From b1ada7d9ccc106355441f8f5c4114b89c3362fd2 Mon Sep 17 00:00:00 2001
From: Fabian Affolter <mail@fabian-affolter.ch>
Date: Mon, 13 May 2024 20:37:27 +0200
Subject: [PATCH 1/2] python312Packages.pyfaidx: refactor

---
 .../python-modules/pyfaidx/default.nix        | 22 +++++++++----------
 1 file changed, 11 insertions(+), 11 deletions(-)

diff --git a/pkgs/development/python-modules/pyfaidx/default.nix b/pkgs/development/python-modules/pyfaidx/default.nix
index 4999b1dcddf99..c0a5dbd5589ba 100644
--- a/pkgs/development/python-modules/pyfaidx/default.nix
+++ b/pkgs/development/python-modules/pyfaidx/default.nix
@@ -1,39 +1,38 @@
 { lib
 , buildPythonPackage
 , fetchPypi
+, glibcLocales
 , importlib-metadata
-, nose
 , numpy
+, pytestCheckHook
+, pythonOlder
 , setuptools
 , setuptools-scm
-, six
-, glibcLocales
-, pytestCheckHook
 }:
 
 buildPythonPackage rec {
   pname = "pyfaidx";
   version = "0.8.1.1";
-  format = "pyproject";
+  pyproject = true;
+
+  disabled = pythonOlder "3.7";
 
   src = fetchPypi {
     inherit pname version;
     hash = "sha256-bwSCNSYZ8sxWADyiIyG9sNB2S2VnlbweQGKx+psIaGs=";
   };
 
-  nativeBuildInputs = [
+  build-system = [
     setuptools
     setuptools-scm
   ];
 
-  propagatedBuildInputs = [
+  dependencies = [
     importlib-metadata
-    six
   ];
 
   nativeCheckInputs = [
     glibcLocales
-    nose
     numpy
     pytestCheckHook
   ];
@@ -48,10 +47,11 @@ buildPythonPackage rec {
   ];
 
   meta = with lib; {
-    homepage = "https://github.com/mdshw5/pyfaidx";
     description = "Python classes for indexing, retrieval, and in-place modification of FASTA files using a samtools compatible index";
-    mainProgram = "faidx";
+    homepage = "https://github.com/mdshw5/pyfaidx";
+    changelog = "https://github.com/mdshw5/pyfaidx/releases/tag/v${version}";
     license = licenses.bsd3;
     maintainers = with maintainers; [ jbedo ];
+    mainProgram = "faidx";
   };
 }

From f500ab7ac2e68aeff14796eebba8c918e0440c4d Mon Sep 17 00:00:00 2001
From: Fabian Affolter <mail@fabian-affolter.ch>
Date: Mon, 13 May 2024 20:37:52 +0200
Subject: [PATCH 2/2] python312Packages.pyfaidx: format with nixfmt

---
 .../python-modules/pyfaidx/default.nix        | 29 +++++++++----------
 1 file changed, 13 insertions(+), 16 deletions(-)

diff --git a/pkgs/development/python-modules/pyfaidx/default.nix b/pkgs/development/python-modules/pyfaidx/default.nix
index c0a5dbd5589ba..551814d9fe81e 100644
--- a/pkgs/development/python-modules/pyfaidx/default.nix
+++ b/pkgs/development/python-modules/pyfaidx/default.nix
@@ -1,13 +1,14 @@
-{ lib
-, buildPythonPackage
-, fetchPypi
-, glibcLocales
-, importlib-metadata
-, numpy
-, pytestCheckHook
-, pythonOlder
-, setuptools
-, setuptools-scm
+{
+  lib,
+  buildPythonPackage,
+  fetchPypi,
+  glibcLocales,
+  importlib-metadata,
+  numpy,
+  pytestCheckHook,
+  pythonOlder,
+  setuptools,
+  setuptools-scm,
 }:
 
 buildPythonPackage rec {
@@ -27,9 +28,7 @@ buildPythonPackage rec {
     setuptools-scm
   ];
 
-  dependencies = [
-    importlib-metadata
-  ];
+  dependencies = [ importlib-metadata ];
 
   nativeCheckInputs = [
     glibcLocales
@@ -42,9 +41,7 @@ buildPythonPackage rec {
     "tests/test_Fasta_bgzip.py"
   ];
 
-  pythonImportsCheck = [
-    "pyfaidx"
-  ];
+  pythonImportsCheck = [ "pyfaidx" ];
 
   meta = with lib; {
     description = "Python classes for indexing, retrieval, and in-place modification of FASTA files using a samtools compatible index";