def openKeyValDb(dbName, newDb=False, singleProcess=False, prefer=None):
" factory function: returns the right db object given a filename "
#return LevelDb(dbName, newDb=newDb)
# possible other candidates: mdb, cdb, hamsterdb
if prefer=="server":
return pubKeyVal.RedisDb(dbName, newDb=newDb, singleProcess=singleProcess)
else:
return pubKeyVal.SqliteKvDb(dbName, newDb=newDb, singleProcess=singleProcess, tmpDir=pubConf.getFastTempDir())
def isValidUniProt(word):
" return true if word is a uniprot accession "
global uniprotDb
if uniprotDb is None:
dbFname = join(DATADIR, "uniprot")
logging.info("opening list of uniprot accessions %s" % dbFname)
uniprotDb = pubKeyVal.SqliteKvDb(dbFname)
if not word in uniprotDb:
logging.debug("%s is not a uniProt accs" % word)
return False
return True