def run(args, DBCONN):
assemblies = Config.assemblies
if args.assembly:
assemblies = [args.assembly]
for assembly in assemblies:
print('***********', assembly)
with getcursor(DBCONN, "dropTables") as curs:
icg = ImportCreGroups(curs, assembly)
icg.run()
icg.runCts()
with db_connect_single(os.path.realpath(__file__)) as conn:
vacumnAnalyze(conn, assembly + "_cre_all", [])
def run(args, DBCONN):
assemblies = Config.assemblies
if args.assembly:
assemblies = [args.assembly]
for assembly in assemblies:
print('***********', assembly)
pg = PostgresWrapper(DBCONN)
with getcursor(DBCONN, "dropTables") as curs:
icg = TopAccessions(curs, assembly, pg)
icg.run()
with db_connect_single(os.path.realpath(__file__)) as conn:
if 0:
vacumnAnalyze(conn, assembly + "_cre_all", [])
def vac(self):
with db_connect_single(os.path.realpath(__file__)) as conn:
vacumnAnalyze(conn, self.tableName)
def vac(self):
print('***********', "vacumn")
vacumnAnalyze(self.DBCONN.getconn(), self.tableName_cre_all)