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environment-setup

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Use when Python environment setup is needed for data visualization or conda installation is required

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How to use this skill

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I want to install this Agent Skill for this project in Codex.

Source SKILL.md: https://github.com/Norman-bury/research-writing-skill/blob/HEAD/skills/environment-setup/SKILL.md

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First, summarize what it does, its dependencies, license status if identifiable, and any risks. Show the exact files you propose to add under .agents/skills/environment-setup/. Do not write files or run scripts until I approve.

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环境配置

本技能用于在终端完成 Python 画图环境的全流程配置。

适用场景

  • 用户要求安装 Miniconda
  • 用户要求创建虚拟环境
  • 用户要求"用 Python 画图"但环境未就绪
  • 绘图脚本运行报环境相关错误

Checklist

  • 系统识别（macOS/Linux/Windows）
  • Miniconda 安装/修复
  • conda 初始化
  • 创建 research 环境
  • 安装绘图依赖
  • 环境自检
  • 更新 plan/progress.md

一、系统识别

macOS / Linux

uname -s
uname -m
echo "$SHELL"

Windows PowerShell

$PSVersionTable.PSVersion
$env:OS

二、Miniconda 安装

macOS 全自动流程

set -euo pipefail

# 1) 选择安装包
ARCH="$(uname -m)"
if [ "$ARCH" = "arm64" ]; then
  URL="https://repo.anaconda.com/miniconda/Miniconda3-latest-MacOSX-arm64.sh"
else
  URL="https://repo.anaconda.com/miniconda/Miniconda3-latest-MacOSX-x86_64.sh"
fi

# 2) 下载并静默安装
INSTALLER="$HOME/Downloads/miniconda.sh"
curl -fsSL "$URL" -o "$INSTALLER"
bash "$INSTALLER" -b -p "$HOME/miniconda3"

# 3) 当前 shell 立即可用
export PATH="$HOME/miniconda3/bin:$PATH"

# 4) 初始化 shell
"$HOME/miniconda3/bin/conda" init "$(basename "$SHELL")"

# 5) 验证
conda --version

Windows 全自动流程（PowerShell）

$ErrorActionPreference = "Stop"

# 1) 下载
$installer = Join-Path $env:TEMP "Miniconda3-latest-Windows-x86_64.exe"
Invoke-WebRequest -Uri "https://repo.anaconda.com/miniconda/Miniconda3-latest-Windows-x86_64.exe" -OutFile $installer

# 2) 静默安装
$target = "$env:USERPROFILE\miniconda3"
Start-Process -FilePath $installer -ArgumentList "/InstallationType=JustMe","/RegisterPython=0","/S","/D=$target" -Wait

# 3) 初始化 powershell
& "$target\Scripts\conda.exe" init powershell

# 4) 验证
$env:Path = "$target;$target\Scripts;$target\condabin;" + $env:Path
conda --version

三、创建科研虚拟环境

默认环境名：research

创建与激活

conda create -n research python=3.11 -y
conda activate research
python -m pip install --upgrade pip

四、安装绘图依赖

pip install numpy pandas scipy matplotlib seaborn scikit-learn statsmodels jupyter ipykernel openpyxl
python -m ipykernel install --user --name research --display-name "Python (research)"

可选：

pip install plotly pingouin

五、环境自检

python - <<'PY'
import sys
import numpy, pandas, matplotlib, seaborn, sklearn, statsmodels
print('Python:', sys.version.split()[0])
print('numpy:', numpy.__version__)
print('pandas:', pandas.__version__)
print('matplotlib:', matplotlib.__version__)
print('seaborn:', seaborn.__version__)
print('sklearn:', sklearn.__version__)
print('statsmodels:', statsmodels.__version__)
print('ENV CHECK: OK')
PY

六、画图任务前检查

执行画图任务前，至少确认：

  1. 已激活 research 环境
  2. matplotlib 和 seaborn 导入正常
  3. 输出目录存在（如 figures/）

七、常见问题与修复

conda: command not found

macOS / Linux：

export PATH="$HOME/miniconda3/bin:$PATH"
conda init "$(basename "$SHELL")"

Windows PowerShell：

$env:Path = "$env:USERPROFILE\miniconda3;$env:USERPROFILE\miniconda3\Scripts;" + $env:Path

下载慢或超时

pip config set global.index-url https://pypi.tuna.tsinghua.edu.cn/simple

包冲突

conda create -n research_clean python=3.11 -y
conda activate research_clean
pip install -r requirements.txt

八、执行约束