bump version to 1.0.4 and enhance installation process to verify C libraries

Author: sigdelsanjog

pyproject.toml

@@ -4,7 +4,7 @@ build-backend = "setuptools.build_meta"
 
 [project]
 name = "biocomputing"
-version = "1.0.3"
+version = "1.0.4"
 description = "High-performance DNA sequence generator with Python bindings"
 readme = "README.md"
 requires-python = ">=3.6"

setup.py

@@ -17,14 +17,78 @@ class DownloadLibrariesCommand(install):
     """Custom install command that verifies C libraries are present."""
 
     def run(self):
-        """Run the standard install."""
+        """Run the standard install and verify libraries."""
+        print("\n" + "="*70)
+        print("Biocomputing: Checking C libraries...")
+        print("="*70 + "\n")
+        
+        # Get the _lib directory
+        lib_dir = Path(__file__).parent / "biocomputing" / "_lib"
+        
+        # Required libraries
+        required_libs = [
+            "libdna_sequential.so",
+            "libdna_parallel.so"
+        ]
+        
+        # Create _lib directory if it doesn't exist
+        lib_dir.mkdir(exist_ok=True, parents=True)
+        
+        print(f"Library directory: {lib_dir}\n")
+        print("Shared Object Status:")
+        print("-" * 70)
+        
+        all_present = True
+        for lib_name in required_libs:
+            lib_path = lib_dir / lib_name
+            if lib_path.exists():
+                file_size = lib_path.stat().st_size
+                size_mb = file_size / (1024 * 1024)
+                print(f"✓ {lib_name:<30} {size_mb:>8.2f} MB  [{lib_path}]")
+            else:
+                print(f"✗ {lib_name:<30} {'NOT FOUND':<10}  [{lib_path}]")
+                all_present = False
+        
+        print("-" * 70)
+        
+        if all_present:
+            print("\n✓ All required shared objects are present!\n")
+        else:
+            print("\n⚠ Warning: Some shared objects are missing!")
+            print("   The biocomputing package will try to download them.")
+            print("   Make sure you have internet access.\n")
+            
+            # Try to download missing libraries
+            try:
+                from biocomputing.download_libs import download_libraries, verify_libraries
+                
+                print("Attempting to download libraries from GitHub...")
+                success = download_libraries(
+                    github_repo="sigdelsanjog/biocomputing_core",
+                    release_tag="latest",
+                    target_dir=str(lib_dir)
+                )
+                
+                if success:
+                    print("\n✓ Libraries downloaded successfully!\n")
+                else:
+                    print("\n⚠ Failed to download some libraries.")
+                    print("   You can manually download from:")
+                    print("   https://github.com/sigdelsanjog/biocomputing_core/releases\n")
+            except Exception as e:
+                print(f"\n⚠ Could not download libraries: {e}")
+                print("   Manual download may be required.\n")
+        
+        print("=" * 70)
+        print("Proceeding with installation...\n")
+        
         # Run the standard install
         super().run()
 
 
 setup(
     name="biocomputing",
-    version="1.0.3",
+    version="1.0.4",
     author="Sanjog Sigdel",
     author_email="sigdelsanjog@example.com",
     description="High-performance DNA sequence generator with Python bindings (Sequential & Parallel)",