def setup_db(self, gtdb_version):
"""Setup database."""
# initialise the backend
self.db = GenomeDatabase.GenomeDatabase(1, False)
self.db.conn.MakePostgresConnection(gtdb_version)
# login
try:
self.db.Login(None, False)
except GenomeDatabaseError as e:
self.db.conn.ClosePostgresConnection()
ErrorReport(e.message + " The following error(s) were reported:\n")
DumpDBErrors(self.db)
sys.exit(-1)
def setup_db(self, threads):
"""Setup database."""
self.logger.info('Make sure you are running against the correct GTDB database!')
# initialise the backend
self.db = GenomeDatabase.GenomeDatabase(threads, False)
self.db.conn.MakePostgresConnection()
# login
try:
self.db.Login(None, False)
except GenomeDatabaseError as e:
self.db.conn.ClosePostgresConnection()
ErrorReport(e.message + " The following error(s) were reported:\n")
DumpDBErrors(self.db)
sys.exit(-1)