sequenzo 0.1.21__cp310-cp310-win_amd64.whl → 0.1.22__cp310-cp310-win_amd64.whl

sequenzo/visualization/plot_transition_matrix.py

@@ -131,7 +131,7 @@ def plot_transition_matrix(seqdata: SequenceData,
                            fontsize: int = 12,
                            save_as: Optional[str] = None,
                            dpi: int = 200,
-                           format: str = "%.2f") -> None:
+                           format: str = ".2f") -> None:
     """
     Plot state transition rate matrix as a heatmap.
 
@@ -157,6 +157,7 @@ def plot_transition_matrix(seqdata: SequenceData,
     # Generate heatmap using pre-formatted annotation strings
     ax = sns.heatmap(
         transition_matrix,
+        annot=True,
         fmt=format,
         cmap=cmap,
         xticklabels=seqdata.labels,

{sequenzo-0.1.21.dist-info → sequenzo-0.1.22.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: sequenzo
-Version: 0.1.21
+Version: 0.1.22
 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
@@ -44,7 +44,7 @@ Classifier: Programming Language :: Python :: 3.12
 Requires-Python: <3.13,>=3.9
 Description-Content-Type: text/markdown
 License-File: LICENSE
-Requires-Dist: numpy>=2.0.0
+Requires-Dist: numpy>=1.21.0
 Requires-Dist: pandas>=1.2.5
 Requires-Dist: matplotlib>=3.4.3
 Requires-Dist: seaborn>=0.11.2
@@ -70,7 +70,7 @@ Requires-Dist: flake8>=3.9.2; extra == "dev"
 Dynamic: license-file
 
 <p align="center">
-  <img src="https://raw.githubusercontent.com/Liang-Team/Sequenzo/main/assets/logo/FullLogo_NoBuffer.jpg" alt="Sequenzo Logo" width="400">
+  <img src="https://raw.githubusercontent.com/Liang-Team/Sequenzo/main/assets/logo/FullLogo_NoBuffer.jpg" alt="Sequenzo Logo" width="300">
 </p>
 
 <p align="center">
@@ -134,17 +134,18 @@ Perfect for research, policy, and business, enabling seamless analysis of catego
 
 Sequenzo provides pre-built Python wheels for maximum compatibility — no need to compile from source.
 
-| Platform         | Architecture                  | Python Versions       | Status            |
-|------------------|-------------------------------|-----------------------|-------------------|
-| **macOS**        | `universal2` (Intel + Apple Silicon) | 3.9, 3.10, 3.11, 3.12 | ✅ Pre-built wheel |
-| **Windows**      | `AMD64` (64-bit)              | 3.9, 3.10, 3.11, 3.12 | ✅ Pre-built wheel |
-| **Linux (glibc)**| `x86_64` (standard Linux)     | 3.9, 3.10, 3.11, 3.12 | ✅ Pre-built wheel |
-| **Linux (musl)** | `x86_64` (Alpine Linux)       | 3.9, 3.10, 3.11, 3.12 | ✅ Pre-built wheel |
+| Platform         | Architecture                    | Python Versions       | Status            |
+|------------------|---------------------------------|-----------------------|-------------------|
+| **macOS**        | Intel && Apple Silicon (64-bit) | 3.9, 3.10, 3.11, 3.12 | ✅ Pre-built wheel |
+| **Windows**      | `AMD64` (64-bit)                | 3.9, 3.10, 3.11, 3.12 | ✅ Pre-built wheel |
+| **Linux (glibc)**| `x86_64` (standard Linux)       | 3.9, 3.10, 3.11, 3.12 | ✅ Pre-built wheel |
+| **Linux (musl)** | `x86_64` (Alpine Linux)         | 3.9, 3.10, 3.11, 3.12 | ✅ Pre-built wheel |
 
 
 What do these terms mean?
-- **universal2 (macOS)**: One wheel supports both Intel (x86_64) and Apple Silicon (arm64) Macs.
-- **manylinux2014 (glibc-based Linux)**: Compatible with most mainstream Linux distributions (e.g., Ubuntu, Debian, CentOS).
+- **macosx_arm64 (macOS)**: One wheel supports Apple Silicon Macs.
+- **macosx_x86_64 (macOS)**: One wheel supports Intel Macs.
+- **manylinux2014_x86_64 (glibc-based Linux)**: Compatible with most mainstream Linux distributions (e.g., Ubuntu, Debian, CentOS).
 - **musllinux_1_2 (musl-based Linux)**: For lightweight Alpine Linux environments, common in Docker containers.
 - **AMD64 (Windows)**: Standard 64-bit Windows system architecture.
 
@@ -182,36 +183,6 @@ 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` or `ValueError: numpy.dtype size changed`
-
-**Cause:** NumPy version incompatibility. Sequenzo 0.1.21+ requires NumPy 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
-```
-
-**Note:** NumPy 2.x is backward compatible with code written for NumPy 1.x, so upgrading is safe.
-
-📖 **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-0.1.21.dist-info → sequenzo-0.1.22.dist-info}/RECORD

@@ -8,12 +8,12 @@ sequenzo/big_data/clara/visualization.py,sha256=EpSmtAxRHVqcXlcXvSGiUuBjEETR7zK_
 sequenzo/big_data/clara/utils/__init__.py,sha256=2_o1tz8HFZVKFy8w8oJWdWlVKtwGjGY3z4PQylHKjt0,726
 sequenzo/big_data/clara/utils/aggregatecases.py,sha256=ul97pbnRlwxbFbX_0M4j-Bkyxkp7zMAKatSo4eanO24,2899
 sequenzo/big_data/clara/utils/davies_bouldin.py,sha256=4Y6VFjqopG3CaftQ8tDxQPjxxupJ6Hgv-yTXwCvgN7w,3037
-sequenzo/big_data/clara/utils/get_weighted_diss.c,sha256=S4XwrSrTZufe1GpZfna8uWIbCaWscNcEtA006ftvmq4,482906
-sequenzo/big_data/clara/utils/get_weighted_diss.cp310-win_amd64.pyd,sha256=Y9JE73-Ph7aR2PYnkDJ6oRGxvtiXpPgxYdUb3F_1lnQ,53248
+sequenzo/big_data/clara/utils/get_weighted_diss.c,sha256=bpJbFE7Fqg1LGw_uRJllGEBVFi-t9FnM1a0GFBkgkA8,482865
+sequenzo/big_data/clara/utils/get_weighted_diss.cp310-win_amd64.pyd,sha256=f0kJYWayHLQPC4XbSSm3Lw4xXiGmXJMMIFk-XWdQiiU,53248
 sequenzo/big_data/clara/utils/wfcmdd.py,sha256=-1H6CbTteTW-CeuQ_ehVDhnKH3ozcCkUobxoCSRIpYg,7074
 sequenzo/clustering/KMedoids.py,sha256=asktGP0KKgP4TsOH4bSYEWfE8yY5b9BfKa1d54KzaXI,7147
 sequenzo/clustering/__init__.py,sha256=duEY0Hq0-7Kc_lv0uFDK3D8IEXby-7Z0Rjff0EgO0KM,875
-sequenzo/clustering/clustering_c_code.cp310-win_amd64.pyd,sha256=4gbyUfiD46HVdNyEeIf3YS0WG98mnSXi-wtzF-AsTQg,247296
+sequenzo/clustering/clustering_c_code.cp310-win_amd64.pyd,sha256=bnwO3yAtYuugrCgfLkBZGI6_OrzRzyXOz2CENo1ibS8,247296
 sequenzo/clustering/hierarchical_clustering.py,sha256=D4m3Wg3tPWBNXtPTsauxntD5ctx3hGXF9bjL-cB7VM0,61568
 sequenzo/clustering/src/KMedoid.cpp,sha256=Bb4LaRes004T9vyCmUknRS0NUaNr4ZoEpWvtkYGq-jw,9299
 sequenzo/clustering/src/PAM.cpp,sha256=UFXdTy1wMWheYa-fUoi8ASQPmn0Ew-AO7fqVQVxn_E8,8357
@@ -46,7 +46,7 @@ sequenzo/datasets/polyadic_samplep1.csv,sha256=-2HvKSmevfqe1rWFVJlbnjousEgJRU_PH
 sequenzo/datasets/polyadic_seqc1.csv,sha256=ydZ-U8NTszR4lNBN4hhsH_dHfq0w5VZSMM7t9C5Uado,7028
 sequenzo/datasets/polyadic_seqp1.csv,sha256=sydXCR0JBKJlbMxJyGa46cic9XQstUpYFOtHaLmkp_0,7681
 sequenzo/dissimilarity_measures/__init__.py,sha256=qkWAQ1sBpS2aayO-FSA8Zha7rQ_vjs0_KIHEB60bVg4,958
-sequenzo/dissimilarity_measures/c_code.cp310-win_amd64.pyd,sha256=_thacohYoaKhcM7XaJyX0G2A2NH_WUmXjPFcadLYnfw,217600
+sequenzo/dissimilarity_measures/c_code.cp310-win_amd64.pyd,sha256=9oE3CrP6JBYaugyi8kUuPn5HFArgdYI7tiX55RUOWio,217600
 sequenzo/dissimilarity_measures/get_distance_matrix.py,sha256=dNZtqg0aN3vAz5r1sTgjS3jwLAzcXGbG4MGWeBEvhag,29886
 sequenzo/dissimilarity_measures/get_substitution_cost_matrix.py,sha256=Yed91VyNHkzeYxIduCTVF8hmJiAmltPH4R0lhvKQoKk,9533
 sequenzo/dissimilarity_measures/src/DHDdistance.cpp,sha256=RbWbSaELxlJiw5ST_JaD-wPx_sD7PGV2VdK4qEhOcxE,4714
@@ -211,16 +211,16 @@ sequenzo/dissimilarity_measures/src/xsimd/test/doc/writing_vectorized_code.cpp,s
 sequenzo/dissimilarity_measures/src/xsimd/test/test_wasm/test_wasm_playwright.py,sha256=9kcOfaW5dDqXs9AJBgmHoUx80tCHdGJ3d2Elr9dOkUo,3980
 sequenzo/dissimilarity_measures/utils/__init__.py,sha256=aZMQJGgJq4GsL1x-pQPLmL7KrJ78cHMH46GVmVE8pJ0,407
 sequenzo/dissimilarity_measures/utils/get_LCP_length_for_2_seq.py,sha256=bJjbEQcjENSAdLv2IMRUWJC4avldwCfHrtSEnlDEACY,1470
-sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.c,sha256=KdR8UwojXAykYICH0ZP45b224TWsc6dPDknWSSW9CC8,597507
-sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.cp310-win_amd64.pyd,sha256=ioAuJ6SUZGXnNimYiqZgG5p3yOkiOkQ63Fn7z90cTNc,74240
-sequenzo/dissimilarity_measures/utils/seqconc.c,sha256=N17Ig9IznoNmV7Qo3GbGBct4A839Jql8_JxQBYAD_8g,505013
-sequenzo/dissimilarity_measures/utils/seqconc.cp310-win_amd64.pyd,sha256=OP9Mt3Sgr7INOI6ZRPkzyd85l380G9p0aZGe5vLn-Rc,56832
-sequenzo/dissimilarity_measures/utils/seqdss.c,sha256=8vROmLgR42Tkwb8-3ue9qNQj1d3rIuSuMnLvG28sMN0,619077
-sequenzo/dissimilarity_measures/utils/seqdss.cp310-win_amd64.pyd,sha256=MxS1qGQoKW-UB1Aq6YCRgdI49whrJThl-QaLZ2Ofqd8,81408
-sequenzo/dissimilarity_measures/utils/seqdur.c,sha256=PO9LYSjwHbAnf5YbYTHMwAt6yVbGEWasK7CD6UOlh78,541374
-sequenzo/dissimilarity_measures/utils/seqdur.cp310-win_amd64.pyd,sha256=xTBJYzpyIQyfyrzb4wDU5Who8UmzpSNhvr1XJ19YGig,67072
-sequenzo/dissimilarity_measures/utils/seqlength.c,sha256=5HycfBW1ExaigSHlOcUAT3_9Bom8S-4vCFe3bHPlK9I,492619
-sequenzo/dissimilarity_measures/utils/seqlength.cp310-win_amd64.pyd,sha256=QzEK6ky6cjqgAHQUDI9eAdaStHBXAGt2Ha9cD29COkc,56832
+sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.c,sha256=XE6wzJpgEyCS5ytkNTLMRwxMQ0M4nVLG0ktbBx3esOI,597466
+sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.cp310-win_amd64.pyd,sha256=-Yo8E_mtfeRdMKb_kqgDu9iWQfn5c4h79LHKqKjBN0c,74240
+sequenzo/dissimilarity_measures/utils/seqconc.c,sha256=6nQGbhAwcW9kpytb5Rpt6kQu4CszUE7EEb4OzooCzZ8,504972
+sequenzo/dissimilarity_measures/utils/seqconc.cp310-win_amd64.pyd,sha256=MHtr5-hTwkIWaet357OUqCb6yNwtRCge07C4IjjgvLw,56832
+sequenzo/dissimilarity_measures/utils/seqdss.c,sha256=2ZjFWfUT9S4aaqoejjWKcwmKRSZ0EO1FIDAsa-Gu-2o,619036
+sequenzo/dissimilarity_measures/utils/seqdss.cp310-win_amd64.pyd,sha256=9Se6Shz8C6FsID7E23sSuxZoMPJdO0WUC5-V8VXbgu4,81408
+sequenzo/dissimilarity_measures/utils/seqdur.c,sha256=GTC84952kLnPTWf879mo-xf_uqohOuth9EilWkT-Vks,541333
+sequenzo/dissimilarity_measures/utils/seqdur.cp310-win_amd64.pyd,sha256=Uopa39cyW8LwKYFMhPmKQqBs8IIqDvN_VQpyJm2j3zY,67072
+sequenzo/dissimilarity_measures/utils/seqlength.c,sha256=iYN2Qp9eNMuW5QzF3CPj2KbzfvJJP1_1tBKe4nz1p3w,492578
+sequenzo/dissimilarity_measures/utils/seqlength.cp310-win_amd64.pyd,sha256=xc5dyNVSnh_8gkkKNvWW4HORIuOAMh3YIXH0ZGX_AfA,56832
 sequenzo/multidomain/__init__.py,sha256=bVnbkJXuXj8y5lHreRBQnL1JFcrmlsz2TSt-qFfmWm8,734
 sequenzo/multidomain/association_between_domains.py,sha256=tncMzsSn0yhRd9C37-GInHw7FlIucOGdb_affCAc_nk,10844
 sequenzo/multidomain/cat.py,sha256=7QqdEjZSiqDZnXGOWgkOoeRHg0USVAUKPlzXecJeMFQ,18022
@@ -253,14 +253,14 @@ sequenzo/visualization/plot_relative_frequency.py,sha256=tUNyIxc8C0SPjRJJYormBbT
 sequenzo/visualization/plot_sequence_index.py,sha256=qc4h6JzQrDeiBsGvK6Cdn3HwDZFLfNzPqyFOon1ZQ6Q,41079
 sequenzo/visualization/plot_single_medoid.py,sha256=K3d8feYV1S2PmjNdlRD961-bdt-An1-SWw8HKWDcBAc,5971
 sequenzo/visualization/plot_state_distribution.py,sha256=8uH533kwyqxIeGPM4eFJBWJ2eRgqEFPH3EiPJECzvS8,25978
-sequenzo/visualization/plot_transition_matrix.py,sha256=bzyL5OtLdVI1X3cxUgQfi96aORUjrBRjp0vO29kLe5U,6958
+sequenzo/visualization/plot_transition_matrix.py,sha256=ZmLyKniHROsnp4Xp2fggpofaskja7wiQNjOUL-jfkFE,6977
 sequenzo/visualization/utils/__init__.py,sha256=brrYzeIQm_cEM_TgA8_eRdckzN9WP1pj9g-f1qBzRLY,734
 sequenzo/visualization/utils/utils.py,sha256=P33amescn1FLcfGwzxDrHpvaELzUHRKt06f3Iky23t0,10246
 sequenzo/with_event_history_analysis/__init__.py,sha256=B2EZhtJ7NEzO8piDwfSbh0l87fQ0ZuesPO5GNJEXKPo,730
 sequenzo/with_event_history_analysis/sequence_analysis_multi_state_model.py,sha256=DdNqx8MBaxdLu-n-9RH5q2cSr5sWr18LTNF9qdNaKbM,37300
 sequenzo/with_event_history_analysis/sequence_history_analysis.py,sha256=vv5y2u9cpzhmNJX_fSYgLmFOncPvB7DVhWujljII1vA,10902
-sequenzo-0.1.21.dist-info/licenses/LICENSE,sha256=URRMyLHVeGF2kyDLC1xbRKBBIjDHJyWqF4nWpzfBX10,1497
-sequenzo-0.1.21.dist-info/METADATA,sha256=69ceaJSYGwoteFyz26ns5frFC9y9Kms-0skyw6pXMrE,15674
-sequenzo-0.1.21.dist-info/WHEEL,sha256=KUuBC6lxAbHCKilKua8R9W_TM71_-9Sg5uEP3uDWcoU,101
-sequenzo-0.1.21.dist-info/top_level.txt,sha256=yM8eczbPzqB1bRHMYLptvjjQ3p5tYhY6VjgWHUIi9vw,9
-sequenzo-0.1.21.dist-info/RECORD,,
+sequenzo-0.1.22.dist-info/licenses/LICENSE,sha256=URRMyLHVeGF2kyDLC1xbRKBBIjDHJyWqF4nWpzfBX10,1497
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+sequenzo-0.1.22.dist-info/RECORD,,