def buildDosages(self):
if self.input_format == Formats.IMPUTE:
self.processIMPUTEFiles()
elif self.input_format == Formats.PrediXcan:
self.processPrediXcanFiles()
else:
raise Exceptions.InvalidInputFormat(self.input_format)
def buildPeople(self):
if os.path.exists(self.samples_output):
logging.info(
"%s already exists, delete it if you want it figured out again",
self.samples_output)
else:
if self.input_format == Formats.IMPUTE:
Person.Person.buildFilteredSamples(
self.samples_input, self.samples_output,
self.population_group_filters, self.individual_filters)
elif self.input_format == Formats.PrediXcan:
Person.Person.buildFilteredSamples(
self.samples_input,
self.samples_output,
group_filters=self.population_group_filters,
individual_filters=self.individual_filters,
row_delimiter="\t",
skip_header=False)
else:
raise Exceptions.InvalidInputFormat(self.input_format)
