From 2403040433a3825ff88bb73b5dbdf6b8bdf15308 Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Mon, 31 Mar 2025 21:20:35 +0200
Subject: [PATCH] python312Packages.mhcflurry: 2.1.4 -> 2.1.5

Diff: https://github.com/openvax/mhcflurry/compare/refs/tags/v2.1.4...v2.1.5

Changelog: https://github.com/openvax/mhcflurry/releases/tag/v2.1.5
---
 .../python-modules/mhcflurry/default.nix       | 18 ++++--------------
 1 file changed, 4 insertions(+), 14 deletions(-)

diff --git a/pkgs/development/python-modules/mhcflurry/default.nix b/pkgs/development/python-modules/mhcflurry/default.nix
index 7ab37fa8678f..611b67645165 100644
--- a/pkgs/development/python-modules/mhcflurry/default.nix
+++ b/pkgs/development/python-modules/mhcflurry/default.nix
@@ -2,12 +2,12 @@
   lib,
   buildPythonPackage,
   fetchFromGitHub,
-  fetchpatch,
 
   # dependencies
   appdirs,
   keras,
   mhcgnomes,
+  numpy,
   pandas,
   pyyaml,
   scikit-learn,
@@ -21,30 +21,22 @@
 
 buildPythonPackage rec {
   pname = "mhcflurry";
-  version = "2.1.4";
+  version = "2.1.5";
   pyproject = true;
 
   src = fetchFromGitHub {
     owner = "openvax";
     repo = "mhcflurry";
     tag = "v${version}";
-    hash = "sha256-dxCGCPnk1IFKg8ZVqMJsojQL0KlNirKlHJoaaOYIzMU=";
+    hash = "sha256-TNb3oKZvgBuXoSwsTuEJjFKEVZyHynazuPInj7wVKs8=";
   };
 
-  patches = [
-    # TODO: this has been merged in master and will thus be included in the next release.
-    (fetchpatch {
-      name = "migrate-from-nose-to-pytest";
-      url = "https://github.com/openvax/mhcflurry/commit/8e9f35381a476362ca41cb71eb0a90f6573fe4b3.patch";
-      hash = "sha256-PyyxGrjE3OZR8dKHEQBQGiRG9A8kcz/e14PRyrVvqrE=";
-    })
-  ];
-
   # keras and tensorflow are not in the official setup.py requirements but are required for the CLI utilities to run.
   dependencies = [
     appdirs
     keras
     mhcgnomes
+    numpy
     pandas
     pyyaml
     scikit-learn
@@ -53,8 +45,6 @@ buildPythonPackage rec {
     tqdm
   ];
 
-  # Tests currently depend on nose; see
-  # <https://github.com/openvax/mhcflurry/pull/244>.
   nativeCheckInputs = [
     pytestCheckHook
   ];