>PubMed</name>
+ <aboutURI>http://www.ncbi.nlm.nih.gov/entrez/query/static/overview.html</aboutURI>
+ <providerName>NCBI</providerName>
+ <providerAboutURI>http://www.ncbi.nlm.nih.gov</providerAboutURI>
+ <oneLineDescription>Entrez PubMed resource provided by NCBI</oneLineDescription>
+ <inputURI>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?</inputURI>
+ <metadata>http://www.semanticmoby.org/examples/proxies/pubmed-metadata.txt</metadata>
+ <operatesOn rdf:nodeID="A0"/>
+ </Resource>
+
+ <Graph rdf:nodeID="A0">
+ <hasMapping rdf:nodeID="A1"/>
+ </Graph>
+
+ <Subject rdf:nodeID="A1">
+ <mapsTo rdf:nodeID="A2"/>
+ </Subject>
+
+ <Object rdf:nodeID="A2">
+ </Object>
+
</rdf:RDF>
===================================================================
RCS file: /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/sgd-quicksearch,v
retrieving revision 1.9
retrieving revision 1.10
diff -u -r1.9 -r1.10
--- /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/sgd-quicksearch 2005/12/14 18:07:11 1.9
+++ /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/sgd-quicksearch 2006/03/16 03:37:53 1.10
@@ -1,29 +1,41 @@
-<rdf:RDF
- xmlns:ex="http://www.semanticmoby.org/examples/proxies/"
- xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
- xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
- xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
- xmlns:owl="http://www.w3.org/2002/07/owl#"
- xmlns:moby="http://www.semanticmoby.org/ontologies/core/" >
- <rdf:Description rdf:nodeID="A0">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Subject"/>
- <moby:mapsTo rdf:nodeID="A1"/>
- </rdf:Description>
- <rdf:Description rdf:about="http://www.semanticmoby.org/examples/proxies/sgd-quicksearch">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Resource"/>
- <moby:name>SGD Quick Search</moby:name>
- <moby:providerName>SGD</moby:providerName>
- <moby:providerAboutURI>http://www.yeastgenome.org</moby:providerAboutURI>
- <moby:oneLineDescription>Saccharomyces cerevisiae quick search</moby:oneLineDescription>
- <moby:inputURI>http://db.yeastgenome.org/cgi-bin/search/quickSearch</moby:inputURI>
- <moby:metadata>http://www.semanticmoby.org/examples/proxies/sgd-quicksearch-metadata.txt</moby:metadata>
- <moby:operatesOn rdf:nodeID="A2"/>
- </rdf:Description>
- <rdf:Description rdf:nodeID="A2">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Graph"/>
- <moby:hasMapping rdf:nodeID="A0"/>
- </rdf:Description>
- <rdf:Description rdf:nodeID="A1">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Object"/>
- </rdf:Description>
+<?xml version="1.0" encoding="UTF-8"?>
+
+<!DOCTYPE rdf:RDF [
+ <!ENTITY rdf "http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+ <!ENTITY rdfs "http://www.w3.org/2000/01/rdf-schema#">
+ <!ENTITY xsd "http://www.w3.org/2001/XMLSchema#">
+ <!ENTITY owl "http://www.w3.org/2002/07/owl#">
+ <!ENTITY proxy "http://www.semanticmoby.org/examples/proxies/">
+ <!ENTITY moby "http://www.semanticmoby.org/ontologies/core/">
+]>
+
+<rdf:RDF xmlns:rdf = "&rdf;"
+ xmlns:rdfs = "&rdfs;"
+ xmlns:xsd = "&xsd;"
+ xmlns:owl = "&owl;"
+ xmlns:proxy = "&proxy;"
+ xmlns = "&moby;">
+
+ <Resource rdf:about="&proxy;sgd-quicksearch">
+ <name>SGD Quick Search</name>
+ <aboutURI>http://www.yeastgenome.org/SearchContents.shtml</aboutURI>
+ <providerName>SGD</providerName>
+ <providerAboutURI>http://www.yeastgenome.org</providerAboutURI>
+ <oneLineDescription>Saccharomyces cerevisiae quick search</oneLineDescription>
+ <inputURI>http://db.yeastgenome.org/cgi-bin/search/quickSearch</inputURI>
+ <metadata>http://www.semanticmoby.org/examples/proxies/sgd-quicksearch-metadata.txt</metadata>
+ <operatesOn rdf:nodeID="A0"/>
+ </Resource>
+
+ <Graph rdf:nodeID="A0">
+ <hasMapping rdf:nodeID="A1"/>
+ </Graph>
+
+ <Subject rdf:nodeID="A1">
+ <mapsTo rdf:nodeID="A2"/>
+ </Subject>
+
+ <Object rdf:nodeID="A2">
+ </Object>
+
</rdf:RDF>
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/tair-mapviewer,v
retrieving revision 1.7
retrieving revision 1.8
diff -u -r1.7 -r1.8
--- /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/tair-mapviewer 2005/12/13 23:10:24 1.7
+++ /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/tair-mapviewer 2006/03/16 03:37:53 1.8
@@ -1,29 +1,41 @@
-<rdf:RDF
- xmlns:ex="http://www.semanticmoby.org/examples/proxies/"
- xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
- xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
- xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
- xmlns:owl="http://www.w3.org/2002/07/owl#"
- xmlns:moby="http://www.semanticmoby.org/ontologies/core/" >
- <rdf:Description rdf:about="http://www.semanticmoby.org/examples/proxies/tair-mapviewer">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Resource"/>
- <moby:name>TAIR Map Viewer</moby:name>
- <moby:providerName>TAIR</moby:providerName>
- <moby:providerAboutURI>http://www.arabidopsis.org</moby:providerAboutURI>
- <moby:oneLineDescription>Arabidopsis Map Viewer resource provided by TAIR</moby:oneLineDescription>
- <moby:inputURI>http://www.arabidopsis.org/servlets/mapper</moby:inputURI>
- <moby:metadata>http://www.semanticmoby.org/examples/proxies/tair-mapviewer-metadata.txt</moby:metadata>
- <moby:operatesOn rdf:nodeID="A0"/>
- </rdf:Description>
- <rdf:Description rdf:nodeID="A1">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Subject"/>
- <moby:mapsTo rdf:nodeID="A2"/>
- </rdf:Description>
- <rdf:Description rdf:nodeID="A0">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Graph"/>
- <moby:hasMapping rdf:nodeID="A1"/>
- </rdf:Description>
- <rdf:Description rdf:nodeID="A2">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Object"/>
- </rdf:Description>
+<?xml version="1.0" encoding="UTF-8"?>
+
+<!DOCTYPE rdf:RDF [
+ <!ENTITY rdf "http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+ <!ENTITY rdfs "http://www.w3.org/2000/01/rdf-schema#">
+ <!ENTITY xsd "http://www.w3.org/2001/XMLSchema#">
+ <!ENTITY owl "http://www.w3.org/2002/07/owl#">
+ <!ENTITY proxy "http://www.semanticmoby.org/examples/proxies/">
+ <!ENTITY moby "http://www.semanticmoby.org/ontologies/core/">
+]>
+
+<rdf:RDF xmlns:rdf = "&rdf;"
+ xmlns:rdfs = "&rdfs;"
+ xmlns:xsd = "&xsd;"
+ xmlns:owl = "&owl;"
+ xmlns:proxy = "&proxy;"
+ xmlns = "&moby;">
+
+ <Resource rdf:about="&proxy;tair-mapviewer">
+ <name>TAIR Map Viewer</name>
+ <providerAboutURI>http://www.arabidopsis.org/mapViewer/help/tairmapa.jsp</providerAboutURI>
+ <providerName>TAIR</providerName>
+ <providerAboutURI>http://www.arabidopsis.org</providerAboutURI>
+ <oneLineDescription>Arabidopsis Map Viewer resource provided by TAIR</oneLineDescription>
+ <inputURI>http://www.arabidopsis.org/servlets/mapper</inputURI>
+ <metadata>http://www.semanticmoby.org/examples/proxies/tair-mapviewer-metadata.txt</metadata>
+ <operatesOn rdf:nodeID="A0"/>
+ </Resource>
+
+ <Graph rdf:nodeID="A0">
+ <hasMapping rdf:nodeID="A1"/>
+ </Graph>
+
+ <Subject rdf:nodeID="A1">
+ <mapsTo rdf:nodeID="A2"/>
+ </Subject>
+
+ <Object rdf:nodeID="A2">
+ </Object>
+
</rdf:RDF>
===================================================================
RCS file: /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/tair-seqviewer,v
retrieving revision 1.8
retrieving revision 1.9
diff -u -r1.8 -r1.9
--- /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/tair-seqviewer 2005/12/13 23:10:24 1.8
+++ /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/tair-seqviewer 2006/03/16 03:37:53 1.9
@@ -1,29 +1,41 @@
-<rdf:RDF
- xmlns:ex="http://www.semanticmoby.org/examples/proxies/"
- xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
- xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
- xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
- xmlns:owl="http://www.w3.org/2002/07/owl#"
- xmlns:moby="http://www.semanticmoby.org/ontologies/core/" >
- <rdf:Description rdf:nodeID="A0">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Subject"/>
- <moby:mapsTo rdf:nodeID="A1"/>
- </rdf:Description>
- <rdf:Description rdf:nodeID="A2">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Graph"/>
- <moby:hasMapping rdf:nodeID="A0"/>
- </rdf:Description>
- <rdf:Description rdf:about="http://www.semanticmoby.org/examples/proxies/tair-seqviewer">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Resource"/>
- <moby:name>TAIR Sequence Viewer</moby:name>
- <moby:providerName>TAIR</moby:providerName>
- <moby:providerAboutURI>http://www.arabidopsis.org</moby:providerAboutURI>
- <moby:oneLineDescription>Arabidopsis Sequence Viewer resource provided by TAIR</moby:oneLineDescription>
- <moby:inputURI>http://www.arabidopsis.org/servlets/sv</moby:inputURI>
- <moby:metadata>http://www.semanticmoby.org/examples/proxies/tair-seqviewer-metadata.txt</moby:metadata>
- <moby:operatesOn rdf:nodeID="A2"/>
- </rdf:Description>
- <rdf:Description rdf:nodeID="A1">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Object"/>
- </rdf:Description>
+<?xml version="1.0" encoding="UTF-8"?>
+
+<!DOCTYPE rdf:RDF [
+ <!ENTITY rdf "http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+ <!ENTITY rdfs "http://www.w3.org/2000/01/rdf-schema#">
+ <!ENTITY xsd "http://www.w3.org/2001/XMLSchema#">
+ <!ENTITY owl "http://www.w3.org/2002/07/owl#">
+ <!ENTITY proxy "http://www.semanticmoby.org/examples/proxies/">
+ <!ENTITY moby "http://www.semanticmoby.org/ontologies/core/">
+]>
+
+<rdf:RDF xmlns:rdf = "&rdf;"
+ xmlns:rdfs = "&rdfs;"
+ xmlns:xsd = "&xsd;"
+ xmlns:owl = "&owl;"
+ xmlns:proxy = "&proxy;"
+ xmlns = "&moby;">
+
+ <Resource rdf:about="&proxy;tair-seqviewer">
+ <name>TAIR Sequence Viewer</name>
+ <aboutURI>http://www.arabidopsis.org/seqViewer/help/sv_intro.jsp</aboutURI>
+ <providerName>TAIR</providerName>
+ <providerAboutURI>http://www.arabidopsis.org</providerAboutURI>
+ <oneLineDescription>Arabidopsis Sequence Viewer resource provided by TAIR</oneLineDescription>
+ <inputURI>http://www.arabidopsis.org/servlets/sv</inputURI>
+ <metadata>http://www.semanticmoby.org/examples/proxies/tair-seqviewer-metadata.txt</metadata>
+ <operatesOn rdf:nodeID="A0"/>
+ </Resource>
+
+ <Graph rdf:nodeID="A0">
+ <hasMapping rdf:nodeID="A1"/>
+ </Graph>
+
+ <Subject rdf:nodeID="A1">
+ <mapsTo rdf:nodeID="A2"/>
+ </Subject>
+
+ <Object rdf:nodeID="A2">
+ </Object>
+
</rdf:RDF>
===================================================================
RCS file: /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/wormbase-query,v
retrieving revision 1.7
retrieving revision 1.8
diff -u -r1.7 -r1.8
--- /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/wormbase-query 2005/12/13 23:10:24 1.7
+++ /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/wormbase-query 2006/03/16 03:37:53 1.8
@@ -1,29 +1,41 @@
-<rdf:RDF
- xmlns:ex="http://www.semanticmoby.org/examples/proxies/"
- xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
- xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
- xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
- xmlns:owl="http://www.w3.org/2002/07/owl#"
- xmlns:moby="http://www.semanticmoby.org/ontologies/core/" >
- <rdf:Description rdf:nodeID="A0">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Object"/>
- </rdf:Description>
- <rdf:Description rdf:nodeID="A1">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Graph"/>
- <moby:hasMapping rdf:nodeID="A2"/>
- </rdf:Description>
- <rdf:Description rdf:about="http://www.semanticmoby.org/examples/proxies/wormbase-query">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Resource"/>
- <moby:name>WormBase Query</moby:name>
- <moby:providerName>WormBase</moby:providerName>
- <moby:providerAboutURI>http://www.wormbase.org</moby:providerAboutURI>
- <moby:oneLineDescription>C. elegans database query at wormbase.org</moby:oneLineDescription>
- <moby:inputURI>http://www.wormbase.org/</moby:inputURI>
- <moby:metadata>http://www.semanticmoby.org/examples/proxies/wormbase-query-metadata.txt</moby:metadata>
- <moby:operatesOn rdf:nodeID="A1"/>
- </rdf:Description>
- <rdf:Description rdf:nodeID="A2">
- <rdf:type rdf:resource="http://www.semanticmoby.org/ontologies/core/Subject"/>
- <moby:mapsTo rdf:nodeID="A0"/>
- </rdf:Description>
+<?xml version="1.0" encoding="UTF-8"?>
+
+<!DOCTYPE rdf:RDF [
+ <!ENTITY rdf "http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+ <!ENTITY rdfs "http://www.w3.org/2000/01/rdf-schema#">
+ <!ENTITY xsd "http://www.w3.org/2001/XMLSchema#">
+ <!ENTITY owl "http://www.w3.org/2002/07/owl#">
+ <!ENTITY proxy "http://www.semanticmoby.org/examples/proxies/">
+ <!ENTITY moby "http://www.semanticmoby.org/ontologies/core/">
+]>
+
+<rdf:RDF xmlns:rdf = "&rdf;"
+ xmlns:rdfs = "&rdfs;"
+ xmlns:xsd = "&xsd;"
+ xmlns:owl = "&owl;"
+ xmlns:proxy = "&proxy;"
+ xmlns = "&moby;">
+
+ <Resource rdf:about="&proxy;wormbase-query">
+ <name>WormBase Query</name>
+ <aboutURI>http://www.wormbase.org/db/searches/basic</aboutURI>
+ <providerName>WormBase</providerName>
+ <providerAboutURI>http://www.wormbase.org</providerAboutURI>
+ <oneLineDescription>C. elegans database query at wormbase.org</oneLineDescription>
+ <inputURI>http://www.wormbase.org/</inputURI>
+ <metadata>http://www.semanticmoby.org/examples/proxies/wormbase-query-metadata.txt</metadata>
+ <operatesOn rdf:nodeID="A0"/>
+ </Resource>
+
+ <Graph rdf:nodeID="A0">
+ <hasMapping rdf:nodeID="A1"/>
+ </Graph>
+
+ <Subject rdf:nodeID="A1">
+ <mapsTo rdf:nodeID="A2"/>
+ </Subject>
+
+ <Object rdf:nodeID="A2">
+ </Object>
+
</rdf:RDF>
rcsdiff: /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/RCS/flybase-genequery.n3,v: No such file or directory
rcsdiff: /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/RCS/gramene-query.n3,v: No such file or directory
rcsdiff: /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/RCS/ncbi-megablast.n3,v: No such file or directory
rcsdiff: /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/RCS/pubmed.n3,v: No such file or directory
rcsdiff: /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/RCS/sgd-quicksearch.n3,v: No such file or directory
rcsdiff: /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/RCS/tair-mapviewer.n3,v: No such file or directory
rcsdiff: /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/RCS/tair-seqviewer.n3,v: No such file or directory
rcsdiff: /home/repository/moby/s-moby/ref-impl/semanticmoby.org/WebRoot/examples/proxies/RCS/wormbase-query.n3,v: No such file or directory
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