sequenzo 0.1.19__tar.gz → 0.1.20__tar.gz

{sequenzo-0.1.19 → sequenzo-0.1.20}/MANIFEST.in

@@ -11,10 +11,8 @@ recursive-include sequenzo/clustering/src *.cpp
 recursive-include sequenzo/clustering/src *.h
 recursive-include sequenzo/clustering/src *.hpp
 
-# Include all C source files
-recursive-include sequenzo/dissimilarity_measures/utils *.c
-recursive-include sequenzo/clustering/utils *.c
-recursive-include sequenzo/big_data/clara/utils *.c
+# Note: .c files are auto-generated from .pyx during build, so we don't include them here
+# Only .pyx source files are needed for distribution
 
 # Include all header files and external libraries
 recursive-include sequenzo/dissimilarity_measures/src/xsimd/include *.hpp

{sequenzo-0.1.19/sequenzo.egg-info → sequenzo-0.1.20}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: sequenzo
-Version: 0.1.19
+Version: 0.1.20
 Summary: A fast, scalable and intuitive Python package for social sequence analysis.
 Author-email: Yuqi Liang <yuqi.liang.1900@gmail.com>, Xinyi Li <1836724126@qq.com>, Jan Heinrich Ernst Meyerhoff-Liang <jan.meyerhoff1@gmail.com>
 License: BSD 3-Clause License
@@ -181,6 +181,34 @@ If you have some issues with the installation, it might because you have both Py
 pip3 install sequenzo
 ```
 
+### ⚠️ Having Installation or Import Issues?
+
+**Error:** `ImportError: numpy.core.multiarray failed to import`
+
+**Most likely cause:** NumPy version mismatch (you have NumPy 1.x, but need 2.x)
+
+**Quick Fix** (copy-paste these commands):
+```bash
+# Check your NumPy version first
+python -c "import numpy; print(f'NumPy: {numpy.__version__}')"
+
+# If you see 1.x.x, upgrade to 2.x:
+pip install --upgrade "numpy>=2.0.0"
+pip uninstall sequenzo -y
+pip install --no-cache-dir sequenzo
+```
+
+📖 **Still having issues?** 
+1. Run our diagnostic tool to identify the problem:
+   ```bash
+   curl -O https://raw.githubusercontent.com/Liang-Team/Sequenzo/main/diagnose.py
+   python diagnose.py
+   ```
+2. See our detailed guides:
+   - **[QUICK_FIX.md](QUICK_FIX.md)** - Simple step-by-step solutions
+   - **[TROUBLESHOOTING.md](TROUBLESHOOTING.md)** - Comprehensive troubleshooting
+   - **[docs/WHY_IMPORT_FAILS.md](docs/WHY_IMPORT_FAILS.md)** - Technical explanation
+
 ### Optional R Integration
 
 Sequenzo now checks the system environment variables before running ward.D hierarchical clustering.

{sequenzo-0.1.19 → sequenzo-0.1.20}/README.md

@@ -111,6 +111,34 @@ If you have some issues with the installation, it might because you have both Py
 pip3 install sequenzo
 ```
 
+### ⚠️ Having Installation or Import Issues?
+
+**Error:** `ImportError: numpy.core.multiarray failed to import`
+
+**Most likely cause:** NumPy version mismatch (you have NumPy 1.x, but need 2.x)
+
+**Quick Fix** (copy-paste these commands):
+```bash
+# Check your NumPy version first
+python -c "import numpy; print(f'NumPy: {numpy.__version__}')"
+
+# If you see 1.x.x, upgrade to 2.x:
+pip install --upgrade "numpy>=2.0.0"
+pip uninstall sequenzo -y
+pip install --no-cache-dir sequenzo
+```
+
+📖 **Still having issues?** 
+1. Run our diagnostic tool to identify the problem:
+   ```bash
+   curl -O https://raw.githubusercontent.com/Liang-Team/Sequenzo/main/diagnose.py
+   python diagnose.py
+   ```
+2. See our detailed guides:
+   - **[QUICK_FIX.md](QUICK_FIX.md)** - Simple step-by-step solutions
+   - **[TROUBLESHOOTING.md](TROUBLESHOOTING.md)** - Comprehensive troubleshooting
+   - **[docs/WHY_IMPORT_FAILS.md](docs/WHY_IMPORT_FAILS.md)** - Technical explanation
+
 ### Optional R Integration
 
 Sequenzo now checks the system environment variables before running ward.D hierarchical clustering.

{sequenzo-0.1.19 → sequenzo-0.1.20}/pyproject.toml

@@ -29,7 +29,7 @@ classifiers = [
     "Programming Language :: Python :: 3.11",
     "Programming Language :: Python :: 3.12",
 ]
-version = "0.1.19"
+version = "0.1.20"
 dependencies = [
     "numpy>=1.19.5,<2.5",
     "pandas>=1.2.5",
@@ -72,17 +72,13 @@ include-package-data = true
 "sequenzo.dissimilarity_measures" = [
   "src/**/*.cpp",
   "src/**/*.h", 
-  "src/**/*.hpp",
-  "utils/*.c"
+  "src/**/*.hpp"
 ]
 "sequenzo.clustering" = [
   "src/**/*.cpp",
-  "src/**/*.h",
-  "utils/*.c"
-]
-"sequenzo.big_data.clara" = [
-  "utils/*.c"
+  "src/**/*.h"
 ]
+# Note: .c files are auto-generated from .pyx during build via Cython
 
 
 [tool.setuptools.packages.find]