Version 0.10.1

Author: jrm5100

docs/release-history.rst

@@ -2,6 +2,11 @@
 Release History
 ===============
 
+v0.10.1 (2021-07-16)
+--------------------
+
+Fixed an issue reporting the size of GenotypeDtype in memory
+
 v0.10.0 (2021-07-16)
 --------------------
 

pandas_genomics/arrays/genotype_array.py

@@ -85,6 +85,7 @@ def __init__(self, variant: Optional[Variant] = None):
                 ("gt_score", np.uint8),
             ]
         )
+        self.itemsize = self._record_type.itemsize
 
     # ExtensionDtype Methods
     # -------------------------

pyproject.toml

@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "pandas-genomics"
-version = "0.10.0"
+version = "0.10.1"
 description = "Pandas ExtensionDtypes and ExtensionArray for working with genomics data"
 license = "BSD-3-Clause"
 authors = ["John McGuigan <jrm5100@psu.edu>"]

tests/genotype_array/test_GenotypeArrayInfo.py

@@ -1,6 +1,8 @@
 """
 Test various calculations performed by GenotypeArray
 """
+import sys
+
 import numpy as np
 import pandas as pd
 
@@ -132,3 +134,8 @@ def test_HWE(ga_inhwe, ga_nothwe):
         * 50,
     )
     assert ga_triploid.hwe_pval is np.nan
+
+
+def test_size(ga_AA_Aa_aa_BB_Bb_bb):
+    # gts and scores (6*3 = 18)
+    assert ga_AA_Aa_aa_BB_Bb_bb._data.nbytes == 18

tests/genotype_array/test_GenotypeDtype.py

@@ -66,3 +66,15 @@ def test_from_str(input_str, variant):
     """Test creating GenotypeDtype from str"""
     gtdtype = GenotypeDtype.construct_from_string(input_str)
     assert gtdtype.variant == variant
+
+
+@pytest.mark.parametrize(
+    "input_str,size",
+    [
+        ("genotype(2n)[12; 112161652; rs12462; T; C]", 3),
+        ("genotype(3n)[12; 112161652; rs12462; T; C]", 4),
+    ],
+)
+def test_size(input_str, size):
+    gtdtype = GenotypeDtype.construct_from_string(input_str)
+    assert gtdtype.itemsize == size