internal SequenceSearchState(SequenceSearchState <T> other, IMinimalDAGNode <T> nextNode, int stepDirection)
{
Index = other.Index + stepDirection;
CurrentNode = nextNode;
//PreviousNode = other.CurrentNode;
ValuePool = new List <T>(other.ValuePool); //.ToList();
UsedValues = new Dictionary <int, T>(other.UsedValues); // { Index, CurrentNode.GetValue() };
this.WildCardIndices = new List <int>(other.WildCardIndices);
this.WildCardCount = other.WildCardCount;
}
/// <summary>
/// Performs the actual DFS search, finding all <see cref="SequenceSearchState{T}"/> that match the <see cref="Pattern{char}"/>
/// </summary>
/// <param name="searchState"></param>
/// <param name="nextRelativeSelector"></param>
/// <param name="sequenceBoundaries"></param>
/// <param name="stepDirection"></param>
/// <returns></returns>
private IEnumerable <SequenceSearchState <char> > DepthFirstSequenceSearch(SequenceSearchState <char> searchState,
Func <IMinimalDAGNode <char>, IEnumerable <IMinimalDAGNode <char> > > nextRelativeSelector,
HashSet <int> sequenceBoundaries,
int stepDirection, Pattern <char> pattern)
{
Stack <SequenceSearchState <char> > ToCheck = new Stack <SequenceSearchState <char> >();
ToCheck.Push(searchState);
//NB: recursive searches with yield return build a new iterator for every method call.
//A recursive solution would therefore have performance impact (as well as risking stackoverflow in some very deep pattern).
while (ToCheck.Count > 0)
{
var CurrentState = ToCheck.Pop();
var Relatives = nextRelativeSelector(CurrentState.CurrentNode);
int NextIndex = CurrentState.Index + stepDirection;
if (IsOutOfBounds(NextIndex, pattern))
{
if (IsBoundaryCollision(CurrentState, nextRelativeSelector, sequenceBoundaries, pattern))
{
yield return(CurrentState);
}
}
else
{
bool IsEnd = false;
List <IMinimalDAGNode <char> > OtherRelatives = new List <IMinimalDAGNode <char> >();
foreach (var Relative in Relatives)
{
if (_dawg.IsDAGBoundary(Relative))
{
IsEnd = true;
}
else
{
OtherRelatives.Add(Relative);
}
}
if (IsEnd && IsIndexValidBoundary(CurrentState.Index, sequenceBoundaries))
{
yield return(CurrentState);
}
var NextStates = GetNextStates(CurrentState, OtherRelatives, NextIndex, stepDirection, pattern);
foreach (var nextState in NextStates)
{
ToCheck.Push(nextState);
}
}
}
}
/// <summary>
/// Searches the <see cref="IMinimalDAG{T}"/> from a starting point in a single direction, returning sequences
/// that match the valid <see cref="Pattern{T}"/>
/// </summary>
/// <param name="searchState"></param>
/// <param name="nextRelativeSelector"></param>
/// <param name="sequenceBoundaries"></param>
/// <param name="stepDirection"></param>
/// <returns></returns>
private IEnumerable <SequenceSearchState <char> > SequenceSearch(SequenceSearchState <char> searchState,
Func <IMinimalDAGNode <char>, IEnumerable <IMinimalDAGNode <char> > > nextRelativeSelector,
HashSet <int> sequenceBoundaries,
int stepDirection,
Pattern <char> pattern)
{
if (IsBoundaryCollision(searchState, nextRelativeSelector, sequenceBoundaries, pattern))
{
yield return(searchState);
}
else
{
foreach (var sequence in DepthFirstSequenceSearch(searchState, nextRelativeSelector, sequenceBoundaries, stepDirection, pattern))
{
yield return(sequence);
}
}
}
/// <summary>
/// Checks for a collision with an edge of the search space. In the event of a collision, returns all valid affixes terminating
/// at that point, then breaks.
/// </summary>
/// <param name="searchState"></param>
/// <param name="nextRelativeSelector"></param>
/// <param name="sequenceBoundaries"></param>
/// <returns></returns>
private bool IsBoundaryCollision(SequenceSearchState <char> searchState,
Func <IMinimalDAGNode <char>, IEnumerable <IMinimalDAGNode <char> > > nextRelativeSelector,
HashSet <int> sequenceBoundaries,
Pattern <char> pattern)
{
if (searchState.Index == 0 || searchState.Index == pattern.SearchSpace.Length - 1) //if we're at the edge of the searchspace
{
if (sequenceBoundaries.Contains(searchState.Index)) //and the edge of the searchspace is a valid boundary (we're heading out of bounds)
{
foreach (var Relative in nextRelativeSelector(searchState.CurrentNode))
{
if (_dawg.IsDAGBoundary(Relative))
{
return(true);
}
}
}
}
return(false);
}
internal SequenceSearchState(SequenceSearchState <T> other, IMinimalDAGNode <T> nextNode, int stepDirection, T UsedValue, bool wildCard)
{
this.WildCardIndices = new List <int>(other.WildCardIndices);
Index = other.Index + stepDirection;
CurrentNode = nextNode;
UsedValues = new Dictionary <int, T>(other.UsedValues);
//doesn't make sense:
//if(!UsedValues.ContainsKey(Index))
UsedValues.Add(Index, UsedValue);
// PreviousNode = other.CurrentNode;
if (wildCard)
{
WildCardCount = other.WildCardCount - 1;
ValuePool = new List <T>(other.ValuePool);
WildCardIndices.Add(Index);
}
else
{
WildCardCount = other.WildCardCount;
ValuePool = other.ValuePool.ExceptFirst(UsedValue).ToList();
}
}
/// <summary>
/// From the current state, find all the next states that are valid.
/// </summary>
/// <param name="currentState"></param>
/// <param name="relatives"></param>
/// <param name="nextLocation"></param>
/// <param name="stepDirection"></param>
/// <returns></returns>
private List <SequenceSearchState <char> > GetNextStates(SequenceSearchState <char> currentState, List <IMinimalDAGNode <char> > relatives, int nextLocation,
int stepDirection, Pattern <char> pattern)
{
List <SequenceSearchState <char> > NextStates = new List <SequenceSearchState <char> >();
char concrete;
if (pattern.TryGetConcreteValue(nextLocation, out concrete))
{
foreach (var relative in relatives.Where(x => concrete.Equals(x.Value)))
{
NextStates.Add(new SequenceSearchState <char>(currentState, relative, stepDirection));
}
}
else
{
var ValidValues = pattern.SearchSpace[nextLocation];
var ValidNext = relatives;
if (ValidValues != null)// && !ValidValues.Contains(pattern.EmptyValue))
{
ValidNext = relatives.Where(x => ValidValues.Contains(x.Value)).ToList();
}
foreach (var next in ValidNext)
{
if (currentState.ValuePool.Contains(next.Value))
{
NextStates.Add(new SequenceSearchState <char>(currentState, next, stepDirection, next.Value, false));
}
if (currentState.WildCardCount > 0)
{
NextStates.Add(new SequenceSearchState <char>(currentState, next, stepDirection, next.Value, true));
}
}
}
return(NextStates);
}