/// <summary>Creates a new instance of <see cref="TripleStoreAdapter" />.</summary>
/// <param name="store">The underlying triple store</param>
/// <param name="sparqlCommandFactory">SPARQL command factory.</param>
/// <param name="sparqlCommandExecutionStrategyFactory">SPRAQL command execution strategy factory.</param>
public TripleStoreAdapter(ITripleStore store, ISparqlCommandFactory sparqlCommandFactory, ISparqlCommandExecutionStrategyFactory sparqlCommandExecutionStrategyFactory)
{
_store = store;
_sparqlCommandFactory = sparqlCommandFactory;
_sparqlCommandExecutionStrategyFactory = sparqlCommandExecutionStrategyFactory;
_namespaces = new NamespaceMapper(true);
_namespaces.AddNamespace("foaf", new Uri("http://xmlns.com/foaf/0.1/"));
}
/// <summary>
/// Handles Namespace Declarations passing them to the underlying formatter if applicable
/// </summary>
/// <param name="prefix">Namespace Prefix</param>
/// <param name="namespaceUri">Namespace URI</param>
/// <returns></returns>
protected override bool HandleNamespaceInternal(string prefix, Uri namespaceUri)
{
if (_formattingMapper != null)
{
_formattingMapper.AddNamespace(prefix, namespaceUri);
}
if (_formatter is INamespaceFormatter)
{
_writer.WriteLine(((INamespaceFormatter)_formatter).FormatNamespace(prefix, namespaceUri));
}
return(true);
}
/// <summary>
/// Handles namespaces by adding them to each graph
/// </summary>
/// <param name="prefix">Namespace Prefix</param>
/// <param name="namespaceUri">Namespace URI</param>
/// <returns></returns>
protected override bool HandleNamespaceInternal(string prefix, Uri namespaceUri)
{
_nsmap.AddNamespace(prefix, namespaceUri);
return(true);
}
/// <summary>Creates a new instance of <see cref="TripleStoreAdapter"/></summary>
/// <param name="store">The underlying triple store</param>
public TripleStoreAdapter(ITripleStore store)
{
_store = store;
_namespaces = new NamespaceMapper(true);
_namespaces.AddNamespace("foaf", new Uri("http://xmlns.com/foaf/0.1/"));
}
protected override bool HandleNamespaceInternal(string prefix, Uri namespaceUri)
{
namespaceMapper.AddNamespace(prefix, namespaceUri);
return(base.HandleNamespaceInternal(prefix, namespaceUri));
}
public static void LoadGraphPrefixes(INamespaceMapper nm)
{
if (nm.HasNamespace(RoboKindPrefix))
{
return;
}
string s =
@"
@prefix : <#> .
@prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
@prefix daml: <http://www.daml.org/2001/03/daml+oil#> .
@prefix log: <http://www.w3.org/2000/10/swap/log.n3#> .
@prefix foaf: <http://xmlns.com/foaf/0.1/> .
@prefix owl: <http://www.w3.org/2002/07/owl#> .
@prefix virtrdf: <http://www.openlinksw.com/schemas/virtrdf#> .
@prefix sswap: <http://sswapmeet.sswap.info/sswap/#> .
@prefix sioc: <http://rdfs.org/sioc/ns#> .
@prefix sioct: <http://rdfs.org/sioc/types#> .
@prefix atom: <http://atomowl.org/ontologies/atomrdf#> .
@prefix dc: <http://purl.org/dc/elements/1.1/> .
@prefix dct: <http://purl.org/dc/terms/> .
@prefix skos: <http://www.w3.org/2004/02/skos/core#> .
@prefix geo: <http://www.w3.org/2003/01/geo/wgs84_pos#> .
@prefix wikiont: <http://sw.deri.org/2005/04/wikipedia/wikiont.owl#> .
@prefix aowl: <http://atomowl.org/ontologies/atomrdf#> .
@prefix v: <http://www.openlinksw.com/schemas/drupal_v#> .
@prefix sd: <http://www.w3.org/ns/sparql-service-description#> .
@prefix dbpprop: <http://dbpedia.org/property/> .
@prefix dbpedia-owl: <http://dbpedia.org/ontology/> .
@prefix dc: <http://purl.org/dc/elements/1.1/> .
@prefix grddl: <http://www.w3.org/2003/g/data-view#> .
@prefix xml: <http://www.w3.org/XML/1998/namespace> .
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
@prefix dnr: <http://www.dotnetrdf.org/configuration#> .
@prefix dotnetrdf: <http://www.dotnetrdf.org/configuration#> .
@prefix dc: <http://purl.org/dc/elements/1.1/>.
@prefix dcterms: <http://www.purl.org/dc/terms/>.
@prefix vann: <http://purl.org/vocab/vann/>.
@prefix vs: <http://www.w3.org/2003/06/sw-vocab-status/ns#>.
@prefix fmt: <http://www.w3.org/ns/formats/>.
@prefix siprolog: <http://" + CogbotServerWithPort + @"/siprolog#> .
@prefix robokind: <" +
RoboKindURI + @"> .
";
string ss =
@"
fn http://www.w3.org/2005/xpath-functions
gmlxbt http://www.opengis.net/gml/3.3/xbt
sch http://www.ascc.net/xml/schematron
# gml http://www.opengis.net/gml/3.2
gml http://www.opengis.net/gml/_
gmd http://www.isotc211.org/2005/gmd
xlink http://www.w3.org/1999/xlink
xsl http://www.w3.org/1999/XSL/Transform
rdf http://www.w3.org/1999/02/22-rdf-syntax-ns#
p3q http://www.w3.org/2004/01/rdxh/p3q-ns-example
p3qr http://www.example.org/P3Q-rdf#
p3dr http://www.example.org/TR/P3P/base#
ont http://www.daml.org/2001/03/daml+oil#
s http://schema.org/
xsd http://www.w3.org/2001/XMLSchema#
eco http://www.ebusiness-unibw.org/ontologies/eclass/5.1.4/
gr http://purl.org/goodrelations/v1#
dc http://purl.org/dc/elements/1.1/
ao http://purl.org/ao/core/
aoa http://purl.org/ao/annotea/
aof http://purl.org/ao/foaf/
aold http://biotea.ws/ontologies/aold/
aos http://purl.org/ao/selectors/
aot http://purl.org/ao/types/
bibo http://purl.org/ontology/bibo/
bif bif:
bio2rdf_mesh http://bio2rdf.org/ns/mesh#
bio2rdf_ns http://bio2rdf.org/ns/bio2rdf#
chebi http://purl.obolibrary.org/obo/CHEBI_
cnt http://www.w3.org/2011/content#
dawgt http://www.w3.org/2001/sw/DataAccess/tests/test-dawg#
dbpedia http://dbpedia.org/resource/
dbpprop http://dbpedia.org/property/
dc http://purl.org/dc/elements/1.1/
dcterms http://purl.org/dc/terms/
doco http://purl.org/spar/doco/
fma http://purl.org/obo/owl/FMA#FMA_
fn http://www.w3.org/2005/xpath-functions/#
foaf http://xmlns.com/foaf/0.1/
geo http://www.w3.org/2003/01/geo/wgs84_pos#
go http://purl.org/obo/owl/GO#GO_
gw_property http://genewikiplus.org/wiki/Special:URIResolver/Property-3A
gw_wiki http://genewikiplus.org/wiki/Special:URIResolver/
icd9 http://purl.bioontology.org/ontology/ICD9-9/
math http://www.w3.org/2000/10/swap/math#
mddb http://purl.bioontology.org/ontology/MDDB/
meddra http://purl.bioontology.org/ontology/MDR/
medline http://purl.bioontology.org/ontology/MEDLINEPLUS/
mesh http://purl.org/commons/record/mesh/
mf http://www.w3.org/2001/sw/DataAccess/tests/test-manifest#
mged http://mged.sourceforge.net/ontologies/MGEDOntology.owl#
ncbitaxon http://purl.org/obo/owl/NCBITaxon#NCBITaxon_
ncithesaurus http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#
nddf http://purl.bioontology.org/ontology/NDDF/
ndfrt http://purl.bioontology.org/ontology/NDFRT/
obi http://purl.obolibrary.org/obo/OBI_
obo http://www.geneontology.org/formats/oboInOwl#
omim http://purl.bioontology.org/ontology/OMIM/
owl http://www.w3.org/2002/07/owl#
pav http://purl.org/swan/pav/provenance/
po http://purl.bioontology.org/ontology/PO/
product http://www.buy.com/rss/module/productV2/
protseq http://purl.org/science/protein/bysequence/
prov http://www.w3.org/ns/prov#
pw http://purl.org/obo/owl/PW#PW_
rdf http://www.w3.org/1999/02/22-rdf-syntax-ns#
rdfa http://www.w3.org/ns/rdfa#
rdfdf http://www.openlinksw.com/virtrdf-data-formats#
rdfs http://www.w3.org/2000/01/rdf-schema#
sc http://purl.org/science/owl/sciencecommons/
scovo http://purl.org/NET/scovo#
sioc http://rdfs.org/sioc/ns#
skos http://www.w3.org/2004/02/skos/core#
snomed http://purl.bioontology.org/ontology/SNOMEDCT/
sql sql:
swivt http://semantic-mediawiki.org/swivt/1.0#
symptom http://purl.org/obo/owl/SYMP#SYMP_
taxonomy http://www.uniprot.org/taxonomy/
umls http://berkeleybop.org/obo/UMLS:
uniprot http://purl.uniprot.org/core/
vcard http://www.w3.org/2001/vcard-rdf/3.0#
vcard2006 http://www.w3.org/2006/vcard/ns#
virtcxml http://www.openlinksw.com/schemas/virtcxml#
virtrdf http://www.openlinksw.com/schemas/virtrdf#
void http://rdfs.org/ns/void#
xf http://www.w3.org/2004/07/xpath-functions
xml http://www.w3.org/XML/1998/namespace
xsd http://www.w3.org/2001/XMLSchema#
xsl10 http://www.w3.org/XSL/Transform/1.0
xsl1999 http://www.w3.org/1999/XSL/Transform
xslwd http://www.w3.org/TR/WD-xsl
xsp http://www.owl-ontologies.com/2005/08/07/xsp.owl#
yago http://dbpedia.org/class/yago/
";
ss = s + ss;
foreach (string s00 in ss.Split('\n', '\r'))
{
if (String.IsNullOrEmpty(s00))
{
continue;
}
var s0 = s00.Replace('\t', ' ').Trim();
if (s0.StartsWith("#"))
{
continue;
}
if (s0.StartsWith("@prefix "))
{
s0 = s0.Substring("@prefix ".Length).TrimStart();
s0 = s0.TrimEnd('.', ' ');
}
while (s0.Contains(" "))
{
s0 = s0.Replace(" ", " ");
}
if (String.IsNullOrEmpty(s0))
{
continue;
}
int spc = s0.IndexOf(' ');
string prefix = s0.Substring(0, spc).Trim().TrimEnd(' ', ':');
string uri = s0.Substring(spc).Trim();
if (uri.StartsWith("<") && uri.EndsWith(">"))
{
uri = uri.Substring(1, uri.Length - 2).Trim();
}
if (uri == "#")
{
continue;
// uri = graph.BaseUri.AbsoluteUri;
}
if (String.IsNullOrEmpty(prefix))
{
continue;
prefix = ":";//"Warn("adding null prefix " + uri);
}
if (nm.HasNamespace(prefix))
{
var prev = nm.GetNamespaceUri(prefix).ToString();
if (prev != uri)
{
if (uri.Length < prev.Length)
{
continue;
}
}
}
nm.AddNamespace(prefix, new Uri(uri));
}
}
/// <summary>
/// Get column name by using qname compression and replacing special chars with underscores
/// </summary>
/// <param name="node">Node</param>
/// <param name="namespaces">Namespaces</param>
/// <returns></returns>
private string GetColumnName(INode node, INamespaceMapper namespaces)
{
if (node.NodeType != NodeType.Uri)
{
return(null);
}
Uri u = ((IUriNode)node).Uri;
String qname;
if (!namespaces.ReduceToQName(u.AbsoluteUri, out qname))
{
// Issue temporary namespaces
String tempNsPrefix = "ns" + this._nextTempID;
String nsUri = u.AbsoluteUri;
if (nsUri.Contains("#"))
{
//Create a Hash Namespace Uri
nsUri = nsUri.Substring(0, nsUri.LastIndexOf("#") + 1);
}
else if (nsUri.Contains("/"))
{
//Create a Slash Namespace Uri
nsUri = nsUri.Substring(0, nsUri.LastIndexOf("/") + 1);
}
Uri tempNsUri;
if (!Uri.TryCreate(nsUri, UriKind.Absolute, out tempNsUri))
{
tempNsUri = u;
}
while (namespaces.HasNamespace(tempNsPrefix))
{
this._nextTempID++;
tempNsPrefix = "ns" + this._nextTempID;
}
namespaces.AddNamespace(tempNsPrefix, tempNsUri);
if (!namespaces.ReduceToQName(u.AbsoluteUri, out qname))
{
qname = null;
}
}
if (qname == null)
{
// Issue temporary column name
return("entityPredicateColumn" + (++this._nextTempColumnID));
}
// Sanitize qname column name
qname = qname.StartsWith("_") ? qname.Substring(1) : qname.Replace(':', '_');
if (SparqlSpecsHelper.IsValidVarName(qname))
{
return(qname);
}
if (qname.Length == 0)
{
// Issue temporary column name
return("entityPredicateColumn " + (++this._nextTempColumnID));
}
// Clean up illegal characters
// First Character must be from PN_CHARS_U or a digit
// Add a leading p for invalid first characters
char[] cs = qname.ToCharArray();
char first = cs[0];
if (!Char.IsDigit(first) || !SparqlSpecsHelper.IsPNCharsU(first))
{
qname = "p" + qname;
if (SparqlSpecsHelper.IsValidVarName(qname))
{
return(qname);
}
cs = qname.ToCharArray();
}
for (int i = 1; i < cs.Length; i++)
{
if (i >= cs.Length - 1)
{
continue;
}
// Subsequent Chars must be from PN_CHARS (except -) or a '.'
// Replace invalid characters with _
if (cs[i] == '.' || cs[i] == '-')
{
cs[i] = '_';
}
else if (!SparqlSpecsHelper.IsPNChars(cs[i]))
{
cs[i] = '_';
}
}
// Trim trailing underscores
return(new string(cs).TrimEnd('_'));
}