Mercurial > repos > greg > pima_report
diff pima_report.py @ 6:b13d4c14caaa draft
Uploaded
author | greg |
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date | Thu, 09 Mar 2023 17:54:17 +0000 |
parents | 9cb62054a87a |
children | 9213359bfda8 |
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--- a/pima_report.py Thu Mar 09 17:50:28 2023 +0000 +++ b/pima_report.py Thu Mar 09 17:54:17 2023 +0000 @@ -421,7 +421,7 @@ if self.kraken2_report_file is None: return # Read in the Kraken fractions and pull out the useful parts - self.kraken_fracs = pandas.read_csv(self.kraken_report_file, delimiter='\t', header=None) + self.kraken_fracs = pandas.read_csv(self.kraken2_report_file, delimiter='\t', header=None) self.kraken_fracs.index = self.kraken_fracs.iloc[:, 4].values self.kraken_fracs = self.kraken_fracs.loc[self.kraken_fracs.iloc[:, 3].str.match('[UG]1?'), :] self.kraken_fracs = self.kraken_fracs.loc[(self.kraken_fracs.iloc[:, 0] >= 1) | (self.kraken_fracs.iloc[:, 3] == 'U'), :]