docs: def _computeUniqueReadCounts(self):
          """
          Add all pathogen / sample combinations to self.pathogenSampleFiles.
  
          This will make all de-duplicated (by id) FASTA/FASTQ files and store
          the number of de-duplicated reads into C{self.pathogenNames}.
          """
          for pathogenName, samples in self.pathogenNames.items():
              for sampleName in samples:
                  self.pathogenSampleFiles.add(pathogenName, sampleName)