fix v2.0.1

Author: carushi

README.md

@@ -56,12 +56,12 @@ To run a demo using CSV input:
 git clone https://github.com/carushi/reactIDR
 cd reactIDR/csv_example
 python -c "import reactIDR; reactIDR.run_reactIDR([
-  '-e', '0',
+  '-e 0',
   '--csv',
   '--global',
-  '--case', './csv_example/case.csv',
+  '--case', 'case.csv',
   '--output', 'test.csv',
-  '--param', './csv_example/default_parameters.txt'
+  '--param', 'default_parameters.txt'
 ])"
 ```
 

pyproject.toml

@@ -4,7 +4,7 @@ build-backend = "setuptools.build_meta"
 
 [project]
 name = "reactIDR"
-version = "2.0.0"
+version = "2.0.1"
 description = "Implementation of the IDR (Irreproducible Discovery Rate) method for RNA reactivity data."
 readme = "README.md"
 authors = [
@@ -28,3 +28,4 @@ Repository = "https://github.com/carushi/reactIDR"
 
 [tool.setuptools]
 packages = { find = { where = ["."] , include = ["reactIDR*"] } }
+

script/setup.py

@@ -0,0 +1,43 @@
+# -*- coding: utf-8 -*-
+from setuptools import setup, Extension
+from setuptools.command.build_ext import build_ext
+from Cython.Build import cythonize
+import numpy
+
+ext_modules = [
+    Extension(
+        "reactIDR.cython.fast_param_fit",
+        sources=["reactIDR/cython/fast_param_fit.pyx"],
+        include_dirs=[numpy.get_include()],
+    )
+]
+
+
+setup(
+    name="reactIDR",
+    version="2.0.1",
+    description="Implementation of the IDR computation for RNA reactivity data.",
+    author="carushi",
+    author_email="1845273+carushi@users.noreply.github.com",
+    license="GPL2",
+    packages=["reactIDR", "reactIDR.cython"],
+    ext_modules=ext_modules,
+    python_requires=">=3.9",
+    install_requires=[
+        "numpy>=2.0.2",
+        "scipy>=1.13.1",
+        "pandas>=2.2.3",
+        "matplotlib"
+    ],
+    entry_points={
+        "console_scripts": [
+            "reactIDR = reactIDR.main:main"
+        ]
+    },
+    classifiers=[
+        "Programming Language :: Python :: 3",
+        "License :: OSI Approved :: GNU General Public License v2 (GPLv2)"
+    ],
+)
+
+