PDF解析错误：ERROR | app:pdf_parse_main:133 - index 0 is out of bounds for axis 0 with size 0

[majestichou]

Description of the bug | 错误描述

采用MinerU识别这篇论文的时候，解析报错https://openaccess.thecvf.com/content/CVPR2023/papers/Huang_Towards_Accurate_Image_Coding_Improved_Autoregressive_Image_Generation_With_Dynamic_CVPR_2023_paper.pdf
报错内容如下：

2024-10-23 03:32:49.576 | INFO     | magic_pdf.model.pdf_extract_kit:__call__:200 - formula nums: 17, mfr time: 0.43
2024-10-23 03:32:49.582 | INFO     | magic_pdf.model.pdf_extract_kit:__call__:291 - ------------------table recognition processing begins-----------------
2024-10-23 03:32:51.554 | INFO     | magic_pdf.model.pdf_extract_kit:__call__:300 - ------------table recognition processing ends within 1.9721670150756836s-----
2024-10-23 03:32:51.555 | INFO     | magic_pdf.model.pdf_extract_kit:__call__:291 - ------------------table recognition processing begins-----------------
2024-10-23 03:32:53.566 | INFO     | magic_pdf.model.pdf_extract_kit:__call__:300 - ------------table recognition processing ends within 2.0111782550811768s-----
2024-10-23 03:32:53.567 | INFO     | magic_pdf.model.pdf_extract_kit:__call__:291 - ------------------table recognition processing begins-----------------
2024-10-23 03:32:55.585 | ERROR    | app:pdf_parse_main:133 - index 0 is out of bounds for axis 0 with size 0
Traceback (most recent call last):

  File "/opt/mineru_venv/bin/uvicorn", line 8, in <module>
    sys.exit(main())
    │   │    └ <Command main>
    │   └ <built-in function exit>
    └ <module 'sys' (built-in)>
  File "/opt/mineru_venv/lib/python3.10/site-packages/click/core.py", line 1157, in __call__
    return self.main(*args, **kwargs)
           │    │     │       └ {}
           │    │     └ ()
           │    └ <function BaseCommand.main at 0x7f20ea9e1b40>
           └ <Command main>
  File "/opt/mineru_venv/lib/python3.10/site-packages/click/core.py", line 1078, in main
    rv = self.invoke(ctx)
         │    │      └ <click.core.Context object at 0x7f20eb503fa0>
         │    └ <function Command.invoke at 0x7f20ea9e25f0>
         └ <Command main>
  File "/opt/mineru_venv/lib/python3.10/site-packages/click/core.py", line 1434, in invoke
    return ctx.invoke(self.callback, **ctx.params)
           │   │      │    │           │   └ {'host': '0.0.0.0', 'port': 8000, 'app': 'app:app', 'uds': None, 'fd': None, 'reload': False, 'reload_dirs': (), 'reload_incl...
           │   │      │    │           └ <click.core.Context object at 0x7f20eb503fa0>
           │   │      │    └ <function main at 0x7f20ea6b4c10>
           │   │      └ <Command main>
           │   └ <function Context.invoke at 0x7f20ea9e1360>
           └ <click.core.Context object at 0x7f20eb503fa0>
  File "/opt/mineru_venv/lib/python3.10/site-packages/click/core.py", line 783, in invoke
    return __callback(*args, **kwargs)
                       │       └ {'host': '0.0.0.0', 'port': 8000, 'app': 'app:app', 'uds': None, 'fd': None, 'reload': False, 'reload_dirs': (), 'reload_incl...
                       └ ()
  File "/opt/mineru_venv/lib/python3.10/site-packages/uvicorn/main.py", line 410, in main
    run(
    └ <function run at 0x7f20ea89edd0>
  File "/opt/mineru_venv/lib/python3.10/site-packages/uvicorn/main.py", line 577, in run
    server.run()
    │      └ <function Server.run at 0x7f20ea89e710>
    └ <uvicorn.server.Server object at 0x7f20ea69dfc0>
  File "/opt/mineru_venv/lib/python3.10/site-packages/uvicorn/server.py", line 65, in run
    return asyncio.run(self.serve(sockets=sockets))
           │       │   │    │             └ None
           │       │   │    └ <function Server.serve at 0x7f20ea89e7a0>
           │       │   └ <uvicorn.server.Server object at 0x7f20ea69dfc0>
           │       └ <function run at 0x7f20eb3670a0>
           └ <module 'asyncio' from '/usr/lib/python3.10/asyncio/__init__.py'>
  File "/usr/lib/python3.10/asyncio/runners.py", line 44, in run
    return loop.run_until_complete(main)
           │    │                  └ <coroutine object Server.serve at 0x7f20ea671a10>
           │    └ <function BaseEventLoop.run_until_complete at 0x7f20eaa049d0>
           └ <_UnixSelectorEventLoop running=True closed=False debug=False>
  File "/usr/lib/python3.10/asyncio/base_events.py", line 636, in run_until_complete
    self.run_forever()
    │    └ <function BaseEventLoop.run_forever at 0x7f20eaa04940>
    └ <_UnixSelectorEventLoop running=True closed=False debug=False>
  File "/usr/lib/python3.10/asyncio/base_events.py", line 603, in run_forever
    self._run_once()
    │    └ <function BaseEventLoop._run_once at 0x7f20eaa06440>
    └ <_UnixSelectorEventLoop running=True closed=False debug=False>
  File "/usr/lib/python3.10/asyncio/base_events.py", line 1909, in _run_once
    handle._run()
    │      └ <function Handle._run at 0x7f20eab61e10>
    └ <Handle Task.task_wakeup(<Future finis...100\n%%EOF\n'>)>
  File "/usr/lib/python3.10/asyncio/events.py", line 80, in _run
    self._context.run(self._callback, *self._args)
    │    │            │    │           │    └ <member '_args' of 'Handle' objects>
    │    │            │    │           └ <Handle Task.task_wakeup(<Future finis...100\n%%EOF\n'>)>
    │    │            │    └ <member '_callback' of 'Handle' objects>
    │    │            └ <Handle Task.task_wakeup(<Future finis...100\n%%EOF\n'>)>
    │    └ <member '_context' of 'Handle' objects>
    └ <Handle Task.task_wakeup(<Future finis...100\n%%EOF\n'>)>
  File "/opt/mineru_venv/lib/python3.10/site-packages/uvicorn/protocols/http/h11_impl.py", line 406, in run_asgi
    result = await app(  # type: ignore[func-returns-value]
                   └ <uvicorn.middleware.proxy_headers.ProxyHeadersMiddleware object at 0x7f20ea69d0f0>
  File "/opt/mineru_venv/lib/python3.10/site-packages/uvicorn/middleware/proxy_headers.py", line 70, in __call__
    return await self.app(scope, receive, send)
                 │    │   │      │        └ <bound method RequestResponseCycle.send of <uvicorn.protocols.http.h11_impl.RequestResponseCycle object at 0x7f1dbc2d5d20>>
                 │    │   │      └ <bound method RequestResponseCycle.receive of <uvicorn.protocols.http.h11_impl.RequestResponseCycle object at 0x7f1dbc2d5d20>>
                 │    │   └ {'type': 'http', 'asgi': {'version': '3.0', 'spec_version': '2.4'}, 'http_version': '1.1', 'server': ('172.17.0.2', 8000), 'c...
                 │    └ <fastapi.applications.FastAPI object at 0x7f20ea711f90>
                 └ <uvicorn.middleware.proxy_headers.ProxyHeadersMiddleware object at 0x7f20ea69d0f0>
  File "/opt/mineru_venv/lib/python3.10/site-packages/fastapi/applications.py", line 1054, in __call__
    await super().__call__(scope, receive, send)
                           │      │        └ <bound method RequestResponseCycle.send of <uvicorn.protocols.http.h11_impl.RequestResponseCycle object at 0x7f1dbc2d5d20>>
                           │      └ <bound method RequestResponseCycle.receive of <uvicorn.protocols.http.h11_impl.RequestResponseCycle object at 0x7f1dbc2d5d20>>
                           └ {'type': 'http', 'asgi': {'version': '3.0', 'spec_version': '2.4'}, 'http_version': '1.1', 'server': ('172.17.0.2', 8000), 'c...
  File "/opt/mineru_venv/lib/python3.10/site-packages/starlette/applications.py", line 113, in __call__
    await self.middleware_stack(scope, receive, send)
          │    │                │      │        └ <bound method RequestResponseCycle.send of <uvicorn.protocols.http.h11_impl.RequestResponseCycle object at 0x7f1dbc2d5d20>>
          │    │                │      └ <bound method RequestResponseCycle.receive of <uvicorn.protocols.http.h11_impl.RequestResponseCycle object at 0x7f1dbc2d5d20>>
          │    │                └ {'type': 'http', 'asgi': {'version': '3.0', 'spec_version': '2.4'}, 'http_version': '1.1', 'server': ('172.17.0.2', 8000), 'c...
          │    └ <starlette.middleware.errors.ServerErrorMiddleware object at 0x7f1f9b99d720>
          └ <fastapi.applications.FastAPI object at 0x7f20ea711f90>
  File "/opt/mineru_venv/lib/python3.10/site-packages/starlette/middleware/errors.py", line 165, in __call__
    await self.app(scope, receive, _send)
          │    │   │      │        └ <function ServerErrorMiddleware.__call__.<locals>._send at 0x7f20e7434e50>
          │    │   │      └ <bound method RequestResponseCycle.receive of <uvicorn.protocols.http.h11_impl.RequestResponseCycle object at 0x7f1dbc2d5d20>>
          │    │   └ {'type': 'http', 'asgi': {'version': '3.0', 'spec_version': '2.4'}, 'http_version': '1.1', 'server': ('172.17.0.2', 8000), 'c...
          │    └ <starlette.middleware.exceptions.ExceptionMiddleware object at 0x7f1f9b99d6f0>
          └ <starlette.middleware.errors.ServerErrorMiddleware object at 0x7f1f9b99d720>
  File "/opt/mineru_venv/lib/python3.10/site-packages/starlette/middleware/exceptions.py", line 62, in __call__
    await wrap_app_handling_exceptions(self.app, conn)(scope, receive, send)
          │                            │    │    │     │      │        └ <function ServerErrorMiddleware.__call__.<locals>._send at 0x7f20e7434e50>
          │                            │    │    │     │      └ <bound method RequestResponseCycle.receive of <uvicorn.protocols.http.h11_impl.RequestResponseCycle object at 0x7f1dbc2d5d20>>
          │                            │    │    │     └ {'type': 'http', 'asgi': {'version': '3.0', 'spec_version': '2.4'}, 'http_version': '1.1', 'server': ('172.17.0.2', 8000), 'c...
          │                            │    │    └ <starlette.requests.Request object at 0x7f1f9b99f5e0>
          │                            │    └ <fastapi.routing.APIRouter object at 0x7f1f9b99d120>
          │                            └ <starlette.middleware.exceptions.ExceptionMiddleware object at 0x7f1f9b99d6f0>
          └ <function wrap_app_handling_exceptions at 0x7f20e9887910>
  File "/opt/mineru_venv/lib/python3.10/site-packages/starlette/_exception_handler.py", line 51, in wrapped_app
    await app(scope, receive, sender)
          │   │      │        └ <function wrap_app_handling_exceptions.<locals>.wrapped_app.<locals>.sender at 0x7f1f9b9c8790>
          │   │      └ <bound method RequestResponseCycle.receive of <uvicorn.protocols.http.h11_impl.RequestResponseCycle object at 0x7f1dbc2d5d20>>
          │   └ {'type': 'http', 'asgi': {'version': '3.0', 'spec_version': '2.4'}, 'http_version': '1.1', 'server': ('172.17.0.2', 8000), 'c...
          └ <fastapi.routing.APIRouter object at 0x7f1f9b99d120>
  File "/opt/mineru_venv/lib/python3.10/site-packages/starlette/routing.py", line 715, in __call__
    await self.middleware_stack(scope, receive, send)
          │    │                │      │        └ <function wrap_app_handling_exceptions.<locals>.wrapped_app.<locals>.sender at 0x7f1f9b9c8790>
          │    │                │      └ <bound method RequestResponseCycle.receive of <uvicorn.protocols.http.h11_impl.RequestResponseCycle object at 0x7f1dbc2d5d20>>
          │    │                └ {'type': 'http', 'asgi': {'version': '3.0', 'spec_version': '2.4'}, 'http_version': '1.1', 'server': ('172.17.0.2', 8000), 'c...
          │    └ <bound method Router.app of <fastapi.routing.APIRouter object at 0x7f1f9b99d120>>
          └ <fastapi.routing.APIRouter object at 0x7f1f9b99d120>
  File "/opt/mineru_venv/lib/python3.10/site-packages/starlette/routing.py", line 735, in app
    await route.handle(scope, receive, send)
          │     │      │      │        └ <function wrap_app_handling_exceptions.<locals>.wrapped_app.<locals>.sender at 0x7f1f9b9c8790>
          │     │      │      └ <bound method RequestResponseCycle.receive of <uvicorn.protocols.http.h11_impl.RequestResponseCycle object at 0x7f1dbc2d5d20>>
          │     │      └ {'type': 'http', 'asgi': {'version': '3.0', 'spec_version': '2.4'}, 'http_version': '1.1', 'server': ('172.17.0.2', 8000), 'c...
          │     └ <function Route.handle at 0x7f20e98bcb80>
          └ APIRoute(path='/pdf_parse', name='pdf_parse_main', methods=['POST'])
  File "/opt/mineru_venv/lib/python3.10/site-packages/starlette/routing.py", line 288, in handle
    await self.app(scope, receive, send)
          │    │   │      │        └ <function wrap_app_handling_exceptions.<locals>.wrapped_app.<locals>.sender at 0x7f1f9b9c8790>
          │    │   │      └ <bound method RequestResponseCycle.receive of <uvicorn.protocols.http.h11_impl.RequestResponseCycle object at 0x7f1dbc2d5d20>>
          │    │   └ {'type': 'http', 'asgi': {'version': '3.0', 'spec_version': '2.4'}, 'http_version': '1.1', 'server': ('172.17.0.2', 8000), 'c...
          │    └ <function request_response.<locals>.app at 0x7f1f9b9c89d0>
          └ APIRoute(path='/pdf_parse', name='pdf_parse_main', methods=['POST'])
  File "/opt/mineru_venv/lib/python3.10/site-packages/starlette/routing.py", line 76, in app
    await wrap_app_handling_exceptions(app, request)(scope, receive, send)
          │                            │    │        │      │        └ <function wrap_app_handling_exceptions.<locals>.wrapped_app.<locals>.sender at 0x7f1f9b9c8790>
          │                            │    │        │      └ <bound method RequestResponseCycle.receive of <uvicorn.protocols.http.h11_impl.RequestResponseCycle object at 0x7f1dbc2d5d20>>
          │                            │    │        └ {'type': 'http', 'asgi': {'version': '3.0', 'spec_version': '2.4'}, 'http_version': '1.1', 'server': ('172.17.0.2', 8000), 'c...
          │                            │    └ <starlette.requests.Request object at 0x7f1f9b99ef20>
          │                            └ <function request_response.<locals>.app.<locals>.app at 0x7f1dbc343b50>
          └ <function wrap_app_handling_exceptions at 0x7f20e9887910>
  File "/opt/mineru_venv/lib/python3.10/site-packages/starlette/_exception_handler.py", line 51, in wrapped_app
    await app(scope, receive, sender)
          │   │      │        └ <function wrap_app_handling_exceptions.<locals>.wrapped_app.<locals>.sender at 0x7f1f9b9af910>
          │   │      └ <bound method RequestResponseCycle.receive of <uvicorn.protocols.http.h11_impl.RequestResponseCycle object at 0x7f1dbc2d5d20>>
          │   └ {'type': 'http', 'asgi': {'version': '3.0', 'spec_version': '2.4'}, 'http_version': '1.1', 'server': ('172.17.0.2', 8000), 'c...
          └ <function request_response.<locals>.app.<locals>.app at 0x7f1dbc343b50>
  File "/opt/mineru_venv/lib/python3.10/site-packages/starlette/routing.py", line 73, in app
    response = await f(request)
                     │ └ <starlette.requests.Request object at 0x7f1f9b99ef20>
                     └ <function get_request_handler.<locals>.app at 0x7f1f9b9c8940>
  File "/opt/mineru_venv/lib/python3.10/site-packages/fastapi/routing.py", line 301, in app
    raw_response = await run_endpoint_function(
                         └ <function run_endpoint_function at 0x7f20e98be680>
  File "/opt/mineru_venv/lib/python3.10/site-packages/fastapi/routing.py", line 212, in run_endpoint_function
    return await dependant.call(**values)
                 │         │      └ {'parse_method': 'auto', 'model_json_path': None, 'is_json_md_dump': True, 'output_dir': 'output', 'pdf_file': UploadFile(fil...
                 │         └ <function pdf_parse_main at 0x7f1f9b9af7f0>
                 └ Dependant(path_params=[], query_params=[ModelField(field_info=Query(auto), name='parse_method', mode='validation'), ModelFiel...

> File "/root/app.py", line 115, in pdf_parse_main
    pipe.pipe_analyze()  # Parse
    │    └ <function UNIPipe.pipe_analyze at 0x7f1f9b9af130>
    └ <magic_pdf.pipe.UNIPipe.UNIPipe object at 0x7f1dbc276e30>

  File "/opt/mineru_venv/lib/python3.10/site-packages/magic_pdf/pipe/UNIPipe.py", line 29, in pipe_analyze
    self.model_list = doc_analyze(self.pdf_bytes, ocr=False)
    │    │            │           │    └ b'%PDF-1.6\n%\xbf\xf7\xa2\xfe\n1 0 obj\n<< /CP2 3 0 R /FICL:Enfocus 4 0 R /Metadata 5 0 R /Names 41 0 R /OpenAction 124 0 R /...
    │    │            │           └ <magic_pdf.pipe.UNIPipe.UNIPipe object at 0x7f1dbc276e30>
    │    │            └ <function doc_analyze at 0x7f2044cc3be0>
    │    └ []
    └ <magic_pdf.pipe.UNIPipe.UNIPipe object at 0x7f1dbc276e30>
  File "/opt/mineru_venv/lib/python3.10/site-packages/magic_pdf/model/doc_analyze_by_custom_model.py", line 119, in doc_analyze
    result = custom_model(img)
             │            └ array([[[255, 255, 255],
             │                      [255, 255, 255],
             │                      [255, 255, 255],
             │                      ...,
             │                      [255, 255, 255],
             │                      [255...
             └ <magic_pdf.model.pdf_extract_kit.CustomPEKModel object at 0x7f1f9ba48b80>
  File "/opt/mineru_venv/lib/python3.10/site-packages/magic_pdf/model/pdf_extract_kit.py", line 298, in __call__
    html_code = self.table_model.img2html(new_image)
                │    │           │        └ <PIL.Image.Image image mode=RGB size=648x168 at 0x7F1F9ABDECB0>
                │    │           └ <function ppTableModel.img2html at 0x7f1dbca89cf0>
                │    └ <magic_pdf.model.ppTableModel.ppTableModel object at 0x7f1dbc553ca0>
                └ <magic_pdf.model.pdf_extract_kit.CustomPEKModel object at 0x7f1f9ba48b80>
  File "/opt/mineru_venv/lib/python3.10/site-packages/magic_pdf/model/ppTableModel.py", line 40, in img2html
    pred_res, _ = self.table_sys(image)
                  │    │         └ array([[[255, 255, 255],
                  │    │                   [255, 255, 255],
                  │    │                   [255, 255, 255],
                  │    │                   ...,
                  │    │                   [255, 255, 255],
                  │    │                   [255...
                  │    └ <paddleocr.ppstructure.table.predict_table.TableSystem object at 0x7f1dbc2ad3f0>
                  └ <magic_pdf.model.ppTableModel.ppTableModel object at 0x7f1dbc553ca0>
  File "/opt/mineru_venv/lib/python3.10/site-packages/paddleocr/ppstructure/table/predict_table.py", line 100, in __call__
    pred_html = self.match(structure_res, dt_boxes, rec_res)
                │    │     │              │         └ [('VQGAN f= 16', 0.8823233246803284), ('500', 0.9898629784584045), ('450', 0.9850022196769714), ('4117', 0.8392481207847595),...
                │    │     │              └ array([[         28,           5,          95,          21],
                │    │     │                       [        377,           1,         394,          16],
                │    │     │                   ...
                │    │     └ (['<html>', '<body>', '<table>', '<thead>', '<tr>', '<eb></eb>', '<eb></eb>', '<eb></eb>', '<eb></eb>', '<eb></eb>', '<eb></e...
                │    └ <ppstructure.table.table_master_match.TableMasterMatcher object at 0x7f1dbc26d840>
                └ <paddleocr.ppstructure.table.predict_table.TableSystem object at 0x7f1dbc2ad3f0>
  File "/opt/mineru_venv/lib/python3.10/site-packages/paddleocr/ppstructure/table/table_master_match.py", line 949, in __call__
    match_results = self.match()
                    │    └ <function Matcher.match at 0x7f1dbca3f910>
                    └ <ppstructure.table.table_master_match.TableMasterMatcher object at 0x7f1dbc26d840>
  File "/opt/mineru_venv/lib/python3.10/site-packages/paddleocr/ppstructure/table/table_master_match.py", line 769, in match
    get_bboxes_list(end2end_result, structure_master_result)
    │               │               └ {'text': '<thead>,<tr>,<eb></eb>,<eb></eb>,<eb></eb>,<eb></eb>,<eb></eb>,<eb></eb>,<eb></eb>,<eb></eb>,</tr>,</thead>,<tbody>...
    │               └ [{'bbox': array([         28,           5,          95,          21]), 'text': 'VQGAN f= 16'}, {'bbox': array([        377,  ...
    └ <function get_bboxes_list at 0x7f1dbca3ef80>
  File "/opt/mineru_venv/lib/python3.10/site-packages/paddleocr/ppstructure/table/table_master_match.py", line 302, in get_bboxes_list
    xywh_bbox = xyxy2xywh(src_bboxes)
                │         └ array([], dtype=float64)
                └ <function xyxy2xywh at 0x7f1dbca3e950>
  File "/opt/mineru_venv/lib/python3.10/site-packages/paddleocr/ppstructure/table/table_master_match.py", line 71, in xyxy2xywh
    new_bboxes[0] = bboxes[0] + (bboxes[2] - bboxes[0]) / 2
    │               │            │           └ array([], dtype=float64)
    │               │            └ array([], dtype=float64)
    │               └ array([], dtype=float64)
    └ array([], dtype=float64)

IndexError: index 0 is out of bounds for axis 0 with size 0

How to reproduce the bug | 如何复现

1. 采用docker镜像部署MinerU：docker run -itd --name=mineru_server --gpus=all -p 8888:8000 quincyqiang/mineru:0.3-models
   上面这个docker镜像融合了MinerU和fastAPI，使得用户可以通过curl上传文档，解析完成后得到json内容
2. 下载论文https://openaccess.thecvf.com/content/CVPR2023/papers/Huang_Towards_Accurate_Image_Coding_Improved_Autoregressive_Image_Generation_With_Dynamic_CVPR_2023_paper.pdf
   并且把论文命名为origin.pdf
3. curl -X 'POST' 'http://xx.xx.xx.xx:8888/pdf_parse?parse_method=auto&is_json_md_dump=true&output_dir=output' -H 'accept:application/json' -H 'Content-Type: multipart/form-data' -F '[email protected];type=application/pdf' > x.json
4. 运行报错，报错信息为
   ERROR | app:pdf_parse_main:133 - index 0 is out of bounds for axis 0 with size 0

Operating system | 操作系统

Linux

Python version | Python 版本

3.10

Software version | 软件版本 (magic-pdf --version)

0.8.x

Device mode | 设备模式

cuda

[myhloli]

测出来是表格解析出的问题，目前表格解析功能是测试版本，暂无更多人力去修复，遇到表格解析出问题的情况建议关闭临时表格识别功能再使用。

[majestichou]

测出来是表格解析出的问题，目前表格解析功能是测试版本，暂无更多人力去修复，遇到表格解析出问题的情况建议关闭临时表格识别功能再使用。

好的，感谢您的回复~

[v3nus-py]

to fix your trouble check this solution click
maybe this will solve your problem.