/// <summary>
/// Read the Publication Harvester database and export RDF
/// </summary>
public void ExportRdf()
{
if (_storage != null)
{
PreviouslyAddedChecker.SkipAddedPeopleAndPublications(_storage);
}
DateTime startTime = DateTime.Now;
IGraph g = Ontology.GetNewGraph();
People people = new People(_db);
int total = people.PersonList.Count - PreviouslyAddedChecker._PeopleSkipped;
foreach (Person person in people.PersonList)
{
if (!PreviouslyAddedChecker.CheckPerson(person.Setnb))
{
PreviouslyAddedChecker.AddPerson(person.Setnb);
peopleAddedThisRun++;
logger.Info(String.Format("Processing #{0} of {1}: {2}", peopleAddedThisRun, total, person.ToString()));
_personGraphCreator.AddPersonToGraph(g, person);
if (peopleAddedThisRun % _peoplePerWrite == 0)
{
PersonGraphWriter.Write(g);
g.Dispose();
g = Ontology.GetNewGraph();
}
if ((PreviouslyAddedChecker.PeopleAdded - PreviouslyAddedChecker._PeopleSkipped) % 10 == 0)
{
LogTiming(startTime, total);
}
}
}
g.Dispose();
logger.Info("Finished writing RDF to {0}", PersonGraphWriter.Filename);
LogTiming(startTime, total);
}
private void AddPublicationAssertions(IGraph g, Publication pub)
{
if (!PreviouslyAddedChecker.CheckPublication(pub.PMID))
{
PreviouslyAddedChecker.AddPublication(pub.PMID);
IUriNode publicationNode = g.CreateUriNode(new Uri("http://www.stellman-greene.com/publication/" + pub.PMID));
g.Assert(new Triple(publicationNode, g.CreateUriNode(new Uri(OntologyHelper.PropertyType)), g.GetClassNode("publication:Publication")));
g.Assert(new Triple(publicationNode, g.GetPropertyNode("publication:year"), g.CreateLiteralNode(pub.Year.ToString(), new Uri(XmlSpecsHelper.XmlSchemaDataTypeInteger))));
if (pub.Journal != null)
{
g.Assert(new Triple(publicationNode, g.GetPropertyNode("publication:journal"), g.CreateLiteralNode(pub.Journal)));
}
if (pub.Issue != null)
{
g.Assert(new Triple(publicationNode, g.GetPropertyNode("publication:issue"), g.CreateLiteralNode(pub.Issue)));
}
if (pub.Title != null)
{
g.Assert(new Triple(publicationNode, g.GetPropertyNode("publication:title"), g.CreateLiteralNode(pub.Title)));
}
if (pub.PubType != null)
{
g.Assert(new Triple(publicationNode, g.GetPropertyNode("publication:publicationType"), g.CreateLiteralNode(pub.PubType)));
}
if (pub.Authors != null)
{
g.Assert(new Triple(publicationNode, g.GetPropertyNode("publication:authorCount"), g.CreateLiteralNode(pub.Authors.Length.ToString(), new Uri(XmlSpecsHelper.XmlSchemaDataTypeInteger))));
}
if (pub.MeSHHeadings != null)
{
foreach (var meshHeading in pub.MeSHHeadings)
{
if (meshHeading != null)
{
g.Assert(new Triple(publicationNode, g.GetPropertyNode("publication:meshHeading"), g.CreateLiteralNode(meshHeading.ToString())));
}
}
}
var data = _db.ExecuteQuery("SELECT Setnb, AuthorPosition, PositionType FROM PeoplePublications WHERE PMID = " + pub.PMID);
foreach (DataRow row in data.Rows)
{
var authorNode = g.CreateUriNode(new Uri("http://www.stellman-greene.com/person/" + row.Field <String>("Setnb")));
g.Assert(authorNode, g.GetPropertyNode("person:authorOf"), publicationNode);
var publicationAuthorNode = g.CreateBlankNode();
g.Assert(publicationAuthorNode, g.CreateUriNode(new Uri(OntologyHelper.PropertyType)), g.GetClassNode("publication:PublicationAuthor"));
g.Assert(publicationNode, g.GetPropertyNode("publication:hasAuthor"), publicationAuthorNode);
g.Assert(publicationAuthorNode, g.GetPropertyNode("publication:author"), authorNode);
var authorPosition = row["AuthorPosition"];
if (authorPosition != null && authorPosition is System.Int32)
{
g.Assert(publicationAuthorNode, g.GetPropertyNode("publication:authorPosition"), g.CreateLiteralNode(authorPosition.ToString(), new Uri(XmlSpecsHelper.XmlSchemaDataTypeInteger)));
}
var positionType = row["PositionType"];
if (positionType != null && positionType is System.Int16 && Enum.IsDefined(typeof(Harvester.AuthorPositions), Convert.ToInt32(positionType)))
{
g.Assert(publicationAuthorNode, g.GetPropertyNode("publication:authorPositionType"), g.GetAuthorPositionEntityNode((Harvester.AuthorPositions)Convert.ToInt32(positionType)));
}
}
}
}
