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## Description
Fix Neo4j issue with migrating DB schema
## Type of Change
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## Description
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this PR.
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Alice in wonderland expensive to process, plus Azure OpenAI flags it as
inappropriate content. Changed this to a smaller file about quantum
computers.
## Type of Change
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<!-- CURSOR_SUMMARY -->
---
> [!NOTE]
> Update vector search limit-none tests to use local quantum/NLP files
and add `test_data/Quantum_computers.txt`, adjusting queries
accordingly.
>
> - **Tests**:
> - **Vector engine limit-none coverage**
(`test_vector_engine_search_none_limit`):
> - Replace `examples/data/alice_in_wonderland.txt` with
`tests/test_data/Quantum_computers.txt` and
`tests/test_data/Natural_language_processing.txt` across
`cognee/tests/test_chromadb.py`, `cognee/tests/test_lancedb.py`, and
`cognee/tests/test_pgvector.py`.
> - Update query to "Tell me about Quantum computers" and keep assertion
verifying no implicit `limit` (ensure `len(result) > 15`).
> - **Test data**:
> - Add `cognee/tests/test_data/Quantum_computers.txt`.
>
> <sup>Written by [Cursor
Bugbot](https://cursor.com/dashboard?tab=bugbot) for commit
af1603c8f9. This will update automatically
on new commits. Configure
[here](https://cursor.com/dashboard?tab=bugbot).</sup>
<!-- /CURSOR_SUMMARY -->
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## Description
Merge main to dev branch
## Type of Change
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- [ ] Bug fix (non-breaking change that fixes an issue)
- [ ] New feature (non-breaking change that adds functionality)
- [ ] Breaking change (fix or feature that would cause existing
functionality to change)
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- [ ] Performance improvement
- [ ] Other (please specify):
## Screenshots/Videos (if applicable)
<!-- Add screenshots or videos to help explain your changes -->
## Pre-submission Checklist
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guidelines
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feature works
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## DCO Affirmation
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<!-- CURSOR_SUMMARY -->
---
> [!NOTE]
> Standardizes vector search to accept `limit=None` (fetch all/count),
updates adapters/interface and retrievers, and adds tests plus minor
logging/doc assets.
>
> - **Vector search API**:
> - Change `limit` to `Optional[int]` in `vector_db_interface` and
adapters (`ChromaDBAdapter`, `LanceDBAdapter`, `PGVectorAdapter`,
`NeptuneAnalyticsAdapter`).
> - Behavior: `limit=None` fetches all/collection count; early-return on
`limit<=0`; minor logging copy/level tweaks; `PGVector` counts via
`func.count`.
> - **Retrievers**:
> - Switch internal calls to `limit=None` (`CogneeGraph`,
`temporal_retriever`, brute-force triplet search).
> - **Tests**:
> - Add `limit=None` coverage for ChromaDB, LanceDB (new suite), and
PGVector; assert results exceed default caps.
> - **Examples/Docs**:
> - Demo script prunes before run; add tutorial notebook and data
assets; remove one markdown article.
> - **Misc**: LLM utils demote a log line to `debug`.
>
> <sup>Written by [Cursor
Bugbot](https://cursor.com/dashboard?tab=bugbot) for commit
7403e31738. This will update automatically
on new commits. Configure
[here](https://cursor.com/dashboard?tab=bugbot).</sup>
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## Description
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Falkordb adapter didn't work on main repo, but we have it working on
community. Decision was to remove it from main repo, so it is removed.
## Type of Change
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functionality to change)
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- [x] Code refactoring
- [ ] Performance improvement
- [ ] Other (please specify):
## Changes Made
<!-- List the specific changes made in this PR -->
-
-
-
## Testing
<!-- Describe how you tested your changes -->
## Screenshots/Videos (if applicable)
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## Pre-submission Checklist
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issue/feature**
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guidelines
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feature works
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submitted already
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## Related Issues
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#issue_number" -->
## Additional Notes
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## Description
PR from contributor MSR97
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the terms of the Topoteretes Developer Certificate of Origin.
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## Description
Running cognee-mcp as a docker container currently fails when using
latest main version:
```
(cognee-mcp) daulet@Mac cognee-claude % docker run -e TRANSPORT_MODE=sse -p 8001:8000 cognee/cognee-mcp:main
Debug mode:
Environment:
Transport mode: sse
Debug port: 5678
HTTP port: 8000
Running database migrations...
2025-09-25T21:15:17.065171 [info ] Logging initialized [cognee.shared.logging_utils] cognee_version=0.3.2 database_path=/app/.venv/lib/python3.12/site-packages/cognee/.cognee_system/databases graph_database_name= os_info='Linux 6.12.5-linuxkit (#1 SMP Tue Jan 21 10:23:32 UTC 2025)' python_version=3.12.11 relational_config=cognee_db structlog_version=25.4.0 vector_config=lancedb
2025-09-25T21:15:17.065330 [info ] Database storage: /app/.venv/lib/python3.12/site-packages/cognee/.cognee_system/databases [cognee.shared.logging_utils]
generated new fontManager
Database migrations done.
Starting Cognee MCP Server with transport mode: sse
2025-09-25T21:15:24.204708 [info ] Logging initialized [cognee.shared.logging_utils] cognee_version=0.3.2 database_path=/app/.venv/lib/python3.12/site-packages/cognee/.cognee_system/databases graph_database_name= os_info='Linux 6.12.5-linuxkit (#1 SMP Tue Jan 21 10:23:32 UTC 2025)' python_version=3.12.11 relational_config=cognee_db structlog_version=25.4.0 vector_config=lancedb
2025-09-25T21:15:24.204863 [info ] Database storage: /app/.venv/lib/python3.12/site-packages/cognee/.cognee_system/databases [cognee.shared.logging_utils]
Usage: cognee [-h] [--version] [--debug] [-ui]
{add,search,cognify,delete,config} ...
cognee: error: argument command: invalid choice: 'sse' (choose from add, search, cognify, delete, config)
(cognee-mcp) daulet@Mac cognee-claude %
```
This is due to both `cognee-mcp` and `cognee` (v0.3.2) projects defining
their CLI script aliases as `cognee`.
`entrypoint.sh` uses `cognee` cli, assuming it's `cognee-mcp`, which is
failing (see logs above).
While in later version of cognee we define `cognee-cli` instead of
`cognee`, it's still important to be safer and be more explicit in
`cognee-mcp` cli alias.
## Testing the fix
```
(cognee-mcp) daulet@Mac cognee-claude % docker run -e TRANSPORT_MODE=sse -p 8001:8000 cognee/cognee-mcp:daulet-dev
Debug mode:
Environment:
Transport mode: sse
Debug port: 5678
HTTP port: 8000
Running database migrations...
2025-09-25T21:18:45.855092 [info ] Logging initialized [cognee.shared.logging_utils] cognee_version=0.3.2 database_path=/app/.venv/lib/python3.12/site-packages/cognee/.cognee_system/databases graph_database_name= os_info='Linux 6.12.5-linuxkit (#1 SMP Tue Jan 21 10:23:32 UTC 2025)' python_version=3.12.11 relational_config=cognee_db structlog_version=25.4.0 vector_config=lancedb
2025-09-25T21:18:45.855270 [info ] Database storage: /app/.venv/lib/python3.12/site-packages/cognee/.cognee_system/databases [cognee.shared.logging_utils]
generated new fontManager
Database migrations done.
Starting Cognee MCP Server with transport mode: sse
2025-09-25T21:18:53.188498 [info ] Logging initialized [cognee.shared.logging_utils] cognee_version=0.3.2 database_path=/app/.venv/lib/python3.12/site-packages/cognee/.cognee_system/databases graph_database_name= os_info='Linux 6.12.5-linuxkit (#1 SMP Tue Jan 21 10:23:32 UTC 2025)' python_version=3.12.11 relational_config=cognee_db structlog_version=25.4.0 vector_config=lancedb
2025-09-25T21:18:53.188665 [info ] Database storage: /app/.venv/lib/python3.12/site-packages/cognee/.cognee_system/databases [cognee.shared.logging_utils]
2025-09-25T21:18:54.272533 [info ] Starting MCP server with transport: sse [cognee.shared.logging_utils]
2025-09-25T21:18:54.272661 [info ] Running MCP server with SSE transport on 0.0.0.0:8000 [cognee.shared.logging_utils]
INFO: Started server process [1]
INFO: Waiting for application startup.
INFO: Application startup complete.
INFO: Uvicorn running on http://0.0.0.0:8000 (Press CTRL+C to quit)
```
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## Type of Change
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## Description
Enhance search results of relational db data by adding more information
on data type and content
PR also includes schema migration done by contributor ( Geoff-Robin )
from contribute to win competition
## Type of Change
<!-- Please check the relevant option -->
- [ ] Bug fix (non-breaking change that fixes an issue)
- [ ] New feature (non-breaking change that adds functionality)
- [ ] Breaking change (fix or feature that would cause existing
functionality to change)
- [ ] Documentation update
- [ ] Code refactoring
- [x] Performance improvement
- [ ] Other (please specify):
## Pre-submission Checklist
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issue/feature**
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guidelines
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feature works
- [x] I have added necessary documentation (if applicable)
- [x] All new and existing tests pass
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submitted already
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## Overall UI
<img width="1908" height="881" alt="Screenshot 2025-09-25 at 22 21 35"
src="https://github.com/user-attachments/assets/a3e26827-8e1a-47d1-8ac6-346387d6407f"
/>
## MCP connection - live
<img width="1519" height="691" alt="Screenshot 2025-09-25 at 22 22 02"
src="https://github.com/user-attachments/assets/2314242f-0998-4401-99e1-cfc745d40728"
/>
## MCP connection - disconnected
<img width="1520" height="698" alt="Screenshot 2025-09-25 at 22 22 11"
src="https://github.com/user-attachments/assets/ef13bb5e-6d50-4248-8d4c-8845becb1582"
/>
## Description
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## Type of Change
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functionality to change)
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## Description
Updated the README file to include the correct URL to the hosted
solution. Previously it tried to go as param after GitHub URL, instead I
included 'https'.
## Type of Change
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- [ ] New feature (non-breaking change that adds functionality)
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- [ ] Code refactoring
- [ ] Performance improvement
- [ ] Other (please specify):
## Pre-submission Checklist
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submitted already
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## DCO Affirmation
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the terms of the Topoteretes Developer Certificate of Origin.
