public void GetAllGuldmosslavParentsHierarchicalTest()
{
using (ShimsContext.Create())
{
//Arrange
const int GuldmosslavTaxonId = 228321;
LoginApplicationUserAndSetSessionVariables();
SetSwedishLanguage();
IUserContext userContext = ApplicationUserContextSV;
TaxonRelationSearchCriteria searchCriteria = new TaxonRelationSearchCriteria();
searchCriteria.Scope = TaxonRelationSearchScope.AllParentRelations;
searchCriteria.Taxa = new TaxonList {
CoreData.TaxonManager.GetTaxon(userContext, GuldmosslavTaxonId)
};
TaxonRelationList guldmosslavAllParentRelations = CoreData.TaxonManager.GetTaxonRelations(userContext, searchCriteria);
TaxonRelationsTree tree = TaxonRelationsTreeManager.CreateTaxonRelationsTree(userContext, guldmosslavAllParentRelations, searchCriteria.Taxa);
ITaxonRelationsTreeNode node = tree.GetTreeNode(GuldmosslavTaxonId);
//Act
List <ITaxonRelationsTreeEdge> parentEdges = node.GetAllValidParentEdgesTopToBottom(true);
//Assert
Assert.AreEqual(0, parentEdges.First().Parent.Taxon.Category.Id); // Assert first item is Biota
Assert.AreEqual(GuldmosslavTaxonId, parentEdges.Last().Child.Taxon.Id); // Assert last item is guldmosslav
// When getting guldmosslav taxonrelations a non valid parent relation is included.
// which should be removed when getting all parents hierarchical using the tree.
Assert.AreNotEqual(guldmosslavAllParentRelations.Count, parentEdges.Count);
}
}
/// <summary>
/// Updates the cache by getting all relations and all taxa from Taxon service
/// and create a TaxonRelationTree.
/// This method is thread safe.
/// </summary>
/// <param name="userContext">The user context.</param>
public static void UpdateCache(IUserContext userContext)
{
lock (LockingTarget)
{
Debug.WriteLine("Start update Cache {0}", DateTime.Now);
ITaxonSearchCriteria taxonSearchCriteria = new TaxonSearchCriteria();
var allTaxa = CoreData.TaxonManager.GetTaxa(userContext, taxonSearchCriteria);
TaxonRelationSearchCriteria searchCriteria = new TaxonRelationSearchCriteria();
TaxonRelationList allRelations = CoreData.TaxonManager.GetTaxonRelations(userContext, searchCriteria);
TaxonRelationList = allRelations;
CachedTaxonRelationTree = TaxonRelationsTreeManager.CreateTaxonRelationsTree(
userContext,
allRelations,
allTaxa);
CacheLastUpdatedTime = DateTime.Now;
Debug.WriteLine("End update Cache {0}", DateTime.Now);
DyntaxaLogger.WriteMessage("DyntaxaTree updated {0}", DateTime.Now);
}
}
public void CreateCompleteTaxonRelationsTree()
{
using (ShimsContext.Create())
{
LoginApplicationUserAndSetSessionVariables();
SetSwedishLanguage();
IUserContext userContext = ApplicationUserContextSV;
ITaxonSearchCriteria taxonSearchCriteria = new TaxonSearchCriteria();
var allTaxa = CoreData.TaxonManager.GetTaxa(userContext, taxonSearchCriteria);
TaxonRelationSearchCriteria searchCriteria = new TaxonRelationSearchCriteria();
var allRelations = CoreData.TaxonManager.GetTaxonRelations(userContext, searchCriteria);
var tree = TaxonRelationsTreeManager.CreateTaxonRelationsTree(userContext, allRelations, allTaxa, false);
//1012265
//1011617
//6001191 ensam
var edges = tree.GetAllChildAndParentEdges(266838);
string graphviz = GraphvizManager.CreateGraphvizFormatRepresentation(edges);
// find suspicious hybrids
List <ITaxonRelationsTreeNode> invalidHybrids;
// find root nodes
tree.RootNodes = new HashSet <ITaxonRelationsTreeNode>();
tree.ValidRootNodes = new HashSet <ITaxonRelationsTreeNode>();
foreach (var node in tree.AllTreeNodes)
{
tree.RootNodes.Add(node.RootNode);
if (node.RootNode.Taxon.IsValid)
{
tree.ValidRootNodes.Add(node.RootNode);
}
}
}
}
public void SplitGraphTest()
{
using (ShimsContext.Create())
{
//Arrange
LoginApplicationUserAndSetSessionVariables();
SetSwedishLanguage();
IUserContext userContext = ApplicationUserContextSV;
const int lumpSplitTaxonId = 2755;
//TaxonIdBefore: 233285
//TaxonIdAfter: 2755
ITaxonSearchCriteria taxonSearchCriteria = new TaxonSearchCriteria();
TaxonList allTaxa = CoreData.TaxonManager.GetTaxa(userContext, taxonSearchCriteria);
TaxonRelationSearchCriteria searchCriteria = new TaxonRelationSearchCriteria();
TaxonRelationList allRelations = CoreData.TaxonManager.GetTaxonRelations(userContext, searchCriteria);
TaxonRelationsTree tree = TaxonRelationsTreeManager.CreateTaxonRelationsTree(userContext, allRelations,
allTaxa, false);
var edges = tree.GetAllChildAndParentEdges(lumpSplitTaxonId);
var edges2 = tree.GetAllValidChildAndParentEdges(lumpSplitTaxonId);
List <ITaxonRelationsTreeNode> sourceNodes = new List <ITaxonRelationsTreeNode> {
tree.GetTreeNode(lumpSplitTaxonId)
};
GraphVizFormat graphVizFormat = new GraphVizFormat()
{
ShowLumpsAndSplits = true,
ShowRelationId = false
};
string graphRepresentation2 = GraphvizManager.CreateGraphvizFormatRepresentation(
userContext,
tree,
edges2,
sourceNodes,
graphVizFormat);
int x = 8;
}
}
public void GetTaxonRelationsBySearchCriteria()
{
ITaxonRelationSearchCriteria searchCriteria;
TaxonRelationList taxonRelations1, taxonRelations2;
TaxonList taxa;
// Test all taxon relations.
searchCriteria = new TaxonRelationSearchCriteria();
searchCriteria.IsMainRelation = null;
searchCriteria.IsValid = null;
searchCriteria.Taxa = null;
taxonRelations1 = GetTaxonDataSource(true).GetTaxonRelations(GetUserContext(), searchCriteria);
Assert.IsTrue(taxonRelations1.IsNotEmpty());
// Test is valid.
searchCriteria.IsMainRelation = null;
searchCriteria.IsValid = true;
searchCriteria.Taxa = null;
taxonRelations1 = GetTaxonDataSource().GetTaxonRelations(GetUserContext(), searchCriteria);
Assert.IsTrue(taxonRelations1.IsNotEmpty());
searchCriteria.IsValid = false;
taxonRelations2 = GetTaxonDataSource().GetTaxonRelations(GetUserContext(), searchCriteria);
Assert.IsTrue(taxonRelations2.IsNotEmpty());
Assert.IsTrue(taxonRelations1.Count > taxonRelations2.Count);
// Test is main relation.
searchCriteria.IsValid = null;
searchCriteria.IsMainRelation = true;
searchCriteria.Taxa = null;
taxonRelations1 = GetTaxonDataSource().GetTaxonRelations(GetUserContext(), searchCriteria);
Assert.IsTrue(taxonRelations1.IsNotEmpty());
searchCriteria.IsMainRelation = false;
taxonRelations2 = GetTaxonDataSource().GetTaxonRelations(GetUserContext(), searchCriteria);
Assert.IsTrue(taxonRelations2.IsNotEmpty());
Assert.IsTrue(taxonRelations1.Count > taxonRelations2.Count);
// Test with one taxon.
taxa = new TaxonList();
taxa.Add(CoreData.TaxonManager.GetTaxon(GetUserContext(), (Int32)(TaxonId.Mammals)));
searchCriteria = new TaxonRelationSearchCriteria();
searchCriteria.IsMainRelation = null;
searchCriteria.IsValid = null;
searchCriteria.Taxa = taxa;
searchCriteria.Scope = TaxonRelationSearchScope.AllParentRelations;
taxonRelations1 = GetTaxonDataSource().GetTaxonRelations(GetUserContext(), searchCriteria);
Assert.IsTrue(taxonRelations1.IsNotEmpty());
searchCriteria.Scope = TaxonRelationSearchScope.NearestParentRelations;
taxonRelations2 = GetTaxonDataSource().GetTaxonRelations(GetUserContext(), searchCriteria);
Assert.IsTrue(taxonRelations2.IsNotEmpty());
Assert.IsTrue(taxonRelations2.Count < taxonRelations1.Count);
searchCriteria.Scope = TaxonRelationSearchScope.AllChildRelations;
taxonRelations1 = GetTaxonDataSource().GetTaxonRelations(GetUserContext(), searchCriteria);
Assert.IsTrue(taxonRelations1.IsNotEmpty());
searchCriteria.Scope = TaxonRelationSearchScope.NearestChildRelations;
taxonRelations2 = GetTaxonDataSource().GetTaxonRelations(GetUserContext(), searchCriteria);
Assert.IsTrue(taxonRelations2.IsNotEmpty());
Assert.IsTrue(taxonRelations2.Count < taxonRelations1.Count);
// Test with two taxa.
taxa = new TaxonList();
taxa.Add(CoreData.TaxonManager.GetTaxon(GetUserContext(), (Int32)(TaxonId.Mammals)));
taxa.Add(CoreData.TaxonManager.GetTaxon(GetUserContext(), (Int32)(TaxonId.DrumGrasshopper)));
searchCriteria = new TaxonRelationSearchCriteria();
searchCriteria.IsMainRelation = null;
searchCriteria.IsValid = null;
searchCriteria.Taxa = taxa;
searchCriteria.Scope = TaxonRelationSearchScope.AllParentRelations;
taxonRelations1 = GetTaxonDataSource().GetTaxonRelations(GetUserContext(), searchCriteria);
Assert.IsTrue(taxonRelations1.IsNotEmpty());
searchCriteria.Scope = TaxonRelationSearchScope.NearestParentRelations;
taxonRelations2 = GetTaxonDataSource().GetTaxonRelations(GetUserContext(), searchCriteria);
Assert.IsTrue(taxonRelations2.IsNotEmpty());
Assert.IsTrue(taxonRelations2.Count < taxonRelations1.Count);
searchCriteria.Scope = TaxonRelationSearchScope.AllChildRelations;
taxonRelations1 = GetTaxonDataSource().GetTaxonRelations(GetUserContext(), searchCriteria);
Assert.IsTrue(taxonRelations1.IsNotEmpty());
searchCriteria.Scope = TaxonRelationSearchScope.NearestChildRelations;
taxonRelations2 = GetTaxonDataSource().GetTaxonRelations(GetUserContext(), searchCriteria);
Assert.IsTrue(taxonRelations2.IsNotEmpty());
Assert.IsTrue(taxonRelations2.Count < taxonRelations1.Count);
}
public void ValidateTaxonRelationsTree()
{
using (ShimsContext.Create())
{
LoginApplicationUserAndSetSessionVariables();
SetSwedishLanguage();
IUserContext userContext = ApplicationUserContextSV;
ITaxonSearchCriteria taxonSearchCriteria = new TaxonSearchCriteria();
var allTaxa = CoreData.TaxonManager.GetTaxa(userContext, taxonSearchCriteria);
TaxonRelationSearchCriteria searchCriteria = new TaxonRelationSearchCriteria();
var allRelations = CoreData.TaxonManager.GetTaxonRelations(userContext, searchCriteria);
var tree = TaxonRelationsTreeManager.CreateTaxonRelationsTree(userContext, allRelations, allTaxa, false);
List <ITaxonRelationsTreeNode> collectiveTaxa = new List <ITaxonRelationsTreeNode>();
List <ITaxonRelationsTreeNode> hybridTaxa = new List <ITaxonRelationsTreeNode>();
List <ITaxonRelationsTreeNode> artkomplexTaxa = new List <ITaxonRelationsTreeNode>();
List <ITaxonRelationsTreeNode> validCollectiveTaxa = new List <ITaxonRelationsTreeNode>();
List <ITaxonRelationsTreeNode> validHybridTaxa = new List <ITaxonRelationsTreeNode>();
List <ITaxonRelationsTreeNode> validArtkomplexTaxa = new List <ITaxonRelationsTreeNode>();
List <ITaxonRelationsTreeNode> possiblyInvalidCollectiveTaxa = new List <ITaxonRelationsTreeNode>();
List <ITaxonRelationsTreeNode> possiblyInvalidHybridTaxa = new List <ITaxonRelationsTreeNode>();
List <ITaxonRelationsTreeNode> possiblyInvalidArtkomplexTaxa = new List <ITaxonRelationsTreeNode>();
List <ITaxonRelationsTreeNode> notYetHandledHybridTaxa = new List <ITaxonRelationsTreeNode>();
foreach (var node in tree.AsDepthFirstNodeIterator())
{
if (node.Taxon.Category.Id == 27)
{
collectiveTaxa.Add(node);
// Kollektivtaxon ska ha 0 eller flera barn?
// MainChildren = 0 && SecondaryChildren >= 0
if (node.ValidMainChildren == null)
{
validCollectiveTaxa.Add(node);
}
else
{
possiblyInvalidCollectiveTaxa.Add(node);
}
}
if (node.Taxon.Category.Id == 21)
{
hybridTaxa.Add(node);
// Hybrider ska ha exakt 1 primär förälder precis som alla andra taxon.
// När alla Hybrider har hanterats i revisioner (Mora är på gång att ta tag i det så ska den ha
// 1 primär relation oftast under ett släkte (minsta gemensamma nämnaren för föräldrarna)
// men ibland även högre upp. Tyvärr verkar det ligga någon regel i Dyntaxa som
// förhindrar vissa av dessa saker. För släktet Anodonta kan jag t ex inte lägga till
// ett artkomplex (möjligen samma för hybrider) som sekundär förälder.
// 2 eller flera sekundära föräldrar. Oftast till arter.
// Hybrider ska ha exakt 2 sekundära föräldrar.
// och exakt 1 primär förälder.
if (node.ValidMainParents != null && node.ValidMainParents.Count == 1 &&
node.ValidSecondaryParents != null && node.ValidSecondaryParents.Count >= 2)
{
validHybridTaxa.Add(node);
}
else
{
notYetHandledHybridTaxa.Add(node);
//possiblyInvalidHybridTaxa.Add(node);
}
}
if (node.Taxon.Category.Id == 28)
{
artkomplexTaxa.Add(node);
// Artkomplex ska ha 0 eller fler barn?
// MainChildren = 0 && SecondaryChildren >= 0
if (node.ValidMainChildren == null)
{
validArtkomplexTaxa.Add(node);
}
else
{
possiblyInvalidArtkomplexTaxa.Add(node);
}
if (node.ValidSecondaryChildren != null && node.ValidSecondaryChildren.Count == 1)
{
int z = 8;
}
}
}
int t = 8;
}
}
