python3Packages: add spectral-derivatives, derivative, pysindy (#505410)

maintainers/maintainer-list.nix

@@ -5619,6 +5619,11 @@
     githubId = 5953003;
     name = "Connor Nelson";
   };
+  conny = {
+    github = "ConstantConstantin";
+    githubId = 162139822;
+    name = "Constantin-Paul Hertel";
+  };
   conradmearns = {
     email = "conradmearns+github@pm.me";
     github = "ConradMearns";

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

@@ -0,0 +1,50 @@
+{
+  lib,
+  fetchFromGitHub,
+  buildPythonPackage,
+
+  # build-system
+  poetry-core,
+
+  # dependencies
+  numpy,
+  scipy,
+  scikit-learn,
+  spectral-derivatives,
+  importlib-metadata,
+
+  # tests
+  pytestCheckHook,
+}:
+
+buildPythonPackage rec {
+  pname = "derivative";
+  version = "0.6.3";
+  pyproject = true;
+
+  src = fetchFromGitHub {
+    owner = "andgoldschmidt";
+    repo = "derivative";
+    tag = "v${version}";
+    hash = "sha256-vsN1zlD9x0CEOtRIwr/DrtkV+OjiyrI8QL9Z8pB3wrY=";
+  };
+
+  build-system = [ poetry-core ];
+
+  dependencies = [
+    numpy
+    scipy
+    scikit-learn
+    spectral-derivatives
+    importlib-metadata
+  ];
+
+  nativeCheckInputs = [ pytestCheckHook ];
+
+  meta = {
+    description = "Numerical differentiation of noisy time series data";
+    license = lib.licenses.mit;
+    homepage = "https://derivative.readthedocs.io/en/latest/";
+    maintainers = with lib.maintainers; [ conny ];
+  };
+}

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

@@ -0,0 +1,52 @@
+{
+  lib,
+  buildPythonPackage,
+  fetchPypi,
+
+  # build-system
+  setuptools,
+  setuptools-scm,
+
+  # dependencies
+  scikit-learn,
+  numpy,
+  derivative,
+  scipy,
+  typing-extensions,
+}:
+
+buildPythonPackage rec {
+  pname = "pysindy";
+  version = "2.1.0";
+  pyproject = true;
+
+  src = fetchPypi {
+    inherit pname version;
+    sha256 = "sha256-NpZZ22MucuZwtkz9ef08C578jjo28MNfTxG4ROhjuwg=";
+  };
+
+  build-system = [
+    setuptools
+    setuptools-scm
+  ];
+
+  dependencies = [
+    scikit-learn
+    numpy
+    derivative
+    scipy
+    typing-extensions
+  ];
+
+  # Tests require optional dependencies like jax
+  doCheck = false;
+
+  pythonImportsCheck = [ "pysindy" ];
+
+  meta = {
+    description = "Sparse identification of nonlinear dynamical systems";
+    license = lib.licenses.mit;
+    homepage = "https://pysindy.readthedocs.io/en/latest/";
+    maintainers = with lib.maintainers; [ conny ];
+  };
+}

pkgs/development/python-modules/spectral-derivatives/default.nix

@@ -0,0 +1,48 @@
+{
+  lib,
+  buildPythonPackage,
+  fetchFromGitHub,
+
+  # build-system
+  setuptools,
+
+  # dependencies
+  numpy,
+  scipy,
+  matplotlib,
+
+  # tests
+  pytestCheckHook,
+}:
+
+buildPythonPackage rec {
+  pname = "spectral_derivatives";
+  version = "0.10";
+  pyproject = true;
+
+  src = fetchFromGitHub {
+    owner = "pavelkomarov";
+    repo = "spectral-derivatives";
+    tag = "v${version}";
+    hash = "sha256-KSx3aW2DgVr1nhtGqIO85s6c5p+1rjnrpMY4e63LLiE=";
+  };
+
+  build-system = [ setuptools ];
+
+  dependencies = [
+    numpy
+    scipy
+    matplotlib
+  ];
+
+  nativeCheckInputs = [ pytestCheckHook ];
+
+  pythonImportsCheck = [ "specderiv" ];
+
+  meta = {
+    description = "Derivatives by spectral methods";
+    license = lib.licenses.bsd3;
+    homepage = "https://pavelkomarov.com/spectral-derivatives/specderiv.html";
+    maintainers = with lib.maintainers; [ conny ];
+  };
+}

pkgs/top-level/python-packages.nix

@@ -4255,6 +4255,8 @@ self: super: with self; {
 
   depyf = callPackage ../development/python-modules/depyf { };
 
+  derivative = callPackage ../development/python-modules/derivative { };
+
   derpconf = callPackage ../development/python-modules/derpconf { };
 
   desktop-entry-lib = callPackage ../development/python-modules/desktop-entry-lib { };
@@ -15835,6 +15837,8 @@ self: super: with self; {
 
   pysimplesoap = callPackage ../development/python-modules/pysimplesoap { };
 
+  pysindy = callPackage ../development/python-modules/pysindy { };
+
   pysingleton = callPackage ../development/python-modules/pysingleton { };
 
   pyskyqhub = callPackage ../development/python-modules/pyskyqhub { };
@@ -19046,6 +19050,8 @@ self: super: with self; {
 
   spectral-cube = callPackage ../development/python-modules/spectral-cube { };
 
+  spectral-derivatives = callPackage ../development/python-modules/spectral-derivatives { };
+
   speechbrain = callPackage ../development/python-modules/speechbrain { };
 
   speechrecognition = callPackage ../development/python-modules/speechrecognition { };