[BUG] Why do some files run successfully and others don't

[yali0109]

Description

Reproduction steps

1. Go to '...'
2. Click on '....'
3. Scroll down to '....'
4. See error

Screenshots

![DESCRIPTION](LINK.png)

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Additional information

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[sebastianfernandezgarcia]

You have to check the logs of GraphRag.
Probably is related to your LLM. Maybe timeout error or its not finding it.

To be sure:
Each time you kick off an indexing process, it creates output/yyyymmdd-hhmmss/reports, where you find two files: indexing-engine.log (can say that a call to litellm failed, but does not give a reason), logs.json (gives the specific reasons for failures).

I think it only gives this error when doing GraphRag collection. And with Index File works great????????

GraphRag is very complicated and if you havent worked with it it can be overwalming... But try to see your logs and will help to solve the problem.

[vipervs]

i have the same problem whatever file I use...

Indexing [1/1]: (Guo et al., 2024).pdf
=> Converting (Guo et al., 2024).pdf to text
=> Converted (Guo et al., 2024).pdf to text
=> [(Guo et al., 2024).pdf] Processed 46 chunks
=> Finished indexing (Guo et al., 2024).pdf
[GraphRAG] Creating index... This can take a long time.
Logging enabled at /Users/andi/kotaemon/ktem_app_data/user_data/files/graphrag/5469aa79-ca33-4ad5-8127-8cbd4acd69aa/output/indexing-engine.log

🚀 create_base_text_units

                              id  ... n_tokens

0 a4ef6dca43833375a01744126a37054c ... 151

1 0a29812d2dfa808aac9d8a670ef6ee2c ... 810

2 0ea8d9035d19ed14008ddb069cada9d4 ... 186

3 d7321a190f549b5a641e4b8fd21727e8 ... 465

4 dcae7dec1c972c25a2caaf046a846410 ... 335

5 1413c853fc9346c73446f72ef0675f9c ... 659

6 9b851dc3c058794e6eb816f45bcf0f04 ... 771

7 f78ee6569b8ae92a28ffef4ca754bd1a ... 733

8 e2fda1e5f77ee7d38714c58d2e8c40ad ... 210

9 332b895ee9d6212601b73f3ebc7150aa ... 319

10 358f6c41150eeb881b004a11db20b751 ... 20

11 1ecb68a373ffece6ac16d0271301b9ed ... 467

12 9421d8e02bb9fb5dbffb546cc7590c0f ... 872

13 5f97d5121c0dbd248f2e74d7f1209ffc ... 806

14 e20eba5117195b2bf763449b8777db0d ... 554

15 f17b4256370316ffba5b4de7e529d25d ... 446

16 ad18095e215fa61561218cb95d373f6c ... 575

17 7fdd9d8756250c08b7c291b3bf6f1652 ... 756

18 f5c0b619e040edc7460a46e185c7ddca ... 418

19 5521b483ca5d579de8e3f48b445f4b80 ... 911

20 f61b8f37be96a5e0684112f13a69e5be ... 260

21 16e0f44860a357001f4fd85dadf04a58 ... 532

22 d8e0e846492dc41910e61c9fa5952521 ... 751

[23 rows x 5 columns]

🚀 create_base_extracted_entities

                                    entity_graph

0 <graphml xmlns="http://graphml.graphdrawing.or...

🚀 create_summarized_entities

                                    entity_graph

0 <graphml xmlns="http://graphml.graphdrawing.or...

❌ create_base_entity_graph

None

⠋ GraphRAG Indexer

├── Loading Input (text) - 23 files loaded (0 filtered) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 100% 0:00:00 0:00:00

├── create_base_text_units

├── create_base_extracted_entities

├── create_summarized_entities

└── create_base_entity_graph❌ Errors occurred during the pipeline run, see logs for more details.

[vipervs]

maybe this is the problem?

(venv)  /kotaemon/ [main] pip install graphrag future
Collecting graphrag
Downloading graphrag-0.3.6-py3-none-any.whl.metadata (6.0 kB)
Collecting future
Downloading future-1.0.0-py3-none-any.whl.metadata (4.0 kB)
Collecting aiofiles<25.0.0,>=24.1.0 (from graphrag)
Using cached aiofiles-24.1.0-py3-none-any.whl.metadata (10 kB)
Collecting aiolimiter<2.0.0,>=1.1.0 (from graphrag)
Downloading aiolimiter-1.1.0-py3-none-any.whl.metadata (4.5 kB)
Collecting azure-identity<2.0.0,>=1.17.1 (from graphrag)
Downloading azure_identity-1.19.0-py3-none-any.whl.metadata (80 kB)
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Collecting azure-search-documents<12.0.0,>=11.4.0 (from graphrag)
Downloading azure_search_documents-11.5.1-py3-none-any.whl.metadata (23 kB)
Collecting azure-storage-blob<13.0.0,>=12.22.0 (from graphrag)
Downloading azure_storage_blob-12.23.1-py3-none-any.whl.metadata (26 kB)
Collecting datashaper<0.0.50,>=0.0.49 (from graphrag)
Downloading datashaper-0.0.49-py3-none-any.whl.metadata (3.7 kB)
Collecting devtools<0.13.0,>=0.12.2 (from graphrag)
Downloading devtools-0.12.2-py3-none-any.whl.metadata (4.8 kB)
Collecting environs<12.0.0,>=11.0.0 (from graphrag)
Using cached environs-11.0.0-py3-none-any.whl.metadata (13 kB)
Collecting graspologic<4.0.0,>=3.4.1 (from graphrag)
Downloading graspologic-3.4.1-py3-none-any.whl.metadata (5.8 kB)
Collecting json-repair<0.29.0,>=0.28.4 (from graphrag)
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Collecting lancedb<0.14.0,>=0.13.0 (from graphrag)
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Requirement already satisfied: matplotlib<4.0.0,>=3.9.0 in ./venv/lib/python3.10/site-packages (from graphrag) (3.9.2)
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Downloading patsy-0.5.6-py2.py3-none-any.whl (233 kB)
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Downloading PyJWT-2.9.0-py3-none-any.whl (22 kB)
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Downloading smart_open-7.0.5-py3-none-any.whl (61 kB)
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Installing collected packages: azure-common, tenacity, smart-open, scipy, rpds-py, PyJWT, pyarrow, pyaml-env, py, patsy, llvmlite, json-repair, graspologic-native, future, beartype, autograd, anytree, aiolimiter, aiofiles, tiktoken, retry, referencing, pylance, POT, numba, gensim, environs, devtools, statsmodels, seaborn, pynndescent, lancedb, jsonschema-specifications, hyppo, azure-storage-blob, azure-search-documents, umap-learn, msal, jsonschema, msal-extensions, graspologic, datashaper, azure-identity, graphrag
Attempting uninstall: tenacity
Found existing installation: tenacity 8.2.3
Uninstalling tenacity-8.2.3:
Successfully uninstalled tenacity-8.2.3
Attempting uninstall: scipy
Found existing installation: scipy 1.14.1
Uninstalling scipy-1.14.1:
Successfully uninstalled scipy-1.14.1
Attempting uninstall: pyarrow
Found existing installation: pyarrow 18.0.0
Uninstalling pyarrow-18.0.0:
Successfully uninstalled pyarrow-18.0.0
Attempting uninstall: aiofiles
Found existing installation: aiofiles 23.2.1
Uninstalling aiofiles-23.2.1:
Successfully uninstalled aiofiles-23.2.1
Attempting uninstall: tiktoken
Found existing installation: tiktoken 0.8.0
Uninstalling tiktoken-0.8.0:
Successfully uninstalled tiktoken-0.8.0
Attempting uninstall: pylance
Found existing installation: pylance 0.19.1
Uninstalling pylance-0.19.1:
Successfully uninstalled pylance-0.19.1
Attempting uninstall: environs
Found existing installation: environs 9.5.0
Uninstalling environs-9.5.0:
Successfully uninstalled environs-9.5.0
Attempting uninstall: lancedb
Found existing installation: lancedb 0.15.0
Uninstalling lancedb-0.15.0:
Successfully uninstalled lancedb-0.15.0
ERROR: pip's dependency resolver does not currently take into account all the packages that are installed. This behaviour is the source of the following dependency conflicts.
gradio 4.39.0 requires aiofiles<24.0,>=22.0, but you have aiofiles 24.1.0 which is incompatible.
kotaemon 0.7.4 requires tenacity<8.3,>=8.2.3, but you have tenacity 9.0.0 which is incompatible.
langchain 0.2.15 requires tenacity!=8.4.0,<9.0.0,>=8.1.0, but you have tenacity 9.0.0 which is incompatible.
langchain-community 0.2.11 requires tenacity!=8.4.0,<9.0.0,>=8.1.0, but you have tenacity 9.0.0 which is incompatible.
langchain-core 0.2.42 requires tenacity!=8.4.0,<9.0.0,>=8.1.0, but you have tenacity 9.0.0 which is incompatible.
llama-index-core 0.10.68.post1 requires tenacity!=8.4.0,<9.0.0,>=8.2.0, but you have tenacity 9.0.0 which is incompatible.
llama-index-legacy 0.9.48.post3 requires tenacity<9.0.0,>=8.2.0, but you have tenacity 9.0.0 which is incompatible.
pymilvus 2.4.9 requires environs<=9.5.0, but you have environs 11.0.0 which is incompatible.
Successfully installed POT-0.9.4 PyJWT-2.9.0 aiofiles-24.1.0 aiolimiter-1.1.0 anytree-2.12.1 autograd-1.7.0 azure-common-1.1.28 azure-identity-1.19.0 azure-search-documents-11.5.1 azure-storage-blob-12.23.1 beartype-0.18.5 datashaper-0.0.49 devtools-0.12.2 environs-11.0.0 future-1.0.0 gensim-4.3.3 graphrag-0.3.6 graspologic-3.4.1 graspologic-native-1.2.1 hyppo-0.4.0 json-repair-0.28.4 jsonschema-4.23.0 jsonschema-specifications-2024.10.1 lancedb-0.13.0 llvmlite-0.43.0 msal-1.31.0 msal-extensions-1.2.0 numba-0.60.0 patsy-0.5.6 py-1.11.0 pyaml-env-1.2.1 pyarrow-15.0.2 pylance-0.17.0 pynndescent-0.5.13 referencing-0.35.1 retry-0.9.2 rpds-py-0.20.0 scipy-1.12.0 seaborn-0.13.2 smart-open-7.0.5 statsmodels-0.14.4 tenacity-9.0.0 tiktoken-0.7.0 umap-learn-0.5.7

[notice] A new release of pip is available: 24.1.2 -> 24.3.1
[notice] To update, run: pip install --upgrade pip

[sebastianfernandezgarcia]

I insist. Check you LOG files. When you run Graphtag it says something that look like this: kotaemon/ktem_app_data/user_data/files/graphrag//output/indexing-engine.log

check logs.json and stats.json as well

Or you can go to the location manually.