def set_taxonID(self, name):
taxids = {}
nameset = set([self.name, self.binomial, self.tnrs_acceptedname, self.tnrs_binomial])
if 'NA' in nameset: nameset.remove('NA')
for name in nameset:
taxid = genbank.get_taxid(name)
taxids[name] = taxid
taxid_set = set(taxids.values())
if 'NA' in taxid_set: taxid_set.remove('NA')
if len(taxid_set)>1:
out = json.dumps(taxids, indent=2)
log.warning("More than one taxon ID found: \n%s" %taxids)
self.taxid = "NA"
log.info("TaxonID set to 'NA'")
if len(taxid_set)==1:
self.taxid = list(taxid_set)[0]
log.info("TaxonID set to %s" % self.taxid)
if len(taxid_set)==0:
log.warning("No taxon ID found")
self.taxid = "NA"
log.info("TaxonID set to 'NA'")
def set_taxonID(self, name):
taxids = {}
nameset = set([
self.name, self.binomial, self.tnrs_acceptedname,
self.tnrs_binomial
])
if 'NA' in nameset: nameset.remove('NA')
for name in nameset:
taxid = genbank.get_taxid(name)
taxids[name] = taxid
taxid_set = set(taxids.values())
if 'NA' in taxid_set: taxid_set.remove('NA')
if len(taxid_set) > 1:
out = json.dumps(taxids, indent=2)
log.warning("More than one taxon ID found: \n%s" % taxids)
self.taxid = "NA"
log.info("TaxonID set to 'NA'")
if len(taxid_set) == 1:
self.taxid = list(taxid_set)[0]
log.info("TaxonID set to %s" % self.taxid)
if len(taxid_set) == 0:
log.warning("No taxon ID found")
self.taxid = "NA"
log.info("TaxonID set to 'NA'")
def get_taxonID(self, name):
taxid = genbank.get_taxid(name)
return taxid
def get_taxonID(self, name):
taxid = genbank.get_taxid(name)
return taxid
