NAME
MOBY::OntologyServer - A way for MOBY Central to query the object, service, namespace, and relationship ontologies
SYNOPSIS
use MOBY::OntologyServer;
my $OS = MOBY::OntologyServer->new(ontology => "object");
my ($success, $message, $existingURI) = $OS->objectExists(term => "Object");
if ($success){
print "object exists and it has the LSID $existingURI\n";
} else {
print "object does not exist; additional message from server: $message\n";
}DESCRIPTION
Swappable interface to ontologies. It should deal with LSID's 100% of the time, and also deal with MOBY-specific common names for objects, services, namespaces, and relationship types.
AUTHORS
Mark Wilkinson (markw@illuminae.com)
BioMOBY Project: http://www.biomoby.org
METHODS
new
Title : new
Usage : my $OS = MOBY::OntologyServer->new(%args)
Function :
Returns : MOBY::OntologyServer object
Args : ontology => [object || service || namespace || relationship]
database => mysql databasename that holds the ontologies
host => mysql hostname
username => mysql username
password => mysql password
port => mysql port
dbh => pre-existing database handle to a mysql databaseobjectExists
moby:newterm will return (0, $message, $MOBYLSID)
newterm will return (0, $message, $MOBYLSID
oldterm will return (1, $message, undef)
newLSID will return (0, $desc, $lsid)objectInfo
serviceInfo
createObject
retrieveObject
deprecateObject
deleteObject
relationshipExists
addObjectRelationship
addServiceRelationship
serviceExists
createServiceType
deleteServiceType
namespaceExists
createNamespace
deleteNamespace
retrieveAllServiceTypes
retrieveAllNamespaceTypes
retrieveAllObjectClasses
getObjectCommonName
getNamespaceCommonName
getServiceCommonName
getServiceURI
getObjectURI
getNamespaceURI
getRelationshipURI
consumes ontology (object/service) consumes relationship term as term or LSID