Fix(pipeline): optimize docker build, fix zip structure, and update UI

- Docker:
  - Explicitly install pixi environments (digger, pipeline, webbackend) during build to prevent runtime network/DNS failures.
  - Optimize pnpm config (copy method) to fix EAGAIN errors.
- Backend:
  - Refactor ZIP bundling: use flat semantic directories (1_Toxin_Mining, etc.).
  - Fix "nested zip" issue by cleaning existing archives before bundling.
  - Exclude raw 'context' directory from final download.
- Frontend:
  - Update TutorialView documentation to match new result structure.
  - Improve TaskMonitor progress bar precision (1 decimal place).
  - Update i18n (en/zh) for new file descriptions.

Co-Authored-By: Claude <noreply@anthropic.com>

backend/app/workers/tasks.py

@@ -126,42 +126,60 @@ def run_bttoxin_analysis(
         logger.info(f"Job {job_id}: Creating zip bundle")
         zip_path = output_path / f"pipeline_results_{job_id}.zip"
 
-        # 需要打包的子目录
-        subdirs_to_zip = ["digger", "shoter", "logs"]
+        # 在创建新 ZIP 前，删除目录下任何现有的 zip/tar.gz 文件，防止递归打包
+        for existing_archive in output_path.glob("*.zip"):
+            try:
+                existing_archive.unlink()
+            except Exception:
+                pass
+        for existing_archive in output_path.glob("*.tar.gz"):
+            try:
+                existing_archive.unlink()
+            except Exception:
+                pass
+
+        # 定义映射关系：原始目录 -> 压缩包内展示名称
+        dir_mapping = {
+            "digger": "1_Toxin_Mining",
+            "shotter": "2_Toxicity_Scoring",
+            "logs": "Logs"
+        }
 
         with zipfile.ZipFile(zip_path, 'w', zipfile.ZIP_DEFLATED) as zipf:
-            # 添加输入文件
-            zipf.write(input_file, arcname=input_file.name)
+            # 1. 添加输入文件 (放入 Input 目录)
+            zipf.write(input_file, arcname=f"Input/{input_file.name}")
 
-            # 添加结果目录
-            for subdir_name in subdirs_to_zip:
-                subdir_path = output_path / subdir_name
-                if subdir_path.exists():
-                    for root, dirs, files in os.walk(subdir_path):
+            # 2. 添加结果目录 (重命名)
+            for src_name, dest_name in dir_mapping.items():
+                src_path = output_path / src_name
+                if src_path.exists():
+                    for root, dirs, files in os.walk(src_path):
                         for file in files:
                             file_path = Path(root) / file
-                            # 保持相对路径结构
-                            arcname = file_path.relative_to(output_path)
+                            # 排除压缩包自己（如果有意外情况）
+                            if file_path == zip_path:
+                                continue
+
+                            # 计算相对路径，例如 digger/Results/foo.txt -> Results/foo.txt
+                            rel_path = file_path.relative_to(src_path)
+                            # 构造新的归档路径 -> 1_Toxin_Mining/Results/foo.txt
+                            arcname = Path(dest_name) / rel_path
                             zipf.write(file_path, arcname=str(arcname))
 
-        # 删除原始结果目录 (保留 logs 以便调试? 或者也删除)
-        # 根据需求：只保留压缩包
+        # 删除原始结果目录
         logger.info(f"Job {job_id}: Cleaning up intermediate files")
-        for subdir_name in subdirs_to_zip:
-            subdir_path = output_path / subdir_name
-            if subdir_path.exists():
-                shutil.rmtree(subdir_path)
+        # 需要清理的原始目录名
+        dirs_to_clean = ["digger", "shotter", "context", "logs", "stage"]
+        for d in dirs_to_clean:
+            d_path = output_path / d
+            if d_path.exists():
+                shutil.rmtree(d_path)
 
         # 删除 tar.gz (如果脚本生成了)
         tar_gz = output_path / "pipeline_results.tar.gz"
         if tar_gz.exists():
             tar_gz.unlink()
 
-        # 移除 stage 目录 (run_single_fna_pipeline 生成的)
-        stage_dir = output_path / "stage"
-        if stage_dir.exists():
-            shutil.rmtree(stage_dir)
-
         # 验证 Zip 是否生成
         if not zip_path.exists():
             raise Exception("Failed to create result zip file")