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author | Arun Isaac | 2022-06-20 14:03:54 +0530 |
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committer | Arun Isaac | 2022-06-20 14:05:31 +0530 |
commit | 52b591d5b5201628f33043e62e5731ad919ee1b9 (patch) | |
tree | b5afb0fe3a057c23bcf7c253e590f55b5ac07f47 | |
parent | 7b694ff847aa84a548a63549d6b77662a4ab923c (diff) | |
download | genenetwork3-52b591d5b5201628f33043e62e5731ad919ee1b9.tar.gz |
gn3: genodb: Retire get function.
* gn3/genodb.py (get): Delete function.
(matrix): Use db.txn.get instead of get.
-rw-r--r-- | gn3/genodb.py | 8 |
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], |