示例#1
0
    def __get_psm(self, row):
        peptide_string = row[self.report_loader.peptide_column_index]
        scan_source_name = row[self.report_loader.scan_source_column_index]
        scan_source = self.report_loader.scan_source_manager.match_by_name(scan_source_name)
        scan_id = row[self.report_loader.scan_id_column_index]
        scan_reference = ScanReference(id=scan_id, source=scan_source)

        source_statistics = {}
        for source_statistic_name in self.source_statistic_names:
            try:
                source_statistics[source_statistic_name] = \
                    row[int(source_statistic_name)]
            except KeyError:
                pass

        peptide = Peptide.from_tpp_peptide_string(peptide_string)
        psm = Psm(peptide=peptide,
                  scan_reference=scan_reference,
                  source_statistics=source_statistics
                  )

        return psm
示例#2
0
 def from_tpp(self, peptide_string):
     return Peptide.from_tpp_peptide_string(peptide_string)