aboutsummaryrefslogtreecommitdiff
path: root/gn3/genodb.py
diff options
context:
space:
mode:
Diffstat (limited to 'gn3/genodb.py')
-rw-r--r--gn3/genodb.py8
1 files changed, 2 insertions, 6 deletions
diff --git a/gn3/genodb.py b/gn3/genodb.py
index e4f26b6..3f7c71d 100644
--- a/gn3/genodb.py
+++ b/gn3/genodb.py
@@ -40,18 +40,14 @@ def open(path):
txn.abort()
env.close()
-def get(db, key):
- '''Get value associated with key in genotype database.'''
- return db.txn.get(key)
-
def get_metadata(db, hash, metadata):
'''Get metadata associated with hash in genotype database.'''
return db.txn.get(hash + b':' + metadata.encode())
def matrix(db):
'''Get current matrix from genotype database.'''
- hash = get(db, b'versions')[0:db.hash_length]
- read_optimized_blob = get(db, get(db, b'current'))
+ hash = db.txn.get(b'versions')[0:db.hash_length]
+ read_optimized_blob = db.txn.get(db.txn.get(b'current'))
nrows = int.from_bytes(get_metadata(db, hash, 'nrows'), byteorder='little')
ncols = int.from_bytes(get_metadata(db, hash, 'ncols'), byteorder='little')
return GenotypeMatrix(np.reshape(np.frombuffer(read_optimized_blob[0 : nrows*ncols],