def get_fasta_object(self, pdb_id, acceptable_sequence_percentage_match = 90.0):
self.log_lookup('FASTA object {0}'.format(pdb_id))
pdb_id = pdb_id.upper()
if not self.fasta_objects.get(pdb_id):
if not self.fasta_contents.get(pdb_id):
if self.cache_dir:
self.add_fasta_contents(pdb_id, download_fasta(pdb_id, self.cache_dir, silent = True))
else:
self.add_fasta_contents(pdb_id, retrieve_fasta(pdb_id, silent = True))
self.add_fasta_object(pdb_id, FASTA.retrieve(pdb_id, cache_dir = self.cache_dir, bio_cache = self))
return self.fasta_objects[pdb_id]
def get_fasta_contents(self, pdb_id):
self.log_lookup('FASTA {0}'.format(pdb_id))
pdb_id = pdb_id.upper()
if not self.fasta_contents.get(pdb_id):
if self.fasta_objects.get(pdb_id):
self.add_fasta_contents(pdb_id, self.fasta_objects[pdb_id].fasta_contents)
elif self.cache_dir:
self.add_fasta_contents(pdb_id, download_fasta(pdb_id, self.cache_dir, silent = True))
else:
self.add_fasta_contents(pdb_id, retrieve_fasta(pdb_id, silent = True))
return self.fasta_contents[pdb_id]
