feat: initial commit - oncology literature search platform
OncoLit: a multi-tenant oncology literature search, feed, and collaboration platform. Built with FastAPI + Vue 3 + PostgreSQL. Includes PubMed pipeline, drug approvals, AI summaries, and systematic review tools.
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#!/bin/bash
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# ═══════════════════════════════════════════════════════════════════
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# SciLit — 生产环境一键部署脚本
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# ═══════════════════════════════════════════════════════════════════
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#
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# 用法:
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# export SCILIT_HOST=your-server.com
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# ./deploy.sh # 部署到默认服务器
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# ./deploy.sh --skip-tests # 跳过本地测试，直接部署
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# ./deploy.sh --help # 查看全部选项
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#
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# 前置条件:
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# - 本地: SSH 可连接到服务器（推荐用 ~/.ssh/config）
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# - 服务器: 已装 Docker + docker compose，已 clone 项目
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# - 服务器: .env 文件已配置好
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# - 代码仓库: 支持 Gitee / GitHub / 自建 Git（git pull 能工作即可）
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#
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# 远程仓库配置:
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# - 本地 git remote 指向 Gitee:
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# git remote add gitee https://gitee.com/你的用户名/scilit-oncology.git
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# # deploy.sh 会尝试 push 到 origin（可设为 Gitee）
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# - 服务器上 git remote 也指向 Gitee:
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# git remote set-url origin https://gitee.com/你的用户名/scilit-oncology.git
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# - 可选: GitHub 同时保留用作备份:
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# git remote add github https://github.com/你的用户名/scilit-oncology.git
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# ═══════════════════════════════════════════════════════════════════
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set -euo pipefail
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# ── 默认配置 ─────────────────────────────────────────────────────
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# 改为你的服务器信息
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SERVER_HOST="${SCILIT_HOST:-your-server.com}"
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SERVER_USER="${SCILIT_USER:-root}"
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SERVER_PATH="${SCILIT_PATH:-/root/scilit-oncology}"
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# 本地项目根目录
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LOCAL_ROOT="$(cd "$(dirname "$0")" && pwd)"
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# ── 颜色 ─────────────────────────────────────────────────────────
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GREEN='\033[0;32m'
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YELLOW='\033[1;33m'
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RED='\033[0;31m'
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NC='\033[0m' # No Color
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info() { echo -e "${GREEN}[✓]${NC} $1"; }
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warn() { echo -e "${YELLOW}[!]${NC} $1"; }
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error() { echo -e "${RED}[✗]${NC} $1"; exit 1; }
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# ── 参数解析 ─────────────────────────────────────────────────────
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SKIP_TESTS=false
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ENV_FILE=""
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while [[ $# -gt 0 ]]; do
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case "$1" in
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--skip-tests) SKIP_TESTS=true; shift ;;
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--env) ENV_FILE="$2"; shift 2 ;;
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--help)
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echo "用法: $0 [--skip-tests] [--env .env.prod]"
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echo ""
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echo " --skip-tests 跳过本地测试和 lint"
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echo " --env FILE 指定服务器上的 .env 文件路径（默认: {SERVER_PATH}/.env）"
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exit 0 ;;
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*) error "未知参数: $1，使用 --help 查看用法" ;;
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esac
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done
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# ── 第一步：本地检查 + 测试 ─────────────────────────────────────
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echo "════════════════════════════════════════════"
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echo " SciLit 部署"
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echo " 目标: ${SERVER_USER}@${SERVER_HOST}"
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echo "════════════════════════════════════════════"
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echo ""
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if [ "$SKIP_TESTS" = false ]; then
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echo "── 1/4 本地测试 ──"
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cd "$LOCAL_ROOT/backend"
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info "运行后端测试..."
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python -m pytest tests/ -v --no-cov --tb=short 2>&1 | tail -5
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local EXIT_CODE=$?
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if [ $EXIT_CODE -ne 0 ]; then
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error "后端测试失败（exit code $EXIT_CODE），中止部署。用 --skip-tests 跳过。"
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fi
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info "后端测试通过"
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cd "$LOCAL_ROOT/frontend"
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info "构建前端（验证）..."
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npm run build 2>&1 | tail -3
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info "前端构建通过"
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cd "$LOCAL_ROOT"
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else
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echo "── 1/4 本地测试 ── 已跳过"
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fi
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# ── 第二步：推送代码 ─────────────────────────────────────────────
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echo ""
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echo "── 2/4 推送代码 ──"
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cd "$LOCAL_ROOT"
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if git status --porcelain | grep -q .; then
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warn "有未提交的改动，建议先提交再部署。继续？(y/N)"
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read -r yn
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if [ "$yn" != "y" ] && [ "$yn" != "Y" ]; then
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error "已取消"
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fi
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fi
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# 尝试推送到 GitHub（失败不阻塞）
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if git push origin main 2>&1; then
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info "GitHub push 成功"
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else
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warn "GitHub push 失败（网络问题），继续部署..."
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fi
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# ── 第三步：服务器拉取 + 构建 + 启动 ────────────────────────────
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echo ""
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echo "── 3/4 服务器部署 ──"
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DEPLOY_CMD=$(cat << SSHCMD
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set -e
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cd ${SERVER_PATH}
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echo " 拉取代码..."
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git pull origin main 2>&1 || echo " [!] git pull 失败，继续用本地代码"
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echo " 构建并启动..."
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docker compose -f docker-compose.prod.yml build 2>&1 | tail -3
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# 优雅重启（不中断现有连接）
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echo " 正在更新服务..."
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docker compose -f docker-compose.prod.yml up -d --no-deps --remove-orphans 2>&1
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echo " 等待就绪..."
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sleep 5
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curl -sf http://localhost:8000/health && echo " [✓] backend 健康检查通过" || echo " [!] backend 健康检查失败"
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curl -sf http://localhost:80 && echo " [✓] frontend 健康检查通过" || echo " [!] frontend 健康检查失败"
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echo " 清理旧镜像..."
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docker image prune -f 2>&1 | tail -1
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SSHCMD
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)
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ssh -o StrictHostKeyChecking=no "${SERVER_USER}@${SERVER_HOST}" bash <<< "$DEPLOY_CMD"
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info "服务器部署完成"
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# ── 第四步：日志 ─────────────────────────────────────────────────
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echo ""
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echo "── 4/4 查看日志 ──"
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echo ""
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echo " 实时日志: ssh ${SERVER_USER}@${SERVER_HOST} 'cd ${SERVER_PATH} && docker compose -f docker-compose.prod.yml logs -f'"
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echo " backend: ssh ${SERVER_USER}@${SERVER_HOST} 'cd ${SERVER_PATH} && docker compose -f docker-compose.prod.yml logs -f backend'"
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echo " 重新部署: cd $(pwd) && bash deploy.sh"
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echo ""
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info "部署完毕 🎉"
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