def run_finder(self, names, all_domains, types=None):
genes = [DummyCDS(1, 2, locus_tag=name) for name in names]
for gene in genes:
gene.nrps_pks = DummyNRPSQualfier()
gene.nrps_pks.domain_names = all_domains[gene.get_name()]
if not types:
gene.nrps_pks.type = domain_identification.classify_cds(
all_domains[gene.get_name()])
else:
gene.nrps_pks.type = types[gene.get_name()]
return orderfinder.find_cluster_modular_enzymes(genes)
def func(self, domains, ks_subtypes=None):
return domain_identification.classify_cds(domains, ks_subtypes or [])