diff --git a/pkgs/development/python-modules/phonopy/default.nix b/pkgs/development/python-modules/phonopy/default.nix
index 3bc510f678a4..b476543c06a9 100644
--- a/pkgs/development/python-modules/phonopy/default.nix
+++ b/pkgs/development/python-modules/phonopy/default.nix
@@ -1,4 +1,4 @@
-{ stdenv, buildPythonPackage, python, fetchPypi, numpy, pyyaml, matplotlib, h5py }:
+{ stdenv, buildPythonPackage, python, fetchPypi, numpy, pyyaml, matplotlib, h5py, spglib, pytestCheckHook }:
 
 buildPythonPackage rec {
   pname = "phonopy";
@@ -9,15 +9,15 @@ buildPythonPackage rec {
     sha256 = "482c6ff29c058d091ac885e561e28ba3e516ea9e91c44a951cad11f3ae19856c";
   };
 
-  propagatedBuildInputs = [ numpy pyyaml matplotlib h5py ];
+  propagatedBuildInputs = [ numpy pyyaml matplotlib h5py spglib ];
 
-  checkPhase = ''
-    cd test
-    # dynamic structure factor test ocassionally fails do to roundoff
-    # see issue https://github.com/atztogo/phonopy/issues/79
-    rm spectrum/test_dynamic_structure_factor.py
-    ${python.interpreter} -m unittest discover -b
-    cd ../..
+  checkInputs = [ pytestCheckHook ];
+  # flakey due to floating point inaccuracy
+  disabledTests = [ "test_NaCl" ];
+
+  # prevent pytest from importing local directory
+  preCheck = ''
+    rm -r phonopy
   '';
 
   meta = with stdenv.lib; {