public void HasNextTest()
{
int lengthCut = 3;
int step = 1;
int countSteps = 0;
var iterator = new EndIterator(complexChain, lengthCut, step);
while (iterator.HasNext())
{
iterator.Next();
countSteps = countSteps + 1;
}
Assert.AreEqual(countSteps, iterator.MaxShifts);
countSteps = 0;
iterator = new EndIterator(complexChain, lengthCut, step + 1);
while (iterator.HasNext())
{
iterator.Next();
countSteps = countSteps + 1;
}
Assert.True(countSteps == iterator.MaxShifts);
}
/// <summary>
/// The filter out.
/// </summary>
/// <param name="sequence">
/// The sequence.
/// </param>
/// <returns>
/// The <see cref="int"/>.
/// </returns>
public int FilterOut(List<string> sequence)
{
int hits = 0;
EndIterator iterator;
iterator = new EndIterator(Chain, sequence.Count, Interfaces.Seeker.Step);
while (iterator.HasNext())
{
List<string> temp = iterator.Next();
bool chainsEquals = sequence.Count == temp.Count;
for (int i = 0; i < sequence.Count; i++)
{
if (temp[i] != sequence[i])
{
chainsEquals = false;
}
}
if (chainsEquals)
{
Chain.Remove(iterator.Position(), sequence.Count);
hits = hits + 1;
}
}
return hits;
}
public void GetMaxShiftsTest()
{
int lengthCut = 3;
int step = 1;
int maxShifts = 16;
EndIterator iterator = new EndIterator(complexChain, lengthCut, step);
Assert.True(iterator.MaxShifts == maxShifts);
}
public void MoveTest()
{
int len = 2;
int step = 1;
int from = 1, to = 3;
var list1 = new List<string>
{
"ABABAB",
"ABATAT",
"TABABAB",
"ABTABAB",
"ABABAB",
"ABABAB",
"ABABAB"
};
List<string> list = list1.GetRange(@from, to - @from);
var chain = new ComplexChain(list1);
var iterator = new EndIterator(chain, len, step);
iterator.Move(2);
List<string> result = iterator.Next();
for (int i = 0; i < list.Count; i++)
{
Assert.True(list[i].Equals(result[i]));
}
}
public void ResetTest()
{
int lengthCut = 2;
int step = 1;
int index = 0;
int position = 6;
var list1 = new List<string>
{
"ABABAB",
"ABATAT",
"TABABAB",
"ABTABAB",
"ABABAB",
"ABABAB",
"ABABAB"
};
var chain = new ComplexChain(list1);
var iterator = new EndIterator(chain, lengthCut, step);
while (iterator.HasNext())
{
iterator.Next();
index = index + 1;
}
iterator.Reset();
Assert.True(iterator.Position() == position);
}
public void NextTest()
{
List<string> cut;
string[] triplesForStepOne =
{
"AAC", "ACA", "CAG", "AGG",
"GGT", "GTG", "TGC", "GCC",
"CCC", "CCC", "CCT", "CTT",
"TTA", "TAT", "ATT", "TTT"
};
string[] triplesForStepTwo = { "AAC", "CAG", "GGT", "TGC", "CCC", "CCT", "TTA", "ATT" };
int lengthCut = 3;
int step = 1;
var iterator = new EndIterator(complexChain, lengthCut, step);
for (int i = iterator.MaxShifts - 1; i >= 0; i--)
{
cut = iterator.Next();
Assert.True(Helper.ToString(cut).Equals(triplesForStepOne[i]));
}
iterator = new EndIterator(complexChain, lengthCut, step + 1);
for (int i = iterator.MaxShifts - 1; i >= 0; i--)
{
cut = iterator.Next();
Assert.True(Helper.ToString(cut).Equals(triplesForStepTwo[i]));
}
}