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fix transporter assignment in microbe.py (iss 56) #59

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fix transporter assignment in microbe.py (iss 56) #59

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7 changes: 4 additions & 3 deletions src/microbe.py
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Original file line number Diff line number Diff line change
Expand Up @@ -420,15 +420,16 @@ def microbe_uptake_gene(self, ReqEnz, EnzGenes, MonomersProduced):

# Give each taxon a random number of additional uptake genes between the number they have and n_upgenes
for i in range(self.n_taxa):
n_zero = sum(UptakeGenes.iloc[i, :][UptakeGenes.iloc[i, :] == 0])
zero_index = (UptakeGenes.iloc[i, :] == 0).to_numpy()
n_zero = int(zero_index.sum())
if n_zero == 0: # has all genes
continue
probability_list = [0] * n_zero
locator = np.random.choice(
range(1, n_zero + 1), 1, replace=True
range(1, n_zero + 1), replace=True
) # derive n_zero >= locater >= 1 (NOTE)
probability_list[0 : int(locator)] = [1] * int(locator)
UptakeGenes.iloc[i, :][UptakeGenes.iloc[i, :] == 0] = np.random.choice(
UptakeGenes.iloc[i, zero_index] = np.random.choice(
probability_list, n_zero, replace=False
).astype("int8")

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