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# ---- BELOW IS JUST FOR REFERENCE ----
if field_in_yaml == 'sequencing_coverage':
# A regular expression would be better!
try:
technology[field_in_yaml] = [
float(tech_info_to_parse.replace('(average)', '').replace("reads/nt", '').
replace('(average for 6 sequences)', '').replace(',', '.').strip(' xX>'))
]
except ValueError:
print(accession_version, "Couldn't make sense of Coverage '%s'" % tech_info_to_parse)
pass
elif GBQualifier_name_text == 'collected_by':
if any([x in GBQualifier_value_text.lower() for x in ['institute', 'hospital', 'city', 'center']]):
sample['collecting_institution'] = GBQualifier_value_text
else:
sample['collector_name'] = GBQualifier_value_text
elif GBQualifier_name_text == 'isolation_source':
if GBQualifier_value_text.upper() in field_to_term_to_uri_dict['ncbi_speciesman_source']:
GBQualifier_value_text = GBQualifier_value_text.upper() # For example, in case of 'usa: wa'
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