[MOBY-guts] biomoby commit

[Eddie Kawas]

kawas
Thu Feb 21 12:15:41 EST 2008
Update of /home/repository/moby/moby-live/Perl/MOBY-Server/lib/MOBY/RDF/Ontologies
In directory dev.open-bio.org:/tmp/cvs-serv26411/Perl/MOBY-Server/lib/MOBY/RDF/Ontologies

Modified Files:
	ServiceTypes.pm Objects.pm Namespaces.pm Services.pm 
Log Message:
update of pod - found warnings when i ran podchecker so i am correcting them
moby-live/Perl/MOBY-Server/lib/MOBY/RDF/Ontologies ServiceTypes.pm,1.1,1.2 Objects.pm,1.1,1.2 Namespaces.pm,1.1,1.2 Services.pm,1.1,1.2
===================================================================
RCS file: /home/repository/moby/moby-live/Perl/MOBY-Server/lib/MOBY/RDF/Ontologies/ServiceTypes.pm,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Perl/MOBY-Server/lib/MOBY/RDF/Ontologies/ServiceTypes.pm	2008/02/21 00:21:27	1.1
+++ /home/repository/moby/moby-live/Perl/MOBY-Server/lib/MOBY/RDF/Ontologies/ServiceTypes.pm	2008/02/21 17:15:41	1.2
@@ -41,17 +41,19 @@
 	use MOBY::RDF::Ontologies::ServiceTypes;
 	# iustantiate
 	my $x = MOBY::RDF::Ontologies::ServiceTypes->new;
-	
+
 	# get all ontology terms in unformatted XML
 	print $x->createAll({ prettyPrint => 'no' });
-	
+
 	# get a specific ontology term in 'pretty print XML'
 	print $x->createByName({term => 'Retrieval' });
- 
+
 =head1 DESCRIPTION
 
 This module creates RDF XML for the Services ontology
 
+=cut
+
 =head1 AUTHORS
 
  Edward Kawas (edward.kawas [at] gmail [dot] com)

===================================================================
RCS file: /home/repository/moby/moby-live/Perl/MOBY-Server/lib/MOBY/RDF/Ontologies/Objects.pm,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Perl/MOBY-Server/lib/MOBY/RDF/Ontologies/Objects.pm	2008/02/21 00:21:27	1.1
+++ /home/repository/moby/moby-live/Perl/MOBY-Server/lib/MOBY/RDF/Ontologies/Objects.pm	2008/02/21 17:15:41	1.2
@@ -48,11 +48,13 @@
 
 	# get RDF for a specific datatype as formatted XML
 	my $rdf = $x->createByName( { term => 'DNASequence' });
- 
+
 =head1 DESCRIPTION
 
 This module creates RDF/XML for the Objects ontology.
 
+=cut
+
 =head1 AUTHORS
 
  Edward Kawas (edward.kawas [at] gmail [dot] com)
@@ -170,7 +172,7 @@
  that represents the ontology term that you would like to create RDF
  for. For example, the term 'DNASequence' would return RDF describing
  DNASequence and all of its parents and container relationships. 
- 
+
  This routine consumes a hash as input with keys:
 	term: the node to retrieve B<required>
 	prettyPrint: whether (yes) or not (no) to output 'pretty print' formatted XML. Defaults to 'yes'.

===================================================================
RCS file: /home/repository/moby/moby-live/Perl/MOBY-Server/lib/MOBY/RDF/Ontologies/Namespaces.pm,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Perl/MOBY-Server/lib/MOBY/RDF/Ontologies/Namespaces.pm	2008/02/21 00:21:27	1.1
+++ /home/repository/moby/moby-live/Perl/MOBY-Server/lib/MOBY/RDF/Ontologies/Namespaces.pm	2008/02/21 17:15:41	1.2
@@ -46,11 +46,13 @@
 	
 	# get a specific ontology term in 'pretty print XML'
 	print $x->createByName({term => 'NCBI_gi' });
- 
+
 =head1 DESCRIPTION
 
 This module creates RDF XML for the Namespace ontology
 
+=cut
+
 =head1 AUTHORS
 
  Edward Kawas (edward.kawas [at] gmail [dot] com)

===================================================================
RCS file: /home/repository/moby/moby-live/Perl/MOBY-Server/lib/MOBY/RDF/Ontologies/Services.pm,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Perl/MOBY-Server/lib/MOBY/RDF/Ontologies/Services.pm	2008/02/21 00:21:27	1.1
+++ /home/repository/moby/moby-live/Perl/MOBY-Server/lib/MOBY/RDF/Ontologies/Services.pm	2008/02/21 17:15:41	1.2
@@ -44,35 +44,37 @@
 =head1 SYNOPSIS
 
 	my $x = MOBY::RDF::Ontologies::Services->new;
-	
+
 	# get pretty printed RDF/XML for one service
 	print $x->findService({ 
 		serviceName => 'MOBYSHoundGiFromGOIDListAndECode',
 		authURI => 'bioinfo.icapture.ubc.ca' 
 	});
-	
+
 	# get unformatted RDF/XML for a bunch of services from a single provider
 	print $x->findService({ 
 		prettyPrint => 'no',
 		authURI => 'bioinfo.icapture.ubc.ca' 
 	});
-	
+
 	# get unformatted RDF/XML for a bunch of services from a single provider without isAlive info
 	print $x->findService({ 
 		prettyPrint => 'no',
 		authURI => 'bioinfo.icapture.ubc.ca',
 		isAlive => 'no' 
 	});
-	
+
 	# get unformatted RDF/XML for all services
 	print $x->findService({ 
 		prettyPrint => 'no' 
 	});
- 
+
 =head1 DESCRIPTION
 
 	This module aids in the creation of RDF/XML for service instances in the BioMOBY world.
 
+=cut
+
 =head1 AUTHORS
 
  Edward Kawas (edward.kawas [at] gmail [dot] com)