semvec/pypi-packages huggingface dataset:
alphafold3-polymer-bonds 0.3
Support for covalent bonds between/within polymer chains (protein, DNA, RNA) in AlphaFold3
Requires Python: >=3.9

[![PyPI - Version](https://img.shields.io/pypi/v/alphafold3-polymer-bonds)](https://pypi.org/project/alphafold3-polymer-bonds/)
[![PyPI Downloads](https://static.pepy.tech/personalized-badge/alphafold3-polymer-bonds?period=total&units=INTERNATIONAL_SYSTEM&left_color=BLACK&right_color=GREEN&left_text=downloads)](https://pepy.tech/projects/alphafold3-polymer-bonds)

# Polymer bonds in AlphaFold3
AlphaFold3
[does not allow](https://github.com/google-deepmind/alphafold3/blob/main/docs/input.md#bonds)
covalent bonds between/within polymer chains (protein, DNA, RNA).
We work around this limitation by treating one of the corresponding residue or nucleic acid as a modified residue/amino-acid.
In principle, this may enable AlphaFold3 to explicitly model e.g. disulfide bonds, cyclic peptides, zero-length crosslinkers, protein-DNA bonds..

*This is currently exploratory, see below for specifc examples. Also take a look at complementary work:
[KosinskiLab/af3x](https://github.com/KosinskiLab/af3x)
and
[bio-phys/polyUb-AF](https://github.com/bio-phys/polyUb-AF).*

![1AAR](examples/visualise/1AAR.png)
1AAR with (left, RMSD<1) vs without (right, RMSD>10) covalent bond between Lys48 and Gly76, AlphaFold3 run without templates

## Quick start
```bash
pip install alphafold3-polymer-bonds
alphafold3_polymer_bonds --help
```
PyGSODTrend 0.1.0
Analyze and map climate trends from GSOD data using the Mann-Kendall test.
Requires Python: >=3.8

# PyGSODTrend

PyGSODTrend is a command-line tool for analyzing **climate trends** from NOAA's GSOD (Global Summary of the Day) datasets.  
It cleans raw GSOD CSV data, performs **Mann-Kendall trend analysis** on precipitation (PRCP), maximum temperature (MAX), and minimum temperature (MIN), and generates **geographic scatter plots** of detected trends.

---

## Features
- ✅ Cleans GSOD input data by filtering invalid temperature and precipitation values.  
- ✅ Performs **trend analysis** using the Mann-Kendall statistical test.  
- ✅ Generates **geographic trend maps** for PRCP, MAX, and MIN.  
- ✅ Provides real-time CLI feedback with progress spinners.  
- ✅ Saves output plots as PNG images in the `results/` directory.  

---

## Installation

```bash
pip install pygsodtrend
```

---

## Usage

Run the tool on a GSOD CSV file:

```bash
pygsodtrend path/to/input.csv input_file --temp_min --temp_max --prcp_max --alpha
```

### Arguments

| Argument        | Type   | Default | Description |
|-----------------|--------|---------|-------------|
| `input_file`    | str    | —       | Path to the input GSOD CSV file. |
| `--temp_min`    | float  | -50.0   | Minimum valid temperature (°F). |
| `--temp_max`    | float  | 130.0   | Maximum valid temperature (°F). |
| `--prcp_max`    | float  | 500.0   | Maximum valid precipitation (mm). |
| `--alpha`       | float  | 0.05    | Significance level for Mann-Kendall test. |

---

## Example CLI Output

```bash
Analyzing trend for PRCP...
✔ Trend map for PRCP saved to: results/trendmapprcp.png
Analyzing trend for MAX...
✔ Trend map for MAX saved to: results/trendmapmax.png
Analyzing trend for MIN...
✔ Trend map for MIN saved to: results/trendmapmin.png
All trend maps generated.
```

---

## License
This project is licensed under the MIT License.  
Feel free to use, modify, and distribute.
sparams 5.0.0
A simple config watcher 
Requires Python: >=3.8

# 📦 Detect_LCD_Params – Cấu hình tự động với YAML

`Detect_LCD_Params` là một class kế thừa từ `BaseParams`, hỗ trợ:

- Khởi tạo thông số mặc định.
- Tự động tạo và load file cấu hình `.yaml`.
- Tự động cập nhật config khi file thay đổi (sử dụng `watchdog`).

## 🔧 Định nghĩa class

```python
from simpleconfig import BaseParams

class Detect_LCD_Params(BaseParams):
    def __init__(self, app_name, module_name):
        # App name tự động được đặt thành tên file config, module name là module nhỏ trong file đó
        super().__init__(app_name, module_name)
        
        # Tham số cho adaptive threshold (cv2.adaptiveThreshold)
        self.C = 2
        self.block_size = 11
        
        # Tham số nối các vùng trắng
        self.kernel_size = 7
        self.expand_crop_bot = 0
        self.expand_crop_left = 0
        self.expand_crop_right = 0
        self.expand_crop_top = -3
        
        # Tỷ lệ diện tích vùng LCD hợp lệ
        self.min_LCD_area_ratio = 0.4
        self.max_LCD_area_ratio = 0.8
        
        # Tham số xử lý màu
        # Tự động tạo hoặc load cấu hình từ file YAML
        self.create_or_load_yaml()
aplicacion-ventas-heobando 0.1.0
Paquete para gestionar ventas, precios, impuestos y descuentos
Requires Python: >=3.6

# Aplicacion de ventas

Este paquete proporciona funcionallidades para gestionar venta, incluyendo
el calculo de precios, impuestos y descuentos.

## Instalacion

Puedes instalar el paquete usando:

'''bash
pip instal .
"
mcp-server-hw-test 0.1.3
A MCP server project
Requires Python: >=3.11

# mcp_server_hw_test MCP server

A MCP server project

## Components

### Resources

The server implements a simple note storage system with:
- Custom note:// URI scheme for accessing individual notes
- Each note resource has a name, description and text/plain mimetype

### Prompts

The server provides a single prompt:
- summarize-notes: Creates summaries of all stored notes
  - Optional "style" argument to control detail level (brief/detailed)
  - Generates prompt combining all current notes with style preference

### Tools

The server implements one tool:
- add-note: Adds a new note to the server
  - Takes "name" and "content" as required string arguments
  - Updates server state and notifies clients of resource changes

## Configuration

[TODO: Add configuration details specific to your implementation]

## Quickstart

### Install

#### Claude Desktop

On MacOS: `~/Library/Application\ Support/Claude/claude_desktop_config.json`
On Windows: `%APPDATA%/Claude/claude_desktop_config.json`

<details>
  <summary>Development/Unpublished Servers Configuration</summary>
  ```
  "mcpServers": {
    "mcp_server_hw_test": {
      "command": "uv",
      "args": [
        "--directory",
        "/data/wzw/037_uv/mcp_server_hw_test",
        "run",
        "mcp_server_hw_test"
      ]
    }
  }
  ```
</details>

<details>
  <summary>Published Servers Configuration</summary>
  ```
  "mcpServers": {
    "mcp_server_hw_test": {
      "command": "uvx",
      "args": [
        "mcp_server_hw_test"
      ]
    }
  }
  ```
</details>

## Development

### Building and Publishing

To prepare the package for distribution:

1. Sync dependencies and update lockfile:
```bash
uv sync
```

2. Build package distributions:
```bash
uv build
```

This will create source and wheel distributions in the `dist/` directory.

3. Publish to PyPI:
```bash
uv publish
```

Note: You'll need to set PyPI credentials via environment variables or command flags:
- Token: `--token` or `UV_PUBLISH_TOKEN`
- Or username/password: `--username`/`UV_PUBLISH_USERNAME` and `--password`/`UV_PUBLISH_PASSWORD`

### Debugging

Since MCP servers run over stdio, debugging can be challenging. For the best debugging
experience, we strongly recommend using the [MCP Inspector](https://github.com/modelcontextprotocol/inspector).


You can launch the MCP Inspector via [`npm`](https://docs.npmjs.com/downloading-and-installing-node-js-and-npm) with this command:

```bash
npx @modelcontextprotocol/inspector uv --directory /data/wzw/037_uv/mcp_server_hw_test run mcp-server-hw-test
```


Upon launching, the Inspector will display a URL that you can access in your browser to begin debugging.
aplicacion-ventas-cbracho 0.1.0
Paquete para gestionar ventas, precios, descuentos e impuestos
Requires Python: >=3.7

# Aplicación de Ventas

Este paquete proporciona funcionalidades para gestionar ventas, incluyendo cálculos de precios, impuestos y descuentos.

## Instalación

Puedes instalar el paquete usando:

```bash
pip install .
"
aplicacion-ventas-mbracho 0.1.0
Paquete para ventas, precios, impuestos y descuentos
Requires Python: >=3.7

# Aplicacion de Ventas

Este Paquete proporciona funcionalidades para gestionar
ventas, incluyendo calculos de precios, impuestos y descuentos.

## Instalacion

Puedes Instalar el Paquete usando:

```bash
pip install.
"