From 4852068c580c8008576a35c32134b2b4b18b7eab Mon Sep 17 00:00:00 2001
From: Reno Dakota <paparodeo@proton.me>
Date: Tue, 26 Nov 2024 03:34:53 +0000
Subject: [PATCH 1/2] python312Packages.scikit-survival: use github src; fix
 build

Pypi source https://pypi.org/project/scikit-survival/) fails to download
tho (scikit_survival) works. Switch to github source.

Build wants an eigen submodule but just needs the include files so
create a symlink to the package

relax deps for scikit-learn and numpy
---
 .../python-modules/scikit-survival/default.nix | 18 ++++++++++++------
 1 file changed, 12 insertions(+), 6 deletions(-)

diff --git a/pkgs/development/python-modules/scikit-survival/default.nix b/pkgs/development/python-modules/scikit-survival/default.nix
index 85539eabeff6..b60546d8cc84 100644
--- a/pkgs/development/python-modules/scikit-survival/default.nix
+++ b/pkgs/development/python-modules/scikit-survival/default.nix
@@ -2,9 +2,10 @@
   stdenv,
   lib,
   buildPythonPackage,
-  fetchPypi,
+  fetchFromGitHub,
   cython,
   ecos,
+  eigen,
   joblib,
   numexpr,
   numpy,
@@ -21,9 +22,11 @@ buildPythonPackage rec {
   version = "0.23.0";
   pyproject = true;
 
-  src = fetchPypi {
-    inherit pname version;
-    hash = "sha256-JFI3SDOK74vQdoUOStYlc4e0VHps97KjV3a1NQSN6E0=";
+  src = fetchFromGitHub {
+    owner = "sebp";
+    repo = "scikit-survival";
+    rev = "refs/tags/v${version}";
+    hash = "sha256-/gHfCZH9VjE5UQ8LWoBNd8xCMln4r9Etq/eCx/F8w7A=";
   };
 
   nativeBuildInputs = [
@@ -46,9 +49,12 @@ buildPythonPackage rec {
 
   nativeCheckInputs = [ pytestCheckHook ];
 
-  # treat numpy versions as lower bounds, same as setuptools build
+  # can remove scikit-learn after 0.23.1
   postPatch = ''
-    sed -i 's/numpy==/numpy>=/' pyproject.toml
+    ln -s ${lib.getInclude eigen}/include/eigen3/Eigen \
+      sksurv/linear_model/src/eigen
+    sed -i -e 's/numpy>=2.0.0/numpy/' \
+       -e 's/scikit-learn~=1.4.0/scikit-learn/' pyproject.toml
   '';
 
   # Hack needed to make pytest + cython work

From c8e9bfe9e94f3276dc193b2bb3739e47d3dbd20c Mon Sep 17 00:00:00 2001
From: Reno Dakota <paparodeo@proton.me>
Date: Tue, 26 Nov 2024 03:40:54 +0000
Subject: [PATCH 2/2] python312Packages.scikit-survival: 0.23.0 -> 0.23.1

https://github.com/sebp/scikit-survival/releases/tag/v0.23.1
---
 pkgs/development/python-modules/scikit-survival/default.nix | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/pkgs/development/python-modules/scikit-survival/default.nix b/pkgs/development/python-modules/scikit-survival/default.nix
index b60546d8cc84..eb7035189644 100644
--- a/pkgs/development/python-modules/scikit-survival/default.nix
+++ b/pkgs/development/python-modules/scikit-survival/default.nix
@@ -19,14 +19,14 @@
 
 buildPythonPackage rec {
   pname = "scikit-survival";
-  version = "0.23.0";
+  version = "0.23.1";
   pyproject = true;
 
   src = fetchFromGitHub {
     owner = "sebp";
     repo = "scikit-survival";
     rev = "refs/tags/v${version}";
-    hash = "sha256-/gHfCZH9VjE5UQ8LWoBNd8xCMln4r9Etq/eCx/F8w7A=";
+    hash = "sha256-6902chXALa73/kTJ5UwV4CrB7/7wn+QXKpp2ej/Dnk8=";
   };
 
   nativeBuildInputs = [