From 0907763c83e8fd0ef6d6f00219395ded840b2565 Mon Sep 17 00:00:00 2001
From: bipin kumar <kbipinkumar@users.noreply.github.com>
Date: Fri, 19 May 2023 09:43:50 +0530
Subject: [PATCH] python-ncls: fix build for 0.0.68 release using PEP 518

---
 BioArchLinux/python-ncls/PKGBUILD      | 15 +++++++-------
 BioArchLinux/python-ncls/cython3.patch | 28 ++++++++++++--------------
 2 files changed, 21 insertions(+), 22 deletions(-)

diff --git a/BioArchLinux/python-ncls/PKGBUILD b/BioArchLinux/python-ncls/PKGBUILD
index 4a8f28d2ea..368921d764 100644
--- a/BioArchLinux/python-ncls/PKGBUILD
+++ b/BioArchLinux/python-ncls/PKGBUILD
@@ -1,10 +1,10 @@
-# Maintainer: bipin kumar <bipin@ccmb.res.in>
+# Maintainer: bipin kumar <kbipinkumar@pm.me>
 
 pkgname=python-ncls
 _module=${pkgname#python-}
-pkgver=0.0.67
-pkgrel=3
-pkgdesc="A wrapper for the nested containment list data structure"
+pkgver=0.0.68
+pkgrel=1
+pkgdesc="A wrapper for the nested containment list data structure. http://dx.doi.org/10.1093/bioinformatics/btz615"
 arch=('x86_64')
 url="https://github.com/biocore-ntnu/ncls"
 license=('BSD-2')
@@ -12,9 +12,10 @@ depends=(
          'python'
          'python-numpy'
          'glibc'
+         'python-setuptools'
         )
 makedepends=(
-             'python-setuptools'
+             'python-setuptools-scm'
              'cython'
              'python-build'
              'python-installer'
@@ -25,9 +26,9 @@ options=(!emptydirs)
 source=("https://files.pythonhosted.org/packages/source/${_module::1}/$_module/$_module-$pkgver.tar.gz"
         "LICENSE"
         "cython3.patch")
-sha256sums=('fa3e673d60e97bb021a516287d74bb959870cf9d910ec82403b99c443d8f447e'
+sha256sums=('81aaa5abb123bb21797ed2f8ef921e20222db14a3ecbc61ccf447532f2b7ba93'
             '48186409eb1721726d28884f40346a8380a893e95a50bef75584e2e9c2d4fcd5'
-            '174a620d7dce0952e9e657ff40f25e73f0f5a9e38c96fffc91ccbc20805a7ee4')
+            '80fbdf0c5c2a805c953df3c359d84e63bc801d14457ad5b8a6c140250ccec7d2')
 
 prepare() {
     cp LICENSE "$_module-$pkgver"
diff --git a/BioArchLinux/python-ncls/cython3.patch b/BioArchLinux/python-ncls/cython3.patch
index cb3a00865f..cb28a18c92 100644
--- a/BioArchLinux/python-ncls/cython3.patch
+++ b/BioArchLinux/python-ncls/cython3.patch
@@ -1,18 +1,16 @@
---- a/setup.py	2023-05-14 00:15:53.983680836 +0530
-+++ b/setup.py	2023-05-14 00:17:57.185420794 +0530
-@@ -63,12 +63,14 @@
-         "ncls.src.fncls", ["ncls/src/fncls.pyx", "ncls/src/fintervaldb.c"],
-         # define_macros=macros,
-         include_dirs=include_dirs)]
+--- a/setup.py	2023-05-19 08:59:27.619223728 +0530
++++ b/setup.py	2023-05-19 09:03:12.750132242 +0530
+@@ -28,10 +28,12 @@
+         include_dirs=include_dirs,
+     ),
+ ]
 +for e in extensions:
 +    e.cython_directives = {'language_level': "3"}
  
- # using setuptools to cythonize if cython not found
- # not recommended by cython docs, but still
- try:
-     from Cython.Build import cythonize
--    ext_modules = cythonize(extensions, language_level=2)
-+    ext_modules = cythonize(extensions, compiler_directives={'language_level' : "3"})
- except ImportError:
-     print()
-     print("Warning: Cannot compile with Cython. Using legacy build.")
+ from Cython.Build import cythonize
+ 
+-ext_modules = cythonize(extensions, language_level=2)
++ext_modules = cythonize(extensions, compiler_directives={'language_level' : "3"})
+ 
+ 
+ setup(ext_modules=ext_modules)