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Commit 0cbbb09b authored by Gauthier Roy's avatar Gauthier Roy
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work on fitness

parent 9a9e512e
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{ {
"python.pythonPath": "D:\\Programmes\\Anaconda3\\python.exe" "python.pythonPath": "/Users/gauthierroy/anaconda3/bin/python"
} }
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...@@ -11,23 +11,21 @@ class Individu(): ...@@ -11,23 +11,21 @@ class Individu():
def evaluate(self, brin): def evaluate(self, brin):
traj = Traj3D() traj = Traj3D()
traj.compute(brin, self.table)
traj_array = np.array(traj.getTraj())
first_nucleotide = traj_array[0, 0:3] fisrt_nuc = brin[0]
last_nucleotide = traj_array[-1, 0:3] last_nu = brin[-1]
distance = sqrt(sum((first_nucleotide - last_nucleotide) ** 2))
first_name = brin[0] traj.compute(brin + fisrt_nuc, self.table)
last_name = brin[-1] traj_array = np.array(traj.getTraj())
rot_computed = self.table.Rot_Table[last_name+first_name] first_nuc_coordonate = traj_array[0, 0:3]
rot_traj = first_nucleotide - last_nucleotide last_nuc_coordonate = traj_array[-2, 0:3]
print(rot_traj)
print(rot_computed)
diff_angle = sum(abs(rot_computed - rot_traj))
self.score = 1/(distance + diff_angle) test = np.linalg.norm(first_nuc_coordonate - last_nuc_coordonate, ord=2)
distance = sqrt(sum((first_nuc_coordonate - last_nuc_coordonate) ** 2))
diff_ideal_distance = abs(3.38 - distance)
diff_ideal_distance_2 = abs(3.38 - test)
self.score = (1/(diff_ideal_distance ), 1/diff_ideal_distance_2)
def mutation(self): def mutation(self):
...@@ -37,4 +35,5 @@ class Individu(): ...@@ -37,4 +35,5 @@ class Individu():
table = RotTable() table = RotTable()
test = Individu(table) test = Individu(table)
test.evaluate("AAAGGATCTTCTTGAGATCCTTTTTTTCTGCGCGTAATCTGCTGCCAGTAAACGAAAAAACCGCCTGGGGAGGCGGTTTAGTCGAA") test.evaluate("AAAGGATCTTCTTGAGATCCTTTTTTTCTGCGCGTAATCTGCTGCCAGTAAACGAAAAAACCGCCTGGGGAGGCGGTTTAGTCGAA")
print(table.rot_table)
print(test.score) print(test.score)
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