feat: 支持绑定外部 bt_toxin 数据库 (2025-11-04 更新)
- docker_client.py: run_bttoxin_digger() 新增 bttoxin_db_dir 参数，支持挂载外部数据库 - run_single_fna_pipeline.py: 新增 --bttoxin_db_dir 参数，自动检测 external_dbs/bt_toxin - README.md: 添加 bttoxin_db 更新说明和 Docker 绑定文档 - external_dbs/bt_toxin: 添加 2025-11-04 版本数据库文件 测试验证: HAN055 样本毒素命名版本号变化 (Cry2Aa9→22, Cry2Ab35→41, Cry1Ia40→42, Vip3Aa7→79)
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@@ -1,12 +0,0 @@
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<!DOCTYPE html>
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<html lang="en">
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<head>
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<meta charset="UTF-8">
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<meta name="viewport" content="width=device-width, initial-scale=1.0">
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<title>BtToxin Pipeline</title>
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</head>
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<body>
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<div id="app"></div>
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<script type="module" src="/src/main.js"></script>
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</body>
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</html>
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@@ -1,22 +0,0 @@
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{
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"name": "bttoxin-frontend",
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"version": "1.0.0",
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"type": "module",
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"scripts": {
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"dev": "vite",
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"build": "vite build",
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"preview": "vite preview"
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},
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"dependencies": {
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"vue": "^3.5.13",
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"vue-router": "^4.5.0",
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"pinia": "^2.3.0",
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"axios": "^1.7.9",
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"naive-ui": "^2.40.1",
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"@vicons/ionicons5": "^0.12.0"
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},
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"devDependencies": {
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"@vitejs/plugin-vue": "^5.2.1",
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"vite": "^6.0.5"
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}
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}
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@@ -1,41 +0,0 @@
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<template>
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<n-config-provider :theme="darkTheme">
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<n-layout>
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<n-layout-header bordered>
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<n-space align="center" justify="space-between" style="padding: 16px">
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<n-h2>BtToxin Pipeline</n-h2>
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<n-menu mode="horizontal" :options="menuOptions" />
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</n-space>
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</n-layout-header>
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<n-layout-content style="padding: 24px">
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<router-view />
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</n-layout-content>
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<n-layout-footer bordered style="padding: 16px; text-align: center">
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BtToxin Pipeline © 2025
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</n-layout-footer>
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</n-layout>
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</n-config-provider>
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</template>
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<script setup>
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import { darkTheme } from 'naive-ui'
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import { h } from 'vue'
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import { RouterLink } from 'vue-router'
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const menuOptions = [
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{
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label: () => h(RouterLink, { to: '/' }, { default: () => 'Home' }),
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key: 'home'
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},
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{
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label: () => h(RouterLink, { to: '/upload' }, { default: () => 'Upload' }),
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key: 'upload'
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},
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{
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label: () => h(RouterLink, { to: '/jobs' }, { default: () => 'Jobs' }),
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key: 'jobs'
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}
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]
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</script>
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@@ -1,14 +0,0 @@
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import { createApp } from 'vue'
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import { createPinia } from 'pinia'
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import naive from 'naive-ui'
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import App from './App.vue'
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import router from './router'
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const app = createApp(App)
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const pinia = createPinia()
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app.use(pinia)
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app.use(router)
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app.use(naive)
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app.mount('#app')
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@@ -1,31 +0,0 @@
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import { createRouter, createWebHistory } from 'vue-router'
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const routes = [
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{
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path: '/',
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name: 'Home',
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component: () => import('./views/Home.vue')
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},
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{
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path: '/upload',
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name: 'Upload',
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component: () => import('./views/Upload.vue')
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},
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{
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path: '/jobs',
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name: 'Jobs',
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component: () => import('./views/Jobs.vue')
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},
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{
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path: '/jobs/:id',
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name: 'JobDetail',
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component: () => import('./views/JobDetail.vue')
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}
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]
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const router = createRouter({
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history: createWebHistory(),
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routes
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})
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export default router
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@@ -1,22 +0,0 @@
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import axios from 'axios'
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const api = axios.create({
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baseURL: '/api/v1',
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timeout: 30000
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})
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export default {
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createJob(formData) {
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return api.post('/jobs/create', formData, {
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headers: { 'Content-Type': 'multipart/form-data' }
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})
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},
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getJob(jobId) {
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return api.get(`/jobs/${jobId}`)
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},
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getJobProgress(jobId) {
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return api.get(`/jobs/${jobId}/progress`)
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}
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}
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@@ -1,7 +0,0 @@
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<template>
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<n-space vertical size="large">
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<n-card title="Welcome to BtToxin Pipeline">
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<p>Automated Bacillus thuringiensis toxin mining system</p>
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</n-card>
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</n-space>
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</template>
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@@ -1,5 +0,0 @@
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<template>
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<n-card title="Job Details">
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<p>Job ID: {{ $route.params.id }}</p>
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</n-card>
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</template>
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@@ -1,5 +0,0 @@
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<template>
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<n-card title="Job List">
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<n-empty description="No jobs yet" />
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</n-card>
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</template>
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@@ -1,7 +0,0 @@
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<template>
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<n-card title="Upload Genome Files">
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<n-upload multiple>
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<n-button>Select Files</n-button>
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</n-upload>
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</n-card>
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</template>
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@@ -1,21 +0,0 @@
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import { defineConfig } from 'vite'
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import vue from '@vitejs/plugin-vue'
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import { fileURLToPath, URL } from 'node:url'
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export default defineConfig({
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plugins: [vue()],
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resolve: {
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alias: {
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'@': fileURLToPath(new URL('./src', import.meta.url))
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}
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},
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server: {
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port: 3000,
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proxy: {
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'/api': {
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target: 'http://localhost:8000',
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changeOrigin: true
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}
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}
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}
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})
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