public static ElementNode CreateNodeFromElement(Element element)
{
return(ElementNode.FromElement(element.ToTypedElement()));
}
public static void AddSecurityTag(this ElementNode node, ProcessResult result)
{
if (node == null)
{
return;
}
if (result.ProcessRecords.Count == 0)
{
return;
}
ElementNode metaNode = node.GetMeta();
Meta meta = metaNode?.ToPoco <Meta>() ?? new Meta();
if (result.IsRedacted && !meta.Security.Any(x =>
string.Equals(x.Code, SecurityLabels.REDACT.Code, StringComparison.InvariantCultureIgnoreCase)))
{
meta.Security.Add(SecurityLabels.REDACT);
}
if (result.IsAbstracted && !meta.Security.Any(x =>
string.Equals(x.Code, SecurityLabels.ABSTRED.Code, StringComparison.InvariantCultureIgnoreCase)))
{
meta.Security.Add(SecurityLabels.ABSTRED);
}
if (result.IsCryptoHashed && !meta.Security.Any(x =>
string.Equals(x.Code, SecurityLabels.CRYTOHASH.Code, StringComparison.InvariantCultureIgnoreCase)))
{
meta.Security.Add(SecurityLabels.CRYTOHASH);
}
if (result.IsEncrypted && !meta.Security.Any(x =>
string.Equals(x.Code, SecurityLabels.ENCRYPT.Code, StringComparison.InvariantCultureIgnoreCase)))
{
meta.Security.Add(SecurityLabels.ENCRYPT);
}
if (result.IsPerturbed && !meta.Security.Any(x =>
string.Equals(x.Code, SecurityLabels.PERTURBED.Code, StringComparison.InvariantCultureIgnoreCase)))
{
meta.Security.Add(SecurityLabels.PERTURBED);
}
if (result.IsSubstituted && !meta.Security.Any(x =>
string.Equals(x.Code, SecurityLabels.SUBSTITUTED.Code, StringComparison.InvariantCultureIgnoreCase)))
{
meta.Security.Add(SecurityLabels.SUBSTITUTED);
}
ElementNode newMetaNode = ElementNode.FromElement(meta.ToTypedElement());
if (metaNode == null)
{
node.Add(s_provider, newMetaNode);
}
else
{
node.Replace(s_provider, metaNode, newMetaNode);
}
}
private ElementNode GetResourceRoot(ElementNode node)
{
var content = node.ToJson();
return(ElementNode.FromElement(_parser.Parse(content).ToTypedElement()));
}
public IEnumerable <Dictionary <string, (object valueObj, object typeObj)> > ToTabular(Resource resource, TabularMappingDefinition defination)
{
ElementNode root = ElementNode.FromElement(resource.ToTypedElement());
if (string.IsNullOrEmpty(defination.Unrollpath))
{
IEnumerable <(string name, object valueObj, object typeObj)> result = ToTabularInternal(root, defination.Root);
Dictionary <string, (object valueObj, object typeObj)> output = result.ToDictionary(k => k.name, v => (v.valueObj, v.typeObj));
output[ReservedColumnName.ResourceId] = (resource.Id, FhirTypeNames.String);
yield return(output);
}
else
{
foreach (var node in root.Select(defination.Unrollpath))
{
IEnumerable <(string name, object valueObj, object typeObj)> result = ToTabularInternal(ElementNode.FromElement(node), defination.Root);
Dictionary <string, (object valueObj, object typeObj)> output = result.ToDictionary(k => k.name, v => (v.valueObj, v.typeObj));
output[ReservedColumnName.RowId] = (IdGenerator(), FhirTypeNames.String);
output[ReservedColumnName.ResourceId] = (resource.Id, FhirTypeNames.String);
output[ReservedColumnName.FhirPath] = (node.Location, FhirTypeNames.String);
output[ReservedColumnName.ParentPath] = (GetParentLocation(node), FhirTypeNames.String);
yield return(output);
}
}
}
private ProcessResult SubstituteNode(ElementNode node, ElementNode replacementNode, HashSet <ElementNode> visitedNodes, HashSet <ElementNode> keepNodes)
{
var processResult = new ProcessResult();
if (node == null || replacementNode == null || visitedNodes.Contains(node))
{
return(processResult);
}
// children names to replace, multiple to multiple replacement
var replaceChildrenNames = replacementNode.Children().Select(element => element.Name).ToHashSet();
foreach (var name in replaceChildrenNames)
{
var children = node.Children(name).Cast <ElementNode>().ToList();
var targetChildren = replacementNode.Children(name).Cast <ElementNode>().ToList();
int i = 0;
foreach (var child in children)
{
if (visitedNodes.Contains(child))
{
// Skip replacement if child already processed before.
i++;
continue;
}
else if (i < targetChildren.Count)
{
// We still have target nodes, do replacement
SubstituteNode(child, targetChildren[i++], visitedNodes, keepNodes);
}
else if (keepNodes.Contains(child))
{
// Substitute with an empty node when no target node available but we need to keep this node
SubstituteNode(child, GetDummyNode(), visitedNodes, keepNodes);
}
else
{
// Remove source node when no target node available and we don't need to keep the source node
node.Remove(child);
}
}
while (i < targetChildren.Count)
{
// Add extra target nodes, create a new copy before adding
node.Add(s_provider, ElementNode.FromElement(targetChildren[i++]));
}
}
// children nodes not presented in replacement value, we need either remove or keep a dummy copy
var nonReplacementChildren = node.Children()
.Where(element => !replaceChildrenNames.Contains(element.Name))
.Cast <ElementNode>().ToList();
foreach (var child in nonReplacementChildren)
{
if (visitedNodes.Contains(child))
{
continue;
}
else if (keepNodes.Contains(child))
{
SubstituteNode(child, GetDummyNode(), visitedNodes, keepNodes);
}
else
{
node.Remove(child);
}
}
node.Value = replacementNode.Value;
processResult.AddProcessRecord(AnonymizationOperations.Substitute, node);
return(processResult);
}
private static ElementNode TestPatientElementNode()
{
var parser = new FhirJsonParser();
return(ElementNode.FromElement(parser.Parse(TestPatientSample).ToTypedElement()));
}
public void GivenListOfElementNodes_WhenGetDecendantsByName_AllNodesShouldBeReturned()
{
Patient patient = new Patient();
patient.Active = true;
patient.Address.Add(new Address()
{
City = "Test0"
});
patient.Contact.Add(new Patient.ContactComponent()
{
Address = new Address()
{
City = "Test1"
}
});
Address address = new Address()
{
City = "Test2"
};
Organization organizaton = new Organization();
organizaton.Address.Add(new Address()
{
City = "Test3"
});
// contained resource should not be returned.
Organization organizatonInContained = new Organization();
organizatonInContained.Address.Add(new Address()
{
City = "Test3"
});
patient.Contained.Add(organizatonInContained);
// Verify primitive object
Date date = new Date();
var nodes = new ITypedElement[] { patient.ToTypedElement(), address.ToTypedElement(), organizaton.ToTypedElement(), date.ToTypedElement() }.Select(n => ElementNode.FromElement(n));
var results = FhirPathSymbolExtensions.NodesByName(nodes, "address").Select(n => n.Location);
Assert.Equal(3, results.Count());
Assert.Contains("Patient.address[0]", results);
Assert.Contains("Organization.address[0]", results);
Assert.Contains("Patient.contact[0].address[0]", results);
}
public void GivenListOfPrimitiveElementNodes_WhenGetDecendantsByType_AllNodesShouldBeReturned()
{
Date date = new Date();
Instant instant = new Instant();
FhirBoolean boolean = new FhirBoolean();
FhirString fhirString = new FhirString();
var nodes = new Primitive[] { date, instant, boolean, fhirString }.Select(n => ElementNode.FromElement(n.ToTypedElement()));
var results = FhirPathSymbolExtensions.NodesByType(nodes, "string").Select(n => n.Location);
Assert.Single(results);
Assert.Contains("string", results);
results = FhirPathSymbolExtensions.NodesByType(nodes, "date").Select(n => n.Location);
Assert.Single(results);
Assert.Contains("date", results);
results = FhirPathSymbolExtensions.NodesByType(nodes, "boolean").Select(n => n.Location);
Assert.Single(results);
Assert.Contains("boolean", results);
results = FhirPathSymbolExtensions.NodesByType(nodes, "instant").Select(n => n.Location);
Assert.Single(results);
Assert.Contains("instant", results);
}