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Fix: Replace deprecated delim_whitespace with sep=r"\s+" for pandas >= 2.2 #15

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Fix: Replace deprecated delim_whitespace with sep=r"\s+" for pandas >= 2.2 #15

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2 changes: 1 addition & 1 deletion code/MixMHCpred.py
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Original file line number Diff line number Diff line change
Expand Up @@ -187,7 +187,7 @@ def distance_to_training(lib_path,training_Alleles,predicted_Alleles):

Allele_Pos_idx = get_Allele_index(f'{lib_path}/Allele_pos')
# print(training_Alleles)
seq_data = pd.read_csv(f"{lib_path}/MHC_I_sequences.txt", delim_whitespace= True)
seq_data = pd.read_csv(f"{lib_path}/MHC_I_sequences.txt", sep=r"\s+")
for x in training_Alleles:
if x not in seq_data['Allele'].tolist():
print(f'{x} Fuck')
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2 changes: 1 addition & 1 deletion code/main.py
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Expand Up @@ -207,7 +207,7 @@ def Convert(string):

from panPredictor import *

seq_data = pd.read_csv(f"{lib_path}/MHC_I_sequences.txt", delim_whitespace= True)
seq_data = pd.read_csv(f"{lib_path}/MHC_I_sequences.txt", sep=r"\s+")
Alleles_ = seq_data['Allele'].tolist()
# Alleles_seq = list(seq_data['Sequence'])
# Alleles_H = Alleles_
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2 changes: 1 addition & 1 deletion code/main_sequences.py
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Expand Up @@ -258,7 +258,7 @@ def distance_to_training_special(lib_path,training_Alleles,seq):

Allele_Pos_idx = get_Allele_index(f'{lib_path}/Allele_pos')
# print(training_Alleles)
seq_data = pd.read_csv(f"{lib_path}/MHC_I_sequences.txt", delim_whitespace= True)
seq_data = pd.read_csv(f"{lib_path}/MHC_I_sequences.txt", sep=r"\s+")

Alleles_seq_training = [seq_data[seq_data['Allele']== allele]['Sequence'].iloc[0] for allele in training_Alleles]

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