update build script

.github/workflows/ci.yml

@@ -54,38 +54,26 @@ jobs:
     runs-on: ${{ matrix.os }}
     strategy:
       matrix:
-        os: [windows-latest]
-        triplet: [x64-windows-release]
+        os: [windows-latest, macos-latest]
     steps:
       - uses: actions/checkout@v4
         with:
           submodules: recursive
 
-      - name: Set zlib by vcpkg
-        uses: johnwason/vcpkg-action@v6
-        with:
-          pkgs: zlib
-          triplet: ${{ matrix.triplet }}
-          github-binarycache: true
-
-      - name: dir list
-        run: dir C:\vcpkg\installed\x64-window-release
-
       - name: Set up Python
         uses: actions/setup-python@v5
         with:
           python-version: '3.11'
       - name: Install dependencies
+        if: matrix.os == 'windows-latest'
         run: |
-          python -m pip install --upgrade pip
-          pip install build twine flake8 setuptools wheel
-
-      - name: Install cibuildwheel
-        run: python -m pip install cibuildwheel -U
+          Invoke-Expression (Invoke-Webrequest 'https://xmake.io/psget.text' -UseBasicParsing).Content
+      - name: Install xmake
+        if: matrix.os == 'macos-latest'
+        run: |
+          ruby -e "$(curl -fsSL https://raw.githubusercontent.com/Homebrew/install/master/install)"
+          brew install xmake
 
       - name: Build wheels
-        if: matrix.os == 'macos-latest'
-        run: python -m cibuildwheel --output-dir wheelhouse
-        env:
-          CIBW_BUILD: cp310-* cp311-* cp312-* cp313-* cp313t-*
-          CIBW_FREE_THREADED_SUPPORT: 1
+        run: |
+          pip wheel . -w wheelhouse

.gitignore

@@ -17,3 +17,4 @@ test-cigar
 /build
 *.egg-info
 *.pyc
+.xmake

python/src/fastseqio/fastseqio.py

@@ -1,4 +1,4 @@
-from _fastseqio import (
+from ._fastseqio import (
     seqioFile as _seqioFile,
     seqOpenMode as _seqOpenMode,
     seqioRecord as _seqioRecord,

setup.py

@@ -1,34 +1,46 @@
 import setuptools
 import platform
-
-is_windows = platform.system() == "Windows"
-
-
-def find_zlib_path_on_windows() -> str:
-    import os
-    zlib_path = os.path.join("vcpkg", "installed", "x64-windows-release", "lib")
-    return os.path.join("C:", zlib_path)
-
-
-libraries = []
-library_dirs = []
-if is_windows:
-    library_dirs.append(find_zlib_path_on_windows())
-    libraries.append("zlib")
-else:
-    libraries.append("z")
-
-
-extensions = [
-    setuptools.Extension(
-        name="_fastseqio",
-        sources=["./python/fastseqio.cc", "seqio.c"],
-        include_dirs=[".", "python/pybind11/include"],
-        extra_compile_args=[],
-        libraries=libraries,
-        library_dirs=library_dirs,
+import re
+import subprocess
+import shutil
+
+def get_shared_lib_path():
+    shutil.rmtree("build", ignore_errors=True)
+    p = subprocess.run(["xmake", "clean"], check=True)
+    p = subprocess.Popen(
+        ["xmake build -v"], shell=True, stdout=subprocess.PIPE, stderr=subprocess.PIPE
     )
-]
+    out, err = p.communicate()
+    if p.returncode != 0:
+        raise RuntimeError("Failed to build the shared library")
+    out = out.decode("utf-8") + err.decode("utf-8")
+    shared_lib_path = re.findall(r"-o ([\w\/\.]+[\.a-z]+)", out)
+    return shared_lib_path[-1]
+
+# Copy the shared library to the package directory
+if platform.system() == "Darwin" or platform.system() == "Windows":
+    extension = []
+    shared_lib_path = get_shared_lib_path()
+    if platform.system() == "Darwin":
+        subprocess.run(
+            ["cp", shared_lib_path, "./python/src/fastseqio/_fastseqio.dylib"], check=True
+        )
+    elif platform.system() == "Windows":
+        subprocess.run(
+            ["copy", shared_lib_path, "./python/src/fastseqio/_fastseqio.pyd"],
+            check=True,
+        )
+    package_data = ({"fastseqio": ["*.so", "*.pyd", "*.dylib"]},)
+elif platform.system() == "Linux":
+    extension = [
+        setuptools.Extension(
+            "_fastseqio",
+            sources=["./seqio.c", "./python/fastseqio.cc"],
+            include_dirs=[".", "python/pybind11/include"],
+            extra_compile_args=["-lz"],
+        )
+    ]
+    package_data = {}
 
 setuptools.setup(
     name="fastseqio",
@@ -40,5 +52,6 @@ def find_zlib_path_on_windows() -> str:
     description="A package for reading and writing fasta/fastq files",
     packages=setuptools.find_namespace_packages(where="./python/src"),
     package_dir={"": "./python/src"},
-    ext_modules=extensions,
+    ext_modules=extension,
+    package_data=package_data,  # type: ignore
 )

xmake.lua

@@ -0,0 +1,13 @@
+add_rules("mode.debug", "mode.release")
+
+add_requires("zlib")
+add_requires("python 3.x")
+
+target("_fastseqio")
+  add_rules("python.library")
+  add_files("seqio.c")
+  add_files("python/fastseqio.cc", {moduletype = "python"})
+  add_includedirs(".", "python/pybind11/include")
+  add_includedirs(".")
+  add_packages("zlib")
+  add_packages("python")