From e8d32a3cd579886252b2b5f1542acfb5ea1aeb40 Mon Sep 17 00:00:00 2001
From: TomaSajt <62384384+TomaSajt@users.noreply.github.com>
Date: Sat, 11 May 2024 20:00:07 +0200
Subject: python312Packages.phik: fix dependencies, clean up

---
 pkgs/development/python-modules/phik/default.nix | 48 +++++++-----------------
 1 file changed, 13 insertions(+), 35 deletions(-)

(limited to 'pkgs')

diff --git a/pkgs/development/python-modules/phik/default.nix b/pkgs/development/python-modules/phik/default.nix
index b2dae6f29b1ee..bc7dd2a582653 100644
--- a/pkgs/development/python-modules/phik/default.nix
+++ b/pkgs/development/python-modules/phik/default.nix
@@ -3,20 +3,17 @@
 , cmake
 , fetchFromGitHub
 , joblib
-, jupyter
-, jupyter-client
 , matplotlib
-, nbconvert
 , ninja
-, numba
 , numpy
 , pandas
+, pathspec
+, pyproject-metadata
 , pybind11
 , pytestCheckHook
 , pythonOlder
-, scikit-build
+, scikit-build-core
 , scipy
-, setuptools
 }:
 
 buildPythonPackage rec {
@@ -24,7 +21,7 @@ buildPythonPackage rec {
   version = "0.12.4";
   pyproject = true;
 
-  disabled = pythonOlder "3.7";
+  disabled = pythonOlder "3.8";
 
   src = fetchFromGitHub {
     owner = "KaveIO";
@@ -33,58 +30,39 @@ buildPythonPackage rec {
     hash = "sha256-YsH7vVn6gzejunUjUY/RIcvWtaQ/W1gbciJWKi5LDTk=";
   };
 
-  nativeBuildInputs = [
+  build-system = [
     cmake
     ninja
-    scikit-build
-    setuptools
+    pathspec
+    pybind11
+    pyproject-metadata
+    scikit-build-core
   ];
 
-  propagatedBuildInputs = [
+  dependencies = [
     joblib
+    matplotlib
     numpy
-    scipy
     pandas
-    matplotlib
-    numba
-    pybind11
+    scipy
   ];
 
   nativeCheckInputs = [
     pytestCheckHook
-    nbconvert
-    jupyter
-    jupyter-client
   ];
 
-  # Uses setuptools to drive build process
+  # Uses scikit-build-core to drive build process
   dontUseCmakeConfigure = true;
 
   pythonImportsCheck = [
     "phik"
   ];
 
-  postInstall = ''
-    rm -r $out/bin
-  '';
-
   preCheck = ''
     # import from $out
     rm -r phik
   '';
 
-  disabledTests = [
-    # TypeError: 'numpy.float64' object cannot be interpreted as an integer
-    # https://github.com/KaveIO/PhiK/issues/73
-    "test_significance_matrix_hybrid"
-    "test_significance_matrix_mc"
-  ];
-
-  disabledTestPaths = [
-    # Don't test integrations
-    "tests/phik_python/integration/"
-  ];
-
   meta = with lib; {
     description = "Phi_K correlation analyzer library";
     longDescription = ''
-- 
cgit 1.4.1