python3Packages.pykalman: init at 0.9.5

pkgs/development/python-modules/pykalman/default.nix

@@ -0,0 +1,44 @@
+{ lib
+, buildPythonPackage
+, fetchPypi
+, numpy
+, scipy
+, pytestCheckHook
+, nose
+}:
+
+buildPythonPackage rec {
+  pname = "pykalman";
+  version = "0.9.5";
+  format = "setuptools";
+
+  src = fetchPypi {
+    inherit pname version;
+    hash = "sha256-gWr0dyDZJKTGAW+nS54sjCEWWgjZFpPDIqF0Ho4H+zg=";
+  };
+
+  patches = [
+    # https://github.com/pykalman/pykalman/issues/83
+    ./fix-masked-arrays-not-supported.patch
+    # python 3.11 issues fix: https://github.com/pykalman/pykalman/pull/101
+    ./fix-p311-issues.patch
+  ];
+
+  propagatedBuildInputs = [
+    numpy
+    scipy
+  ];
+
+  nativeCheckInputs = [
+    pytestCheckHook
+    nose
+  ];
+  pythonImportsCheck = [ "pykalman" ];
+
+  meta = with lib; {
+    description = "An implementation of the Kalman Filter, Kalman Smoother, and EM algorithm in Python";
+    homepage = "https://github.com/pykalman/pykalman";
+    license = licenses.bsd2;
+    maintainers = with maintainers; [ mbalatsko ];
+  };
+}

pkgs/development/python-modules/pykalman/fix-masked-arrays-not-supported.patch

@@ -0,0 +1,14 @@
+--- a/pykalman/utils.py
++++ b/pykalman/utils.py
+@@ -70,7 +70,10 @@
+             cv_chol = linalg.cholesky(cv + min_covar * np.eye(n_dim),
+                                       lower=True)
+         cv_log_det = 2 * np.sum(np.log(np.diagonal(cv_chol)))
+-        cv_sol = solve_triangular(cv_chol, (X - mu).T, lower=True).T
++        try:
++            cv_sol = solve_triangular(cv_chol, (X - mu).T, lower=True).T
++        except ValueError:
++            cv_sol = np.linalg.solve(cv_chol, (X - mu).T).T
+         log_prob[:, c] = - .5 * (np.sum(cv_sol ** 2, axis=1) + \
+                                      n_dim * np.log(2 * np.pi) + cv_log_det)
+ 

pkgs/development/python-modules/pykalman/fix-p311-issues.patch

@@ -0,0 +1,13 @@
+--- a/pykalman/utils.py
++++ b/pykalman/utils_copy.py
+@@ -40,6 +40,10 @@
+ from scipy import linalg
+ 
+ 
++# monkey patch
++if not hasattr(inspect, 'getargspec'):
++    inspect.getargspec = inspect.getfullargspec
++
+ def array1d(X, dtype=None, order=None):
+     """Returns at least 1-d array with data from X"""
+     return np.asarray(np.atleast_1d(X), dtype=dtype, order=order)

pkgs/top-level/python-packages.nix

@@ -9439,6 +9439,8 @@ self: super: with self; {
 
   pykaleidescape = callPackage ../development/python-modules/pykaleidescape { };
 
+  pykalman = callPackage ../development/python-modules/pykalman { };
+
   pykdl = callPackage ../development/python-modules/pykdl { };
 
   pykdtree = callPackage ../development/python-modules/pykdtree {