### What problem does this PR solve?
1. expose batch_chunk_token_size for configuration
2. retrieve chunks when build subgraph for the doc, not retreive all
docs chunks at the begining
3. get all chunks for a document, used to be hard coded 10000
4. delete not used method run_graphrag
### Type of change
- [x] New Feature (non-breaking change which adds functionality)
- [x] Refactoring
Follow on: #14617
### What problem does this PR solve?
Closes#14674.
This PR improves RAPTOR configuration and tree construction while
preserving the existing RAPTOR behavior as the default.
RAPTOR currently builds summary layers with the original UMAP + GMM
clustering path. This PR keeps that default path, and adds:
- A hidden backend tree-builder option:
- `tree_builder="raptor"`: default, existing RAPTOR behavior.
- `tree_builder="psi"`: rank-aware Psi-style tree builder using original
embedding-space cosine ranking.
- A user-facing clustering method option for the default RAPTOR builder:
- `clustering_method="gmm"`: existing default.
- `clustering_method="ahc"`: agglomerative hierarchical clustering path.
- A RAPTOR UI setting for `Clustering method` and `Max cluster`.
### What changed
#### Backend
- Added `tree_builder` support for RAPTOR/Psi.
- Added `clustering_method` support for GMM/AHC.
- Kept existing RAPTOR + GMM as the default.
- Added Psi tree building from original-space cosine similarity.
- Added bucketed Psi building controls for large inputs:
- `raptor.ext.psi_exact_max_leaves`
- `raptor.ext.psi_bucket_size`
- Added method-aware RAPTOR summary metadata using existing
`extra.raptor_method`.
- Avoided adding a dedicated DB schema field for experimental method
tracking.
- Added cleanup/migration logic to avoid mixing stale RAPTOR summary
trees.
- Added defensive checks for Psi tree construction and summary failures.
#### Frontend/UI
- Added `Clustering method` in RAPTOR settings with `GMM` and `AHC`.
- Added/kept `Max cluster` in RAPTOR settings.
- Enlarged max cluster UI limit to `1024`, matching backend validation.
- Kept AHC editable even when a RAPTOR task has already finished.
- Fixed the UI save payload so `clustering_method` and `tree_builder`
are serialized through `parser_config.raptor.ext`, avoiding backend
validation errors for extra top-level RAPTOR fields.
Example saved RAPTOR config:
```json
{
"raptor": {
"max_cluster": 317,
"ext": {
"clustering_method": "ahc",
"tree_builder": "raptor"
}
}
}
Co-authored-by: CaptainTimon <CaptainTimon@users.noreply.github.com>
### What problem does this PR solve?
Fix: Dataset: When configuring the "general chunk method," options such
as chunk size and parent-child slicing are unavailable.
### Type of change
- [x] Bug Fix (non-breaking change which fixes an issue)
---------
Co-authored-by: balibabu <assassin_cike@163.com>
### What problem does this PR solve?
Fix: The file count in the file header did not change after uploading or
deleting files.
### Type of change
- [x] Bug Fix (non-breaking change which fixes an issue)
Co-authored-by: Yingfeng <yingfeng.zhang@gmail.com>
