public void Fitness()
{
string chromoShort = "G--A-A-T";
var list = GetList(chromoShort);
Assert.AreEqual(-13, DnaGeneticAlgorithm.Fitness(list, "GAAAAAAT", chromoShort.Replace("-", "")));
}
public void CalcFitness()
{
Assert.AreEqual(-13, DnaGeneticAlgorithm.CalcFitness("GAAAAAAT".ToCharArray(), "G--A-A-T".ToCharArray()));
Assert.AreEqual(1, DnaGeneticAlgorithm.CalcFitness("GAAAAAAT".ToCharArray(), "GAA----T".ToCharArray()));
Assert.AreEqual(-13, DnaGeneticAlgorithm.CalcFitness("G--A-A-T".ToCharArray(), "GAAAAAAT".ToCharArray()));
Assert.AreEqual(1, DnaGeneticAlgorithm.CalcFitness("GAA----T".ToCharArray(), "GAAAAAAT".ToCharArray()));
}
public void SelectChoice()
{
List <Tuple <List <int>, int> > population = new List <Tuple <List <int>, int> >()
{
new Tuple <List <int>, int>(new List <int> {
1, 1, 1
}, 36),
new Tuple <List <int>, int>(new List <int> {
2, 2, 2
}, 44),
new Tuple <List <int>, int>(new List <int> {
3, 3, 3
}, 14),
new Tuple <List <int>, int>(new List <int> {
4, 4, 4
}, 14),
new Tuple <List <int>, int>(new List <int> {
5, 5, 5
}, 56),
new Tuple <List <int>, int>(new List <int> {
6, 6, 6
}, 54),
};
Assert.AreEqual(1, DnaGeneticAlgorithm.SelectChoice(population, 0)[0]);
Assert.AreEqual(2, DnaGeneticAlgorithm.SelectChoice(population, 37)[0]);
Assert.AreEqual(6, DnaGeneticAlgorithm.SelectChoice(population, 217)[0]);
}
public void FitnessSum()
{
List <Tuple <List <int>, int> > population = new List <Tuple <List <int>, int> >()
{
new Tuple <List <int>, int>(new List <int> {
1, 1, 1
}, 36),
new Tuple <List <int>, int>(new List <int> {
2, 2, 2
}, 44),
new Tuple <List <int>, int>(new List <int> {
3, 3, 3
}, 14),
new Tuple <List <int>, int>(new List <int> {
4, 4, 4
}, 14),
new Tuple <List <int>, int>(new List <int> {
5, 5, 5
}, 56),
new Tuple <List <int>, int>(new List <int> {
6, 6, 6
}, 54),
};
int fs = DnaGeneticAlgorithm.FitnessesSum(population);
Assert.AreEqual(218, fs);
}
public void CalcFitness3()
{
string c1 = "TCTACGTACAAATGGTCCAGAAACGTTATGGCTAAAGTACGTACAATATCATGGGAGAATAGTCC-TCTTGA-GTAC-TA---AGA-GGACTCAGTTTACACCAGTGAGTCCAAGATAAGACTGCCTCTGGGTACAGCACGTCACAGTGTCACCACTTATAGACAGTCAGATTGGTAGTAGGTTCGCTCGGACCCCTCGCCGCGCGGAAGTGTAATGTCCGTCCG";
string c2 = "-----------------------------------TCTACG-GCGACA-AAT-GGTG-CCCGACCTTCGTGATGTACTTAGCCGGACGAACTCAGTTTGCACCTGTGAGTCCAAGATAAGAGTGCCTCTGGGCGCAGCACGACTC-GT-T----ACGTA-AGA-GGACCCATT--T-G-CGAAT--AACGG-CGAAACG--AC-C---A-T-CGA--TCCAGAAA";
Assert.AreEqual(-49, DnaGeneticAlgorithm.CalcFitness(c1.ToCharArray(), c2.ToCharArray()));
Assert.AreEqual(-49, DnaGeneticAlgorithm.CalcFitness(c2.ToCharArray(), c1.ToCharArray()));
}
public void GetComparisonChromo()
{
string expectedResult = "ab--ef-hi-klmno-";
var list = GetList(expectedResult);
char[] newChrom = DnaGeneticAlgorithm.GetComparisonChromo(list, "abcdefghijklmnop", expectedResult.Replace("-", ""));
Assert.AreEqual(expectedResult, new string(newChrom));
}
public void GenerateN()
{
var n = DnaGeneticAlgorithm.GenerateN(50, 10, 100);
Assert.AreEqual(50, n.Count());
n.ForEach(r => System.Diagnostics.Debug.WriteLine(string.Join(",", r)));
}
public void Generate_Single()
{
for (int i = 0; i < 1000; i++)
{
var r = DnaGeneticAlgorithm.Generate(10, 100);
Assert.AreEqual(10, r.Count());
Assert.IsFalse(r.Any(s => s >= 100));
System.Diagnostics.Debug.WriteLine(string.Join(",", r));
}
}
public void Mutate_Random()
{
var result = string.Join(",", DnaGeneticAlgorithm.Mutate(c1, 0.5, 100));
Assert.AreNotEqual(string.Join(",", c1), result);
for (int i = 0; i < 100; i++)
{
System.Diagnostics.Debug.WriteLine(string.Join(",", DnaGeneticAlgorithm.Mutate(c1, 0.5, 100)));
}
}
public void Crossover_Random()
{
var result = string.Join(",", DnaGeneticAlgorithm.Crossover(c1, c2));
Assert.AreNotEqual(string.Join(",", c1), result);
Assert.AreNotEqual(string.Join(",", c2), result);
for (int i = 0; i < 100; i++)
{
System.Diagnostics.Debug.WriteLine(string.Join(",", DnaGeneticAlgorithm.Crossover(c1, c2)));
}
}
public void Run_GAAAAAAT()
{
var result = DnaGeneticAlgorithm.Run("GAAAAAAT", "GAAT", 0.6, 0.002);
}
public void Crossover_Reverse1()
{
var result = string.Join(",", DnaGeneticAlgorithm.Crossover(c1, c2, 1, true));
Assert.AreEqual("3,6,7,14,15,23,45", result);
}
public void Crossover_Not_Reversed()
{
var result = string.Join(",", DnaGeneticAlgorithm.Crossover(c1, c2, 4, false));
Assert.AreEqual("3,4,5,6,7,8,14", result);
}
