explicitly convert spmatrix

scprep/run/conversion.py

@@ -46,6 +46,18 @@ def _pysce2rpy(pyobject):
     return pyobject
 
 
+def _rpyspmatrix2py(robject):
+    if utils._try_import("anndata2ri"):
+        robject = anndata2ri.scipy2ri.rpy2py(robject)
+    return robject
+
+
+def _pyspmatrix2rpy(pyobject):
+    if utils._try_import("anndata2ri"):
+        pyobject = anndata2ri.scipy2ri.py2rpy(pyobject)
+    return pyobject
+
+
 def _is_r_object(obj):
     return "rpy2.robjects" in str(type(obj)) or "rpy2.rinterface" in str(type(obj))
 
@@ -75,6 +87,7 @@ def rpy2py(robject):
     """
     for converter in [
         _rpynull2py,
+        _rpyspmatrix2py,
         _rpysce2py,
         rpy2.robjects.pandas2ri.rpy2py,
         _rpylist2py,
@@ -118,6 +131,7 @@ def py2rpy(pyobject):
     """
     for converter in [
         _pynull2rpy,
+        _pyspmatrix2rpy,
         _pysce2rpy,
         rpy2.robjects.pandas2ri.py2rpy,
         rpy2.robjects.numpy2ri.py2rpy,

test/test_run.py

@@ -596,6 +596,8 @@ def test_conversion_spmatrix():
         assert isinstance(x, scipy.sparse.csc_matrix)
         assert x.shape == (2, 3)
         assert np.all(x.toarray() == np.array([[1, 3, 5], [2, 4, 6]]))
+        y = scprep.run.conversion.py2rpy(x)
+        assert (scprep.run.conversion.rpy2py(y) != x).nnz == 0
 
     def test_conversion_dataframe():
         x = scprep.run.conversion.rpy2py(