Fix errors

nvaulin · Jul 23, 2023 · 2641ee5 · 2641ee5
1 parent 93bd1d6
commit 2641ee5
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/Metagenome_generation.py b/Metagenome_generation.py
@@ -233,7 +233,7 @@ def read_pathways(pathways_input: str) -> List[str]:
 
     baseline_abundances = pd.read_csv(os.path.join('baseline_phenotypes', pheno + '.csv'), header=None, sep=',')
     missing_genomes = pd.read_csv(os.path.join('baseline_phenotypes', 'missing_genomes', 'missing_genomes.csv'),
-                                  header=None, sep=',')
+                                  header=1, sep=',', names=['tax_id', 'species'])
 
     baseline_abundances.columns = ['tax_id', 'species', 'mean_abundance', 'sd_abundance']
     baseline_abundances = drop_missing_genomes(baseline_abundances, missing_genomes)