From 33ed01ea05d8d79770a5fa9453c6bbae6b7c1ffc Mon Sep 17 00:00:00 2001
From: annalee <150648636+a-n-n-a-l-e-e@users.noreply.github.com>
Date: Sun, 4 Feb 2024 07:26:47 +0000
Subject: [PATCH 1/4] python311Packages.osqp: disable failing unit tests

disable unit tests failing after upgrade to scipy 1.12 as they appear to
just be issues with the test and not the underlying functionality. Can
re-enable once https://github.com/osqp/osqp-python/issues/121 is closed.
---
 pkgs/development/python-modules/osqp/default.nix | 12 +++++++++++-
 1 file changed, 11 insertions(+), 1 deletion(-)

diff --git a/pkgs/development/python-modules/osqp/default.nix b/pkgs/development/python-modules/osqp/default.nix
index 13797c4d17f8..f58a3fec14c8 100644
--- a/pkgs/development/python-modules/osqp/default.nix
+++ b/pkgs/development/python-modules/osqp/default.nix
@@ -5,6 +5,7 @@
 , fetchPypi
 , future
 , numpy
+, oldest-supported-numpy
 , pytestCheckHook
 , pythonOlder
 , qdldl
@@ -15,7 +16,7 @@
 buildPythonPackage rec {
   pname = "osqp";
   version = "0.6.3";
-  format = "setuptools";
+  pyproject = true;
 
   disabled = pythonOlder "3.7";
 
@@ -28,6 +29,7 @@ buildPythonPackage rec {
 
   nativeBuildInputs = [
     cmake
+    oldest-supported-numpy
     setuptools-scm
   ];
 
@@ -50,6 +52,14 @@ buildPythonPackage rec {
   disabledTests = [
     # Need an unfree license package - mkl
     "test_issue14"
+  ]
+  # disable tests failing after scipy 1.12 update
+  # https://github.com/osqp/osqp-python/issues/121
+  # re-enable once unit tests fixed
+  ++ [
+    "feasibility_tests"
+    "polish_tests"
+    "update_matrices_tests"
   ];
 
   meta = with lib; {

From b4781965cdb0112934482fe342043c111839d4eb Mon Sep 17 00:00:00 2001
From: annalee <150648636+a-n-n-a-l-e-e@users.noreply.github.com>
Date: Sun, 4 Feb 2024 07:51:36 +0000
Subject: [PATCH 2/4] python311Packages.cvxpy: apply upstream patch to fix unit
 test

fixes unit test failure after scipy 1.12 upgrade
---
 pkgs/development/python-modules/cvxpy/default.nix | 11 +++++++++++
 1 file changed, 11 insertions(+)

diff --git a/pkgs/development/python-modules/cvxpy/default.nix b/pkgs/development/python-modules/cvxpy/default.nix
index a8e4b6dc9618..16a5adbf1594 100644
--- a/pkgs/development/python-modules/cvxpy/default.nix
+++ b/pkgs/development/python-modules/cvxpy/default.nix
@@ -1,6 +1,7 @@
 { lib
 , stdenv
 , buildPythonPackage
+, fetchpatch
 , clarabel
 , cvxopt
 , ecos
@@ -29,6 +30,16 @@ buildPythonPackage rec {
     hash = "sha256-CjhqV4jb14t7IN0HFSTsY2yPpys2KOafGrxxTI+YEeU=";
   };
 
+  patches = [
+    # fix QP tests. remove on next update
+    # https://github.com/cvxpy/cvxpy/pull/2343
+    (fetchpatch {
+      name = "fix-QP-tests.patch";
+      url = "https://github.com/cvxpy/cvxpy/commit/4c8549b9820e64c1b06f5d71c5d3f36528dd4a76.patch";
+      hash = "sha256-43zjS1STEBaGgj1jEOlX3XzMsE4wjoKAk8ApJo98AzY=";
+    })
+  ];
+
   # we need to patch out numpy version caps from upstream
   postPatch = ''
     sed -i 's/\(numpy>=[0-9.]*\),<[0-9.]*;/\1;/g' pyproject.toml

From edcd5ae003178531237af049a85b3e569cc8f341 Mon Sep 17 00:00:00 2001
From: annalee <150648636+a-n-n-a-l-e-e@users.noreply.github.com>
Date: Sun, 4 Feb 2024 13:26:59 +0000
Subject: [PATCH 3/4] python311Packages.jaxopt: apply patch / disable failing
 tests after scipy 1.12 update

add patch and disable failing aarch64 linux tests
---
 .../python-modules/jaxopt/default.nix         | 19 +++++++++++++++++++
 1 file changed, 19 insertions(+)

diff --git a/pkgs/development/python-modules/jaxopt/default.nix b/pkgs/development/python-modules/jaxopt/default.nix
index 0f0e396b906d..af924cea5ab2 100644
--- a/pkgs/development/python-modules/jaxopt/default.nix
+++ b/pkgs/development/python-modules/jaxopt/default.nix
@@ -1,7 +1,9 @@
 { lib
+, stdenv
 , buildPythonPackage
 , pythonOlder
 , fetchFromGitHub
+, fetchpatch
 , pytest-xdist
 , pytestCheckHook
 , absl-py
@@ -29,6 +31,16 @@ buildPythonPackage rec {
     hash = "sha256-T/BHSnuk3IRuLkBj3Hvb/tFIb7Au25jjQtvwL28OU1U=";
   };
 
+  patches = [
+    # fix failing tests from scipy 1.12 update
+    # https://github.com/google/jaxopt/pull/574
+    (fetchpatch {
+      name = "scipy-1.12-fix-tests.patch";
+      url = "https://github.com/google/jaxopt/commit/48b09dc4cc93b6bc7e6764ed5d333f9b57f3493b.patch";
+      hash = "sha256-v+617W7AhxA1Dzz+DBtljA4HHl89bRTuGi1QfatobNY=";
+    })
+  ];
+
   propagatedBuildInputs = [
     absl-py
     jax
@@ -54,6 +66,13 @@ buildPythonPackage rec {
     "jaxopt.tree_util"
   ];
 
+  disabledTests = lib.optionals (stdenv.isLinux && stdenv.isAarch64) [
+    # https://github.com/google/jaxopt/issues/577
+    "test_binary_logit_log_likelihood"
+    "test_solve_sparse"
+    "test_logreg_with_intercept_manual_loop3"
+  ];
+
   meta = with lib; {
     homepage = "https://jaxopt.github.io";
     description = "Hardware accelerated, batchable and differentiable optimizers in JAX";

From 8c75884e0ef1365973c785467e7a88269215c031 Mon Sep 17 00:00:00 2001
From: annalee <150648636+a-n-n-a-l-e-e@users.noreply.github.com>
Date: Sun, 4 Feb 2024 13:55:19 +0000
Subject: [PATCH 4/4] python311Packages.qutip: 4.7.4 -> 4.7.5

---
 pkgs/development/python-modules/qutip/default.nix | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/pkgs/development/python-modules/qutip/default.nix b/pkgs/development/python-modules/qutip/default.nix
index ddd3b18adbf0..6c57c8f3c076 100644
--- a/pkgs/development/python-modules/qutip/default.nix
+++ b/pkgs/development/python-modules/qutip/default.nix
@@ -18,7 +18,7 @@
 
 buildPythonPackage rec {
   pname = "qutip";
-  version = "4.7.4";
+  version = "4.7.5";
   format = "setuptools";
 
   disabled = pythonOlder "3.7";
@@ -27,7 +27,7 @@ buildPythonPackage rec {
     owner = pname;
     repo = pname;
     rev = "refs/tags/v${version}";
-    hash = "sha256-gfWYlQoGESE+EryLVfsnmBq9xFf3d92xOmEz4A32iqU=";
+    hash = "sha256-4nXZPZFu9L+Okha3qvPil1KvLGO1EbrzotQjqQ8r9l8=";
   };
 
   nativeBuildInputs = [